RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12833
(254 letters)
>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 = 384 bits (989), Expect = e-137
Identities = 159/251 (63%), Positives = 198/251 (78%), Gaps = 1/251 (0%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSE 62
KG+V +VTGGASGLG ATVER++ +G +VV+ DLP S GE+VAK LG + +F PVDVTSE
Sbjct: 1 KGLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGETVAK-LGDNCRFVPVDVTSE 59
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+DV+ A+ L K FG+LD+ VNCAGI+ A K +N HSL+ F+R++ VN +GTFNV
Sbjct: 60 KDVKAALALAKAKFGRLDIVVNCAGIAVAAKTYNKKGQQPHSLELFQRVINVNLIGTFNV 119
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
RL+A + +N+ ++ G RGVIINTAS+AA+EGQ GQ AYSASK GIVGMTLP+ARDLA
Sbjct: 120 IRLAAGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAYSASKGGIVGMTLPIARDLAP 179
Query: 183 AGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLING 242
GIRV TIAPGLFDTPLL+ L EKVR+FLA+ +P P RLG P E+A LVQ II NP +NG
Sbjct: 180 QGIRVVTIAPGLFDTPLLAGLPEKVRDFLAKQVPFPSRLGDPAEYAHLVQHIIENPYLNG 239
Query: 243 EVIRIDGALRM 253
EVIR+DGA+RM
Sbjct: 240 EVIRLDGAIRM 250
>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 = 183 bits (466), Expect = 9e-58
Identities = 86/245 (35%), Positives = 130/245 (53%), Gaps = 16/245 (6%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA--KELGPDVKFAPVDVTSEEDV 65
LVTG +SG+G+A R+ REG +VVL D +A + LG + DV+ EEDV
Sbjct: 2 LVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAIEALGGNAVAVQADVSDEEDV 61
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARL 125
+ V + FG+LD+ VN AGI+ + + +D+ R+L VN G F + R
Sbjct: 62 EALVEEALEEFGRLDILVNNAGIARPGPLEEL------TDEDWDRVLDVNLTGVFLLTRA 115
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
+ + + G I+N +S+A GQ AY+ASK+ + G+T +A +LA GI
Sbjct: 116 ALPHMKKQG------GGRIVNISSVAGLRPLPGQAAYAASKAALEGLTRSLALELAPYGI 169
Query: 186 RVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPL--INGE 243
RVN +APGL DTP+L+ L + + RLG P+E A+ V + ++ I G+
Sbjct: 170 RVNAVAPGLVDTPMLAKLGPEEAEKELAAAIPLGRLGTPEEVAEAVVFLASDEASYITGQ 229
Query: 244 VIRID 248
VI +D
Sbjct: 230 VIPVD 234
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 176 bits (448), Expect = 9e-55
Identities = 89/264 (33%), Positives = 138/264 (52%), Gaps = 32/264 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L+G LVTG + G+G+A R+ +G +VV+ D E++A EL G + + D
Sbjct: 3 LQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGGEARVLVFD 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNT 116
V+ E V+ + ++FG LD+ VN AGI+ + S +D+ R++ VN
Sbjct: 63 VSDEAAVRALIEAAVEAFGALDILVNNAGIT--------RDALLPRMSEEDWDRVIDVNL 114
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
GTFNV R + + + + G I+N +S++ G GQ YSA+K+G++G T +
Sbjct: 115 TGTFNVVRAALPPMIKAR------YGRIVNISSVSGVTGNPGQTNYSAAKAGVIGFTKAL 168
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQ---- 232
A +LA GI VN +APG DT + L E+V+ + + IP RLG P+E A V
Sbjct: 169 ALELASRGITVNAVAPGFIDTDMTEGLPEEVKAEILKEIPL-GRLGQPEEVANAVAFLAS 227
Query: 233 ---SIITNPLINGEVIRIDGALRM 253
S IT G+VI ++G + M
Sbjct: 228 DAASYIT-----GQVIPVNGGMYM 246
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 174 bits (445), Expect = 3e-54
Identities = 84/262 (32%), Positives = 134/262 (51%), Gaps = 23/262 (8%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKEL---GPDVKFAP 56
L+G V LVTG + G+G+A ER+ +G VV+ + G E++ E+ G
Sbjct: 2 SLEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGALGGKALAVQ 61
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLV 114
DV+ E V++AV K FG +D+ VN AGI+ + +D+ R++
Sbjct: 62 GDVSDAESVERAVDEAKAEFGGVDILVNNAGIT--------RDNLLMRMKEEDWDRVIDT 113
Query: 115 NTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTL 174
N G FN+ + A+ + + + G IIN +S+ G GQ Y+ASK+G++G T
Sbjct: 114 NLTGVFNLTKAVARPMMKQR------SGRIINISSVVGLMGNPGQANYAASKAGVIGFTK 167
Query: 175 PMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSI 234
+AR+LA GI VN +APG +T + L E V+ + IP RLG P+E A V +
Sbjct: 168 SLARELASRGITVNAVAPGFIETDMTDALPEDVKEAILAQIPL-GRLGQPEEIASAVAFL 226
Query: 235 ITNPL--INGEVIRIDGALRMI 254
++ I G+ + ++G + M
Sbjct: 227 ASDEAAYITGQTLHVNGGMVMG 248
>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 = 169 bits (430), Expect = 3e-52
Identities = 81/253 (32%), Positives = 127/253 (50%), Gaps = 22/253 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KELGPDVKFAPVDVTSE 62
V LVTG + G+G+A R+ EG +V + D K LG + DV+
Sbjct: 2 VALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKALGGNAAALEADVSDR 61
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTF 120
E V+ V + FG +D+ VN AGI+ + S +D+ ++ VN G F
Sbjct: 62 EAVEALVEKVEAEFGPVDILVNNAGIT--------RDNLLMRMSEEDWDAVINVNLTGVF 113
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
NV + + + + + G IIN +S+ G GQ Y+ASK+G++G T +A++L
Sbjct: 114 NVTQAVIRAMIKRR------SGRIINISSVVGLIGNPGQANYAASKAGVIGFTKSLAKEL 167
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP-- 238
A GI VN +APG DT + L EKV+ + + IP RLG P+E A V + ++
Sbjct: 168 ASRGITVNAVAPGFIDTDMTDALPEKVKEKILKQIPL-GRLGTPEEVANAVAFLASDDAS 226
Query: 239 LINGEVIRIDGAL 251
I G+V+ ++G +
Sbjct: 227 YITGQVLHVNGGM 239
>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 = 161 bits (410), Expect = 4e-49
Identities = 87/265 (32%), Positives = 131/265 (49%), Gaps = 28/265 (10%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG------ESVAKELGPDVKF 54
L G V LVTG +SG+G+A + REG RVV+ + E ++ + G
Sbjct: 2 DLSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAAA 61
Query: 55 APVDVTS-EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILL 113
DV+ EE V+ V ++ FG++D+ VN AGI+ + +D+ R++
Sbjct: 62 VAADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPL-----EELTEEDWDRVID 116
Query: 114 VNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMT 173
VN +G F + R + L+ + I+N +S+A G GQ AY+ASK+ ++G+T
Sbjct: 117 VNLLGAFLLTRAALPLMKK---------QRIVNISSVAGLGGPPGQAAYAASKAALIGLT 167
Query: 174 LPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRN---FLARSIPAPQRLGHPDEFAQL 230
+A +LA GIRVN +APG DTP+ + L LA IP RLG P+E A
Sbjct: 168 KALALELAPRGIRVNAVAPGYIDTPMTAALESAELEALKRLAARIPL-GRLGTPEEVAAA 226
Query: 231 V---QSIITNPLINGEVIRIDGALR 252
V S I G+ + +DG L
Sbjct: 227 VAFLASDEAASYITGQTLPVDGGLL 251
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 159 bits (404), Expect = 4e-48
Identities = 100/258 (38%), Positives = 144/258 (55%), Gaps = 13/258 (5%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVA--KELGPDVKFAPVD 58
LK V ++TGGA GLG+A E + ++G ++ L DL + E+VA LG +V+ +
Sbjct: 3 LKDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALGTEVRGYAAN 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH---SLDDFKRILLVN 115
VT EEDV+ + FG+L+ +N AGI + G V SL+ F+ ++ VN
Sbjct: 63 VTDEEDVEATFAQIAEDFGQLNGLINNAGILRDGLLVKAKDGKVTSKMSLEQFQSVIDVN 122
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G F R +A K+ E G +GVIIN +SIA G GQ YSASK+G+ MT+
Sbjct: 123 LTGVFLCGREAAA-----KMIESGSKGVIINISSIARA-GNMGQTNYSASKAGVAAMTVT 176
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
A++LA GIRV IAPG+ +T + + + + L + IP RLG P+E A V+ II
Sbjct: 177 WAKELARYGIRVAAIAPGVIETEMTAAMKPEALERLEKMIPV-GRLGEPEEIAHTVRFII 235
Query: 236 TNPLINGEVIRIDGALRM 253
N + G V+ IDG LR+
Sbjct: 236 ENDYVTGRVLEIDGGLRL 253
>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 = 155 bits (394), Expect = 9e-47
Identities = 80/250 (32%), Positives = 131/250 (52%), Gaps = 19/250 (7%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKEL---GPDVKFAPVDVTSEE 63
LVTG + G+G+A ++ +EG +V++ + EG E V +EL G DV+ E
Sbjct: 2 LVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAYGVKALGVVCDVSDRE 61
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
DV+ V ++ G +D+ VN AGI+ N +D+ ++ N G FN+
Sbjct: 62 DVKAVVEEIEEELGPIDILVNNAGIT------RDNLLMRMKEEDWDAVIDTNLTGVFNLT 115
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGA 183
+ +++ + + G IIN +S+ G +GQ Y+ASK+G++G T +A++LA
Sbjct: 116 QAVLRIMIKQR------SGRIINISSVVGLMGNAGQANYAASKAGVIGFTKSLAKELASR 169
Query: 184 GIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--PLIN 241
I VN +APG DT + L+EKV+ + IP R G P+E A V + ++ I
Sbjct: 170 NITVNAVAPGFIDTDMTDKLSEKVKKKILSQIPL-GRFGTPEEVANAVAFLASDEASYIT 228
Query: 242 GEVIRIDGAL 251
G+VI +DG +
Sbjct: 229 GQVIHVDGGM 238
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 155 bits (394), Expect = 1e-46
Identities = 80/264 (30%), Positives = 112/264 (42%), Gaps = 30/264 (11%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD--VKFAPVD 58
L+G V +VTG +SG+G+ R EG RVV+ D E VA E+ D
Sbjct: 2 RLEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILAGGRAIAVAAD 61
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V+ E DV+ AV + FG +D+ VN AG + +F RI VN
Sbjct: 62 VSDEADVEAAVAAALERFGSVDILVNNAGTTHRNGPL-----LDVDEAEFDRIFAVNVKS 116
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+ L Q E G G I+N AS A + G Y+ASK ++ +T +A
Sbjct: 117 PY----LWTQAAVPAMRGEGG--GAIVNVASTAGLRPRPGLGWYNASKGAVITLTKALAA 170
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSML----NEKVRNFLARSIPAPQRLGHPDEFAQLV--- 231
+L IRVN +AP + +T LL + R +IP RLG P++ A
Sbjct: 171 ELGPDKIRVNAVAPVVVETGLLEAFMGEPTPENRAKFLATIPL-GRLGTPEDIANAALFL 229
Query: 232 ----QSIITNPLINGEVIRIDGAL 251
S IT G + +DG
Sbjct: 230 ASDEASWIT-----GVTLVVDGGR 248
>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 = 154 bits (391), Expect = 2e-46
Identities = 90/258 (34%), Positives = 127/258 (49%), Gaps = 26/258 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
LKG V +VTGGA GLG A +V EG +VVL D+ EG++ A ELG +F +DVT
Sbjct: 3 LKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAELGDAARFFHLDVTD 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGT 119
E+ V +++FG+LDV VN AGI GTV +L++++R+L +N G
Sbjct: 63 EDGWTAVVDTAREAFGRLDVLVNNAGIL--------TGGTVETTTLEEWRRLLDINLTGV 114
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
F R + E G IIN +SI G AY+ASK + G+T A +
Sbjct: 115 FLGTRAVIPPMKEAG------GGSIINMSSIEGLVGDPALAAYNASKGAVRGLTKSAALE 168
Query: 180 LA--GAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGH---PDEFAQLVQSI 234
A G GIRVN++ PG TP M +E + +G PDE A V +
Sbjct: 169 CATQGYGIRVNSVHPGYIYTP---MTDELLIAQGEMGNYPNTPMGRAGEPDEIAYAVVYL 225
Query: 235 ITN--PLINGEVIRIDGA 250
++ + G + +DG
Sbjct: 226 ASDESSFVTGSELVVDGG 243
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 153 bits (389), Expect = 7e-46
Identities = 90/254 (35%), Positives = 141/254 (55%), Gaps = 19/254 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKEL---GPDVKFAPV 57
L G V +VTG + G+G+A E + +EG +VV+ D+ + + +E+ G D
Sbjct: 3 LMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKEEGGDAIAVKA 62
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DV+SEEDV+ V + FGK+D+ VN AGIS F + T + +++ R++ VN
Sbjct: 63 DVSSEEDVENLVEQIVEKFGKIDILVNNAGIS-NFGLV-----TDMTDEEWDRVIDVNLT 116
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G + R + + + K GVI+N +SI G S +V YSASK + T +A
Sbjct: 117 GVMLLTRYALPYMIKRK------SGVIVNISSIWGLIGASCEVLYSASKGAVNAFTKALA 170
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN 237
++LA +GIRVN +APG DT + S +E+ + LA IP RLG P+E A++V + ++
Sbjct: 171 KELAPSGIRVNAVAPGAIDTEMWSSFSEEDKEGLAEEIPLG-RLGKPEEIAKVVLFLASD 229
Query: 238 --PLINGEVIRIDG 249
I G++I +DG
Sbjct: 230 DASYITGQIITVDG 243
>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 = 143 bits (363), Expect = 4e-42
Identities = 82/266 (30%), Positives = 124/266 (46%), Gaps = 31/266 (11%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG----ESVAKELGPDVKFAPVDVTS 61
V ++TG A G+G+A ER+ +G +VL DL E E G + DVT
Sbjct: 4 VAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISEAGYNAVAVGADVTD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
++DV+ + + FG DV VN AGI+ + + +D K++ VN G
Sbjct: 64 KDDVEALIDQAVEKFGSFDVMVNNAGIAPITPLLTITE------EDLKKVYAVNVFGVLF 117
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+ +A + + G G IIN +SIA +G AYSASK + G+T A++LA
Sbjct: 118 GIQAAA-----RQFKKLGHGGKIINASSIAGVQGFPNLGAYSASKFAVRGLTQTAAQELA 172
Query: 182 GAGIRVNTIAPGLFDTPLLSMLNEKV-----------RNFLARSIPAPQRLGHPDEFAQL 230
GI VN APG+ T + ++E+V + SIP RL P++ A L
Sbjct: 173 PKGITVNAYAPGIVKTEMWDYIDEEVGEIAGKPEGEGFAEFSSSIPL-GRLSEPEDVAGL 231
Query: 231 VQSIITNP---LINGEVIRIDGALRM 253
V S + + I G+ I +DG +
Sbjct: 232 V-SFLASEDSDYITGQTILVDGGMVY 256
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 143 bits (362), Expect = 7e-42
Identities = 79/259 (30%), Positives = 112/259 (43%), Gaps = 19/259 (7%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPV 57
L G LVTG A GLG A E + G V D +E +A L G
Sbjct: 4 NLAGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEAAGGRAHAIAA 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D+ VQ+ + G LD VN AGI+ + +D + ++ VN
Sbjct: 64 DLADPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATEL------DIDTWDAVMNVNVR 117
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
GTF + R + + D RG I+N AS A G AY ASK ++GMT +A
Sbjct: 118 GTFLMLRAALPHL------RDSGRGRIVNLASDTALWGAPKLGAYVASKGAVIGMTRSLA 171
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN 237
R+L G GI VN IAPGL T + + R+ A +RL PD+ A V + +
Sbjct: 172 RELGGRGITVNAIAPGLTATEATAYVPADERHAYYLKGRALERLQVPDDVAGAV-LFLLS 230
Query: 238 PL---INGEVIRIDGALRM 253
+ G+++ ++G M
Sbjct: 231 DAARFVTGQLLPVNGGFVM 249
>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 = 140 bits (354), Expect = 9e-41
Identities = 87/259 (33%), Positives = 137/259 (52%), Gaps = 21/259 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP-DVKFAPVDVT 60
L G V ++TGGASG+G+AT + G RVV+ D+ G++VA ELG D+ F DVT
Sbjct: 2 LDGKVAIITGGASGIGEATARLFAKHGARVVIADIDDDAGQAVAAELGDPDISFVHCDVT 61
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCA--FKIFNYNKGTVHSLDDFKRILLVNTVG 118
E DV+ AV FG+LD+ N AG+ A + I SL++F+R+L VN G
Sbjct: 62 VEADVRAAVDTAVARFGRLDIMFNNAGVLGAPCYSILET------SLEEFERVLDVNVYG 115
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F + +A+++ K +G I++ AS+A G G AY+ASK ++G+T A
Sbjct: 116 AFLGTKHAARVMIPAK------KGSIVSVASVAGVVGGLGPHAYTASKHAVLGLTRSAAT 169
Query: 179 DLAGAGIRVNTIAPGLFDTPLL----SMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSI 234
+L GIRVN ++P TPLL + +E + + + P++ A V +
Sbjct: 170 ELGEHGIRVNCVSPYGVATPLLTAGFGVEDEAIEEAVRGAANLKGTALRPEDIAAAVLYL 229
Query: 235 ITNP--LINGEVIRIDGAL 251
++ ++G+ + +DG L
Sbjct: 230 ASDDSRYVSGQNLVVDGGL 248
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 136 bits (346), Expect = 1e-39
Identities = 72/235 (30%), Positives = 118/235 (50%), Gaps = 18/235 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L+G V LVTG A G+G+A R+ +G V++ D+ + + A+ + G + VD
Sbjct: 4 LEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAGGKARARQVD 63
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V ++ AV + FG+LD+ V AGI F + ++R++ VN G
Sbjct: 64 VRDRAALKAAVAAGVEDFGRLDILVANAGI------FPLTPFAEMDDEQWERVIDVNLTG 117
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAA-YEGQSGQVAYSASKSGIVGMTLPMA 177
TF + + + + G I+ T+S+A G G Y+ASK+G+VG T +A
Sbjct: 118 TFLLTQAALPAL------IRAGGGRIVLTSSVAGPRVGYPGLAHYAASKAGLVGFTRALA 171
Query: 178 RDLAGAGIRVNTIAPGLFDTPLL-SMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
+LA I VN++ PG DTP+ ++ + + +A +IP RLG P++ A V
Sbjct: 172 LELAARNITVNSVHPGGVDTPMAGNLGDAQWAEAIAAAIPLG-RLGEPEDIAAAV 225
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 135 bits (342), Expect = 6e-39
Identities = 83/263 (31%), Positives = 126/263 (47%), Gaps = 27/263 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE----LGPDVKFAPV 57
L G V LVTG A GLG+A R+ R G VV+ E E LG +
Sbjct: 4 LMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEALGRRAQAVQA 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DVT + ++ AV + FG++D+ VN AGI + + S D++ ++ VN
Sbjct: 64 DVTDKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLADM------SDDEWDEVIDVNLS 117
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G F++ R + + + G I+N +S+A G G+ Y+A+K+G+VG+T +A
Sbjct: 118 GVFHLLRAVVPPMRKQRG------GRIVNISSVAGLPGWPGRSNYAAAKAGLVGLTKALA 171
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV------ 231
R+LA GI VN +APG DT + E+ R P R G P++ A+ V
Sbjct: 172 RELAEYGITVNMVAPGDIDTDMKEATIEEAREAKDAETPL-GRSGTPEDIARAVAFLCSD 230
Query: 232 QSIITNPLINGEVIRIDGALRMI 254
S I G+VI + G + +I
Sbjct: 231 AS----DYITGQVIEVTGGVDVI 249
>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 = 132 bits (334), Expect = 6e-38
Identities = 83/256 (32%), Positives = 125/256 (48%), Gaps = 23/256 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE----LGPDVKFAPVDVTS 61
+ LVTGG G+G A +R+ ++G RV P E + LG D + DV+S
Sbjct: 2 IALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGDVSS 61
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTVGT 119
E + AV + G +DV VN AGI+ T + + ++ N
Sbjct: 62 FESCKAAVAKVEAELGPIDVLVNNAGIT--------RDATFKKMTYEQWSAVIDTNLNSV 113
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
FNV + +I + + E G G IIN +S+ +GQ GQ YSA+K+G++G T +A++
Sbjct: 114 FNVTQ---PVI--DGMRERGW-GRIINISSVNGQKGQFGQTNYSAAKAGMIGFTKALAQE 167
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP- 238
A G+ VNTI+PG T ++ + E V N + IP RLG P+E A V + +
Sbjct: 168 GATKGVTVNTISPGYIATDMVMAMREDVLNSIVAQIPV-GRLGRPEEIAAAVAFLASEEA 226
Query: 239 -LINGEVIRIDGALRM 253
I G + I+G L M
Sbjct: 227 GYITGATLSINGGLYM 242
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 132 bits (335), Expect = 7e-38
Identities = 81/251 (32%), Positives = 122/251 (48%), Gaps = 16/251 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G V +VTGGASG+G A E +G RV L D E A+ LG + K DV+
Sbjct: 13 LSGKVAVVTGGASGIGHAIAELFAAKGARVALLDRSEDVAEVAAQLLGGNAKGLVCDVSD 72
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ V+ AV +FG++D+ VN AG++ + S +D+ + + +N G+F
Sbjct: 73 SQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDV------SEEDWDKTIDINLKGSFL 126
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+A+ + + G G I+N AS A VAY ASK+G+VGMT +A +
Sbjct: 127 MAQAVGR-----HMIAAG-GGKIVNLASQAGVVALERHVAYCASKAGVVGMTKVLALEWG 180
Query: 182 GAGIRVNTIAPGLFDTPL-LSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--P 238
GI VN I+P + T L + + IPA R +P+E A + ++
Sbjct: 181 PYGITVNAISPTVVLTELGKKAWAGEKGERAKKLIPA-GRFAYPEEIAAAALFLASDAAA 239
Query: 239 LINGEVIRIDG 249
+I GE + IDG
Sbjct: 240 MITGENLVIDG 250
>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 = 132 bits (333), Expect = 1e-37
Identities = 90/257 (35%), Positives = 124/257 (48%), Gaps = 22/257 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L+G V +VTG SG G+ R +EG RVV+ D+ E VA ++G DVT
Sbjct: 3 LEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADIGEAAIAIQADVTK 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH-SLDDFKRILLVNTVGTF 120
DV+ V FG+LD+ VN AGI+ + NK + ++F R+ VN +
Sbjct: 63 RADVEAMVEAALSKFGRLDILVNNAGIT------HRNKPMLEVDEEEFDRVFAVNVKSIY 116
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
LSAQ + + + G GVIIN AS A + G Y+ASK +V T MA +L
Sbjct: 117 ----LSAQALVPHMEEQGG--GVIINIASTAGLRPRPGLTWYNASKGWVVTATKAMAVEL 170
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLN-----EKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
A IRVN + P +TPLLSM E F A +IP RL PD+ A +
Sbjct: 171 APRNIRVNCLCPVAGETPLLSMFMGEDTPENRAKFRA-TIPL-GRLSTPDDIANAALYLA 228
Query: 236 TN--PLINGEVIRIDGA 250
++ I G + +DG
Sbjct: 229 SDEASFITGVALEVDGG 245
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 137 bits (347), Expect = 1e-37
Identities = 79/253 (31%), Positives = 126/253 (49%), Gaps = 17/253 (6%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSE 62
+ V LVTG A G+G+A +R R G +VV+ D A LGPD +DV+ E
Sbjct: 4 QSRVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGPDHHALAMDVSDE 63
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+++ FG++DV VN AG++ + +L++F R+ +N G + V
Sbjct: 64 AQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLDT----TLEEFARLQAINLTGAYLV 119
Query: 123 ARLSAQLIHENKLNEDGLRGV-IINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
AR + +L+ E G I+N AS A + AYSASK+ ++ +T +A + A
Sbjct: 120 AREALRLMIEQG------HGAAIVNVASGAGLVALPKRTAYSASKAAVISLTRSLACEWA 173
Query: 182 GAGIRVNTIAPGLFDTPLLSMLNE--KV-RNFLARSIPAPQRLGHPDEFAQLVQSIITNP 238
GIRVN + PG T +++ L K+ + + IP RLG P+E A+ V + ++
Sbjct: 174 AKGIRVNAVLPGYVRTQMVAELERAGKLDPSAVRSRIPL-GRLGRPEEIAEAVFFLASDQ 232
Query: 239 --LINGEVIRIDG 249
I G + +DG
Sbjct: 233 ASYITGSTLVVDG 245
Score = 128 bits (323), Expect = 3e-34
Identities = 84/251 (33%), Positives = 129/251 (51%), Gaps = 19/251 (7%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDV 65
V +TGGA G+G+A +R G R+++ D + +A+ LG + D+T E V
Sbjct: 271 VVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEALGDEHLSVQADITDEAAV 330
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARL 125
+ A + +G+LDV VN AGI+ FK S +DF R+ VN G F AR
Sbjct: 331 ESAFAQIQARWGRLDVLVNNAGIAEVFK-----PSLEQSAEDFTRVYDVNLSGAFACARA 385
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
+A+L+ + GVI+N SIA+ + AY ASK+ + ++ +A + A AGI
Sbjct: 386 AARLMSQG--------GVIVNLGSIASLLALPPRNAYCASKAAVTMLSRSLACEWAPAGI 437
Query: 186 RVNTIAPGLFDTPLLSMLNEKVR---NFLARSIPAPQRLGHPDEFAQLVQSIITN--PLI 240
RVNT+APG +TP + L R + + R IP RLG P+E A+ + + + +
Sbjct: 438 RVNTVAPGYIETPAVLALKASGRADFDSIRRRIPL-GRLGDPEEVAEAIAFLASPAASYV 496
Query: 241 NGEVIRIDGAL 251
NG + +DG
Sbjct: 497 NGATLTVDGGW 507
>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 = 131 bits (332), Expect = 2e-37
Identities = 69/234 (29%), Positives = 115/234 (49%), Gaps = 21/234 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD----VKFAPV 57
LKG V +VTGG+ G+G A + G V + E A+EL K
Sbjct: 6 LKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAKKYGVKTKAYKC 65
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DV+S+E V+K + FGK+D+ + AGI+ +Y + + +++ VN
Sbjct: 66 DVSSQESVEKTFKQIQKDFGKIDILIANAGITVHKPALDYTY------EQWNKVIDVNLN 119
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAY---EGQSGQVAYSASKSGIVGMTL 174
G FN A+ +A++ + +G +I TAS++ Q Q AY+ASK+ ++ +
Sbjct: 120 GVFNCAQAAAKIFKKQG------KGSLIITASMSGTIVNRPQP-QAAYNASKAAVIHLAK 172
Query: 175 PMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFA 228
+A + A IRVN+I+PG DT L +++++R IP +R+ P+E
Sbjct: 173 SLAVEWAKYFIRVNSISPGYIDTDLTDFVDKELRKKWESYIPL-KRIALPEELV 225
>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 = 131 bits (330), Expect = 4e-37
Identities = 78/262 (29%), Positives = 120/262 (45%), Gaps = 26/262 (9%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTSE 62
V LVTGGA G+GK ER+ ++G V + DL + AKE+ G +DV+ +
Sbjct: 2 VALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQAGGKAVAYKLDVSDK 61
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+ V A+ + FG DV VN AG++ I + ++ K++ VN G
Sbjct: 62 DQVFSAIDQAAEKFGGFDVMVNNAGVAPITPILEITE------EELKKVYNVNVKGVL-- 113
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
Q + + G G IIN ASIA +EG AYS++K + G+T A++LA
Sbjct: 114 --FGIQAAAR-QFKKQGHGGKIINAASIAGHEGNPILSAYSSTKFAVRGLTQTAAQELAP 170
Query: 183 AGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQ----------RLGHPDEFAQLVQ 232
GI VN PG+ TP+ ++E+ + I R P++ A LV
Sbjct: 171 KGITVNAYCPGIVKTPMWEEIDEETSEIAGKPIGEGFEEFSSEIALGRPSEPEDVAGLVS 230
Query: 233 SIITNP--LINGEVIRIDGALR 252
+ + I G+ I +DG +
Sbjct: 231 FLASEDSDYITGQSILVDGGMV 252
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 130 bits (329), Expect = 6e-37
Identities = 82/236 (34%), Positives = 122/236 (51%), Gaps = 23/236 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G V +VTGGA+ +G A +V G RV + D+ G +VA LG +F D+T
Sbjct: 4 LAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGERARFIATDITD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ +++AV FG++D+ VN A C + + G S D+ L VN V
Sbjct: 64 DAAIERAVATVVARFGRVDILVNLA---CTYL----DDGLASSRADWLAALDVNLVS--- 113
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
A + AQ H + L G G I+N SI+A Q+G+ Y ASK+ I +T MA DLA
Sbjct: 114 -AAMLAQAAHPH-LARGG--GAIVNFTSISAKFAQTGRWLYPASKAAIRQLTRSMAMDLA 169
Query: 182 GAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAP----QRLGHPDEFAQLV 231
GIRVN+++PG + ++ L ++ + A + AP R+G P+E AQ+V
Sbjct: 170 PDGIRVNSVSPGWTWSRVMDELSGGDRAK---ADRVAAPFHLLGRVGDPEEVAQVV 222
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 130 bits (328), Expect = 6e-37
Identities = 75/257 (29%), Positives = 119/257 (46%), Gaps = 23/257 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTS----EGESVAKELGPDVKFAPVDVTS 61
+ LVTG G+G A ++ +G RV+ + + V+ +DVT
Sbjct: 4 IALVTGAKRGIGSAIARELLNDGYRVIATYFSGNDCAKDWFEEYGFTEDQVRLKELDVTD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGT 119
E+ +A+ ++ G +D+ VN AGI+ S ++ ++ N
Sbjct: 64 TEECAEALAEIEEEEGPVDILVNNAGIT--------RDSVFKRMSHQEWNDVINTNLNSV 115
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
FNV Q + + R IIN +S+ +GQ GQ YSA+K+G++G T +A +
Sbjct: 116 FNVT----QPLFAAMCEQGYGR--IINISSVNGLKGQFGQTNYSAAKAGMIGFTKALASE 169
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP- 238
A GI VN IAPG TP++ + +V + IP +RLG P+E A V +++
Sbjct: 170 GARYGITVNCIAPGYIATPMVEQMGPEVLQSIVNQIPM-KRLGTPEEIAAAVAFLVSEAA 228
Query: 239 -LINGEVIRIDGALRMI 254
I GE I I+G L M
Sbjct: 229 GFITGETISINGGLYMH 245
>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 = 130 bits (329), Expect = 6e-37
Identities = 73/266 (27%), Positives = 118/266 (44%), Gaps = 33/266 (12%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVT 60
G V LVT +SG+G A + REG RV +C E A EL G V D+T
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRENLERAASELRAGGAGVLAVVADLT 60
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVG 118
ED+ + V D+FG++D+ VN AG G L +D+ + +
Sbjct: 61 DPEDIDRLVEKAGDAFGRVDILVNNAG--------GPPPGPFAELTDEDWLEAFDLKLLS 112
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+ R + E G I+N +S+ E + V + +++G++G+ ++R
Sbjct: 113 VIRIVRAVLPGMKERG------WGRIVNISSLTVKEPEPNLVLSNVARAGLIGLVKTLSR 166
Query: 179 DLAGAGIRVNTIAPGLFDTPLL-----------SMLNEKVRNFLARSIPAPQRLGHPDEF 227
+LA G+ VN++ PG DT + + E+ +A IP R+G P+E
Sbjct: 167 ELAPDGVTVNSVLPGYIDTERVRRLLEARAEKEGISVEEAEKEVASQIPL-GRVGKPEEL 225
Query: 228 AQLVQSIITNP--LINGEVIRIDGAL 251
A L+ + + I G+ I +DG L
Sbjct: 226 AALIAFLASEKASYITGQAILVDGGL 251
>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 = 128 bits (325), Expect = 2e-36
Identities = 76/248 (30%), Positives = 113/248 (45%), Gaps = 16/248 (6%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDL---PTSEGESVAKELGPDVKFAPVDVTSE 62
V ++TGGASG+G AT + ++++G +V + D P + E A F DVTS
Sbjct: 2 VAIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAAELQAINPKVKATFVQCDVTSW 61
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
E + A + FG++D+ +N AGI K ++ + VN G N
Sbjct: 62 EQLAAAFKKAIEKFGRVDILINNAGILDEKSYLFAGKLPPPW----EKTIDVNLTGVINT 117
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA-RDLA 181
L+ +H N+ G GVI+N S+A YSASK G+VG T +A
Sbjct: 118 TYLA---LHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSASKHGVVGFTRSLADLLEY 174
Query: 182 GAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLIN 241
G+RVN I PG +TPLL L K L + P+ A+ + +I + N
Sbjct: 175 KTGVRVNAICPGFTNTPLLPDLVAKEAEMLPSAPTQS-----PEVVAKAIVYLIEDDEKN 229
Query: 242 GEVIRIDG 249
G + +DG
Sbjct: 230 GAIWIVDG 237
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 129 bits (325), Expect = 2e-36
Identities = 90/262 (34%), Positives = 120/262 (45%), Gaps = 27/262 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL--GPDVKFAPVDV 59
L G V +VTG SG+G+AT + REG RVV+ D E VA + G DV
Sbjct: 3 LAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAAGGRAFARQGDV 62
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTV 117
S E V+ V +G+LDV VN AG C GTV + D D+ ++ VN
Sbjct: 63 GSAEAVEALVDFVAARWGRLDVLVNNAGFGCG--------GTVVTTDEADWDAVMRVNVG 114
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G F A+ + ++ G I+NTAS A G G+ AY ASK I +T MA
Sbjct: 115 GVFLWAKYAIPIMQRQG------GGSIVNTASQLALAGGRGRAAYVASKGAIASLTRAMA 168
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSML------NEKVRNFLARSIPAPQRLGHPDEFAQLV 231
D A GIRVN +APG DTP + E +R L R+ R G +E AQ
Sbjct: 169 LDHATDGIRVNAVAPGTIDTPYFRRIFARHADPEALREAL-RARHPMNRFGTAEEVAQAA 227
Query: 232 QSIITN--PLINGEVIRIDGAL 251
+ ++ G + +DG
Sbjct: 228 LFLASDESSFATGTTLVVDGGW 249
>gnl|CDD|187627 cd05369, TER_DECR_SDR_a, Trans-2-enoyl-CoA reductase (TER) and
2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR.
TTER is a peroxisomal protein with a proposed role in
fatty acid elongation. Fatty acid synthesis is known to
occur in the both endoplasmic reticulum and
mitochondria; peroxisomal TER has been proposed as an
additional fatty acid elongation system, it reduces the
double bond at C-2 as the last step of elongation. This
system resembles the mitochondrial system in that
acetyl-CoA is used as a carbon donor. TER may also
function in phytol metabolism, reducting phytenoyl-CoA
to phytanoyl-CoA in peroxisomes. DECR processes double
bonds in fatty acids to increase their utility in fatty
acid metabolism; it reduces 2,4-dienoyl-CoA to an
enoyl-CoA. DECR is active in mitochondria and
peroxisomes. This subgroup has the Gly-rich NAD-binding
motif of the classical SDR family, but does not display
strong identity to the canonical active site tetrad, and
lacks the characteristic Tyr at the usual position. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 249
Score = 126 bits (318), Expect = 2e-35
Identities = 77/262 (29%), Positives = 117/262 (44%), Gaps = 29/262 (11%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
LKG V +TGG +G+GKA + G V + E+ A+E+ G
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGRAHPIQC 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAG---ISCAFKIFNYNKGTVHSLDDFKRILLV 114
DV E V+ AV FGK+D+ +N A ++ A + S + FK ++ +
Sbjct: 61 DVRDPEAVEAAVDETLKEFGKIDILINNAAGNFLAPAESL---------SPNGFKTVIDI 111
Query: 115 NTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTL 174
+ GTFN + +L E G I+N ++ AY G QV +A+K+G+ +T
Sbjct: 112 DLNGTFNTTKAVG-----KRLIEAKHGGSILNISATYAYTGSPFQVHSAAAKAGVDALTR 166
Query: 175 PMARDLAGAGIRVNTIAPGLFD-TPLLSMLN--EKVRNFLARSIPAPQRLGHPDEFAQLV 231
+A + GIRVN IAPG T + L K + +P RLG P+E A L
Sbjct: 167 SLAVEWGPYGIRVNAIAPGPIPTTEGMERLAPSGKSEKKMIERVPL-GRLGTPEEIANLA 225
Query: 232 QSIITNPL---INGEVIRIDGA 250
+ + ING + +DG
Sbjct: 226 -LFLLSDAASYINGTTLVVDGG 246
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 125 bits (317), Expect = 4e-35
Identities = 68/197 (34%), Positives = 100/197 (50%), Gaps = 11/197 (5%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L+G V L+TG ASG+G+A ER + EG RVV+ D+ + A E+GP +DVT
Sbjct: 4 LQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPAAIAVSLDVTR 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
++ + + V + FG +D+ N A +F+ S D + R+ VN G F
Sbjct: 64 QDSIDRIVAAAVERFGGIDILFNNAA------LFDMAPILDISRDSYDRLFAVNVKGLFF 117
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+ + A+ + E G G IIN AS A G++ Y A+K+ ++ T A L
Sbjct: 118 LMQAVAR-----HMVEQGRGGKIINMASQAGRRGEALVSHYCATKAAVISYTQSAALALI 172
Query: 182 GAGIRVNTIAPGLFDTP 198
GI VN IAPG+ DTP
Sbjct: 173 RHGINVNAIAPGVVDTP 189
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 125 bits (316), Expect = 5e-35
Identities = 84/234 (35%), Positives = 118/234 (50%), Gaps = 17/234 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G V ++TGG SG+G AT R+ EG VV+ D+ G++ A E+G F P DVT
Sbjct: 5 LAGRVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEVG--GLFVPTDVTD 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
E+ V +++G +D+ N AGIS N G LD ++R+ VN +
Sbjct: 63 EDAVNALFDTAAETYGSVDIAFNNAGISPPEDDSILNTG----LDAWQRVQDVNLTSVYL 118
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQ-SGQVAYSASKSGIVGMTLPMARDL 180
+ A L H + G +G IINTAS A G + Q++Y+ASK G++ M+ +
Sbjct: 119 CCK--AALPH---MVRQG-KGSIINTASFVAVMGSATSQISYTASKGGVLAMSRELGVQF 172
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARS---IPAPQRLGHPDEFAQLV 231
A GIRVN + PG +TPLL L K AR +P R P+E A V
Sbjct: 173 ARQGIRVNALCPGPVNTPLLQELFAKDPERAARRLVHVPM-GRFAEPEEIAAAV 225
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 125 bits (315), Expect = 7e-35
Identities = 87/268 (32%), Positives = 121/268 (45%), Gaps = 36/268 (13%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL-----GPDVKFAP 56
L G V LVTG A G+G A REG V L DL + E A + G V P
Sbjct: 5 LAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGARVLAVP 64
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
DVT V AV +++FG LDV VN AGI+ + + +D++R V+
Sbjct: 65 ADVTDAASVAAAVAAAEEAFGPLDVLVNNAGINV------FADPLAMTDEDWRRCFAVDL 118
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G +N R A L + E G RG I+N AS A++ G Y +K G++G+T +
Sbjct: 119 DGAWNGCR--AVLPG---MVERG-RGSIVNIASTHAFKIIPGCFPYPVAKHGLLGLTRAL 172
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPA-----------PQRLGHPD 225
+ A +RVN IAPG +T L + A+ PA +R+G P+
Sbjct: 173 GIEYAARNVRVNAIAPGYIETQLT------EDWWNAQPDPAAARAETLALQPMKRIGRPE 226
Query: 226 EFAQLVQSIITN--PLINGEVIRIDGAL 251
E A + ++ P IN I IDG
Sbjct: 227 EVAMTAVFLASDEAPFINATCITIDGGR 254
>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 = 124 bits (314), Expect = 1e-34
Identities = 59/246 (23%), Positives = 104/246 (42%), Gaps = 29/246 (11%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+TG +SG+G A + +G RV+ + ES+ + L +++ +DVT EE ++
Sbjct: 4 LITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELLNDNLEVLELDVTDEESIKA 63
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTFNVARL 125
AV + FG++DV VN AG G + S+++ + + VN G V R
Sbjct: 64 AVKEVIERFGRIDVLVNNAGYGLF--------GPLEETSIEEVRELFEVNVFGPLRVTRA 115
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
L+ + G I+N +S+A Y ASK+ + ++ + +LA GI
Sbjct: 116 FLPLMRKQG------SGRIVNVSSVAGLVPTPFLGPYCASKAALEALSESLRLELAPFGI 169
Query: 186 RVNTIAPGLFDTPLL-------------SMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQ 232
+V I PG T S + + + G P++ A ++
Sbjct: 170 KVTIIEPGPVRTGFADNAAGSALEDPEISPYAPERKEIKENAAGVGSNPGDPEKVADVIV 229
Query: 233 SIITNP 238
+T+
Sbjct: 230 KALTSE 235
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 124 bits (313), Expect = 1e-34
Identities = 87/264 (32%), Positives = 131/264 (49%), Gaps = 33/264 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL-------GPDVKF 54
L L+TGG+ GLG+A R+ +G V++ D+ G + A + G
Sbjct: 4 LDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAGGKALG 63
Query: 55 APVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGIS--CAFKIFNYNKGTVHSLDDFKRIL 112
DV + A+ + FG+LD+ VN AGI+ AF S++++ ++
Sbjct: 64 LAFDVRDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAEL--------SIEEWDDVI 115
Query: 113 LVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGM 172
VN G FNV + A L + G I+N AS+A G GQV Y+ASK+G++G+
Sbjct: 116 DVNLDGFFNVTQ--AALPPMIRARRGG---RIVNIASVAGVRGNRGQVNYAASKAGLIGL 170
Query: 173 TLPMARDLAGAGIRVNTIAPGLFDTPLLS--MLNEKVRNFLARSIPAP-QRLGHPDEFAQ 229
T +A +LA GI VN +APG +TP+ E + N P P QRLG PDE A
Sbjct: 171 TKTLANELAPRGITVNAVAPGAINTPMADNAAPTEHLLN------PVPVQRLGEPDEVAA 224
Query: 230 LVQSIITN--PLINGEVIRIDGAL 251
LV ++++ + G+VI +DG
Sbjct: 225 LVAFLVSDAASYVTGQVIPVDGGF 248
>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 = 124 bits (313), Expect = 1e-34
Identities = 81/242 (33%), Positives = 115/242 (47%), Gaps = 30/242 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVL---CDLPTSEG-ESVAKELGPDVKFAPV 57
LKG V LVTG +SG+GKA R+ G VV+ +E K +G
Sbjct: 1 LKGKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKEDAAEEVVEEIKAVGGKAIAVQA 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVN 115
DV+ EEDV FG LD+ VN AG+ + H +L+D+ +++ VN
Sbjct: 61 DVSKEEDVVALFQSAIKEFGTLDILVNNAGLQ--------GDASSHEMTLEDWNKVIDVN 112
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G F AR + + ++K+ +G IIN +S+ G V Y+ASK G+ MT
Sbjct: 113 LTGQFLCAREAIKRFRKSKI-----KGKIINMSSVHEKIPWPGHVNYAASKGGVKMMTKT 167
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKV------RNFLARSIPAPQRLGHPDEFAQ 229
+A++ A GIRVN IAPG +TP +N + R L IP R+G P+E A
Sbjct: 168 LAQEYAPKGIRVNAIAPGAINTP----INAEAWDDPEQRADLLSLIPMG-RIGEPEEIAA 222
Query: 230 LV 231
Sbjct: 223 AA 224
>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 = 123 bits (311), Expect = 2e-34
Identities = 85/260 (32%), Positives = 125/260 (48%), Gaps = 27/260 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L+G V +VTG +G+G A R+ REG RVV+ D+ ++V ++ VDVT
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQIAGGALALRVDVTD 60
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGI-SCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
E+ V + FG LD+ VN AG I + L + + + +N GTF
Sbjct: 61 EQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDT------DLAVWDQTMAINLRGTF 114
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
R +A + + G G I+N +SIA G G AY ASK+ I +T +A +L
Sbjct: 115 LCCRHAAPRM----IARGG--GSIVNLSSIAGQSGDPGYGAYGASKAAIRNLTRTLAAEL 168
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAP---------QRLGHPDEFAQLV 231
AGIR N +APGL DTP +L K+ F P RLG P++ A V
Sbjct: 169 RHAGIRCNALAPGLIDTP---LLLAKLAGFEGALGPGGFHLLIHQLQGRLGRPEDVAAAV 225
Query: 232 QSIITN--PLINGEVIRIDG 249
++++ I G+V+ +DG
Sbjct: 226 VFLLSDDASFITGQVLCVDG 245
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 123 bits (310), Expect = 3e-34
Identities = 80/259 (30%), Positives = 120/259 (46%), Gaps = 24/259 (9%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KELGPDVKFAPV 57
G V LVTGGA+G+G+AT REG +VV+ D + GE +E G + F
Sbjct: 4 TFSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAGGEALFVAC 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV--HSLDDFKRILLVN 115
DVT + +V+ V ++G+LD N AGI +G + S +F I+ VN
Sbjct: 64 DVTRDAEVKALVEQTIAAYGRLDYAFNNAGIEIE-------QGRLAEGSEAEFDAIMGVN 116
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G + + L+ L + G G I+NTAS+A Y+ASK ++G+T
Sbjct: 117 VKGVWLCMKYQIPLM----LAQGG--GAIVNTASVAGLGAAPKMSIYAASKHAVIGLTKS 170
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNE---KVRNFLARSIPAPQRLGHPDEFAQLVQ 232
A + A GIRVN + P + DT + E + F A P R+G +E A V
Sbjct: 171 AAIEYAKKGIRVNAVCPAVIDTDMFRRAYEADPRKAEFAAAMHPV-GRIGKVEEVASAVL 229
Query: 233 SIITN--PLINGEVIRIDG 249
+ ++ G + +DG
Sbjct: 230 YLCSDGASFTTGHALMVDG 248
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 123 bits (310), Expect = 4e-34
Identities = 65/202 (32%), Positives = 102/202 (50%), Gaps = 15/202 (7%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPV 57
MLKG V LVTG ASG+G + +EG +VV+ DL + A+ L G +
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKAGGKAIGVAM 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DVT EE + + ++FG +D+ VN AGI I ++ + +K+++ +
Sbjct: 61 DVTDEEAINAGIDYAVETFGGVDILVNNAGIQHVAPIEDF------PTEKWKKMIAIMLD 114
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G F + + ++ G IIN AS+ G +G+ AY ++K G++G+T +A
Sbjct: 115 GAFLTTKAALPIMKAQGG------GRIINMASVHGLVGSAGKAAYVSAKHGLIGLTKVVA 168
Query: 178 RDLAGAGIRVNTIAPGLFDTPL 199
+ A G+ VN I PG DTPL
Sbjct: 169 LEGATHGVTVNAICPGYVDTPL 190
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 122 bits (306), Expect = 1e-33
Identities = 92/259 (35%), Positives = 136/259 (52%), Gaps = 22/259 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVAKEL---GPDVKFAPV 57
L G V +VTGGA G+GKA + +EG +VV+ + E E++ EL G DV
Sbjct: 4 LNGKVAIVTGGAKGIGKAITVALAQEGAKVVINYNSSKEAAENLVNELGKEGHDVYAVQA 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISC--AFKIFNYNKGTVHSLDDFKRILLVN 115
DV+ ED + V + FGK+D+ VN AGI+ FK N +D++R++ VN
Sbjct: 64 DVSKVEDANRLVEEAVNHFGKVDILVNNAGITRDRTFKKLNR--------EDWERVIDVN 115
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
FN SA L + + E G II+ +SI G GQ YSA+K+G++G T
Sbjct: 116 LSSVFNTT--SAVLPYITEAEE----GRIISISSIIGQAGGFGQTNYSAAKAGMLGFTKS 169
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
+A +LA + VN I PG DT +++ + E+VR + IP +R G DE A+ V +
Sbjct: 170 LALELAKTNVTVNAICPGFIDTEMVAEVPEEVRQKIVAKIPK-KRFGQADEIAKGVVYLC 228
Query: 236 TN-PLINGEVIRIDGALRM 253
+ I G+ + I+G L M
Sbjct: 229 RDGAYITGQQLNINGGLYM 247
>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 = 121 bits (306), Expect = 1e-33
Identities = 77/255 (30%), Positives = 122/255 (47%), Gaps = 22/255 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKEL---GPDVKFAPV 57
L G V LVTG + G+G+A +R+ R+G VV+ + E V E+ G
Sbjct: 1 LAGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIEAAGGKAIAVQA 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DV+ V + + +FG +D+ VN AG+ + T S ++F R+ VNT
Sbjct: 61 DVSDPSQVARLFDAAEKAFGGVDILVNNAGVM----LKKPIAET--SEEEFDRMFTVNTK 114
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G F V + +A+ + + G IIN +S AY+ SK+ + T +A
Sbjct: 115 GAFFVLQEAAKRLRDG--------GRIINISSSLTAAYTPNYGAYAGSKAAVEAFTRVLA 166
Query: 178 RDLAGAGIRVNTIAPGLFDTPL-LSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIIT 236
++L G GI VN +APG DT + + E+ A+ P RLG P++ A +V + +
Sbjct: 167 KELGGRGITVNAVAPGPVDTDMFYAGKTEEAVEGYAKMSPL-GRLGEPEDIAPVVAFLAS 225
Query: 237 NPL--INGEVIRIDG 249
+NG+VIR +G
Sbjct: 226 PDGRWVNGQVIRANG 240
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 121 bits (306), Expect = 2e-33
Identities = 82/266 (30%), Positives = 116/266 (43%), Gaps = 33/266 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV-DVT 60
L G+ LVTGGASG+G+A E G RV +CD+ + + A L A V DV
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAKVTATVADVA 68
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTVG 118
V++ + FG LDV VN AGI+ G + + +++ L VN G
Sbjct: 69 DPAQVERVFDTAVERFGGLDVLVNNAGIAGP-------TGGIDEITPEQWEQTLAVNLNG 121
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F AR + L L G GVII +S+A G G+ Y+ASK +VG+ +A
Sbjct: 122 QFYFARAAVPL-----LKASGHGGVIIALSSVAGRLGYPGRTPYAASKWAVVGLVKSLAI 176
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQ------------RLGHPDE 226
+L GIRVN I PG+ P M I + R+ P++
Sbjct: 177 ELGPLGIRVNAILPGIVRGP--RMRRVIEARAQQLGIGLDEMEQEYLEKISLGRMVEPED 234
Query: 227 FAQLVQSIITNPL---INGEVIRIDG 249
A + + P I G+ I +DG
Sbjct: 235 IAATALFLAS-PAARYITGQAISVDG 259
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 121 bits (304), Expect = 3e-33
Identities = 82/264 (31%), Positives = 126/264 (47%), Gaps = 35/264 (13%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
LK V +VTGG+ G+GKA V R+ EG V+ + E DV + VDV++
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVI--NFDIKEPSYN------DVDYFKVDVSN 55
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+E V K + +G++D+ VN AGI +Y D++ RI+ VN G F
Sbjct: 56 KEQVIKGIDYVISKYGRIDILVNNAGIE------SYGAIHAVEEDEWDRIINVNVNGIFL 109
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+++ + + + +GVIIN AS+ ++ AY SK ++G+T +A D A
Sbjct: 110 MSKYTIPYMLKQD------KGVIINIASVQSFAVTRNAAAYVTSKHAVLGLTRSIAVDYA 163
Query: 182 GAGIRVNTIAPGLFDTPLLSMLNE----KVRNFLARSI-------PAPQRLGHPDEFAQL 230
IR + PG TPLL E K + R I P +R+G P+E A +
Sbjct: 164 PT-IRCVAVCPGSIRTPLLEWAAELEVGKDPEHVERKIREWGEMHPM-KRVGKPEEVAYV 221
Query: 231 VQSIITN--PLINGEVIRIDGALR 252
V + ++ I GE + +DG LR
Sbjct: 222 VAFLASDLASFITGECVTVDGGLR 245
>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 = 120 bits (303), Expect = 3e-33
Identities = 74/256 (28%), Positives = 125/256 (48%), Gaps = 22/256 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
LKG V LVTG + G+G + G +V+ + E + + G + D
Sbjct: 3 LKGKVALVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKEGVEATAFTCD 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V+ EE ++ AV ++ FGK+D+ VN AGI + +++ ++ VN G
Sbjct: 63 VSDEEAIKAAVEAIEEDFGKIDILVNNAGII------RRHPAEEFPEAEWRDVIDVNLNG 116
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F V++ A+ + + G IIN S+ + G AY+ASK G+ G+T +A
Sbjct: 117 VFFVSQAVARHMIKQG------HGKIINICSLLSELGGPPVPAYAASKGGVAGLTKALAT 170
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEF---AQLVQS 233
+ A GI+VN IAPG F T + + + + + + + IPA R G P++ A + S
Sbjct: 171 EWARHGIQVNAIAPGYFATEMTEAVVADPEFNDDILKRIPA-GRWGQPEDLVGAAVFLAS 229
Query: 234 IITNPLINGEVIRIDG 249
++ +NG++I +DG
Sbjct: 230 DASD-YVNGQIIFVDG 244
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 117 bits (296), Expect = 6e-32
Identities = 83/269 (30%), Positives = 119/269 (44%), Gaps = 32/269 (11%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVT 60
L G V L+TGG SG+G+A VER + EG RV + + + S+ + G V DVT
Sbjct: 3 WLHGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQRFGDHVLVVEGDVT 62
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-----FKRILLVN 115
S D Q+AV D+FGKLD V AG I++YN V + F I VN
Sbjct: 63 SYADNQRAVDQTVDAFGKLDCFVGNAG------IWDYNTSLVDIPAETLDTAFDEIFNVN 116
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G A+ + + + G +I T S +++ G Y+ASK +VG+
Sbjct: 117 VKGYLLGAKAALPALKAS-------GGSMIFTLSNSSFYPGGGGPLYTASKHAVVGLVRQ 169
Query: 176 MARDLAGAGIRVNTIAPGLFDTPL-----LSMLNEKVRNFLAR-----SIPAPQRLGHPD 225
+A +LA IRVN +APG T L L + + +I Q P+
Sbjct: 170 LAYELA-PKIRVNGVAPGGTVTDLRGPASLGQGETSISDSPGLADMIAAITPLQFAPQPE 228
Query: 226 EFAQ---LVQSIITNPLINGEVIRIDGAL 251
+ L+ S + + G VI DG L
Sbjct: 229 DHTGPYVLLASRRNSRALTGVVINADGGL 257
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 117 bits (295), Expect = 7e-32
Identities = 69/207 (33%), Positives = 100/207 (48%), Gaps = 17/207 (8%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFA-PV 57
V +V GG LG + EG RV + D+ + + +VA+E+ G + +
Sbjct: 1 MNQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEYGEGMAYGFGA 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D TSE+ V + FG++D+ V AGI+ A I T L DF R L VN V
Sbjct: 61 DATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFI------TDFQLGDFDRSLQVNLV 114
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G F AR ++L + DG++G II S + G YSA+K G VG+T +A
Sbjct: 115 GYFLCAREFSRL-----MIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLA 169
Query: 178 RDLAGAGIRVNTIAPG-LFDTPLLSML 203
DLA GI V+++ G L +P+ L
Sbjct: 170 LDLAEYGITVHSLMLGNLLKSPMFQSL 196
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 117 bits (295), Expect = 8e-32
Identities = 70/195 (35%), Positives = 107/195 (54%), Gaps = 16/195 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG--PDVKFAPVDV 59
L G V LVTGGA+G+G++ V + G +V + DL G++V LG P+V F DV
Sbjct: 16 LLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQNVCDSLGGEPNVCFFHCDV 75
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCA--FKIFNYNKGTVHSLDDFKRILLVNTV 117
T E+DV +AV D FG LD+ VN AG++ I N L +F+++ VN
Sbjct: 76 TVEDDVSRAVDFTVDKFGTLDIMVNNAGLTGPPCPDIRNV------ELSEFEKVFDVNVK 129
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G F + +A+++ K +G I++ S+A+ G G AY+ SK ++G+T +A
Sbjct: 130 GVFLGMKHAARIMIPLK------KGSIVSLCSVASAIGGLGPHAYTGSKHAVLGLTRSVA 183
Query: 178 RDLAGAGIRVNTIAP 192
+L GIRVN ++P
Sbjct: 184 AELGKHGIRVNCVSP 198
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 122 bits (309), Expect = 9e-32
Identities = 72/197 (36%), Positives = 96/197 (48%), Gaps = 21/197 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV--DV 59
L G V LVTG A G+GKAT +R+ EG VVL DL E+ A ELG + V DV
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELGGPDRALGVACDV 479
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
T E VQ A +FG +D+ V+ AGI+ + I S +D++R VN G
Sbjct: 480 TDEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEE------TSDEDWRRSFDVNATGH 533
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR- 178
F VAR + ++ + GL G I+ AS A AY A+K+ L + R
Sbjct: 534 FLVAREAVRI-----MKAQGLGGSIVFIASKNAVNPGPNFGAYGAAKA----AELHLVRQ 584
Query: 179 ---DLAGAGIRVNTIAP 192
+L GIRVN + P
Sbjct: 585 LALELGPDGIRVNGVNP 601
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 116 bits (293), Expect = 1e-31
Identities = 84/267 (31%), Positives = 132/267 (49%), Gaps = 39/267 (14%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA--KELGPDVKFAPVDV 59
L+ V ++TG ++G+G+A+ + +EG V+ D+ + E+V K G K VD+
Sbjct: 4 LENKVAVITGASTGIGQASAIALAQEGAYVLAVDIAEAVSETVDKIKSNGGKAKAYHVDI 63
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHS--LDDFKRILLVNTV 117
+ E+ V+ K+ FG++DV N AG+ A G +H +D F +I+ V+
Sbjct: 64 SDEQQVKDFASEIKEQFGRVDVLFNNAGVDNA-------AGRIHEYPVDVFDKIMAVDMR 116
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVA------YSASKSGIVG 171
GTF + ++ L+ E G IINT+S SGQ A Y+A+K ++
Sbjct: 117 GTFLMTKMLLPLMMEQG-------GSIINTSSF------SGQAADLYRSGYNAAKGAVIN 163
Query: 172 MTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQ-------RLGHP 224
T +A + GIR N IAPG +TPL+ L + ++ Q RLG P
Sbjct: 164 FTKSIAIEYGRDGIRANAIAPGTIETPLVDKLTGTSEDEAGKTFRENQKWMTPLGRLGKP 223
Query: 225 DEFAQLVQSIITN--PLINGEVIRIDG 249
+E A+LV + ++ I GE IRIDG
Sbjct: 224 EEVAKLVVFLASDDSSFITGETIRIDG 250
>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 = 116 bits (291), Expect = 2e-31
Identities = 81/260 (31%), Positives = 124/260 (47%), Gaps = 29/260 (11%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTS---EGESVAKELGPDVKFAPV--DVT 60
V L+TGG SGLG AT R+ +EG ++ L DL ++ E+ PD + + DV+
Sbjct: 5 VVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAEVLLIKADVS 64
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
E V+ V + FG++D N AGI N D+F +++ +N G F
Sbjct: 65 DEAQVEAYVDATVEQFGRIDGFFNNAGIEG-----KQNLTEDFGADEFDKVVSINLRGVF 119
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+++ E G+I+NTAS+ G Q Y+A+K G+VG+T A +
Sbjct: 120 YGLEKVLKVMREQGS------GMIVNTASVGGIRGVGNQSGYAAAKHGVVGLTRNSAVEY 173
Query: 181 AGAGIRVNTIAPGLFDTPL----LSMLN-----EKVRNFLARSIPAPQRLGHPDEFAQLV 231
GIR+N IAPG TP+ L L E F+ S+ +R G P+E A +V
Sbjct: 174 GQYGIRINAIAPGAILTPMVEGSLKQLGPENPEEAGEEFV--SVNPMKRFGEPEEVAAVV 231
Query: 232 QSIIT--NPLINGEVIRIDG 249
+++ +N V+ IDG
Sbjct: 232 AFLLSDDAGYVNAAVVPIDG 251
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 116 bits (292), Expect = 2e-31
Identities = 74/239 (30%), Positives = 105/239 (43%), Gaps = 32/239 (13%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGES-----VAKELGPDVKFAP 56
LKG L+TGG SG+G+A REG V + LP E ++ + +E G P
Sbjct: 24 LKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIEEEGRKCLLIP 83
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-----FKRI 111
D+ E + V FGKLD+ VN A + S++D ++
Sbjct: 84 GDLGDESFCRDLVKEVVKEFGKLDILVNNAA----------YQHPQESIEDITTEQLEKT 133
Query: 112 LLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVG 171
N F + + + + + IINT S+ AY+G + Y+A+K IV
Sbjct: 134 FRTNIFSMFYLTKAALPHLKKG--------SSIINTTSVTAYKGSPHLLDYAATKGAIVA 185
Query: 172 MTLPMARDLAGAGIRVNTIAPGLFDTPLL--SMLNEKVRNFLARSIPAPQRLGHPDEFA 228
T ++ LA GIRVN +APG TPL+ S EKV F +P R G P E A
Sbjct: 186 FTRGLSLQLAEKGIRVNAVAPGPIWTPLIPSSFPEEKVSEF-GSQVP-MGRAGQPAEVA 242
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 115 bits (289), Expect = 3e-31
Identities = 73/258 (28%), Positives = 120/258 (46%), Gaps = 26/258 (10%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTS-EGESVAKEL---GPDVKFAP 56
L V +VTG + G+G A R+ +G V + ++ + + E+ G
Sbjct: 2 TLSNKVAIVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAADELVAEIEAAGGRAIAVQ 61
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
DV V + + +FG++DV VN AG+ I ++ L+DF R + N
Sbjct: 62 ADVADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADF------DLEDFDRTIATNL 115
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G F V R +A+ + G R + ++T+ IA G Y+ASK+ + G+ +
Sbjct: 116 RGAFVVLREAARHL------GQGGRIINLSTSVIALP--LPGYGPYAASKAAVEGLVHVL 167
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLAR--SIPAPQRLGHPDEFAQLVQSI 234
A +L G GI VN +APG T L N K + + + +RLG P+E A V +
Sbjct: 168 ANELRGRGITVNAVAPGPVATELF--FNGKSAEQIDQLAGLAPLERLGTPEEIAAAV-AF 224
Query: 235 ITNP---LINGEVIRIDG 249
+ P +NG+V+R++G
Sbjct: 225 LAGPDGAWVNGQVLRVNG 242
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 115 bits (290), Expect = 4e-31
Identities = 63/203 (31%), Positives = 108/203 (53%), Gaps = 18/203 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L+G + +VTGG+SG+G A V+ ++ G VV D+ +G+ + +F P DV+S
Sbjct: 7 LQGKIIIVTGGSSGIGLAIVKELLANGANVVNADIHGGDGQ------HENYQFVPTDVSS 60
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFN-YNKGTVHSLD--DFKRILLVNTVG 118
E+V V + FG++D VN AGI+ + + + + L+ F ++ +N G
Sbjct: 61 AEEVNHTVAEIIEKFGRIDGLVNNAGINIPRLLVDEKDPAGKYELNEAAFDKMFNINQKG 120
Query: 119 TFNVARLSA-QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
F +++ A Q++ ++ GVI+N +S A EG GQ Y+A+K+ + T A
Sbjct: 121 VFLMSQAVARQMVKQHD-------GVIVNMSSEAGLEGSEGQSCYAATKAALNSFTRSWA 173
Query: 178 RDLAGAGIRVNTIAPGLFD-TPL 199
++L IRV +APG+ + T L
Sbjct: 174 KELGKHNIRVVGVAPGILEATGL 196
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 115 bits (289), Expect = 4e-31
Identities = 70/235 (29%), Positives = 110/235 (46%), Gaps = 22/235 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE----LGPDVKFAPV 57
L G V VTG SG+G+ + + G V L DL T +G + E G
Sbjct: 6 LDGQVAFVTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAEHIEAAGRRAIQIAA 65
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DVTS+ D++ AV + G L + VN AGI+ N N + ++ ++ +N
Sbjct: 66 DVTSKADLRAAVARTEAELGALTLAVNAAGIA------NANPAEEMEEEQWQTVMDINLT 119
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSG--QVAYSASKSGIVGMTLP 175
G F + A+ + EN G I+N AS++ G Q Y+ASK+G++ ++
Sbjct: 120 GVFLSCQAEARAMLENG------GGSIVNIASMSGIIVNRGLLQAHYNASKAGVIHLSKS 173
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSM--LNEKVRNFLARSIPAPQRLGHPDEFA 228
+A + G GIRVN+I+PG TP+ + + + + F P QR+ DE
Sbjct: 174 LAMEWVGRGIRVNSISPGYTATPMNTRPEMVHQTKLF-EEQTPM-QRMAKVDEMV 226
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 113 bits (286), Expect = 9e-31
Identities = 73/239 (30%), Positives = 113/239 (47%), Gaps = 13/239 (5%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD-VKFAPVDV 59
LKG V L+TG +SG+G+AT + G +VVL E++A E+G +DV
Sbjct: 3 TLKGKVALITGASSGIGEATARALAEAGAKVVLAARREERLEALADEIGAGAALALALDV 62
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
T V+ A+ + FG++D+ VN AG++ + + LDD+ R++ N G
Sbjct: 63 TDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEAD------LDDWDRMIDTNVKGL 116
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
N R + E K G IIN SIA G Y A+K+ + +L + ++
Sbjct: 117 LNGTRAVLPGMVERK------SGHIINLGSIAGRYPYPGGAVYGATKAAVRAFSLGLRQE 170
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP 238
LAG GIRV I+PGL +T S + + + A + P++ A+ V T P
Sbjct: 171 LAGTGIRVTVISPGLVETTEFSTVRFEGDDERADKVYKGGTALTPEDIAEAVLFAATQP 229
>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 = 113 bits (285), Expect = 2e-30
Identities = 65/201 (32%), Positives = 99/201 (49%), Gaps = 16/201 (7%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG----PDVKFAPVD 58
V +VTGG+ G+G+ V V G +VV C + G+++ EL KF P D
Sbjct: 8 ADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGPGSCKFVPCD 67
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT EED++ + + + FG++D VN AG + + S +F+ +L +N +
Sbjct: 68 VTKEEDIKTLISVTVERFGRIDCLVNNAGWHPPHQTTDET-----SAQEFRDLLNLNLIS 122
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F ++ + L H K +G IIN +S+ GQ Y A+K I MT +A
Sbjct: 123 YFLASKYA--LPHLRKS-----QGNIINLSSLVGSIGQKQAAPYVATKGAITAMTKALAV 175
Query: 179 DLAGAGIRVNTIAPGLFDTPL 199
D + G+RVN I+PG TPL
Sbjct: 176 DESRYGVRVNCISPGNIWTPL 196
>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 = 112 bits (283), Expect = 4e-30
Identities = 79/268 (29%), Positives = 117/268 (43%), Gaps = 31/268 (11%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVT 60
LKG V L+TGG SGLG+A VER V EG +V + D + + + G V DV
Sbjct: 1 WLKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEKVAELRADFGDAVVGVEGDVR 60
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-----FKRILLVN 115
S D ++AV C + FGKLD + AG I++Y+ V ++ F + +N
Sbjct: 61 SLADNERAVARCVERFGKLDCFIGNAG------IWDYSTSLVDIPEEKLDEAFDELFHIN 114
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G A+ + ++ G +I T S A + G Y+ASK +VG+
Sbjct: 115 VKGYILGAKAALPALYAT-------EGSVIFTVSNAGFYPGGGGPLYTASKHAVVGLVKQ 167
Query: 176 MARDLAGAGIRVNTIAPGLFDTPL-----LSMLNEKVRNF----LARSIPAPQRLGHPDE 226
+A +LA IRVN +APG T L L + + +SI P++
Sbjct: 168 LAYELA-PHIRVNGVAPGGMVTDLRGPASLGQGETSISTPPLDDMLKSILPLGFAPEPED 226
Query: 227 FAQ---LVQSIITNPLINGEVIRIDGAL 251
+ + S N G VI DG +
Sbjct: 227 YTGAYVFLASRGDNRPATGTVINYDGGM 254
>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 = 112 bits (282), Expect = 4e-30
Identities = 85/263 (32%), Positives = 122/263 (46%), Gaps = 24/263 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KELGPDVKFAPVD 58
LK +VTGG G+G AT R EG +V + DL E VA + G + + D
Sbjct: 1 LKDKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAKGGNAQAFACD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
+T + V AV + + G +DV VN AG F F T ++R++ +N G
Sbjct: 61 ITDRDSVDTAVAAAEQALGPVDVLVNNAGWD-KFGPF-----TKTEPPLWERLIAINLTG 114
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
++ + E G I+N AS AA G SG+ Y+A K G+V + MAR
Sbjct: 115 ALHMHHAVLPGMVERG------AGRIVNIASDAARVGSSGEAVYAACKGGLVAFSKTMAR 168
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSMLN------EKVRNFLARSIPAPQRLGHPDEFAQLVQ 232
+ A GI VN + PG DT LL + EK+R R+IP RLG PD+ +
Sbjct: 169 EHARHGITVNVVCPGPTDTALLDDICGGAENPEKLREAFTRAIPL-GRLGQPDDLPGAIL 227
Query: 233 SIITN--PLINGEVIRIDGALRM 253
++ I G+V+ + G L M
Sbjct: 228 FFSSDDASFITGQVLSVSGGLTM 250
>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 = 112 bits (281), Expect = 4e-30
Identities = 80/256 (31%), Positives = 118/256 (46%), Gaps = 20/256 (7%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEE 63
G V +VTGG G+GK + G +VV D+ G A+ GP++ F DV E
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEAEGPNLFFVHGDVADET 60
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
V+ V + G++DV VN A + + L+++ RIL VN G + ++
Sbjct: 61 LVKFVVYAMLEKLGRIDVLVNNAARGSKGILSSL------LLEEWDRILSVNLTGPYELS 114
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGA 183
R + +NK G IIN AS A++ + AY+ASK G+V +T +A L G
Sbjct: 115 RYCRDELIKNK-------GRIINIASTRAFQSEPDSEAYAASKGGLVALTHALAMSL-GP 166
Query: 184 GIRVNTIAPGLFDTPLLSMLN-EKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP--LI 240
IRVN I+PG +T + PA R+G P + A LV + I
Sbjct: 167 DIRVNCISPGWINTTEQQEFTAAPLTQEDHAQHPA-GRVGTPKDIANLVLFLCQQDAGFI 225
Query: 241 NGEVIRIDGAL--RMI 254
GE +DG + +MI
Sbjct: 226 TGETFIVDGGMTKKMI 241
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 110 bits (276), Expect = 3e-29
Identities = 70/246 (28%), Positives = 114/246 (46%), Gaps = 28/246 (11%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+TG ASG+G A + +G +V D +L + F +D++ +D++
Sbjct: 9 LITGAASGIGLAQARAFLAQGAQVYGVDKQDKP------DLSGNFHFLQLDLS--DDLEP 60
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
D +D+ N AGI + +Y SL++++ I N TF + R
Sbjct: 61 LF----DWVPSVDILCNTAGI-----LDDYKPLLDTSLEEWQHIFDTNLTSTFLLTRAYL 111
Query: 128 QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRV 187
+ E K G+IIN SIA++ G AY+ASK + G T +A D A GI+V
Sbjct: 112 PQMLERK------SGIIINMCSIASFVAGGGGAAYTASKHALAGFTKQLALDYAKDGIQV 165
Query: 188 NTIAPGLFDTPLLS--MLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPL--INGE 243
IAPG TP+ + + +++AR P +R P+E A+L + + + G
Sbjct: 166 FGIAPGAVKTPMTAADFEPGGLADWVARETPI-KRWAEPEEVAELTLFLASGKADYMQGT 224
Query: 244 VIRIDG 249
++ IDG
Sbjct: 225 IVPIDG 230
>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 = 110 bits (276), Expect = 5e-29
Identities = 73/271 (26%), Positives = 118/271 (43%), Gaps = 30/271 (11%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
LK V ++TGG LG A + + G +V +G+ VAKE+ G D
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITALGGRAIALAAD 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAG-------ISCAFKIFNYNKGTVHSLDD--FK 109
V +++A FG +D+ +N AG + LD+ ++
Sbjct: 63 VLDRASLERAREEIVAQFGTVDILINGAGGNHPDATTDPEHYEPE-TEQNFFDLDEEGWE 121
Query: 110 RILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGI 169
+ +N G+F L +Q+ ++ L + G G IIN +S+ A+ + AYSA+K+ +
Sbjct: 122 FVFDLNLNGSF----LPSQVFGKDMLEQKG--GSIINISSMNAFSPLTKVPAYSAAKAAV 175
Query: 170 VGMTLPMARDLAGAGIRVNTIAPGLFDTPL-LSMLNEKVRNFLARS------IPAPQRLG 222
T +A + A G+RVN IAPG F TP +L ++ RS P R G
Sbjct: 176 SNFTQWLAVEFATTGVRVNAIAPGFFVTPQNRKLLINPDGSYTDRSNKILGRTPM-GRFG 234
Query: 223 HPDEFAQLVQSIITNP---LINGEVIRIDGA 250
P+E + + + + G VI +DG
Sbjct: 235 KPEELLGALLFLASEKASSFVTGVVIPVDGG 265
>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 = 108 bits (272), Expect = 1e-28
Identities = 59/197 (29%), Positives = 94/197 (47%), Gaps = 11/197 (5%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G L+TG A G+G+A + VREG RV + D+ + A E+GP +DVT
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAACAISLDVTD 60
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ + + V D +G +D+ VN A +F+ + + + R+ +N GT
Sbjct: 61 QASIDRCVAALVDRWGSIDILVNNAA------LFDLAPIVDITRESYDRLFAINVSGTLF 114
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+ + A+ + G G IIN AS A G++ Y A+K+ ++ +T +L
Sbjct: 115 MMQAVAR-----AMIAQGRGGKIINMASQAGRRGEALVGVYCATKAAVISLTQSAGLNLI 169
Query: 182 GAGIRVNTIAPGLFDTP 198
GI VN IAPG+ D
Sbjct: 170 RHGINVNAIAPGVVDGE 186
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 107 bits (270), Expect = 2e-28
Identities = 76/261 (29%), Positives = 122/261 (46%), Gaps = 32/261 (12%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKEL----GPDVKFA-PVDVTS 61
+TG A GLG+A R+ +G +V L D+ + G ++ A E+ G V FA DVT
Sbjct: 3 FITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEINAAHGEGVAFAAVQDVTD 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHS--LDDFKRILLVNTVGT 119
E Q + D+ G L V VN AG+ G + LD+++R++ +N
Sbjct: 63 EAQWQALLAQAADAMGGLSVLVNNAGVGSF--------GAIEQIELDEWRRVMAINVESI 114
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
F L + H I+N +S+AA++ + AY+ASK+ + +T +A D
Sbjct: 115 F----LGCK--HALPYLRASQPASIVNISSVAAFKAEPDYTAYNASKAAVASLTKSIALD 168
Query: 180 LA--GAGIRVNTIAPGLFDTPLL-----SMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQ 232
A G +R N+I P T ++ + E+ LAR +P RLG PD+ A V
Sbjct: 169 CARRGLDVRCNSIHPTFIRTGIVDPIFQRLGEEEATRKLARGVPL-GRLGEPDDVAHAVL 227
Query: 233 SIITNP--LINGEVIRIDGAL 251
+ ++ + G + IDG +
Sbjct: 228 YLASDESRFVTGAELVIDGGI 248
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 107 bits (268), Expect = 4e-28
Identities = 70/252 (27%), Positives = 116/252 (46%), Gaps = 26/252 (10%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEE 63
G LVTG +SG+G+A + + G RVV + + +A E G + +DV +
Sbjct: 9 GKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGETGCEP--LRLDVGDDA 66
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD-DFKRILLVNTVGTFNV 122
++ A+ + G D VNCAGI + + F R++ VN G V
Sbjct: 67 AIRAAL----AAAGAFDGLVNCAGI-------ASLESALDMTAEGFDRVMAVNARGAALV 115
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
AR A+ + G G I+N +S AA G +AY ASK+ + +T + +L
Sbjct: 116 ARHVAR-----AMIAAGRGGSIVNVSSQAALVGLPDHLAYCASKAALDAITRVLCVELGP 170
Query: 183 AGIRVNTIAPGLFDTPLLSML---NEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN-- 237
GIRVN++ P + TP+ + +K LA IP R D+ A + ++++
Sbjct: 171 HGIRVNSVNPTVTLTPMAAEAWSDPQKSGPMLAA-IPL-GRFAEVDDVAAPILFLLSDAA 228
Query: 238 PLINGEVIRIDG 249
+++G + +DG
Sbjct: 229 SMVSGVSLPVDG 240
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 107 bits (269), Expect = 5e-28
Identities = 64/203 (31%), Positives = 93/203 (45%), Gaps = 19/203 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGR-VVLCDLPTSEGESVAKEL---GPDVKFAPV 57
L G V LVTGG GLG A G +V+C +GE+ A EL G F
Sbjct: 4 LDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEALGAKAVFVQA 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV--HSLDDFKRILLVN 115
D++ ED ++ V ++FG+LD VN AG++ ++GT+ S + F R VN
Sbjct: 64 DLSDVEDCRRVVAAADEAFGRLDALVNAAGLT--------DRGTILDTSPELFDRHFAVN 115
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
F + + + +L + G I+N S++A+ GQ AY ASK + +T
Sbjct: 116 VRAPFFLMQEAIKL-----MRRRKAEGTIVNIGSMSAHGGQPFLAAYCASKGALATLTRN 170
Query: 176 MARDLAGAGIRVNTIAPGLFDTP 198
A L IRVN + G T
Sbjct: 171 AAYALLRNRIRVNGLNIGWMATE 193
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 106 bits (266), Expect = 8e-28
Identities = 55/236 (23%), Positives = 98/236 (41%), Gaps = 25/236 (10%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDL-PTSEGESV--AKELGPDVKFAPVDVTSEED 64
L+TGG SG+G+ + G +VV+ D+ E+ ++ G V + DV+ E+
Sbjct: 3 LITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAGGKVHYYKCDVSKREE 62
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVAR 124
V +A K G + + +N AG+ K+ ++ ++ VNT+ F +
Sbjct: 63 VYEAAKKIKKEVGDVTILINNAGVVSGKKLLE------LPDEEIEKTFEVNTLAHFWTTK 116
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGA- 183
+ E G I+ AS+A +G Y ASK+ VG + +L
Sbjct: 117 AFLPDMLERN------HGHIVTIASVAGLISPAGLADYCASKAAAVGFHESLRLELKAYG 170
Query: 184 --GIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN 237
GI+ + P +T + K L I P+ + ++V++I+TN
Sbjct: 171 KPGIKTTLVCPYFINTGMFQ--GVKTPRPLLAPILEPEYVA-----EKIVRAILTN 219
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 106 bits (265), Expect = 1e-27
Identities = 62/202 (30%), Positives = 98/202 (48%), Gaps = 14/202 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G +VTG ASG+GK + R G V + DL +VA E+ G +D
Sbjct: 5 LNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINKAGGKAIGVAMD 64
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT+E+ V + + FG +D+ V+ AGI I NY S D+K++ ++ G
Sbjct: 65 VTNEDAVNAGIDKVAERFGSVDILVSNAGIQIVNPIENY------SFADWKKMQAIHVDG 118
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F + A L H K D GV+I S+ ++E + AY +K G++G+ +A+
Sbjct: 119 AFLTTK--AALKHMYK---DDRGGVVIYMGSVHSHEASPLKSAYVTAKHGLLGLARVLAK 173
Query: 179 DLAGAGIRVNTIAPGLFDTPLL 200
+ A +R + + PG TPL+
Sbjct: 174 EGAKHNVRSHVVCPGFVRTPLV 195
>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 = 105 bits (264), Expect = 1e-27
Identities = 63/200 (31%), Positives = 99/200 (49%), Gaps = 23/200 (11%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEG---------ESVAKELGPDVKFAPVD 58
L+TGG+SG+GKA + +V+EG V++ + SE E+ A G V + D
Sbjct: 5 LITGGSSGIGKALAKELVKEGANVII--VARSESKLEEAVEEIEAEANASGQKVSYISAD 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
++ E+V++A + G D+ VNCAGIS +F + ++F+R + VN G
Sbjct: 63 LSDYEEVEQAFAQAVEKGGPPDLVVNCAGIS-IPGLF-----EDLTAEEFERGMDVNYFG 116
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+ NVA L+ E + G I+ +S AA G G AY SK + G+ + +
Sbjct: 117 SLNVAHAVLPLMKEQR------PGHIVFVSSQAALVGIYGYSAYCPSKFALRGLAESLRQ 170
Query: 179 DLAGAGIRVNTIAPGLFDTP 198
+L IRV+ + P DTP
Sbjct: 171 ELKPYNIRVSVVYPPDTDTP 190
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 105 bits (265), Expect = 2e-27
Identities = 69/204 (33%), Positives = 102/204 (50%), Gaps = 19/204 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKEL---GPDVKFAPV 57
L+G V ++TGG++GLG+A R +E +VV+ E VA+E+ G +
Sbjct: 5 LEGKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIKKAGGEAIAVKG 64
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVN 115
DVT E DV + FG LDV +N AGI N H SL+D+ +++ N
Sbjct: 65 DVTVESDVVNLIQTAVKEFGTLDVMINNAGIE--------NAVPSHEMSLEDWNKVINTN 116
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G F +R + + E+ ++G IIN +S+ V Y+ASK G+ MT
Sbjct: 117 LTGAFLGSREAIKYFVEH-----DIKGNIINMSSVHEQIPWPLFVHYAASKGGVKLMTET 171
Query: 176 MARDLAGAGIRVNTIAPGLFDTPL 199
+A + A GIRVN I PG +TP+
Sbjct: 172 LAMEYAPKGIRVNNIGPGAINTPI 195
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 105 bits (264), Expect = 2e-27
Identities = 64/200 (32%), Positives = 93/200 (46%), Gaps = 15/200 (7%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPV 57
V +VTG A G+G+A E + REG VV+ D+ E VAK++ G V
Sbjct: 3 RFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVADGGTAIAVQV 62
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
DV+ + + +FG +D VN A I K+ TV D +K+ + VN
Sbjct: 63 DVSDPDSAKAMADATVSAFGGIDYLVNNAAIYGGMKL--DLLITV-PWDYYKKFMSVNLD 119
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G R + + + G I+N +S AA+ + Y +K G+ G+T +A
Sbjct: 120 GALVCTRAVYKHMAKRG------GGAIVNQSSTAAWLYSN---FYGLAKVGLNGLTQQLA 170
Query: 178 RDLAGAGIRVNTIAPGLFDT 197
R+L G IRVN IAPG DT
Sbjct: 171 RELGGMNIRVNAIAPGPIDT 190
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 106 bits (266), Expect = 2e-27
Identities = 65/208 (31%), Positives = 97/208 (46%), Gaps = 18/208 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
LKG V ++TGG LG A + + R G +V + D + E+V E+ G + D
Sbjct: 8 LKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAAGGEALAVKAD 67
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAG-------ISCAFKIFNYNKGTVHSLD--DFK 109
V +E +++A + FG D+ +N AG F T LD F+
Sbjct: 68 VLDKESLEQARQQILEDFGPCDILINGAGGNHPKATTDNEFHELIEPTKTFFDLDEEGFE 127
Query: 110 RILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGI 169
+ +N +GT L Q+ ++ + G G IIN +S+ A+ + AYSA+K+ I
Sbjct: 128 FVFDLNLLGTL----LPTQVFAKDMVGRKG--GNIINISSMNAFTPLTKVPAYSAAKAAI 181
Query: 170 VGMTLPMARDLAGAGIRVNTIAPGLFDT 197
T +A A GIRVN IAPG F T
Sbjct: 182 SNFTQWLAVHFAKVGIRVNAIAPGFFLT 209
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 106 bits (266), Expect = 2e-27
Identities = 80/263 (30%), Positives = 115/263 (43%), Gaps = 37/263 (14%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
LKG V L+TGG SG+G+A +EG + + L E + K+ G P
Sbjct: 44 LKGKVALITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDANETKQRVEKEGVKCLLIPG 103
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVN 115
DV+ E + AV G+LD+ VN A F Y + ++ + + N
Sbjct: 104 DVSDEAFCKDAVEETVRELGRLDILVNNAA-------FQYPQQSLEDITAEQLDKTFKTN 156
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
F++ + A L H + IINT SI YEG + YSA+K I T
Sbjct: 157 IYSYFHMTK--AALPHLKQ------GSAIINTGSITGYEGNETLIDYSATKGAIHAFTRS 208
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLL--SMLNEKVRNFLARSIPAPQRLGHPDE------- 226
+A+ L GIRVN +APG TPL+ EKV F + + QR G P+E
Sbjct: 209 LAQSLVQKGIRVNAVAPGPIWTPLIPSDFDEEKVSQFGSNT--PMQRPGQPEELAPAYVF 266
Query: 227 FAQLVQSIITNPLINGEVIRIDG 249
A S IT G+++ ++G
Sbjct: 267 LASPDSSYIT-----GQMLHVNG 284
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 105 bits (263), Expect = 2e-27
Identities = 66/202 (32%), Positives = 95/202 (47%), Gaps = 19/202 (9%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD--VKFAPVD 58
LKG V L+TGG+ G+G A E ++ EG +V + E E A EL V D
Sbjct: 3 SLKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNNKGNVLGLAAD 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNT 116
V E DVQ+AV +FG LDV + AG+ F V + ++++ ++ N
Sbjct: 63 VRDEADVQRAVDAIVAAFGGLDVLIANAGVG----HF----APVEELTPEEWRLVIDTNL 114
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G F + + + G IIN +S+A +G AY+ASK G+VG +
Sbjct: 115 TGAFYTIKAAVPALKRGG-------GYIINISSLAGTNFFAGGAAYNASKFGLVGFSEAA 167
Query: 177 ARDLAGAGIRVNTIAPGLFDTP 198
DL GI+V+TI PG T
Sbjct: 168 MLDLRQYGIKVSTIMPGSVATH 189
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 104 bits (262), Expect = 3e-27
Identities = 67/236 (28%), Positives = 111/236 (47%), Gaps = 29/236 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP-DVK--FAPVD 58
L+G L+TG G+G+A + +EG V L ++VA+E+ VK A D
Sbjct: 5 LQGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAYGVKVVIATAD 64
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNT 116
V+ E+V A+ K+ G +D+ +N AGIS F G LD ++++I+ VN
Sbjct: 65 VSDYEEVTAAIEQLKNELGSIDILINNAGIS-KF-------GKFLELDPAEWEKIIQVNL 116
Query: 117 VGTFNVAR-LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
+G + R + +I G IIN +S A +G + AYSASK G++G+T
Sbjct: 117 MGVYYATRAVLPSMIERQ-------SGDIINISSTAGQKGAAVTSAYSASKFGVLGLTES 169
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
+ +++ IRV + P T + L N P ++ P++ A+ +
Sbjct: 170 LMQEVRKHNIRVTALTPSTVATDMAVDLGLTDGN--------PDKVMQPEDLAEFI 217
>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 = 105 bits (263), Expect = 3e-27
Identities = 81/263 (30%), Positives = 117/263 (44%), Gaps = 30/263 (11%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDL---PTSEGESVAKELGPDVKFAPVDVT 60
G LVTG ASG+G A + G VV+ D VA + G V + P DVT
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDAGGSVIYLPADVT 60
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
E+++ + FG LD+ VN AGI I + +D+ RI+ V F
Sbjct: 61 KEDEIADMIAAAAAEFGGLDILVNNAGIQHVAPIEEF------PPEDWDRIIAVMLTSAF 114
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+ R A L H + + G G IIN AS + AY A+K G++G+T +A ++
Sbjct: 115 HTIR--AALPH---MKKQG-WGRIINIASAHGLVASPFKSAYVAAKHGLIGLTKVLALEV 168
Query: 181 AGAGIRVNTIAPGLFDTPL-----------LSMLNEKV-RNFLARSIPAPQRLGHPDEFA 228
A GI VN I PG TPL + E+V R + + P +R DE A
Sbjct: 169 AEHGITVNAICPGYVRTPLVEKQIADQAKTRGIPEEQVIREVMLKGQPT-KRFVTVDEVA 227
Query: 229 QLVQSIITNPL--INGEVIRIDG 249
+ + ++ I G+ I +DG
Sbjct: 228 ETALYLASDAAAQITGQAIVLDG 250
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 105 bits (263), Expect = 4e-27
Identities = 74/211 (35%), Positives = 106/211 (50%), Gaps = 25/211 (11%)
Query: 1 MLKGVVGLVTGGA-SGLGKATVERIVREGGRVVLCDL-PTSEGESV---AKELGPDVKFA 55
+L G V LVT A +G+G AT R + EG RVV+ D+ GE+ A ELG A
Sbjct: 14 LLAGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAELGLGRVEA 73
Query: 56 -PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD----DFKR 110
DVTSE V + + G+LDV VN AG+ G +D ++ R
Sbjct: 74 VVCDVTSEAQVDALIDAAVERLGRLDVLVNNAGLG----------GQTPVVDMTDDEWSR 123
Query: 111 ILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIV 170
+L V GTF R A L + + G GVI+N AS+ + Q GQ Y+A+K+G++
Sbjct: 124 VLDVTLTGTFRATR--AALRY---MRARGHGGVIVNNASVLGWRAQHGQAHYAAAKAGVM 178
Query: 171 GMTLPMARDLAGAGIRVNTIAPGLFDTPLLS 201
+T A + A G+R+N +AP + P L+
Sbjct: 179 ALTRCSALEAAEYGVRINAVAPSIAMHPFLA 209
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 104 bits (262), Expect = 4e-27
Identities = 68/236 (28%), Positives = 99/236 (41%), Gaps = 24/236 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA--KELGPDVKFAPVDV 59
LK V +VTGGASG+G A R+ EG V+ + E + L P +F VD+
Sbjct: 5 LKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPDDEFAEELRALQPRAEFVQVDL 64
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
T + + AV FG++D VN AG+ N G + F L N +
Sbjct: 65 TDDAQCRDAVEQTVAKFGRIDGLVNNAGV-------NDGVGLEAGREAFVASLERNLIHY 117
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
+ +A + + RG I+N +S A GQ G Y+A+K + +T A
Sbjct: 118 YVMAHYCLPHLKAS-------RGAIVNISSKTALTGQGGTSGYAAAKGAQLALTREWAVA 170
Query: 180 LAGAGIRVNTIAPGLFDTPL-------LSMLNEKVRNFLARSIPAPQRLGHPDEFA 228
LA G+RVN + P TPL K+ + IP R+ +E A
Sbjct: 171 LAKDGVRVNAVIPAEVMTPLYENWIATFDDPEAKLAA-ITAKIPLGHRMTTAEEIA 225
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 105 bits (263), Expect = 4e-27
Identities = 57/199 (28%), Positives = 89/199 (44%), Gaps = 15/199 (7%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTSEED 64
++TG ASGLG+A R REG R+ L D+ GE K L G D + DV
Sbjct: 4 MITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLREAGGDGFYQRCDVRDYSQ 63
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVAR 124
+ C++ +G +DV VN AG++ SL+D+ + +N +G +
Sbjct: 64 LTALAQACEEKWGGIDVIVNNAGVASGGFF------EELSLEDWDWQIAINLMGVVKGCK 117
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
L K G I+N AS+A +Y+ +K+G+V ++ + +LA
Sbjct: 118 AFLPLFKRQK------SGRIVNIASMAGLMQGPAMSSYNVAKAGVVALSETLLVELADDE 171
Query: 185 IRVNTIAPGLFDTPLLSML 203
I V+ + P F T LL
Sbjct: 172 IGVHVVCPSFFQTNLLDSF 190
>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 = 104 bits (261), Expect = 4e-27
Identities = 71/259 (27%), Positives = 118/259 (45%), Gaps = 23/259 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L+G LVTGG G+G A VE + G V C E + E G V+ + D
Sbjct: 4 LEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWREKGFKVEGSVCD 63
Query: 59 VTSEEDVQKAVLLCKDSF-GKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
V+S + Q+ + F GKL++ VN AG + + ++ +D+ I+ N
Sbjct: 64 VSSRSERQELMDTVASHFGGKLNILVNNAGTNI------RKEAKDYTEEDYSLIMSTNFE 117
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
++++RL+ L+ + G I+ +S+A Y A+K + +T +A
Sbjct: 118 AAYHLSRLAHPLLKASG------NGNIVFISSVAGVIAVPSGAPYGATKGALNQLTRSLA 171
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSML---NEKVRNFLARSIPAPQRLGHPDEFAQLVQSI 234
+ A IRVN +AP + TPL+ + E + + R+ +R G P+E A LV +
Sbjct: 172 CEWAKDNIRVNAVAPWVIATPLVEPVIQQKENLDKVIERT--PLKRFGEPEEVAALVAFL 229
Query: 235 I--TNPLINGEVIRIDGAL 251
I G++I +DG L
Sbjct: 230 CMPAASYITGQIIAVDGGL 248
>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 = 103 bits (258), Expect = 2e-26
Identities = 66/206 (32%), Positives = 96/206 (46%), Gaps = 16/206 (7%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPVD 58
V +V GG LG+ + G V + D+ + E VA E+ G D
Sbjct: 1 MNQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSENAEKVADEINAEYGEKAYGFGAD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
T+E+ V + F ++D+ V AGI+ + KI ++ L DF R L VN VG
Sbjct: 61 ATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKITDF------ELGDFDRSLQVNLVG 114
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F AR ++L + DG++G II S + G YSA+K G VG+T +A
Sbjct: 115 YFLCAREFSKL-----MIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLAL 169
Query: 179 DLAGAGIRVNTIAPG-LFDTPLLSML 203
DLA GI VN++ G L +P+ L
Sbjct: 170 DLAEHGITVNSLMLGNLLKSPMFQSL 195
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 102 bits (256), Expect = 3e-26
Identities = 80/265 (30%), Positives = 117/265 (44%), Gaps = 32/265 (12%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFA---PVDVTSE 62
V LVTG G+G A +R+V +G +V + D ++ A +L D A DV+
Sbjct: 4 VALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSKDGGKAIAVKADVSDR 63
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+ V AV D+FG L+V VN AG++ I + + F ++ +N G
Sbjct: 64 DQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPIETITE------EQFDKVYNINVGGVI-- 115
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
Q E + G G IIN S A G YS++K + G+T ARDLA
Sbjct: 116 --WGIQAAQE-AFKKLGHGGKIINATSQAGVVGNPELAVYSSTKFAVRGLTQTAARDLAS 172
Query: 183 AGIRVNTIAPGLFDTPLLSMLNEKV------------RNFLARSIPAPQRLGHPDEFAQL 230
GI VN APG+ TP++ + +V F A+ I RL P++ A
Sbjct: 173 EGITVNAYAPGIVKTPMMFDIAHQVGENAGKPDEWGMEQF-AKDI-TLGRLSEPEDVANC 230
Query: 231 VQSIITNP---LINGEVIRIDGALR 252
V S + P I G+ I +DG +
Sbjct: 231 V-SFLAGPDSDYITGQTIIVDGGMV 254
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 101 bits (254), Expect = 5e-26
Identities = 73/260 (28%), Positives = 109/260 (41%), Gaps = 24/260 (9%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPV 57
L G V LVTG A GLG + G V++ + E+ L G +
Sbjct: 8 SLAGQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAGGAAEALAF 67
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVN 115
D+ EE V A G+LD+ VN G ++ + LDD + +L +
Sbjct: 68 DIADEEAVAAAFARIDAEHGRLDILVNNVGAR--------DRRPLAELDDAAIRALLETD 119
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
V ++RL+AQ + G II SIA ++G Y A+K G+ G+
Sbjct: 120 LVAPILLSRLAAQRMKRQG------YGRIIAITSIAGQVARAGDAVYPAAKQGLTGLMRA 173
Query: 176 MARDLAGAGIRVNTIAPGLFDT-PLLSML-NEKVRNFLARSIPAPQRLGHPDEFAQLVQS 233
+A + GI N IAPG F T +M + V +LA+ P R G P+E A
Sbjct: 174 LAAEFGPHGITSNAIAPGYFATETNAAMAADPAVGPWLAQRTPL-GRWGRPEEIAGAAVF 232
Query: 234 IITN--PLINGEVIRIDGAL 251
+ + +NG V+ +DG
Sbjct: 233 LASPAASYVNGHVLAVDGGY 252
>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 = 101 bits (253), Expect = 7e-26
Identities = 64/239 (26%), Positives = 102/239 (42%), Gaps = 30/239 (12%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD---VKFAPVDVTSEED 64
LVTG A G+G A + G RV D + + +L +DV
Sbjct: 2 LVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRRYGYPFATYKLDVADSAA 61
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGTFNV 122
V + V + +G +DV VN AGI G + SL +D++ VNT G FNV
Sbjct: 62 VDEVVQRLEREYGPIDVLVNVAGI--------LRLGAIDSLSDEDWQATFAVNTFGVFNV 113
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
++ + + + G I+ S AA + G AY+ASK+ + +T + +LA
Sbjct: 114 SQAVSPRMKRRR------SGAIVTVGSNAANVPRMGMAAYAASKAALTMLTKCLGLELAP 167
Query: 183 AGIRVNTIAPGLFDTPLL-SMLNEK------VRNFLAR---SIPAPQRLGHPDEFAQLV 231
GIR N ++PG DT + + N++ + + IP ++ P + A V
Sbjct: 168 YGIRCNVVSPGSTDTEMQRQLWNDEYGEQQVIAGSPEQFRLGIPL-GKIAEPSDIANAV 225
>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 = 101 bits (253), Expect = 7e-26
Identities = 68/264 (25%), Positives = 115/264 (43%), Gaps = 32/264 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL------GPDVKFA 55
L G V ++TG +SG+G T R G R+ L E + +
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILLV 60
Query: 56 PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILL 113
D+T EE + + FG+LD+ VN AGI KG D ++ +++
Sbjct: 61 VADLTEEEGQDRIISTTLAKFGRLDILVNNAGILA--------KGGGEDQDIEEYDKVMN 112
Query: 114 VNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMT 173
+N + +L+ + + K G I+N +S+A G + Y SK+ + T
Sbjct: 113 LNLRAVIYLTKLAVPHLIKTK-------GEIVNVSSVAGGRSFPGVLYYCISKAALDQFT 165
Query: 174 LPMARDLAGAGIRVNTIAPGLFDTPL---LSMLNEKVRNFLAR---SIPAPQRLGHPDEF 227
A +LA G+RVN+++PG+ T + M E+ FL+R + P R G DE
Sbjct: 166 RCTALELAPKGVRVNSVSPGVIVTGFHRRMGMPEEQYIKFLSRAKETHPL-GRPGTVDEV 224
Query: 228 AQLVQSII--TNPLINGEVIRIDG 249
A+ + + + I G+++ +DG
Sbjct: 225 AEAIAFLASDASSFITGQLLPVDG 248
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 105 bits (264), Expect = 8e-26
Identities = 62/197 (31%), Positives = 92/197 (46%), Gaps = 14/197 (7%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE---LGPDVKFAPVDVT 60
G + +VTG SG+G+ T REG VV D+ + E A+ G VDV+
Sbjct: 315 GKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAAGAVAHAYRVDVS 374
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
+ ++ + G D+ VN AGI A + S +D+ R+L VN G
Sbjct: 375 DADAMEAFAEWVRAEHGVPDIVVNNAGIGMAGGFLD------TSAEDWDRVLDVNLWGVI 428
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+ RL + ++ E G G I+N AS AAY AY+ SK+ ++ ++ + +L
Sbjct: 429 HGCRLFGR-----QMVERGTGGHIVNVASAAAYAPSRSLPAYATSKAAVLMLSECLRAEL 483
Query: 181 AGAGIRVNTIAPGLFDT 197
A AGI V I PG DT
Sbjct: 484 AAAGIGVTAICPGFVDT 500
>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 = 100 bits (251), Expect = 8e-26
Identities = 62/240 (25%), Positives = 99/240 (41%), Gaps = 20/240 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDV 65
V LVTG + G+G + R+G RV L L E + G DV+ P D ED
Sbjct: 2 VALVTGASRGIGIEIARALARDGYRVSLG-LRNPEDLAALSASGGDVEAVPYDARDPEDA 60
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARL 125
+ V +D FG++DV V+ AGI + + + +N + L
Sbjct: 61 RALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDAELE------AHFSINVIAPA---EL 111
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
+ L+ L E G G ++ S++ +G YSASK + + + ++ G+
Sbjct: 112 TRALL--PALREAG-SGRVVFLNSLSGKRVLAGNAGYSASKFALRALAHALRQEGWDHGV 168
Query: 186 RVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLINGEVI 245
RV+ + PG DTP+ L P+ + P + A LV+ +I P V
Sbjct: 169 RVSAVCPGFVDTPMAQGLTL-------VGAFPPEEMIQPKDIANLVRMVIELPENITSVA 221
>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 = 100 bits (252), Expect = 9e-26
Identities = 69/197 (35%), Positives = 97/197 (49%), Gaps = 14/197 (7%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE--LGPDVKFAPVDVTS 61
G V LVTGGASG+G A +R+ EG VV+ D+ E VA+ GP DVTS
Sbjct: 1 GKVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEKVAEAAQGGPRALGVQCDVTS 60
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
E VQ A FG LD+ V+ AGI+ + I SL+D+ R + +N G F
Sbjct: 61 EAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAET------SLEDWNRSMDINLTGHFL 114
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
V+R + ++ + G+ G I+ AS A AYSA+K+ + +A +
Sbjct: 115 VSREAFRI-----MKSQGIGGNIVFNASKNAVAPGPNAAAYSAAKAAEAHLARCLALEGG 169
Query: 182 GAGIRVNTIAP-GLFDT 197
GIRVNT+ P +F
Sbjct: 170 EDGIRVNTVNPDAVFRG 186
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 100 bits (252), Expect = 1e-25
Identities = 79/261 (30%), Positives = 118/261 (45%), Gaps = 29/261 (11%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G LVTGG+ GLG E + G RVVL E E A L G D + D
Sbjct: 10 LSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALGIDALWIAAD 69
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V E D+++ + FG +D+ VN AG + + H ++ + +++ +N G
Sbjct: 70 VADEADIERLAEETLERFGHVDILVNNAGATWGAPAED------HPVEAWDKVMNLNVRG 123
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQS----GQVAYSASKSGIVGMTL 174
F L +Q + + + G G IIN AS+A G +AY+ SK ++ T
Sbjct: 124 LF----LLSQAVAKRSMIPRG-YGRIINVASVAGLGGNPPEVMDTIAYNTSKGAVINFT- 177
Query: 175 PMARDLAGA----GIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEF--A 228
R LA GIRVN IAPG F T + E++ L P RLG ++ A
Sbjct: 178 ---RALAAEWGPHGIRVNAIAPGFFPTKMTRGTLERLGEDLLAHTPL-GRLGDDEDLKGA 233
Query: 229 QLVQSIITNPLINGEVIRIDG 249
L+ + + I G+++ +DG
Sbjct: 234 ALLLASDASKHITGQILAVDG 254
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 100 bits (252), Expect = 2e-25
Identities = 61/200 (30%), Positives = 89/200 (44%), Gaps = 13/200 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L+G V +TGGA G+G AT + G RV + DL + + A ELG V P+DVT
Sbjct: 3 LRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAELGLVV-GGPLDVTD 61
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ + G +DV VN AG+ + RIL VN G
Sbjct: 62 PASFAAFLDAVEADLGPIDVLVNNAGVMPVGPFLDEPDAVTR------RILDVNVYGVIL 115
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
++L+A + RG ++N AS+A G Y ASK +VG T +L
Sbjct: 116 GSKLAAPRMVPRG------RGHVVNVASLAGKIPVPGMATYCASKHAVVGFTDAARLELR 169
Query: 182 GAGIRVNTIAPGLFDTPLLS 201
G G+ V+ + P +T L++
Sbjct: 170 GTGVHVSVVLPSFVNTELIA 189
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 100 bits (250), Expect = 2e-25
Identities = 70/237 (29%), Positives = 111/237 (46%), Gaps = 22/237 (9%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPV 57
L G V ++TG +SG+G+A + REG +VV+ +E + + E+ G +
Sbjct: 3 RLNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRAEGGEAVALAG 62
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVN 115
DV E + V L + FG LD+ N AG G V SL+ ++ L N
Sbjct: 63 DVRDEAYAKALVALAVERFGGLDIAFNNAGTLGEM-------GPVAEMSLEGWRETLATN 115
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYE-GQSGQVAYSASKSGIVGMTL 174
F A+ Q+ + G G +I T++ + G G AY+ASK+G++G+T
Sbjct: 116 LTSAFLGAK--HQIPA---MLARG-GGSLIFTSTFVGHTAGFPGMAAYAASKAGLIGLTQ 169
Query: 175 PMARDLAGAGIRVNTIAPGLFDTPLLSMLN--EKVRNFLARSIPAPQRLGHPDEFAQ 229
+A + GIRVN + PG DTP+ + + F + A +R+ P+E AQ
Sbjct: 170 VLAAEYGAQGIRVNALLPGGTDTPMGRAMGDTPEALAF-VAGLHALKRMAQPEEIAQ 225
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 100 bits (250), Expect = 2e-25
Identities = 76/257 (29%), Positives = 126/257 (49%), Gaps = 23/257 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLC--DLPTSEGESVAKELGPDVKFAPVDV 59
L G V +VTGG +GLG+ + + G +++ E + ++ G V F VD+
Sbjct: 13 LDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTNWDETRRLIEKEGRKVTFVQVDL 72
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
T E +K V + FGK+D+ VN AG + Y +D+ ++ +N
Sbjct: 73 TKPESAEKVVKEALEEFGKIDILVNNAGTIRRAPLLEYKD------EDWNAVMDINLNSV 126
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
+++++ A+++ + G IIN AS+ +++G AY+ASK G+ G+T A +
Sbjct: 127 YHLSQAVAKVMAKQG------SGKIINIASMLSFQGGKFVPAYTASKHGVAGLTKAFANE 180
Query: 180 LAGAGIRVNTIAPGLFDTPLLSML-NEKVRN--FLARSIPAPQRLGHPDEFAQLV---QS 233
LA I+VN IAPG T + + +K RN L R IPA R G PD+ S
Sbjct: 181 LAAYNIQVNAIAPGYIKTANTAPIRADKNRNDEILKR-IPA-GRWGEPDDLMGAAVFLAS 238
Query: 234 IITNPLINGEVIRIDGA 250
++ +NG ++ +DG
Sbjct: 239 RASD-YVNGHILAVDGG 254
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 99.7 bits (249), Expect = 3e-25
Identities = 62/213 (29%), Positives = 101/213 (47%), Gaps = 34/213 (15%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVK-----FA 55
MLKG L+TG +G A V+ I+ GG V+ D+ + + LG + K
Sbjct: 1 MLKGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLV 60
Query: 56 PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNK--GTVH---SLDDFKR 110
+D+T +E +++ + + +GK+D VNCA + NK G SLDDF
Sbjct: 61 ELDITDQESLEEFLSKSAEKYGKIDGAVNCA--------YPRNKDYGKKFFDVSLDDFNE 112
Query: 111 ILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASI---AA-----YEGQSGQ--V 160
L ++ +F ++ A+ + G ++N +SI A YEG S V
Sbjct: 113 NLSLHLGSSFLFSQQFAKYFKKQG------GGNLVNISSIYGVVAPKFEIYEGTSMTSPV 166
Query: 161 AYSASKSGIVGMTLPMARDLAGAGIRVNTIAPG 193
Y+A K+GI+ +T +A+ + IRVN ++PG
Sbjct: 167 EYAAIKAGIIHLTKYLAKYFKDSNIRVNCVSPG 199
>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 = 99.1 bits (247), Expect = 5e-25
Identities = 69/235 (29%), Positives = 102/235 (43%), Gaps = 26/235 (11%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSE 62
G V L+T A G+G+A REG V+ D+ +E + E GP + +DVT +
Sbjct: 1 DGKVALITAAAQGIGRAIALAFAREGANVIATDI--NEEKLKELERGPGITTRVLDVTDK 58
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
E V G++DV NCAG I + DD+ + +N + +
Sbjct: 59 EQVAALA----KEEGRIDVLFNCAGFVHHGSILDCED------DDWDFAMNLNVRSMYLM 108
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAA-YEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+ + K G IIN +S+A+ +G + YS +K+ ++G+T +A D A
Sbjct: 109 IKAVLPKMLARK------DGSIINMSSVASSIKGVPNRFVYSTTKAAVIGLTKSVAADFA 162
Query: 182 GAGIRVNTIAPGLFDTPLL------SMLNEKVRNFLARSIPAPQRLGHPDEFAQL 230
GIR N I PG DTP L E+ A P RL P+E A L
Sbjct: 163 QQGIRCNAICPGTVDTPSLEERIQAQPDPEEALKAFAARQPL-GRLATPEEVAAL 216
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 98.7 bits (246), Expect = 8e-25
Identities = 65/263 (24%), Positives = 111/263 (42%), Gaps = 30/263 (11%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLC-----DLPTSEGESVAKELGPDVKFAP 56
L G L+TG + G+G A + G V++ L + E + +V
Sbjct: 7 LDGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGLA 66
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
DV+ +ED + + +D + L + VN AG + +Y + D+++ I N
Sbjct: 67 ADVSDDEDRRAILDWVEDHWDGLHILVNNAGGNIRKAAIDY------TEDEWRGIFETNL 120
Query: 117 VGTFNVARLSAQL--IHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTL 174
F ++R + L H + I+N S++ Y +K+ ++ MT
Sbjct: 121 FSAFELSRYAHPLLKQHAS--------SAIVNIGSVSGLTHVRSGAPYGMTKAALLQMTR 172
Query: 175 PMARDLAGAGIRVNTIAPGLFDTPLLS-MLN--EKVRNFLARSIPAP-QRLGHPDEFAQL 230
+A + A GIRVN +AP TPL S L+ + + R+ P +R+G P+E A
Sbjct: 173 NLAVEWAEDGIRVNAVAPWYIRTPLTSGPLSDPDYYEQVIERT---PMRRVGEPEEVAAA 229
Query: 231 VQ--SIITNPLINGEVIRIDGAL 251
V + I G+ I +DG
Sbjct: 230 VAFLCMPAASYITGQCIAVDGGF 252
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 98.9 bits (247), Expect = 8e-25
Identities = 53/202 (26%), Positives = 93/202 (46%), Gaps = 16/202 (7%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAP 56
+KG L+TG +SG+G +++ R G ++L + E++AKEL G +V+ P
Sbjct: 3 PMKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDKTGVEVEVIP 62
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
D++ E +++ K+ G +DV VN AG F F SLD+ + ++ +N
Sbjct: 63 ADLSDPEALERLEDELKERGGPIDVLVNNAGFG-TFGPFLE-----LSLDEEEEMIQLNI 116
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
+ + + + E G IIN S A YSA+K+ ++ + +
Sbjct: 117 LALTRLTKAVLPGMVERG------AGHIINIGSAAGLIPTPYMAVYSATKAFVLSFSEAL 170
Query: 177 ARDLAGAGIRVNTIAPGLFDTP 198
+L G G++V + PG T
Sbjct: 171 REELKGTGVKVTAVCPGPTRTE 192
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 96.1 bits (240), Expect = 8e-25
Identities = 43/186 (23%), Positives = 72/186 (38%), Gaps = 27/186 (14%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAK------ELGPDVKFAPV 57
G V L+TGG GLG A + EG R ++ A+ LG +V A
Sbjct: 1 GTV-LITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEALGAEVTVAAC 59
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVN 115
DV + + + + G LD V+ AG+ + G + L + F+R+L
Sbjct: 60 DVADRDALAALLAALPAALGPLDGVVHNAGVL--------DDGPLEELTPERFERVLAPK 111
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G +N+ L+ D G + +S+A G GQ Y+A+ + + +
Sbjct: 112 VTGAWNLHELTR----------DLDLGAFVLFSSVAGVLGSPGQANYAAANAALDALAEH 161
Query: 176 MARDLA 181
+
Sbjct: 162 RRAEGL 167
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 97.7 bits (243), Expect = 2e-24
Identities = 74/256 (28%), Positives = 125/256 (48%), Gaps = 17/256 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G LVTG + G+G+ + +G V L + E++A ELG VK P +++
Sbjct: 4 LSGRKALVTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAELGERVKIFPANLSD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD-DFKRILLVNTVGTF 120
++V+ + +D+ VN AGI+ + V D D+ +L VN TF
Sbjct: 64 RDEVKALGQKAEADLEGVDILVNNAGIT-------KDGLFVRMSDEDWDSVLEVNLTATF 116
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
RL+ +L H G IIN S+ G GQ Y ASK+G++G + +A+++
Sbjct: 117 ---RLTRELTHPMMRRRYGR---IINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQEI 170
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--P 238
A + VN +APG ++ + LN+K + + +IP +R+G E A V + ++
Sbjct: 171 ATRNVTVNCVAPGFIESAMTGKLNDKQKEAIMGAIPM-KRMGTGAEVASAVAYLASSEAA 229
Query: 239 LINGEVIRIDGALRMI 254
+ G+ I ++G + MI
Sbjct: 230 YVTGQTIHVNGGMAMI 245
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 97.7 bits (244), Expect = 2e-24
Identities = 71/237 (29%), Positives = 104/237 (43%), Gaps = 39/237 (16%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP-DVKFAPVDVTSEEDVQ 66
+TG ASG+G+AT EG RV D+ + ++A ELG + +DVT
Sbjct: 5 FITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAELGAGNAWTGALDVTDRAAWD 64
Query: 67 KAVL-LCKDSFGKLDVNVNCAGI--SCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
A+ + G+LDV N AGI F L+ R++ +N G N A
Sbjct: 65 AALADFAAATGGRLDVLFNNAGILRGGPF--------EDIPLEAHDRVIDINVKGVLNGA 116
Query: 124 RLSAQLIHENKLNEDGLR----GVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
A L + L+ +INT+S +A GQ G YSA+K + G+T A D
Sbjct: 117 H--AALPY--------LKATPGARVINTSSASAIYGQPGLAVYSATKFAVRGLT--EALD 164
Query: 180 L--AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLG---HPDEFAQLV 231
L GIRV + P DT +L + +V + +RLG P++ A+ V
Sbjct: 165 LEWRRHGIRVADVMPLFVDTAMLDGTSNEVD------AGSTKRLGVRLTPEDVAEAV 215
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 97.6 bits (243), Expect = 2e-24
Identities = 75/262 (28%), Positives = 117/262 (44%), Gaps = 28/262 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G L+TG G+G+ R G ++L D+ + E E +A EL G D
Sbjct: 4 LTGKTALITGALQGIGEGIARVFARHGANLILLDI-SPEIEKLADELCGRGHRCTAVVAD 62
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V V A+ K+ G++D+ VN AG+ C F S +D + +N G
Sbjct: 63 VRDPASVAAAIKRAKEKEGRIDILVNNAGV-CRLGSF-----LDMSDEDRDFHIDINIKG 116
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAA-YEGQSGQVAYSASKSGIVGMTLPMA 177
+NV + + K G I+ +S+ G+ AY+ +K+ IVG+T +A
Sbjct: 117 VWNVTKAVLPEMIARK------DGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLA 170
Query: 178 RDLAGAGIRVNTIAPGLFDTPLL-SMLN-------EKVRNFLARSIPAPQRLGHPDEFAQ 229
+ A +GIRVN I PG TP+ S+ E V +A++IP +RL P E +
Sbjct: 171 VEYAQSGIRVNAICPGYVRTPMAESIARQSNPEDPESVLTEMAKAIPL-RRLADPLEVGE 229
Query: 230 LVQSIITN--PLINGEVIRIDG 249
L + ++ + G IDG
Sbjct: 230 LAAFLASDESSYLTGTQNVIDG 251
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 97.2 bits (242), Expect = 2e-24
Identities = 59/198 (29%), Positives = 92/198 (46%), Gaps = 13/198 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTS-EGESVAKELGPDVKFAPVDVT 60
L+G V +TGG GLG+AT + G RV L + +++ ++ +D+
Sbjct: 5 LQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPADALRIGGIDLV 64
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
+ ++AV FG+LD VN AG F + D + R+ VN T
Sbjct: 65 DPQAARRAVDEVNRQFGRLDALVNIAGA------FVWGTIADGDADTWDRMYGVNVKTTL 118
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
N ++ A L L G G I+N + AA + G AY+A+K+G+ +T +A +L
Sbjct: 119 NASK--AALPA---LTASG-GGRIVNIGAGAALKAGPGMGAYAAAKAGVARLTEALAAEL 172
Query: 181 AGAGIRVNTIAPGLFDTP 198
GI VN + P + DTP
Sbjct: 173 LDRGITVNAVLPSIIDTP 190
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 100 bits (251), Expect = 4e-24
Identities = 66/196 (33%), Positives = 96/196 (48%), Gaps = 16/196 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFA-P 56
L V VTGGA G+G+ T R+ EG VVL DL E+VA E+ G A
Sbjct: 412 LARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQFGAGRAVALK 471
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
+DVT E+ V+ A ++G +D+ VN AGI+ + + T +L +++ L +
Sbjct: 472 MDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPF----EET--TLQEWQLNLDILA 525
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G F VAR + + + E GL G I+ AS A AYSA+K+ + +
Sbjct: 526 TGYFLVAREAFRQ-----MREQGLGGNIVFIASKNAVYAGKNASAYSAAKAAEAHLARCL 580
Query: 177 ARDLAGAGIRVNTIAP 192
A + GIRVNT+ P
Sbjct: 581 AAEGGTYGIRVNTVNP 596
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 96.5 bits (240), Expect = 5e-24
Identities = 68/196 (34%), Positives = 95/196 (48%), Gaps = 16/196 (8%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEE 63
G V LVTG A G+G ++ EG +VVL DL G VAK LG + F +DV E
Sbjct: 10 GRVALVTGAARGIGLGIAAWLIAEGWQVVLADLDRERGSKVAKALGENAWFIAMDVADEA 69
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTVGTFN 121
V V FG+LD V A I+ + + T+ SL + R+L VN G
Sbjct: 70 QVAAGVAEVLGQFGRLDALVCNAAIA------DPHNTTLESLSLAHWNRVLAVNLTGPML 123
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+A+ A + + G I+N AS A + + AY+ASK G++ +T +A L
Sbjct: 124 LAKHCAPYLRAH-------NGAIVNLASTRARQSEPDTEAYAASKGGLLALTHALAISL- 175
Query: 182 GAGIRVNTIAPGLFDT 197
G IRVN ++PG D
Sbjct: 176 GPEIRVNAVSPGWIDA 191
>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 = 96.1 bits (239), Expect = 8e-24
Identities = 77/249 (30%), Positives = 112/249 (44%), Gaps = 31/249 (12%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KEL---GPDVKFAPVDV 59
V LVTG SG+G A R+ +EG RV +C E +A KEL G + DV
Sbjct: 5 VALVTGATSGIGLAIARRLGKEGLRVFVC---ARGEEGLATTVKELREAGVEADGRTCDV 61
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
S +++ V +G +DV VN AG S G L D + +V T T
Sbjct: 62 RSVPEIEALVAAAVARYGPIDVLVNNAGRS--------GGGATAELADELWLDVVETNLT 113
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
V R++ +++ + E G G IIN AS +G YSASK G+VG T + +
Sbjct: 114 -GVFRVTKEVLKAGGMLERG-TGRIINIASTGGKQGVVHAAPYSASKHGVVGFTKALGLE 171
Query: 180 LAGAGIRVNTIAPGLFDTPL-----------LSMLNEKVRNFLARSIPAPQRLGHPDEFA 228
LA GI VN + PG +TP+ + E+ + + +P R P+E A
Sbjct: 172 LARTGITVNAVCPGFVETPMAASVREHYADIWEVSTEEAFDRITARVPL-GRYVTPEEVA 230
Query: 229 QLVQSIITN 237
+V +I +
Sbjct: 231 GMVAYLIGD 239
>gnl|CDD|187635 cd08930, SDR_c8, classical (c) SDR, subgroup 8. This subgroup has
a fairly well conserved active site tetrad and domain
size of the classical SDRs, but has an atypical
NAD-binding motif ([ST]G[GA]XGXXG). SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 95.9 bits (239), Expect = 9e-24
Identities = 56/206 (27%), Positives = 97/206 (47%), Gaps = 25/206 (12%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG--PDVKFAPV--D 58
+ + L+TG A +GKA + ++ G R++L D+ E + +EL + + D
Sbjct: 1 EDKIILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKNRVIALELD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYN-KGTVHSLDDFKRILLVNTV 117
+TS+E +++ + + FG++D+ +N A S + + + + +L VN
Sbjct: 61 ITSKESIKELIESYLEKFGRIDILINNAYPS----PKVWGSRFEEFPYEQWNEVLNVNLG 116
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAA--------YEGQSGQ--VAYSASKS 167
G F ++ +L + +G IIN ASI YE V YS K+
Sbjct: 117 GAFLCSQAFIKLFKKQG------KGSIINIASIYGVIAPDFRIYENTQMYSPVEYSVIKA 170
Query: 168 GIVGMTLPMARDLAGAGIRVNTIAPG 193
GI+ +T +A+ A GIRVN I+PG
Sbjct: 171 GIIHLTKYLAKYYADTGIRVNAISPG 196
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 95.5 bits (237), Expect = 1e-23
Identities = 73/230 (31%), Positives = 118/230 (51%), Gaps = 17/230 (7%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGE----SVAKELGPDVKFAPVDVTS 61
+ VTGG G+G + +R+ ++G +VV P S K LG D + +V
Sbjct: 5 IAYVTGGMGGIGTSICQRLHKDGFKVVAGCGPNSPRRVKWLEDQKALGFDFIASEGNVGD 64
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ + A K G++DV VN AGI+ + + K T +D+ ++ N FN
Sbjct: 65 WDSTKAAFDKVKAEVGEIDVLVNNAGIT---RDVVFRKMT---REDWTAVIDTNLTSLFN 118
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
V + Q+I + + E G G IIN +S+ +GQ GQ YS +K+GI G T+ +A+++A
Sbjct: 119 VTK---QVI--DGMVERGW-GRIINISSVNGQKGQFGQTNYSTAKAGIHGFTMSLAQEVA 172
Query: 182 GAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
G+ VNT++PG T ++ + V + +IP +RLG PDE +V
Sbjct: 173 TKGVTVNTVSPGYIGTDMVKAIRPDVLEKIVATIPV-RRLGSPDEIGSIV 221
>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 = 95.1 bits (237), Expect = 2e-23
Identities = 68/205 (33%), Positives = 98/205 (47%), Gaps = 29/205 (14%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDL---------PTSEGESVAKELGPDV 52
G V LVTG GLG+A G +VV+ DL +S + V E+
Sbjct: 3 FDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAAG 62
Query: 53 KFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGI----SCAFKIFNYNKGTVHSLDDF 108
A + S ED +K V D+FG++D+ VN AGI S A K+ S +D+
Sbjct: 63 GKAVANYDSVEDGEKIVKTAIDAFGRVDILVNNAGILRDRSFA-KM---------SEEDW 112
Query: 109 KRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSG 168
++ V+ G+F V R + + + K G IINT+S A G GQ YSA+K G
Sbjct: 113 DLVMRVHLKGSFKVTRAAWPYMRKQK------FGRIINTSSAAGLYGNFGQANYSAAKLG 166
Query: 169 IVGMTLPMARDLAGAGIRVNTIAPG 193
++G++ +A + A I NTIAP
Sbjct: 167 LLGLSNTLAIEGAKYNITCNTIAPA 191
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 95.1 bits (237), Expect = 2e-23
Identities = 80/266 (30%), Positives = 124/266 (46%), Gaps = 51/266 (19%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG-PDVKFAPV--DVTSEED 64
++TGG+SG+GKA +R EG VV+ + E E+ + V DV + ED
Sbjct: 5 IITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQFPGQVLTVQMDVRNPED 64
Query: 65 VQKAVLLCKDSFGKLDVNVNCAG---ISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
VQK V + FG++D +N A I A + S++ + ++ + GTF
Sbjct: 65 VQKMVEQIDEKFGRIDALINNAAGNFICPAEDL---------SVNGWNSVIDIVLNGTFY 115
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSAS-KSGIVGMTLPMARDL 180
++ E G++G IIN + A++ G V +SA+ K+G++ MT R L
Sbjct: 116 CSQAVG-----KYWIEKGIKGNIINMVATYAWDAGPG-VIHSAAAKAGVLAMT----RTL 165
Query: 181 A---GA--GIRVNTIAPG----------LFDTPLLSMLNEKVRNFLARSIPAPQRLGHPD 225
A G GIRVN IAPG L+ +E+ +S+P RLG P+
Sbjct: 166 AVEWGRKYGIRVNAIAPGPIERTGGADKLW-------ESEEAAKRTIQSVPL-GRLGTPE 217
Query: 226 EFAQLVQSIITN--PLINGEVIRIDG 249
E A L ++++ ING I +DG
Sbjct: 218 EIAGLAYFLLSDEAAYINGTCITMDG 243
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 96.0 bits (239), Expect = 2e-23
Identities = 62/196 (31%), Positives = 91/196 (46%), Gaps = 12/196 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDL-PTSEGESVAKE---LGPDVKFAPV 57
L G V +VTG A+GLG+A + R G VV+ D+ + V E G
Sbjct: 10 LSGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVASALDASDVLDEIRAAGAKAVAVAG 69
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D+ S+ ++ G LD+ VN AGI+ +FN S +++ ++ V+
Sbjct: 70 DI-SQRATADELVATAVGLGGLDIVVNNAGITRDRMLFNM------SDEEWDAVIAVHLR 122
Query: 118 GTFNVARLSAQLIHENKLNEDG-LRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G F + R +A G + G I+NT+S A G GQ Y A+K+GI +TL
Sbjct: 123 GHFLLTRNAAAYWRAKAKAAGGPVYGRIVNTSSEAGLVGPVGQANYGAAKAGITALTLSA 182
Query: 177 ARDLAGAGIRVNTIAP 192
AR L G+R N I P
Sbjct: 183 ARALGRYGVRANAICP 198
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 94.9 bits (236), Expect = 2e-23
Identities = 78/258 (30%), Positives = 127/258 (49%), Gaps = 25/258 (9%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD-VKFAPVDV 59
KG V L+TGG G+G+A E +REG +V + + E+ AKEL V DV
Sbjct: 4 RFKGKVALITGGTRGIGRAIAEAFLREGAKVAVL---YNSAENEAKELREKGVFTIKCDV 60
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
+ + V+K+ + + FG++DV VN AGI +++ + + +++ +N G
Sbjct: 61 GNRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDE------EKYNKMIKINLNGA 114
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAY-EGQSGQVAYSASKSGIVGMTLPMAR 178
L+ +K G I+N AS A G Y+ +K+GI+ +T +A
Sbjct: 115 IYTTYEFLPLLKLSK------NGAIVNIASNAGIGTAAEGTTFYAITKAGIIILTRRLAF 168
Query: 179 DLAGAGIRVNTIAPGLFDTPL-LSMLN----EKVRNFLARSIPAPQRLGHPDEFAQLVQS 233
+L GIRVN +APG +T + LS + EK+R L R+ + G P++ A +V
Sbjct: 169 ELGKYGIRVNAVAPGWVETDMTLSGKSQEEAEKLRE-LFRNKTVLKTTGKPEDIANIVLF 227
Query: 234 IITNP--LINGEVIRIDG 249
+ ++ I G+VI DG
Sbjct: 228 LASDDARYITGQVIVADG 245
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 94.3 bits (235), Expect = 4e-23
Identities = 54/196 (27%), Positives = 91/196 (46%), Gaps = 17/196 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTSE 62
V ++TG + G+G+A R+ R G ++VL + S+A+EL G + P DV+
Sbjct: 3 VVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADHGGEALVVPTDVSDA 62
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
E ++ + FG +D+ VN AGI+ + F+ + L F+R++ VN +G
Sbjct: 63 EACERLIEAAVARFGGIDILVNNAGIT-MWSRFD----ELTDLSVFERVMRVNYLGAVYC 117
Query: 123 ARLS-AQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
+ L RG I+ +S+A G + Y+ASK + G + +LA
Sbjct: 118 THAALPHLKAS--------RGQIVVVSSLAGLTGVPTRSGYAASKHALHGFFDSLRIELA 169
Query: 182 GAGIRVNTIAPGLFDT 197
G+ V + PG T
Sbjct: 170 DDGVAVTVVCPGFVAT 185
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 93.8 bits (233), Expect = 6e-23
Identities = 65/231 (28%), Positives = 104/231 (45%), Gaps = 18/231 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KELGPDVKFAPVD 58
L G ++TG +G+GK G VV+ D+ V ++LG D
Sbjct: 9 LDGKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGGQAFACRCD 68
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
+TSE+++ GK+D+ VN AG K F+ + DF+R +N
Sbjct: 69 ITSEQELSALADFALSKLGKVDILVNNAG-GGGPKPFDM------PMADFRRAYELNVFS 121
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F++++L A + +N GVI+ S+AA +Y++SK+ + MA
Sbjct: 122 FFHLSQLVAPEMEKNG------GGVILTITSMAAENKNINMTSYASSKAAASHLVRNMAF 175
Query: 179 DLAGAGIRVNTIAPGLFDT-PLLSMLNEKVRNFLARSIPAPQRLGHPDEFA 228
DL IRVN IAPG T L S++ ++ + + P +RLG P + A
Sbjct: 176 DLGEKNIRVNGIAPGAILTDALKSVITPEIEQKMLQHTPI-RRLGQPQDIA 225
>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 = 93.2 bits (232), Expect = 7e-23
Identities = 55/195 (28%), Positives = 83/195 (42%), Gaps = 15/195 (7%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG---PDVKFAPVDVTSEED 64
L+TG +SG+G+A + G V L T + + EL P V+ +DVT EE
Sbjct: 2 LITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNPSVEVEILDVTDEER 61
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVAR 124
Q + + G LD+ + AG+ S F+ + N +G +
Sbjct: 62 NQLVIAELEAELGGLDLVIINAGVGKG------TSLGDLSFKAFRETIDTNLLGAAAILE 115
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
+ RG ++ +S+AA G G AYSASK+ + + + D+ G
Sbjct: 116 AALPQFRAKG------RGHLVLISSVAALRGLPGAAAYSASKAALSSLAESLRYDVKKRG 169
Query: 185 IRVNTIAPGLFDTPL 199
IRV I PG DTPL
Sbjct: 170 IRVTVINPGFIDTPL 184
>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 = 92.9 bits (231), Expect = 1e-22
Identities = 76/256 (29%), Positives = 119/256 (46%), Gaps = 14/256 (5%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG--ESVA--KELGPDVKFAPVDVTS 61
V +VTG + G+G+A + G + + DLP + E VA G + D+
Sbjct: 3 VAIVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLAAGRRAIYFQADIGE 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGT 119
D + + + FG+LD VN AGI+ +G + L D F R++ +N G
Sbjct: 63 LSDHEALLDQAWEDFGRLDCLVNNAGIAVR------PRGDLLDLTEDSFDRLIAINLRGP 116
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
F + + A+ + E DG II SI AY + Y SK+G+ T +A
Sbjct: 117 FFLTQAVARRMVEQPDRFDGPHRSIIFVTSINAYLVSPNRGEYCISKAGLSMATRLLAYR 176
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN-- 237
LA GI V+ I PGL T + + + EK +A + +R G P++ A+ V+++ +
Sbjct: 177 LADEGIAVHEIRPGLIHTDMTAPVKEKYDELIAAGLVPIRRWGQPEDIAKAVRTLASGLL 236
Query: 238 PLINGEVIRIDGALRM 253
P G+ I IDG L M
Sbjct: 237 PYSTGQPINIDGGLSM 252
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 93.8 bits (234), Expect = 1e-22
Identities = 63/227 (27%), Positives = 98/227 (43%), Gaps = 30/227 (13%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG--ESVAKEL---GPDVKFA 55
+ V ++TG ++G+G+AT R G +VVL L E E++A E+ G +
Sbjct: 5 PIGRQVVVITGASAGVGRATARAFARRGAKVVL--LARGEEGLEALAAEIRAAGGEALAV 62
Query: 56 PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILL 113
DV E VQ A ++ G +D VN A ++ +F G + ++F+R+
Sbjct: 63 VADVADAEAVQAAADRAEEELGPIDTWVNNAMVT----VF----GPFEDVTPEEFRRVTE 114
Query: 114 VNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMT 173
V +G + A L H + RG II S AY Q AY A+K I G T
Sbjct: 115 VTYLGVVHGTL--AALRHMRPRD----RGAIIQVGSALAYRSIPLQSAYCAAKHAIRGFT 168
Query: 174 LPMARDL--AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAP 218
+ +L G+ + V + P +TP + R+ L P P
Sbjct: 169 DSLRCELLHDGSPVSVTMVQPPAVNTP----QFDWARSRLPVE-PQP 210
>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 = 91.9 bits (229), Expect = 2e-22
Identities = 58/196 (29%), Positives = 95/196 (48%), Gaps = 19/196 (9%)
Query: 6 VGLVTGGASGLGKATVERIVREG-GRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTS 61
V LVTG G+G V ++ + G G V+L G++ ++L G V+F +DVT
Sbjct: 2 VALVTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAVEKLRAEGLSVRFHQLDVTD 61
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ ++ A ++ +G LD+ VN AGI AFK F+ + T + + + N GT +
Sbjct: 62 DASIEAAADFVEEKYGGLDILVNNAGI--AFKGFDDSTPTR---EQARETMKTNFFGTVD 116
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
V + L+ ++ G I+N +S S AY SK+ + +T +A++L
Sbjct: 117 VTQALLPLLKKSP------AGRIVNVSSGLG----SLTSAYGVSKAALNALTRILAKELK 166
Query: 182 GAGIRVNTIAPGLFDT 197
GI+VN PG T
Sbjct: 167 ETGIKVNACCPGWVKT 182
>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 = 92.5 bits (230), Expect = 2e-22
Identities = 60/202 (29%), Positives = 91/202 (45%), Gaps = 17/202 (8%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPT-----SEGESVAKELGPDVKFAPV 57
KG V LVTG SG+G + G +VL + +A + G V +
Sbjct: 1 KGKVALVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLYHGA 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D++ ++ V + FG +D+ VN AGI I ++ + + I+ +N
Sbjct: 61 DLSKPAAIEDMVAYAQRQFGGVDILVNNAGIQHVAPIEDF------PTEKWDAIIALNLS 114
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
F+ RL+ L H K G IIN AS+ + + AY A+K G+VG+T +A
Sbjct: 115 AVFHTTRLA--LPHMKKQG----WGRIINIASVHGLVASANKSAYVAAKHGVVGLTKVVA 168
Query: 178 RDLAGAGIRVNTIAPGLFDTPL 199
+ AG G+ N I PG TPL
Sbjct: 169 LETAGTGVTCNAICPGWVLTPL 190
>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 = 91.8 bits (228), Expect = 2e-22
Identities = 58/190 (30%), Positives = 89/190 (46%), Gaps = 12/190 (6%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTG + G+G+AT + EG RV +C + + A + V DV E DV++
Sbjct: 4 LVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQELEGVLGLAGDVRDEADVRR 63
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
AV +++FG LD VN AG+ + + ++++ +L N G F +A
Sbjct: 64 AVDAMEEAFGGLDALVNNAGVGVMKPVEEL------TPEEWRLVLDTNLTGAFYCIHKAA 117
Query: 128 QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRV 187
+ G I+N S+A G AY+ASK G++G++ DL A IRV
Sbjct: 118 PALLRRG------GGTIVNVGSLAGKNAFKGGAAYNASKFGLLGLSEAAMLDLREANIRV 171
Query: 188 NTIAPGLFDT 197
+ PG DT
Sbjct: 172 VNVMPGSVDT 181
>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 = 92.6 bits (230), Expect = 2e-22
Identities = 70/231 (30%), Positives = 107/231 (46%), Gaps = 33/231 (14%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDL------------PTSE--GESVA-- 45
L+G V +TG A G G+A R+ EG ++ DL T E E+
Sbjct: 1 LEGKVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLV 60
Query: 46 KELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL 105
+ LG V DV +V+ V + FG+LDV V AG+ + G L
Sbjct: 61 EALGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVL--------SYGRSWEL 112
Query: 106 DD--FKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYS 163
+ + +L +N G + + A + H + E G G II T+S+A + G Y+
Sbjct: 113 SEEQWDTVLDINLTGVWRTCK--AVVPH---MIERGNGGSIIITSSVAGLKALPGLAHYA 167
Query: 164 ASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARS 214
A+K G+VG+T +A +LA GIRVN+I P DTP+++ E +R +
Sbjct: 168 AAKHGLVGLTKTLANELAEYGIRVNSIHPYSVDTPMIA--PEAMREAFLKY 216
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 92.0 bits (229), Expect = 2e-22
Identities = 64/230 (27%), Positives = 106/230 (46%), Gaps = 16/230 (6%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKE---LGPDVKFAPVDVTS 61
V +VT SG+GKA + ++G + + EG + A+E G + +D++
Sbjct: 4 VAIVTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEVRSHGVRAEIRQLDLSD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ +A+ G++DV VN AG + D++++I V+ G F
Sbjct: 64 LPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDM------DFDEWRKIFTVDVDGAFL 117
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
++++A+ + + G G IIN S+ + G AY+A+K + G+T MA +L
Sbjct: 118 CSQIAAR-----HMVKQGQGGRIINITSVHEHTPLPGASAYTAAKHALGGLTKAMALELV 172
Query: 182 GAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
GI VN +APG TP+ M + V+ IP R G E A LV
Sbjct: 173 EHGILVNAVAPGAIATPMNGMDDSDVKPDSRPGIPLG-RPGDTHEIASLV 221
>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 = 91.3 bits (227), Expect = 3e-22
Identities = 60/218 (27%), Positives = 92/218 (42%), Gaps = 22/218 (10%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KELGPDVKFAPVDVTSE 62
V ++TG +SG+G+AT G +VVL +A +ELG + DV
Sbjct: 2 VVVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRELGGEAIAVVADVADA 61
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
V++A + FG++D VN AG++ + + +F+R+ VN +G
Sbjct: 62 AQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPE------EFRRVFDVNYLGHVYG 115
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMT--LPMARDL 180
A L H + G +IN S+ Y Q AYSASK + G T L
Sbjct: 116 TL--AALPHLRRRGG----GALINVGSLLGYRSAPLQAAYSASKHAVRGFTESLRAELAH 169
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAP 218
GA I V + P +TP R+++ + P P
Sbjct: 170 DGAPISVTLVQPTAMNTP----FFGHARSYMGKK-PKP 202
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 91.8 bits (228), Expect = 3e-22
Identities = 76/261 (29%), Positives = 122/261 (46%), Gaps = 28/261 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G LVTG + G+G A E + + G V+L ++ + A+ L G D
Sbjct: 8 LTGRRALVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAHALAFD 67
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT + V+ A+ + G +D+ VN AG+ + ++ D F+R+L N
Sbjct: 68 VTDHDAVRAAIDAFEAEIGPIDILVNNAGMQFRTPLEDF------PADAFERLLRTNISS 121
Query: 119 TFNVARLSAQ-LIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
F V + A+ +I G IIN AS+ + + G Y+A+K + +T MA
Sbjct: 122 VFYVGQAVARHMIARG-------AGKIINIASVQSALARPGIAPYTATKGAVGNLTKGMA 174
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
D A G++ N IAPG FDTPL + L + + +L + PA R G +E LV + +
Sbjct: 175 TDWAKHGLQCNAIAPGYFDTPLNAALVADPEFSAWLEKRTPA-GRWGKVEE---LVGACV 230
Query: 236 -----TNPLINGEVIRIDGAL 251
+ +NG V+ +DG +
Sbjct: 231 FLASDASSFVNGHVLYVDGGI 251
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 92.2 bits (229), Expect = 4e-22
Identities = 73/260 (28%), Positives = 115/260 (44%), Gaps = 25/260 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGES-----VAKELGPDVKFAP 56
L+G L+TG SG+G+AT REG + L LP E ++ + + G P
Sbjct: 53 LQGRKALITGADSGIGRATAIAFAREGADIALNYLPEEEQDAAEVVQLIQAEGRKAVALP 112
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
D+ E ++ V G LD+ VN AG A K + + + + F N
Sbjct: 113 GDLKDEAFCRQLVERAVKELGGLDILVNIAGKQTAVK----DIADI-TTEQFDATFKTNV 167
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
F + + + + IINT SI +Y+ + Y+++K+ IV T +
Sbjct: 168 YAMFWLCKAAIPHLPPG--------ASIINTGSIQSYQPSPTLLDYASTKAAIVAFTKAL 219
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLL---SMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQS 233
A+ +A GIRVN +APG TPL EK+ +F + + +R G P E A L
Sbjct: 220 AKQVAEKGIRVNAVAPGPVWTPLQPSGGQPPEKIPDFGSET--PMKRPGQPVEMAPLYVL 277
Query: 234 IIT--NPLINGEVIRIDGAL 251
+ + + + GEV + G L
Sbjct: 278 LASQESSYVTGEVFGVTGGL 297
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 91.2 bits (227), Expect = 4e-22
Identities = 69/257 (26%), Positives = 115/257 (44%), Gaps = 19/257 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G + LVTG + G+G+A + + ++G V++ ++VA + G +
Sbjct: 6 LTGKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVAAGGKAEALACH 65
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
+ E + ++ G+LD+ VN A A F + T L F++ + VN G
Sbjct: 66 IGEMEQIDALFAHIRERHGRLDILVNNAA---ANPYFGHILDT--DLGAFQKTVDVNIRG 120
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F ++ + +L+ E G I+N AS+ Q YS +K+ ++ MT A+
Sbjct: 121 YFFMSVEAGKLMKEQG------GGSIVNVASVNGVSPGDFQGIYSITKAAVISMTKAFAK 174
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEFAQLVQSIIT 236
+ A GIRVN + PGL DT S L N+ + IP +R P E A V + +
Sbjct: 175 ECAPFGIRVNALLPGLTDTKFASALFKNDAILKQALAHIPL-RRHAEPSEMAGAVLYLAS 233
Query: 237 N--PLINGEVIRIDGAL 251
+ GE + +DG
Sbjct: 234 DASSYTTGECLNVDGGY 250
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 91.1 bits (227), Expect = 4e-22
Identities = 65/245 (26%), Positives = 97/245 (39%), Gaps = 37/245 (15%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFA--PVD 58
G VTG A G+G A V G +V+ D E D FA +D
Sbjct: 5 DFSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFDQAFLTQE--------DYPFATFVLD 56
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNT 116
V+ V + G LDV VN AGI G SL +D+++ VN
Sbjct: 57 VSDAAAVAQVCQRLLAETGPLDVLVNAAGI--------LRMGATDSLSDEDWQQTFAVNA 108
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G FN+ R + G I+ S AA+ + G AY ASK+ + + +
Sbjct: 109 GGAFNLFRAVMPQFRRQR------SGAIVTVGSNAAHVPRIGMAAYGASKAALTSLAKCV 162
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLL-SMLNEK------VRNFLAR---SIPAPQRLGHPDE 226
+LA G+R N ++PG DT + ++ ++ + F + IP ++ P E
Sbjct: 163 GLELAPYGVRCNVVSPGSTDTDMQRTLWVDEDGEQQVIAGFPEQFKLGIPL-GKIARPQE 221
Query: 227 FAQLV 231
A V
Sbjct: 222 IANAV 226
>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 = 89.5 bits (222), Expect = 1e-21
Identities = 66/240 (27%), Positives = 107/240 (44%), Gaps = 15/240 (6%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L+G V LVTG +SG+G+AT + EG V + E++A EL G +D
Sbjct: 1 LQGKVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEAEGGKALVLELD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT E+ V AV ++ G+LD+ VN AGI + + + D+ R++ N +G
Sbjct: 61 VTDEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTT------DWTRMIDTNLLG 114
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
A L H N +G I+N +S+A Y+A+K G+ + + +
Sbjct: 115 LMYTTH--AALPHHLLRN----KGTIVNISSVAGRVAVRNSAVYNATKFGVNAFSEGLRQ 168
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP 238
++ G+RV I PG DT L + + + R ++ A V+ +T P
Sbjct: 169 EVTERGVRVVVIEPGTVDTELRDHITHTITKEAYEERISTIRKLQAEDIAAAVRYAVTAP 228
>gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol
dehydrogenase. Members of this family occur as the BphD
protein of biphenyl catabolism and as the TodD protein
of toluene catabolism. Members catalyze the second step
in each pathway and proved interchangeable when tested;
the first and fourth enzymes in each pathway confer
metabolic specificity. In the context of biphenyl
degradation, the enzyme acts as
cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC
1.3.1.56), while in toluene degradation it acts as
cis-toluene dihydrodiol dehydrogenase.
Length = 262
Score = 89.8 bits (223), Expect = 2e-21
Identities = 68/203 (33%), Positives = 100/203 (49%), Gaps = 19/203 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
LKG V LVTGGASGLG+A V+R V EG RV + D + + + G V DV S
Sbjct: 3 LKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAAGLQELEAAHGDAVVGVEGDVRS 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-----FKRILLVNT 116
+D ++AV C +FGK+D + AG I++Y+ V DD F + +N
Sbjct: 63 LDDHKEAVARCVAAFGKIDCLIPNAG------IWDYSTALVDIPDDRIDEAFDEVFHINV 116
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G + + + + RG +I T S A + G Y+A+K +VG+ +
Sbjct: 117 KGYLLAVKAALPALVAS-------RGSVIFTISNAGFYPNGGGPLYTAAKHAVVGLVKEL 169
Query: 177 ARDLAGAGIRVNTIAPGLFDTPL 199
A +LA +RVN +APG + L
Sbjct: 170 AFELA-PYVRVNGVAPGGMSSDL 191
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 89.6 bits (223), Expect = 2e-21
Identities = 54/196 (27%), Positives = 87/196 (44%), Gaps = 15/196 (7%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE---LGPDVKFAPV 57
+LKG V +V+G GLG+ R R G VVL + VA E LG P
Sbjct: 2 LLKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDLGRRALAVPT 61
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D+T E+ V L + FG++D VN A F++ + ++ ++ +N +
Sbjct: 62 DITDEDQCANLVALALERFGRVDALVNNA-----FRVPSMKPLADADFAHWRAVIELNVL 116
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
GT + + + E+ G I+ S+ Q AY +K ++ + +A
Sbjct: 117 GTLRLTQAFTPALAESG-------GSIVMINSMVLRHSQPKYGAYKMAKGALLAASQSLA 169
Query: 178 RDLAGAGIRVNTIAPG 193
+L GIRVN++APG
Sbjct: 170 TELGPQGIRVNSVAPG 185
>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 = 88.7 bits (220), Expect = 2e-21
Identities = 62/231 (26%), Positives = 96/231 (41%), Gaps = 31/231 (13%)
Query: 9 VTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD-VKFAPVDVTSEEDVQK 67
+TG ASG+G+ T R G V L D+ ++A ELG + V +DVT
Sbjct: 5 ITGAASGIGRETALLFARNGWFVGLYDIDEDGLAALAAELGAENVVAGALDVTDRAAWAA 64
Query: 68 AVL-LCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTFNVAR 124
A+ + G+LD N AG+ G L R++ +N G N A
Sbjct: 65 ALADFAAATGGRLDALFNNAGVGRG--------GPFEDVPLAAHDRMVDINVKGVLNGAY 116
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
+ + + +INTAS +A GQ YSA+K + G+T + + A G
Sbjct: 117 AALPYL------KATPGARVINTASSSAIYGQPDLAVYSATKFAVRGLTEALDVEWARHG 170
Query: 185 IRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLG----HPDEFAQLV 231
IRV + P DTP+L+ + AP++ + A++V
Sbjct: 171 IRVADVWPWFVDTPILTK---------GETGAAPKKGLGRVLPVSDVAKVV 212
>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 = 88.5 bits (220), Expect = 3e-21
Identities = 67/248 (27%), Positives = 102/248 (41%), Gaps = 22/248 (8%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA-----KELGPDVKFAPVDVTSE 62
LVTG A +G+A E + EG RVV+ SE E+ L D++
Sbjct: 4 LVTGAAKRIGRAIAEALAAEGYRVVV-HYNRSEAEAQRLKDELNALRNSAVLVQADLSDF 62
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
V +FG+ DV VN A F S D + + +N + +
Sbjct: 63 AACADLVAAAFRAFGRCDVLVNNASA------FYPTPLGQGSEDAWAELFGINLKAPYLL 116
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
+ A+ + G IIN +G AY SK+ + G+T A +LA
Sbjct: 117 IQAFARRLAG------SRNGSIINIIDAMTDRPLTGYFAYCMSKAALEGLTRSAALELA- 169
Query: 183 AGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLING 242
IRVN IAPGL L ++ + R R +P +R +E A V ++ + I G
Sbjct: 170 PNIRVNGIAPGL--ILLPEDMDAEYRENALRKVPL-KRRPSAEEIADAVIFLLDSNYITG 226
Query: 243 EVIRIDGA 250
++I++DG
Sbjct: 227 QIIKVDGG 234
>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 = 89.0 bits (221), Expect = 3e-21
Identities = 70/231 (30%), Positives = 104/231 (45%), Gaps = 17/231 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPT-SEGESVAKELGPDVKFAPVDVT 60
L+G V LVTG +GLG+ + G +V SE + + LG D++
Sbjct: 3 LEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRSEPSETQQQVEALGRRFLSLTADLS 62
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
E ++ V + FG +D+ VN AGI S D+ ++ VN F
Sbjct: 63 DIEAIKALVDSAVEEFGHIDILVNNAGI------IRRADAEEFSEKDWDDVMNVNLKSVF 116
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+ + +A + G G IIN AS+ +++G +Y+ASK + G+T +A +
Sbjct: 117 FLTQAAA-----KHFLKQGRGGKIINIASMLSFQGGIRVPSYTASKHAVAGLTKLLANEW 171
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLN-EKVRN--FLARSIPAPQRLGHPDEFA 228
A GI VN IAPG T L ++ RN L R IPA R G PD+
Sbjct: 172 AAKGINVNAIAPGYMATNNTQALRADEDRNAAILER-IPA-GRWGTPDDIG 220
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 88.7 bits (220), Expect = 4e-21
Identities = 69/256 (26%), Positives = 118/256 (46%), Gaps = 18/256 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP--DVKFAPVDV 59
+ G + LVTGG+ G+G+ + + G RV++ A+EL + P D+
Sbjct: 4 VAGKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSAYGECIAIPADL 63
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNY-NKGTVHSLDDFKRILLVNTVG 118
+SEE ++ V + +LDV VN AG + + + G + +++ +N
Sbjct: 64 SSEEGIEALVARVAERSDRLDVLVNNAGATWGAPLEAFPESG-------WDKVMDINVKS 116
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQV-AYSASKSGIVGMTLPMA 177
F + + L+ E+ R +IN SIA + +Y ASK+ + +T +A
Sbjct: 117 VFFLTQALLPLLRAAATAENPAR--VINIGSIAGIVVSGLENYSYGASKAAVHQLTRKLA 174
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
++LAG I VN IAPG F + + + L + +SIP R G P++ A L +
Sbjct: 175 KELAGEHITVNAIAPGRFPSKMTAFLLNDPAALEAEEKSIPL-GRWGRPEDMAGLAIMLA 233
Query: 236 T--NPLINGEVIRIDG 249
+ + G VI +DG
Sbjct: 234 SRAGAYLTGAVIPVDG 249
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 89.3 bits (222), Expect = 5e-21
Identities = 64/203 (31%), Positives = 97/203 (47%), Gaps = 21/203 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD--VKFAPVDV 59
L G V +VTG A G+G R+ G ++ L DL +E ++A ELG D V DV
Sbjct: 7 LAGKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAELGGDDRVLTVVADV 66
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTV 117
T +Q A + FG +DV V AGI+ + G+V +D F+R++ VN +
Sbjct: 67 TDLAAMQAAAEEAVERFGGIDVVVANAGIA--------SGGSVAQVDPDAFRRVIDVNLL 118
Query: 118 GTFNVARLS-AQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G F+ R + LI RG ++ +S+AA+ G AY ASK+G+ +
Sbjct: 119 GVFHTVRATLPALIER--------RGYVLQVSSLAAFAAAPGMAAYCASKAGVEAFANAL 170
Query: 177 ARDLAGAGIRVNTIAPGLFDTPL 199
++A G+ V + DT L
Sbjct: 171 RLEVAHHGVTVGSAYLSWIDTDL 193
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 89.9 bits (224), Expect = 1e-20
Identities = 65/203 (32%), Positives = 98/203 (48%), Gaps = 22/203 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGE--SVAKELGPDVKFAPVDV 59
L G V LVTG A G+G A E + R+G VV D+P + +VA +G +D+
Sbjct: 208 LAGKVALVTGAARGIGAAIAEVLARDGAHVVCLDVPAAGEALAAVANRVG--GTALALDI 265
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
T+ + + + G LD+ V+ AGI+ + N ++ S +L VN
Sbjct: 266 TAPDAPARIAEHLAERHGGLDIVVHNAGITRDKTLANMDEARWDS------VLAVN---- 315
Query: 120 FNVARLSAQL-IHENKLNEDGLR--GVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
L A L I E L L G I+ +SI+ G GQ Y+ASK+G++G+ +
Sbjct: 316 -----LLAPLRITEALLAAGALGDGGRIVGVSSISGIAGNRGQTNYAASKAGVIGLVQAL 370
Query: 177 ARDLAGAGIRVNTIAPGLFDTPL 199
A LA GI +N +APG +T +
Sbjct: 371 APLLAERGITINAVAPGFIETQM 393
>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 = 87.0 bits (216), Expect = 1e-20
Identities = 68/254 (26%), Positives = 115/254 (45%), Gaps = 23/254 (9%)
Query: 7 GLVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVAKE---LGPDVKFAPVDVTSE 62
LVTGG+ G+GKA R+ G VV+ + + VA E LG DV+
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEELGGKAVVVRADVSQP 60
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+DV++ K+ FG+LDV V+ A AF+ + + + + N +
Sbjct: 61 QDVEEMFAAVKERFGRLDVLVSNAAAG-AFRPLSE-----LTPAHWDAKMNTNLKALVHC 114
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
A+ +A+L+ E G I+ +S+ + +A +K+ + + +A +L
Sbjct: 115 AQQAAKLMRERG------GGRIVAISSLGSIRALPNYLAVGTAKAALEALVRYLAVELGP 168
Query: 183 AGIRVNTIAPGLFDT-PLLSMLNEKVRNF-LARSIPAPQRLGHPDEFAQLVQSIITNP-- 238
GIRVN ++PG+ DT L N + A + PA R+G P + A V + +
Sbjct: 169 RGIRVNAVSPGVIDTDALAHFPNREDLLEAAAANTPAG-RVGTPQDVADAV-GFLCSDAA 226
Query: 239 -LINGEVIRIDGAL 251
+I G+ + +DG L
Sbjct: 227 RMITGQTLVVDGGL 240
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 87.3 bits (217), Expect = 1e-20
Identities = 65/260 (25%), Positives = 117/260 (45%), Gaps = 30/260 (11%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKELG---PDVKFAP 56
V L+TGGA +G A + G RV + +E +++A EL P A
Sbjct: 3 TDSAKVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAELNALRPGSAAAL 62
Query: 57 V-DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVN 115
D+ + + + V C +FG+LD VN A +F + G++ + + N
Sbjct: 63 QADLLDPDALPELVAACVAAFGRLDALVNNAS---SF--YPTPLGSITE-AQWDDLFASN 116
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
F +++ +A + + RG I+N I A G Y A+K+ + +T
Sbjct: 117 LKAPFFLSQAAAPQLRKQ-------RGAIVNITDIHAERPLKGYPVYCAAKAALEMLTRS 169
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLL-----SMLNEKVRNFLARSIPAPQRLGHPDEFAQL 230
+A +LA +RVN +APG +L + +E+ R + P +R+G P++ A+
Sbjct: 170 LALELAPE-VRVNAVAPG----AILWPEDGNSFDEEARQAILARTPL-KRIGTPEDIAEA 223
Query: 231 VQSIIT-NPLINGEVIRIDG 249
V+ ++ I G+++ +DG
Sbjct: 224 VRFLLADASFITGQILAVDG 243
>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 = 86.4 bits (214), Expect = 2e-20
Identities = 60/236 (25%), Positives = 106/236 (44%), Gaps = 31/236 (13%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
+VTG A G+G+A +++ G V+ DLP + E G ++ P+DV V++
Sbjct: 2 IVTGAAQGIGRAVARHLLQAGATVIALDLP----FVLLLEYGDPLRLTPLDVADAAAVRE 57
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGTFNVARL 125
G +D VNCAG+ G L +D+++ VN G FN+ +
Sbjct: 58 VCSRLLAEHGPIDALVNCAGV--------LRPGATDPLSTEDWEQTFAVNVTGVFNLLQA 109
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
A + +D G I+ AS AA+ + AY ASK+ + ++ + +LA G+
Sbjct: 110 VAPHM------KDRRTGAIVTVASNAAHVPRISMAAYGASKAALASLSKCLGLELAPYGV 163
Query: 186 RVNTIAPGLFDTPLL-SMLNEK------VRNFLAR---SIPAPQRLGHPDEFAQLV 231
R N ++PG DT + ++ +++ + + IP ++ P + A V
Sbjct: 164 RCNVVSPGSTDTAMQRTLWHDEDGAAQVIAGVPEQFRLGIPL-GKIAQPADIANAV 218
>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 = 86.0 bits (213), Expect = 4e-20
Identities = 67/252 (26%), Positives = 107/252 (42%), Gaps = 11/252 (4%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-ESVAKELGPDVKFAPVDVTSEED 64
V LVTG + GLG A REG RVV+ ++E E+VA E G DV +
Sbjct: 2 VVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEAGERAIAIQADVRDRDQ 61
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVAR 124
VQ + K+ FG +D VN A I F +D+++ L G N+ +
Sbjct: 62 VQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEGAVKGALNLLQ 121
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
E G +IN + Y+ +K+ ++G T MA++L G
Sbjct: 122 AVLPDFKERG------SGRVINIGTNLFQNPVVPYHDYTTAKAALLGFTRNMAKELGPYG 175
Query: 185 IRVNTIAPGLFDTPLLSMLN-EKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--PLIN 241
I VN ++ GL S ++V + +A++ P ++ P + A V + +
Sbjct: 176 ITVNMVSGGLLKVTDASAATPKEVFDAIAQTTPL-GKVTTPQDIADAVLFFASPWARAVT 234
Query: 242 GEVIRIDGALRM 253
G+ + +DG L M
Sbjct: 235 GQNLVVDGGLVM 246
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 85.8 bits (213), Expect = 5e-20
Identities = 63/237 (26%), Positives = 101/237 (42%), Gaps = 36/237 (15%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G V LVTGG G+G + G VV+C E+V G +F DV
Sbjct: 4 LTGRVVLVTGGTRGIGAGIARAFLAAGATVVVC--GRRAPETVD---GRPAEFHAADVRD 58
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD------FKRILLVN 115
+ V V + G+LDV VN AG G+ ++L ++I+ +N
Sbjct: 59 PDQVAALVDAIVERHGRLDVLVNNAG------------GSPYALAAEASPRFHEKIVELN 106
Query: 116 TVGTFNVARLSAQLIHENKL--NEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMT 173
+ VA+ N + + G G I+N S++ G AY A+K+G++ +T
Sbjct: 107 LLAPLLVAQ------AANAVMQQQPG-GGSIVNIGSVSGRRPSPGTAAYGAAKAGLLNLT 159
Query: 174 LPMARDLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEFA 228
+A + A +RVN + GL T + + + +A ++P RL P + A
Sbjct: 160 RSLAVEWAPK-VRVNAVVVGLVRTEQSELHYGDAEGIAAVAATVPL-GRLATPADIA 214
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 85.6 bits (212), Expect = 5e-20
Identities = 69/254 (27%), Positives = 115/254 (45%), Gaps = 24/254 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTSEED 64
L+TG A G+G + G +++ D+ E +L G AP +VT +++
Sbjct: 13 LITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIKAHAAPFNVTHKQE 72
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGIS--CAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
V+ A+ + G +DV +N AGI F F ++ ++ VN F V
Sbjct: 73 VEAAIEHIEKDIGPIDVLINNAGIQRRHPFTEF--------PEQEWNDVIAVNQTAVFLV 124
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
++ A+ + + + G IIN S+ + G+ Y+ASK + +T M +LA
Sbjct: 125 SQAVARYMVKRQ------AGKIINICSMQSELGRDTITPYAASKGAVKMLTRGMCVELAR 178
Query: 183 AGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEF--AQLVQSIITNP 238
I+VN IAPG F T + L +E +L + PA R G P E A + S +
Sbjct: 179 HNIQVNGIAPGYFKTEMTKALVEDEAFTAWLCKRTPA-ARWGDPQELIGAAVFLSSKASD 237
Query: 239 LINGEVIRIDGALR 252
+NG ++ +DG +
Sbjct: 238 FVNGHLLFVDGGML 251
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 85.4 bits (212), Expect = 5e-20
Identities = 56/199 (28%), Positives = 88/199 (44%), Gaps = 23/199 (11%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEG--ESVAKEL---GPDVKFAPVDVTSE 62
L+TG +SG+GKAT + G + L + S+ E++A EL G +D+++
Sbjct: 10 LITGASSGIGKATALAFAKAGWDLAL--VARSQDALEALAAELRSTGVKAAAYSIDLSNP 67
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV--HSLDDFKRILLVNTVGTF 120
E + + + FG DV +N AG A+ G + L D++ ++ +N F
Sbjct: 68 EAIAPGIAELLEQFGCPDVLINNAG--MAYT------GPLLEMPLSDWQWVIQLNLTSVF 119
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+ G+IIN +SIAA AY SK+ + T +A +
Sbjct: 120 QCCSAVLPGMRARG------GGLIINVSSIAARNAFPQWGAYCVSKAALAAFTKCLAEEE 173
Query: 181 AGAGIRVNTIAPGLFDTPL 199
GIRV TI G +TPL
Sbjct: 174 RSHGIRVCTITLGAVNTPL 192
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 85.8 bits (213), Expect = 6e-20
Identities = 66/260 (25%), Positives = 115/260 (44%), Gaps = 22/260 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA----KELGPDVKFAPVDVTS 61
V LVTGG G+G + G + + D P E + + LG +V F P DV
Sbjct: 4 VALVTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELRALGVEVIFFPADVAD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGT 119
+ + + ++G++D VN AG+ +G + L + F R+L +N G
Sbjct: 64 LSAHEAMLDAAQAAWGRIDCLVNNAGVGVK------VRGDLLDLTPESFDRVLAINLRGP 117
Query: 120 F----NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
F VA+ +++ + + E+ I+ +S+ A + Y SK+G+
Sbjct: 118 FFLTQAVAK---RMLAQPE-PEELPHRSIVFVSSVNAIMVSPNRGEYCISKAGLSMAAQL 173
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
A LA GI V + PGL T + + + K +A+ + R G P++ A+ V ++
Sbjct: 174 FAARLAEEGIGVYEVRPGLIKTDMTAPVTAKYDALIAKGLVPMPRWGEPEDVARAVAALA 233
Query: 236 TNPLI--NGEVIRIDGALRM 253
+ L G+ I +DG L +
Sbjct: 234 SGDLPYSTGQAIHVDGGLSI 253
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 85.5 bits (212), Expect = 7e-20
Identities = 71/262 (27%), Positives = 119/262 (45%), Gaps = 28/262 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPT---SEGESVAKELGPDVKFAPVD 58
LKG + L+TG + G+G A + + G +V D+ +G + +ELG + D
Sbjct: 8 LKGKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRELGIEAHGYVCD 67
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT E+ VQ V + G +D+ VN AGI + S +DF++++ ++
Sbjct: 68 VTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPMLEM------SAEDFRQVIDIDLNA 121
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
F V++ + + G IIN S+ + G+ AY+A+K G+ +T +A
Sbjct: 122 PFIVSKAVIPSMIKKG------HGKIINICSMMSELGRETVSAYAAAKGGLKMLTKNIAS 175
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSMLNEKVR--------NFLARSIPAPQRLGHPDEF--- 227
+ A I+ N I PG TP + L E F+ PA R G P++
Sbjct: 176 EYGEANIQCNGIGPGYIATPQTAPLRELQADGSRHPFDQFIIAKTPA-ARWGDPEDLAGP 234
Query: 228 AQLVQSIITNPLINGEVIRIDG 249
A + S +N +NG ++ +DG
Sbjct: 235 AVFLASDASN-FVNGHILYVDG 255
>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 = 85.0 bits (210), Expect = 7e-20
Identities = 73/254 (28%), Positives = 118/254 (46%), Gaps = 27/254 (10%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKEL---GPDVKFAPVDVTSEE 63
LVTG + G+G+A R+ +G + + S+ ESV + G + + DV
Sbjct: 2 LVTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESVVSAIQAQGGNARLLQFDVADRV 61
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGIS--CAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ + G V AGI+ AF S +D+ ++ N G +N
Sbjct: 62 ACRTLLEADIAEHGAYYGVVLNAGITRDAAFPAL--------SEEDWDIVIHTNLDGFYN 113
Query: 122 VARLSAQLIHENKLNEDGLR--GVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
V IH + R G II AS++ G GQV YSA+K+G++G T +A +
Sbjct: 114 V-------IHPCTMPMIRARQGGRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVE 166
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN-- 237
LA I VN IAPGL DT +L+ + + L +++P R+G P E A L ++++
Sbjct: 167 LAKRKITVNCIAPGLIDTEMLAEVEHDLDEAL-KTVPM-NRMGQPAEVASLAGFLMSDGA 224
Query: 238 PLINGEVIRIDGAL 251
+ +VI ++G +
Sbjct: 225 SYVTRQVISVNGGM 238
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 85.5 bits (212), Expect = 7e-20
Identities = 60/200 (30%), Positives = 93/200 (46%), Gaps = 21/200 (10%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE---LGPDVKFA-PVDVTSEE 63
VTG ASG+G+AT R+ +G + L D + LG V +D++ +
Sbjct: 4 FVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALGGTVPEHRALDISDYD 63
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGTFN 121
V + G +DV +N AGIS A+ GTV L + ++R++ VN +G +
Sbjct: 64 AVAAFAADIHAAHGSMDVVMNIAGIS-AW-------GTVDRLTHEQWRRMVDVNLMGPIH 115
Query: 122 VAR-LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
V ++ G G ++N +S A AYSASK G+ G++ + DL
Sbjct: 116 VIETFVPPMV------AAGRGGHLVNVSSAAGLVALPWHAAYSASKFGLRGLSEVLRFDL 169
Query: 181 AGAGIRVNTIAPGLFDTPLL 200
A GI V+ + PG TPL+
Sbjct: 170 ARHGIGVSVVVPGAVKTPLV 189
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 85.2 bits (211), Expect = 8e-20
Identities = 76/259 (29%), Positives = 119/259 (45%), Gaps = 23/259 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L+G V LVTG +SGLG + + + G +VVL + + E+ G +D
Sbjct: 7 LEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELRAEIEAEGGAAHVVSLD 66
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT + ++ AV + G +D+ VN +G+S K+ + + DF + NT G
Sbjct: 67 VTDYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDV------TPADFDFVFDTNTRG 120
Query: 119 TFNVARLSAQ-LIHENKLNEDGLRGV-IINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
F VA+ A+ +I K + G IIN AS+A Y SK+ +V MT M
Sbjct: 121 AFFVAQEVAKRMIARAKGAGNTKPGGRIINIASVAGLRVLPQIGLYCMSKAAVVHMTRAM 180
Query: 177 ARDLAGAGIRVNTIAPGLFDTPL-----LSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
A + GI VN I PG DT + + +K+ + L R +R+G P++ L+
Sbjct: 181 ALEWGRHGINVNAICPGYIDTEINHHHWETEQGQKLVSMLPR-----KRVGKPEDLDGLL 235
Query: 232 QSIITNP--LINGEVIRID 248
+ + ING +I D
Sbjct: 236 LLLAADESQFINGAIISAD 254
>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 = 84.9 bits (210), Expect = 1e-19
Identities = 59/201 (29%), Positives = 94/201 (46%), Gaps = 19/201 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
+G V +VTG A G+G+ ER+ EG RV+L D V E+ G D
Sbjct: 2 FEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDRSEL-VHEVLAEILAAGDAAHVHTAD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIF-NYNKGTVHSLDDFKRILLVNTV 117
+ + Q V + FG++DV +N G + K + +Y + + + + +R L T+
Sbjct: 61 LETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEEEQIEA--EIRRSLF-PTL 117
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
L L + +GVI+N +SIA ++ YSA+K G+ +T +A
Sbjct: 118 WCCRAV-LPHMLERQ--------QGVIVNVSSIATRGIY--RIPYSAAKGGVNALTASLA 166
Query: 178 RDLAGAGIRVNTIAPGLFDTP 198
+ A GIRVN +APG + P
Sbjct: 167 FEHARDGIRVNAVAPGGTEAP 187
>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 = 84.6 bits (210), Expect = 1e-19
Identities = 63/199 (31%), Positives = 98/199 (49%), Gaps = 25/199 (12%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD--VKFAPV--DVTSEE 63
L+TG +SG+G+AT R + G +++L + +A ELG VK P+ DV+ E
Sbjct: 4 LITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFPVKVLPLQLDVSDRE 63
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH----SLDDFKRILLVNTVGT 119
++ A+ + F +D+ VN AG++ G L+D++ ++ N G
Sbjct: 64 SIEAALENLPEEFRDIDILVNNAGLA---------LGLDPAQEADLEDWETMIDTNVKGL 114
Query: 120 FNVARL-SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
NV RL +I N+ G IIN SIA +G Y A+K+ + +L + +
Sbjct: 115 LNVTRLILPIMIARNQ-------GHIINLGSIAGRYPYAGGNVYCATKAAVRQFSLNLRK 167
Query: 179 DLAGAGIRVNTIAPGLFDT 197
DL G GIRV I PGL +T
Sbjct: 168 DLIGTGIRVTNIEPGLVET 186
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 84.3 bits (209), Expect = 2e-19
Identities = 69/256 (26%), Positives = 102/256 (39%), Gaps = 52/256 (20%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV---- 57
L+G V +VTGG+SG+G ATVE ++ G V +C S L A +
Sbjct: 6 LEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFPGARLLAAR 65
Query: 58 -DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--------- 107
DV E DV + FG +D+ VN AG +G V + D
Sbjct: 66 CDVLDEADVAAFAAAVEARFGGVDMLVNNAG-----------QGRVSTFADTTDDAWRDE 114
Query: 108 --FKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSAS 165
K ++N F L I+ S+ A + + VA SA+
Sbjct: 115 LELKYFSVINPTRAF----LPLL--------RASAAASIVCVNSLLALQPEPHMVATSAA 162
Query: 166 KSGIVGMTLPMARDLAGAGIRVNTIAPGLFDT----------PLLSMLNEKVRNFLA--R 213
++G++ + +A +LA G+RVN+I GL ++ E LA +
Sbjct: 163 RAGLLNLVKSLATELAPKGVRVNSILLGLVESGQWRRRYEARADPGQSWEAWTAALARKK 222
Query: 214 SIPAPQRLGHPDEFAQ 229
IP RLG PDE A+
Sbjct: 223 GIPL-GRLGRPDEAAR 237
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 83.7 bits (207), Expect = 3e-19
Identities = 73/259 (28%), Positives = 111/259 (42%), Gaps = 34/259 (13%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV--DVTSEE 63
LVTG A G+G+A R + G RV+ D+ + + A LG D +F PV D+T
Sbjct: 4 TALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADALG-DARFVPVACDLTDAA 62
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVNTVGTFN 121
+ A+ G +DV V AG + A ++H ++ +N +
Sbjct: 63 SLAAALANAAAERGPVDVLVANAGAARAA--------SLHDTTPASWRADNALNLEAAY- 113
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASI---AAYEGQSGQVAYSASKSGIVGMTLPMAR 178
L + + E L RG ++N S+ AA G AYSA+K+G++ T +A
Sbjct: 114 ---LCVEAVLEGMLKRS--RGAVVNIGSVNGMAAL----GHPAYSAAKAGLIHYTKLLAV 164
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSM---LNEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
+ GIR N +APG T N +V L + P Q PD+ A V +
Sbjct: 165 EYGRFGIRANAVAPGTVKTQAWEARVAANPQVFEELKKWYPL-QDFATPDDVANAV-LFL 222
Query: 236 TNPL---INGEVIRIDGAL 251
+P I G + +DG L
Sbjct: 223 ASPAARAITGVCLPVDGGL 241
>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 = 83.4 bits (206), Expect = 3e-19
Identities = 68/227 (29%), Positives = 108/227 (47%), Gaps = 16/227 (7%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE---LGPDVKFAPVDVTSE 62
V +VTGGA+G+GKA + + G VV+ DL + E+VA G +VTSE
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGGQAIGLECNVTSE 60
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+D++ V FG + + VN AG + +DF+ +N F +
Sbjct: 61 QDLEAVVKATVSQFGGITILVNNAGGGGP-----KPFDMPMTEEDFEWAFKLNLFSAFRL 115
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
++L A + + G I+N +S+++ AY +SK+ + MT +A DL
Sbjct: 116 SQLCAPHMQKAG------GGAILNISSMSSENKNVRIAAYGSSKAAVNHMTRNLAFDLGP 169
Query: 183 AGIRVNTIAPGLFDT-PLLSMLNEKVRNFLARSIPAPQRLGHPDEFA 228
GIRVN +APG T L S+L ++ + + P RLG P++ A
Sbjct: 170 KGIRVNAVAPGAVKTDALASVLTPEIERAMLKHTPL-GRLGEPEDIA 215
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 83.3 bits (206), Expect = 3e-19
Identities = 70/235 (29%), Positives = 109/235 (46%), Gaps = 21/235 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG-----ESVAKELGPDVKFAPVDVT 60
V ++TG + G+G AT G V L L + +++ ++ G + A DV
Sbjct: 4 VMIITGASRGIGAATALLAAERGYAVCLNYLRNRDAAEAVVQAIRRQGGEALAVA-ADVA 62
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTVG 118
E DV + G+LD VN AGI A + + +D RI N VG
Sbjct: 63 DEADVLRLFEAVDRELGRLDALVNNAGILEA-------QMRLEQMDAARLTRIFATNVVG 115
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQ-VAYSASKSGIVGMTLPMA 177
+F AR + + G G I+N +S+AA G G+ + Y+ASK I MT+ +A
Sbjct: 116 SFLCAR---EAVKRMSTRHGGRGGAIVNVSSMAARLGSPGEYIDYAASKGAIDTMTIGLA 172
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSMLNEKVR-NFLARSIPAPQRLGHPDEFAQLV 231
+++A GIRVN + PG+ T + + E R + + IP R G +E A+ +
Sbjct: 173 KEVAAEGIRVNAVRPGVIYTEIHASGGEPGRVDRVKAGIPM-GRGGTAEEVARAI 226
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 82.9 bits (205), Expect = 8e-19
Identities = 72/253 (28%), Positives = 119/253 (47%), Gaps = 25/253 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP-----DVKFAPVDVTSE 62
LVTGG SG+GK +V G V++ + + A+E+ V++ P DVT E
Sbjct: 11 LVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGAVRYEPADVTDE 70
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVNTVGTF 120
+ V +AV G+L V+CAG S G + +D ++R + +N GT
Sbjct: 71 DQVARAVDAATAWHGRLHGVVHCAGGSETI-------GPITQIDSDAWRRTVDLNVNGTM 123
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
V + +A+ + G G + +SIAA AY +KS + + A +L
Sbjct: 124 YVLKHAARELVR------GGGGSFVGISSIAASNTHRWFGAYGVTKSAVDHLMKLAADEL 177
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNE--KVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP 238
+ +RVN+I PGL T L++ + E ++ P P R+G ++ A L ++++
Sbjct: 178 GPSWVRVNSIRPGLIRTDLVAPITESPELSADYRACTPLP-RVGEVEDVANLAMFLLSDA 236
Query: 239 --LINGEVIRIDG 249
I G+VI +DG
Sbjct: 237 ASWITGQVINVDG 249
>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 = 82.3 bits (204), Expect = 1e-18
Identities = 59/217 (27%), Positives = 93/217 (42%), Gaps = 35/217 (16%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL-----GPDVKFAPVD 58
G V ++TG SG+GK T + + G V++ +GE A E+ V+ +D
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNAKVEVIQLD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGI-SCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
++S V++ F +LD+ +N AGI + ++ + D F+ VN +
Sbjct: 61 LSSLASVRQFAEEFLARFPRLDILINNAGIMAPPRRL---------TKDGFELQFAVNYL 111
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQ--------------SGQVAYS 163
G F + L L+ K + I+N +SIA G S AY
Sbjct: 112 GHFLLTNL---LLPVLKASAPSR---IVNVSSIAHRAGPIDFNDLDLENNKEYSPYKAYG 165
Query: 164 ASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLL 200
SK + T +AR L G G+ VN + PG+ T LL
Sbjct: 166 QSKLANILFTRELARRLEGTGVTVNALHPGVVRTELL 202
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 82.4 bits (204), Expect = 2e-18
Identities = 62/204 (30%), Positives = 95/204 (46%), Gaps = 18/204 (8%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDL-----PTSEGESVAKELGPDVKFA 55
+L G V +VTG G+G+A EG RVV+ D+ ++ G S A+ + ++ A
Sbjct: 3 LLDGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAA 62
Query: 56 -------PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDF 108
D+ + V ++FG LDV VN AGI ++ S +++
Sbjct: 63 GGEAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAGI-LRDRMI-----ANMSEEEW 116
Query: 109 KRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSG 168
++ V+ G F R +A + IINT+S A +G GQ YSA+K+G
Sbjct: 117 DAVIAVHLKGHFATLRHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNYSAAKAG 176
Query: 169 IVGMTLPMARDLAGAGIRVNTIAP 192
I +TL A +L G+ VN IAP
Sbjct: 177 IAALTLVAAAELGRYGVTVNAIAP 200
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 80.9 bits (200), Expect = 3e-18
Identities = 69/257 (26%), Positives = 109/257 (42%), Gaps = 28/257 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGES---VAKELGPDVKFAPV 57
LK V +VTG G+G+A R+ +EG VV+ E + KE G +
Sbjct: 4 LKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMNETLKMVKENGGEGIGVLA 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVN 115
DV++ E + D +G D+ VN AG+ N +DD + + +
Sbjct: 64 DVSTREGCETLAKATIDRYGVADILVNNAGLGLFSPFLN--------VDDKLIDKHISTD 115
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
++ A+ + E G I+N AS+A G Y A K+ ++ +T
Sbjct: 116 FKSVIYCSQELAKEMREG--------GAIVNIASVAGIRPAYGLSIYGAMKAAVINLTKY 167
Query: 176 MARDLAGAGIRVNTIAPGLFDT----PLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
+A +LA IRVN IAPG T L +L + F A ++ P+E A+ V
Sbjct: 168 LALELA-PKIRVNAIAPGFVKTKLGESLFKVLGMSEKEF-AEKFTLMGKILDPEEVAEFV 225
Query: 232 QSIITNPLINGEVIRID 248
+I+ I G+V +D
Sbjct: 226 AAILKIESITGQVFVLD 242
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 80.0 bits (198), Expect = 7e-18
Identities = 55/202 (27%), Positives = 84/202 (41%), Gaps = 31/202 (15%)
Query: 9 VTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFA--PVDVTSEEDVQ 66
+TG +SG+G+A R+G + L T ++ A L + + DV + +
Sbjct: 7 ITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLPKAARVSVYAADVRDADALA 66
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHS----LDDFKRILLVNTVGTFN- 121
A + G DV + AGIS GT+ L F+ ++ N G
Sbjct: 67 AAAADFIAAHGLPDVVIANAGISV---------GTLTEEREDLAVFREVMDTNYFGMVAT 117
Query: 122 ----VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
+A + A RG ++ AS+A G G AYSASK+ + +
Sbjct: 118 FQPFIAPMRAAR-----------RGTLVGIASVAGVRGLPGAGAYSASKAAAIKYLESLR 166
Query: 178 RDLAGAGIRVNTIAPGLFDTPL 199
+L AG+RV TIAPG TP+
Sbjct: 167 VELRPAGVRVVTIAPGYIRTPM 188
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 79.3 bits (195), Expect = 1e-17
Identities = 76/256 (29%), Positives = 119/256 (46%), Gaps = 20/256 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL-GPDVKFAPV--D 58
L G L+TG ++G+GK V G +V + E +A E+ K PV D
Sbjct: 7 LHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTSGGKVVPVCCD 66
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V+ + V + G +D+ V AGI + + L++F+R+ N G
Sbjct: 67 VSQHQQVTSMLDQVTAELGGIDIAVCNAGIITVTPMLDM------PLEEFQRLQNTNVTG 120
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVA--YSASKSGIVGMTLPM 176
F A+ +A+ + + G GVIINTAS++ + Q Y ASK+ ++ +T M
Sbjct: 121 VFLTAQAAAK-----AMVKQGQGGVIINTASMSGHIINVPQQVSHYCASKAAVIHLTKAM 175
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIIT 236
A +LA IRVN+++PG T L+ E + + IP RLG P+E A L + +
Sbjct: 176 AVELAPHKIRVNSVSPGYILTELVEPYTEYQPLWEPK-IPL-GRLGRPEELAGLYLYLAS 233
Query: 237 --NPLINGEVIRIDGA 250
+ + G I IDG
Sbjct: 234 EASSYMTGSDIVIDGG 249
>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 = 79.0 bits (195), Expect = 1e-17
Identities = 69/239 (28%), Positives = 106/239 (44%), Gaps = 24/239 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVL--CDLPTSEGESVAKELGPDVKFAPVDV 59
+K LVTG G+GKA VE ++ G + V P S VAK G V +DV
Sbjct: 1 IKDKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVRDPGSAAHLVAKY-GDKVVPLRLDV 59
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
T E ++ A KD +DV +N AG+ K + L+ K+ + VN G
Sbjct: 60 TDPESIKAAAAQAKD----VDVVINNAGV---LKPATLLEEGA--LEALKQEMDVNVFGL 110
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
+A+ A ++ N G I+N S+A+ + YSASKS +T + +
Sbjct: 111 LRLAQAFAPVLKANG------GGAIVNLNSVASLKNFPAMGTYSASKSAAYSLTQGLRAE 164
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLN------EKVRNFLARSIPAPQRLGHPDEFAQLVQ 232
LA G V ++ PG DT + + E V + +++ A + PDE A+ V+
Sbjct: 165 LAAQGTLVLSVHPGPIDTRMAAGAGGPKESPETVAEAVLKALKAGEFHVFPDEMAKQVK 223
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 78.9 bits (195), Expect = 1e-17
Identities = 67/256 (26%), Positives = 104/256 (40%), Gaps = 35/256 (13%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL--GPDVKFAPVDVTSEEDV 65
LV GG+SG+G A EG RV + + A+ L G V+ A +D+T E V
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGGGAPVRTAALDITDEAAV 60
Query: 66 QKAVLLCKDSFGKLD-VNVNCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTVGTFNV 122
++ G D V + A G V +L + + G + V
Sbjct: 61 DA---FFAEA-GPFDHVVITAADTP---------GGPVRALPLAAAQAAMDSKFWGAYRV 107
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
AR A I G + + AA + V A + + + +A +LA
Sbjct: 108 AR--AARIAPG--------GSLTFVSGFAAVRPSASGVLQGAINAALEALARGLALELAP 157
Query: 183 AGIRVNTIAPGLFDTPLLSMLNEKVRNF----LARSIPAPQRLGHPDEFAQLVQSIITNP 238
+RVNT++PGL DTPL S L R A +PA +R+G P++ A + + N
Sbjct: 158 --VRVNTVSPGLVDTPLWSKLAGDAREAMFAAAAERLPA-RRVGQPEDVANAILFLAANG 214
Query: 239 LINGEVIRIDGALRMI 254
G + +DG ++
Sbjct: 215 FTTGSTVLVDGGHAIV 230
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 79.3 bits (196), Expect = 2e-17
Identities = 50/201 (24%), Positives = 83/201 (41%), Gaps = 11/201 (5%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
G V ++TG ASG G A G ++VL D+ + EL G +V D
Sbjct: 4 FAGKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQGAEVLGVRTD 63
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V+ V+ + FG + + N AG+ ++ +SL D++ +L VN G
Sbjct: 64 VSDAAQVEALADAALERFGAVHLLFNNAGVGAGGLVWE------NSLADWEWVLGVNLWG 117
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+ R L+ + G I+NTAS+A Y+ SK +V +T + +
Sbjct: 118 VIHGVRAFTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTETLYQ 177
Query: 179 DLA--GAGIRVNTIAPGLFDT 197
DL+ + + + P T
Sbjct: 178 DLSLVTDQVGASVLCPYFVPT 198
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 78.4 bits (193), Expect = 2e-17
Identities = 69/254 (27%), Positives = 120/254 (47%), Gaps = 19/254 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDL-PTSEGESVAKELGPDVKFAPVDVT 60
L G V ++TG +GLG+ + + G +V + E ++ + LG F D+
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIVGVGVAEAPETQAQVEALGRKFHFITADLI 65
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
++D+ V + G +D+ +N AGI + + D+ ++ +N F
Sbjct: 66 QQKDIDSIVSQAVEVMGHIDILINNAGIIRRQDLLEF------GNKDWDDVININQKTVF 119
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+++ A+ + + G G IIN AS+ +++G +Y+ASKS ++G+T +A +L
Sbjct: 120 FLSQAVAK-----QFVKQGNGGKIINIASMLSFQGGIRVPSYTASKSAVMGLTRALATEL 174
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLN-EKVRN--FLARSIPAPQRLGHPDEFA--QLVQSII 235
+ I VN IAPG T + L + RN L R IPA R G PD+ A + S
Sbjct: 175 SQYNINVNAIAPGYMATDNTAALRADTARNEAILER-IPA-SRWGTPDDLAGPAIFLSSS 232
Query: 236 TNPLINGEVIRIDG 249
+ + G + +DG
Sbjct: 233 ASDYVTGYTLAVDG 246
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 79.3 bits (195), Expect = 2e-17
Identities = 68/236 (28%), Positives = 105/236 (44%), Gaps = 25/236 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSE--GESVAK---ELGPDVKFAP 56
LK LVTGG SG+G+A REG V + LP E + V K E G P
Sbjct: 47 LKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVEEEDAQDVKKIIEECGRKAVLLP 106
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFK-IFNYNKGTVHSLDDFKRILLVN 115
D++ E+ + V + G LD+ AG A I + + + F++ +N
Sbjct: 107 GDLSDEKFARSLVHEAHKALGGLDIMALVAGKQVAIPDIADL------TSEQFQKTFAIN 160
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
F + + + L+ + II T+SI AY+ + Y+A+K+ I+ +
Sbjct: 161 VFALFWLTQEAIPLLPKG--------ASIITTSSIQAYQPSPHLLDYAATKAAILNYSRG 212
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLL---SMLNEKVRNFLARSIPAPQRLGHPDEFA 228
+A+ +A GIRVN +APG T L +K+ F + P +R G P E A
Sbjct: 213 LAKQVAEKGIRVNIVAPGPIWTALQISGGQTQDKIPQF-GQQTPM-KRAGQPAELA 266
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 77.9 bits (192), Expect = 3e-17
Identities = 65/236 (27%), Positives = 110/236 (46%), Gaps = 22/236 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFA-----PV--DVT 60
L+TG + G+G+AT G V + + + A+E V+ A V DV
Sbjct: 6 LITGASRGIGRATAVLAAARGWSV---GINYARDAAAAEETADAVRAAGGRACVVAGDVA 62
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
+E DV + +FG+LD VN AGI + +R+ N +G +
Sbjct: 63 NEADVIAMFDAVQSAFGRLDALVNNAGI-----VAPSMPLADMDAARLRRMFDTNVLGAY 117
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQ-VAYSASKSGIVGMTLPMARD 179
AR +A+ + ++ G G I+N +SIA+ G + V Y+ SK + +TL +A++
Sbjct: 118 LCAREAARRLSTDR---GGRGGAIVNVSSIASRLGSPNEYVDYAGSKGAVDTLTLGLAKE 174
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSII 235
L G+RVN + PGL +T + + + R A + A LG E ++ ++I+
Sbjct: 175 LGPHGVRVNAVRPGLIETEIHASGGQPGR---AARLGAQTPLGRAGEADEVAETIV 227
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 78.1 bits (193), Expect = 3e-17
Identities = 62/241 (25%), Positives = 99/241 (41%), Gaps = 31/241 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L+G L+TGG SG+G T + + EG RV + + E+ ELG D
Sbjct: 4 LQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARAELGESALVIRADAGD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-----FKRILLVNT 116
+ ++FG+LD AG++ L+D F R N
Sbjct: 64 VAAQKALAQALAEAFGRLDAVFINAGVA-----------KFAPLEDWDEAMFDRSFNTNV 112
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
G + + + A L +++N SI A+ G Y+ASK+ ++ + +
Sbjct: 113 KGPYFL--IQALLPLLANPAS-----IVLNG-SINAHIGMPNSSVYAASKAALLSLAKTL 164
Query: 177 ARDLAGAGIRVNTIAPGLFDTPLLSMLN------EKVRNFLARSIPAPQRLGHPDEFAQL 230
+ +L GIRVN ++PG TPL L + V + +P R G P+E A+
Sbjct: 165 SGELLPRGIRVNAVSPGPVQTPLYGKLGLPEATLDAVAAQIQALVPL-GRFGTPEEIAKA 223
Query: 231 V 231
V
Sbjct: 224 V 224
>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 = 76.6 bits (189), Expect = 6e-17
Identities = 47/196 (23%), Positives = 75/196 (38%), Gaps = 28/196 (14%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LV GG LG A V+ G V DL +E + + F + V
Sbjct: 5 LVYGGRGALGSAVVQAFKSRGWWVASIDLAENEEADASIIVLDSDSF----TEQAKQVVA 60
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFK---RILLVNTVGTFNVAR 124
+V GK+D + AG + G+ S K + N +F +
Sbjct: 61 SV---ARLSGKVDALICVAG--------GWAGGSAKSKSFVKNWDLMWKQNLWTSFIASH 109
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG-- 182
L+ + + G+++ T + AA E G + Y A+K+ + +T +A + +G
Sbjct: 110 LATKHLLSG--------GLLVLTGAKAALEPTPGMIGYGAAKAAVHQLTQSLAAENSGLP 161
Query: 183 AGIRVNTIAPGLFDTP 198
AG N I P DTP
Sbjct: 162 AGSTANAILPVTLDTP 177
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 76.1 bits (188), Expect = 1e-16
Identities = 58/201 (28%), Positives = 85/201 (42%), Gaps = 22/201 (10%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVT 60
+KG V LVTG G+G+A VE+++ G V + ESV +LGP V +DVT
Sbjct: 3 DIKGKVVLVTGANRGIGRAFVEQLLARGAAKVY--AAARDPESVT-DLGPRVVPLQLDVT 59
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV--HSLDDFKRILLVNTVG 118
V A D + + VN AGI + D + + N G
Sbjct: 60 DPASVAAAAEAASD----VTILVNNAGI-------FRTGSLLLEGDEDALRAEMETNYFG 108
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+AR A ++ N G I+N S+ ++ YSASK+ +T +
Sbjct: 109 PLAMARAFAPVLAANG------GGAIVNVLSVLSWVNFPNLGTYSASKAAAWSLTQALRA 162
Query: 179 DLAGAGIRVNTIAPGLFDTPL 199
+LA G RV + PG DT +
Sbjct: 163 ELAPQGTRVLGVHPGPIDTDM 183
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 76.1 bits (187), Expect = 2e-16
Identities = 72/258 (27%), Positives = 118/258 (45%), Gaps = 27/258 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDL--PTSEGESVAKELGPDVKFAPV-- 57
L+G V +VTG +GLG+ + G +V ++ PT E++ + +F +
Sbjct: 8 LEGKVAVVTGCDTGLGQGMALGLAEAGCDIVGINIVEPT---ETIEQVTALGRRFLSLTA 64
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D+ + + + FG +D+ VN AG+ S D+ ++ +N
Sbjct: 65 DLRKIDGIPALLERAVAEFGHIDILVNNAGL------IRREDAIEFSEKDWDDVMNLNIK 118
Query: 118 GTFNVARLSA-QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPM 176
F +++ +A I G G IIN AS+ +++G +Y+ASKSG++G+T M
Sbjct: 119 SVFFMSQAAAKHFI------AQGNGGKIINIASMLSFQGGIRVPSYTASKSGVMGVTRLM 172
Query: 177 ARDLAGAGIRVNTIAPGLF---DTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQS 233
A + A I VN IAPG +T L ++ L R IPA R G P + V
Sbjct: 173 ANEWAKHNINVNAIAPGYMATNNTQQLRADEQRSAEILDR-IPA-GRWGLPSDLMGPVVF 230
Query: 234 IITNP--LINGEVIRIDG 249
+ ++ ING I +DG
Sbjct: 231 LASSASDYINGYTIAVDG 248
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 76.1 bits (188), Expect = 2e-16
Identities = 65/196 (33%), Positives = 91/196 (46%), Gaps = 21/196 (10%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVAKEL---GPDVKFAPVD 58
G V +VTG A G+G+ R EG RVVL D SE VA EL G + D
Sbjct: 7 AGKVVVVTGAAQGIGRGVALRAAAEGARVVLVD--RSELVHEVAAELRAAGGEALALTAD 64
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIF-NYNKGTVHSLDDFKRILLVNTV 117
+ + Q A+ ++FG++DV +N G + K F Y ++ R L T+
Sbjct: 65 LETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEY---EEEQIEAEIRRSLFPTL 121
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
A L H + G G I+N +SIA +V YSA+K G+ +T +A
Sbjct: 122 WC-----CRAVLPH---MLAQG-GGAIVNVSSIAT--RGINRVPYSAAKGGVNALTASLA 170
Query: 178 RDLAGAGIRVNTIAPG 193
+ A GIRVN +APG
Sbjct: 171 FEYAEHGIRVNAVAPG 186
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 75.2 bits (185), Expect = 3e-16
Identities = 72/251 (28%), Positives = 110/251 (43%), Gaps = 34/251 (13%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVAKELGPDVKFAPVDVTSEEDVQ 66
LV GG+ G+G A V R V +G V + + E +A+E G D + V
Sbjct: 10 LVLGGSRGIGAAIVRRFVTDGANVRFTYAGSKDAAERLAQETGATAVQT--DSADRDAVI 67
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGTFNVAR 124
V G LD+ V AGI F G L DD R+ +N ++ +
Sbjct: 68 DVV----RKSGALDILVVNAGI-AVF-------GDALELDADDIDRLFKINIHAPYHASV 115
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
+A+ ++ E G R +II + + +G AY+ASKS + GM +ARD G
Sbjct: 116 EAAR-----QMPEGG-RIIIIGSVN-GDRMPVAGMAAYAASKSALQGMARGLARDFGPRG 168
Query: 185 IRVNTIAPGLFDT---PLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--PL 239
I +N + PG DT P + + + +F+ A +R G P+E A +V +
Sbjct: 169 ITINVVQPGPIDTDANPANGPMKDMMHSFM-----AIKRHGRPEEVAGMVAWLAGPEASF 223
Query: 240 INGEVIRIDGA 250
+ G + IDGA
Sbjct: 224 VTGAMHTIDGA 234
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 74.8 bits (184), Expect = 6e-16
Identities = 64/257 (24%), Positives = 101/257 (39%), Gaps = 20/257 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA---KELGPDVKFAPVD 58
L V +VTG GLG A G V++ S+ + VA + G D
Sbjct: 8 LDDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAGRRAHVVAAD 67
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
+ E ++FG+LD+ VN G + + + S D N
Sbjct: 68 LAHPEATAGLAGQAVEAFGRLDIVVNNVGGTMPNPLLS------TSTKDLADAFTFNVAT 121
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+ + L+ L G G +IN +S G AY +K+ + T A
Sbjct: 122 AHALTVAAVPLM----LEHSG-GGSVINISSTMGRLAGRGFAAYGTAKAALAHYTRLAAL 176
Query: 179 DLAGAGIRVNTIAPGLFDTPLLS--MLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIIT 236
DL IRVN IAPG T L N+++R + ++ P +RLG P++ A + +
Sbjct: 177 DLC-PRIRVNAIAPGSILTSALEVVAANDELRAPMEKATPL-RRLGDPEDIAAAAVYLAS 234
Query: 237 --NPLINGEVIRIDGAL 251
+ G+ + +DG L
Sbjct: 235 PAGSYLTGKTLEVDGGL 251
>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 = 74.5 bits (184), Expect = 7e-16
Identities = 60/203 (29%), Positives = 94/203 (46%), Gaps = 22/203 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
L+G V ++TG +SG+G+ + R G R+VL E V E P P+
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLELGAPSPHVVPL 60
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVN 115
D++ ED ++ V FG LD+ +N AGIS + H S+D ++I+ VN
Sbjct: 61 DMSDLEDAEQVVEEALKLFGGLDILINNAGIS--------MRSLFHDTSIDVDRKIMEVN 112
Query: 116 TVGTFNVARLSA-QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTL 174
G + + + LI ++ G I+ +SIA G + AY+ASK + G
Sbjct: 113 YFGPVALTKAALPHLIERSQ-------GSIVVVSSIAGKIGVPFRTAYAASKHALQGFFD 165
Query: 175 PMARDLAGAGIRVNTIAPGLFDT 197
+ +L+ I V + PGL DT
Sbjct: 166 SLRAELSEPNISVTVVCPGLIDT 188
>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 = 74.2 bits (183), Expect = 7e-16
Identities = 51/200 (25%), Positives = 90/200 (45%), Gaps = 20/200 (10%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGE--SVAKELGPDVKFAPV--DVTSEE 63
++TG + G+G+A E +++ G V+ L SE + +EL P ++ V D++
Sbjct: 3 ILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELRPGLRVTTVKADLSDAA 62
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
V++ + + G+ D+ +N AG + +K LD+ ++ +N T V
Sbjct: 63 GVEQLLEAIRKLDGERDLLINNAGS-----LGPVSKIEFIDLDELQKYFDLNL--TSPVC 115
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA-- 181
S L + GL+ ++N +S AA G Y +SK+ M R LA
Sbjct: 116 LTSTLL---RAFKKRGLKKTVVNVSSGAAVNPFKGWGLYCSSKAAR-DM---FFRVLAAE 168
Query: 182 GAGIRVNTIAPGLFDTPLLS 201
+RV + APG+ DT +
Sbjct: 169 EPDVRVLSYAPGVVDTDMQR 188
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 73.8 bits (182), Expect = 1e-15
Identities = 60/203 (29%), Positives = 94/203 (46%), Gaps = 27/203 (13%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G LVTGG G+G ATV R++ G RVV T+ S +L V+F D+T+
Sbjct: 7 LAGKRALVTGGTKGIGAATVARLLEAGARVV-----TT-ARSRPDDLPEGVEFVAADLTT 60
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVNTVGT 119
E + G +D+ V+ G S A G +L D ++ L +N +
Sbjct: 61 AEGCAAVARAVLERLGGVDILVHVLGGSSAP------AGGFAALTDEEWQDELNLNLLAA 114
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAA----YEGQSGQVAYSASKSGIVGMTLP 175
RL L+ + G GVII+ SI E AY+A+K+ + +
Sbjct: 115 ---VRLDRALL--PGMIARG-SGVIIHVTSIQRRLPLPE---STTAYAAAKAALSTYSKS 165
Query: 176 MARDLAGAGIRVNTIAPGLFDTP 198
+++++A G+RVNT++PG +T
Sbjct: 166 LSKEVAPKGVRVNTVSPGWIETE 188
>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 = 73.3 bits (180), Expect = 2e-15
Identities = 50/191 (26%), Positives = 92/191 (48%), Gaps = 16/191 (8%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
G LVTG G+G+ATV+ + + G RVV ++ +S+ +E P ++ VD++
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVREC-PGIEPVCVDLSD 63
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ ++A+ S G +D+ VN A ++ K + F R VN +
Sbjct: 64 WDATEEAL----GSVGPVDLLVNNAAVAILQPFLEVTK------EAFDRSFDVNVRAVIH 113
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
V+++ A+ + G+ G I+N +S A+ + Y ++K+ + +T MA +L
Sbjct: 114 VSQIVAR-----GMIARGVPGSIVNVSSQASQRALTNHTVYCSTKAALDMLTKVMALELG 168
Query: 182 GAGIRVNTIAP 192
IRVN++ P
Sbjct: 169 PHKIRVNSVNP 179
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 73.2 bits (180), Expect = 2e-15
Identities = 75/256 (29%), Positives = 113/256 (44%), Gaps = 22/256 (8%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTGG+ GLG A REG RVV+ + + E++A ELG DVT E VQ
Sbjct: 9 LVTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALADELGDRAIALQADVTDREQVQ 68
Query: 67 KAVLLCKDSFGK-LDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV--A 123
+ FGK + VN A +F K + +DF++ L + G N A
Sbjct: 69 AMFATATEHFGKPITTVVNNALADFSFDGDARKKADDITWEDFQQQLEGSVKGALNTIQA 128
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVA---YSASKSGIVGMTLPMARDL 180
L G IIN I Q+ V Y+ +K+ ++G+T +A +L
Sbjct: 129 ALPGMREQGF--------GRIIN---IGTNLFQNPVVPYHDYTTAKAALLGLTRNLAAEL 177
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLN-EKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN-- 237
GI VN ++ GL T S ++V + +A + P +++ P EFA V +
Sbjct: 178 GPYGITVNMVSGGLLRTTDASAATPDEVFDLIAATTPL-RKVTTPQEFADAVLFFASPWA 236
Query: 238 PLINGEVIRIDGALRM 253
+ G+ + +DG L M
Sbjct: 237 RAVTGQNLVVDGGLVM 252
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 72.5 bits (178), Expect = 3e-15
Identities = 66/250 (26%), Positives = 108/250 (43%), Gaps = 34/250 (13%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDV--KFAPVDVTSEEDV 65
LVTG G+G A R+ G +V+ +A+ D + D+ ++ +
Sbjct: 7 LVTGATKGIGLALSLRLANLGHQVI----------GIARSAIDDFPGELFACDL-ADIEQ 55
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARL 125
A L + +D VN GI+ + + + + D V F
Sbjct: 56 TAATLAQINEIHPVDAIVNNVGIALPQPLGKIDLAALQDVYDLNVRAAVQVTQAFLEGMK 115
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
+ +G I+N S A + G + +YSA+KS +VG T A +LA GI
Sbjct: 116 LRE------------QGRIVNICSRAIF-GALDRTSYSAAKSALVGCTRTWALELAEYGI 162
Query: 186 RVNTIAPGLFDTPLLSML----NEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--PL 239
VN +APG +T L +E+ + LA SIP +RLG P+E A + ++++
Sbjct: 163 TVNAVAPGPIETELFRQTRPVGSEEEKRVLA-SIPM-RRLGTPEEVAAAIAFLLSDDAGF 220
Query: 240 INGEVIRIDG 249
I G+V+ +DG
Sbjct: 221 ITGQVLGVDG 230
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 72.8 bits (178), Expect = 3e-15
Identities = 75/270 (27%), Positives = 119/270 (44%), Gaps = 41/270 (15%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVL--------CDLPTSEGESVAKELGPDVK 53
L G V LVTG + G+G+A R+ +G V + D E ES G
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIESN----GGKAF 59
Query: 54 FAPVDVTSEEDVQKAVLLCKDSF------GKLDVNVNCAGISCAFKIFNYNKGTVHSLDD 107
D+ S + V+K V K+ ++D+ VN AGI +GT+ + +
Sbjct: 60 LIEADLNSIDGVKKLVEQLKNELQIRVGTSEIDILVNNAGIG--------TQGTIENTTE 111
Query: 108 --FKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSAS 165
F I+ VN F + + + L+ G +IN +S G +G +AY S
Sbjct: 112 EIFDEIMAVNIKAPFFLIQQTLPLLRA--------EGRVINISSAEVRLGFTGSIAYGLS 163
Query: 166 KSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGH 223
K + MTLP+A+ L GI VNTI PG T + + L + ++RNF S R+G
Sbjct: 164 KGALNTMTLPLAKHLGERGITVNTIMPGYTKTDINAKLLDDPEIRNFATNS-SVFGRIGQ 222
Query: 224 PDEFAQLVQSIITNP--LINGEVIRIDGAL 251
++ A V + ++ + G++I + G
Sbjct: 223 VEDIADAVAFLASSDSRWVTGQIIDVSGGF 252
>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 = 72.2 bits (177), Expect = 4e-15
Identities = 69/255 (27%), Positives = 114/255 (44%), Gaps = 19/255 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L V LVT G+G A R+ ++G VV+ + L G V
Sbjct: 8 LANKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGEGLSVTGTVCH 67
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
V ED ++ V + G +D+ V+ A ++ F N T D +IL VN
Sbjct: 68 VGKAEDRERLVATAVNLHGGVDILVSNAAVNPFF--GNILDSTEEVWD---KILDVNVKA 122
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
T + + ++ + G V+I +S+AA+ G Y+ SK+ ++G+T +A
Sbjct: 123 TALMTKAVVP-----EMEKRGGGSVVI-VSSVAAFHPFPGLGPYNVSKTALLGLTKNLAP 176
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEFAQLVQSIIT 236
+LA IRVN +APGL T S L ++ V + ++ +RLG P++ A +V + +
Sbjct: 177 ELAPRNIRVNCLAPGLIKTSFSSALWMDKAVEESMKETLRI-RRLGQPEDCAGIVSFLCS 235
Query: 237 N--PLINGEVIRIDG 249
I GE + + G
Sbjct: 236 EDASYITGETVVVGG 250
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 71.8 bits (176), Expect = 6e-15
Identities = 69/234 (29%), Positives = 104/234 (44%), Gaps = 19/234 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEG--ESVAK--ELGPDVKFAPVDVTS 61
+ LVTGG+ G+G+AT + +EG V + E V + G D++
Sbjct: 3 IALVTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGGKAFVLQADISD 62
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGT 119
E V L VN AGI + + TV +L + R+L N G
Sbjct: 63 ENQVVAMFTAIDQHDEPLAALVNNAGIL-------FTQCTVENLTAERINRVLSTNVTGY 115
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQ-VAYSASKSGIVGMTLPMAR 178
F R + + L G G I+N +S A+ G G+ V Y+ASK I +T ++
Sbjct: 116 FLCCR---EAVKRMALKHGGSGGAIVNVSSAASRLGAPGEYVDYAASKGAIDTLTTGLSL 172
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSMLNEKVR-NFLARSIPAPQRLGHPDEFAQLV 231
++A GIRVN + PG T + + E R + + +IP QR G P+E AQ +
Sbjct: 173 EVAAQGIRVNCVRPGFIYTEMHASGGEPGRVDRVKSNIPM-QRGGQPEEVAQAI 225
>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 = 71.8 bits (176), Expect = 6e-15
Identities = 59/245 (24%), Positives = 107/245 (43%), Gaps = 19/245 (7%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
+G V LVTG + G+G A +V+ G +VV C + E++A E P +
Sbjct: 4 WRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGYPTLFPYQC 63
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
D+++EE + + +DV +N AG+ A + T + +K + VN +
Sbjct: 64 DLSNEEQILSMFSAIRTQHQGVDVCINNAGL--ARPEPLLSGKT----EGWKEMFDVNVL 117
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVA--YSASKSGIVGMTLP 175
R + Q + E ++ G IIN S++ + V Y+A+K + +T
Sbjct: 118 ALSICTREAYQSMKERNVD----DGHIININSMSGHRVPPVSVFHFYAATKHAVTALTEG 173
Query: 176 MARDL--AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQS 233
+ ++L A IR +I+PGL +T L++ A + P++ A V
Sbjct: 174 LRQELREAKTHIRATSISPGLVETEFAFKLHDNDPE-KAAATYESIPCLKPEDVANAVLY 232
Query: 234 IITNP 238
+++ P
Sbjct: 233 VLSTP 237
>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 = 70.8 bits (174), Expect = 9e-15
Identities = 59/241 (24%), Positives = 90/241 (37%), Gaps = 24/241 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+TGG SG+G A + + G V++ KEL P++ +DV E V+
Sbjct: 9 LITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKEL-PNIHTIVLDVGDAESVEA 67
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
+ LD+ +N AGI + + LD + N +G RL
Sbjct: 68 LAEALLSEYPNLDILINNAGIQ---RPIDLRDPASD-LDKADTEIDTNLIGPI---RLIK 120
Query: 128 QLI-HENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIR 186
+ H K E I+N +S A+ + Y A+K+ + TL + L G+
Sbjct: 121 AFLPHLKKQPE----ATIVNVSSGLAFVPMAANPVYCATKAALHSYTLALRHQLKDTGVE 176
Query: 187 VNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLINGEVIR 246
V I P DT L R +P DEF V + + E IR
Sbjct: 177 VVEIVPPAVDTELHEERRNPDGGTP-RKMPL-------DEFVDEVVAGLER---GREEIR 225
Query: 247 I 247
+
Sbjct: 226 V 226
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 72.1 bits (177), Expect = 1e-14
Identities = 65/235 (27%), Positives = 93/235 (39%), Gaps = 48/235 (20%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE---LGPDVKFAPVD 58
L G V ++TG +SG+G+AT E R G R+VL ++VA+E LG +V P D
Sbjct: 5 LHGAVVVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRALGAEVLVVPTD 64
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
VT + V+ G++DV VN G V VG
Sbjct: 65 VTDADQVKALATQAASFGGRIDVWVNNVG--------------------------VGAVG 98
Query: 119 TFNVARLSA--QLIHENKLN------------EDGLRGVIINTASIAAYEGQSGQVAYSA 164
F + A Q+I N + + G+ IN S+ + Q AYSA
Sbjct: 99 RFEETPIEAHEQVIQTNLIGYMRDAHAALPIFKKQGHGIFINMISLGGFAAQPYAAAYSA 158
Query: 165 SKSGIVGMTLPMARDLAG-AGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAP 218
SK G+ G + + +LA I V + P DTP N+ R + P
Sbjct: 159 SKFGLRGFSEALRGELADHPDIHVCDVYPAFMDTPGFR----HGANYTGRRLTPP 209
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 70.9 bits (174), Expect = 1e-14
Identities = 48/190 (25%), Positives = 87/190 (45%), Gaps = 17/190 (8%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTG +G G+ R +++G +V+ + + ELG ++ A +DV + +++
Sbjct: 4 LVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELGDNLYIAQLDVRNRAAIEE 63
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTFNVAR- 124
+ + +DV VN AG++ + H S++D++ ++ N G + R
Sbjct: 64 MLASLPAEWRNIDVLVNNAGLALGLE-------PAHKASVEDWETMIDTNNKGLVYMTRA 116
Query: 125 LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
+ ++ N G IIN S A +G Y A+K+ + +L + DL G
Sbjct: 117 VLPGMVERN-------HGHIINIGSTAGSWPYAGGNVYGATKAFVRQFSLNLRTDLHGTA 169
Query: 185 IRVNTIAPGL 194
+RV I PGL
Sbjct: 170 VRVTDIEPGL 179
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 69.8 bits (171), Expect = 3e-14
Identities = 75/277 (27%), Positives = 108/277 (38%), Gaps = 67/277 (24%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
++TG ASG+G AT E + G V+ DL E + +A D+++ E
Sbjct: 3 VITGAASGIGAATAELLEDAGHTVIGIDL--READVIA------------DLSTPEGRAA 48
Query: 68 AVL-LCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLS 126
A+ + G LD VNCAG+ GT + +L VN G A +
Sbjct: 49 AIADVLARCSGVLDGLVNCAGVG----------GTTVAGL----VLKVNYFGL--RALME 92
Query: 127 AQLIHENKLNEDGLRGVIINTASIAAYE---------------------------GQSGQ 159
A L G + +SIA GQ G
Sbjct: 93 ALL----PRLRKGHGPAAVVVSSIAGAGWAQDKLELAKALAAGTEARAVALAEHAGQPGY 148
Query: 160 VAYSASKSGIVGMTLPMARD-LAGAGIRVNTIAPGLFDTPLLS-MLNEKVRNFLARSIPA 217
+AY+ SK + T A L GAG+RVNT+APG +TP+L L + +
Sbjct: 149 LAYAGSKEALTVWTRRRAATWLYGAGVRVNTVAPGPVETPILQAFLQDPRGGESVDAFVT 208
Query: 218 P-QRLGHPDEFAQLVQSIIT--NPLINGEVIRIDGAL 251
P R PDE A ++ + + ING + +DG L
Sbjct: 209 PMGRRAEPDEIAPVIAFLASDAASWINGANLFVDGGL 245
>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 = 69.6 bits (171), Expect = 5e-14
Identities = 56/213 (26%), Positives = 91/213 (42%), Gaps = 24/213 (11%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKEL----GPDVKFAPV 57
K V L+TG SG G +++ G V+ C G AKEL ++ +
Sbjct: 1 KAV--LITGCDSGFGNLLAKKLDSLGFTVLAGCLTKNGPG---AKELRRVCSDRLRTLQL 55
Query: 58 DVTSEEDVQKAVLLCKDSFGK--LDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVN 115
DVT E +++A K+ G+ L VN AGI F + +DD+++ + VN
Sbjct: 56 DVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAGI-LGFGG----DEELLPMDDYRKCMEVN 110
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
GT V + L+ K G ++N +S+ AY ASK+ + +
Sbjct: 111 LFGTVEVTKAFLPLLRRAK-------GRVVNVSSMGGRVPFPAGGAYCASKAAVEAFSDS 163
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVR 208
+ R+L G++V+ I PG F T + +
Sbjct: 164 LRRELQPWGVKVSIIEPGNFKTGITGNSELWEK 196
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 70.8 bits (174), Expect = 5e-14
Identities = 55/207 (26%), Positives = 81/207 (39%), Gaps = 25/207 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G V L+TG +SG+G+AT ++ G V L + + E+ G D
Sbjct: 369 LVGKVVLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRAKGGTAHAYTCD 428
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD---DFKRILLVN 115
+T V V G +D VN AG S + +S D D++R + VN
Sbjct: 429 LTDSAAVDHTVKDILAEHGHVDYLVNNAGRSI-------RRSVENSTDRFHDYERTMAVN 481
Query: 116 TVGTFNVARLSAQLI---HENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGM 172
G RL L+ E + G ++N +SI AY ASK+ +
Sbjct: 482 YFGA---VRLILGLLPHMRERR------FGHVVNVSSIGVQTNAPRFSAYVASKAALDAF 532
Query: 173 TLPMARDLAGAGIRVNTIAPGLFDTPL 199
+ A + GI TI L TP+
Sbjct: 533 SDVAASETLSDGITFTTIHMPLVRTPM 559
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 69.6 bits (170), Expect = 5e-14
Identities = 65/211 (30%), Positives = 101/211 (47%), Gaps = 21/211 (9%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVT 60
G ++TGGASG+G AT R G RVVL D+ L G DV DV
Sbjct: 6 GRGAVITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGFDVHGVMCDVR 65
Query: 61 SEEDVQKAVLLCKDSF---GKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTV 117
E+V L ++F G +DV + AGI I DD++ ++ V+
Sbjct: 66 HREEVTH---LADEAFRLLGHVDVVFSNAGIVVGGPIVEMTH------DDWRWVIDVDLW 116
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G+ + + A L +L E G G ++ TAS A +G AY +K G+VG+ +A
Sbjct: 117 GSIHT--VEAFL---PRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYGVVGLAETLA 171
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSMLNEKVR 208
R++ GI V+ + P + +T L++ +E++R
Sbjct: 172 REVTADGIGVSVLCPMVVETNLVAN-SERIR 201
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 68.6 bits (168), Expect = 8e-14
Identities = 55/256 (21%), Positives = 105/256 (41%), Gaps = 25/256 (9%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP--DVKFAPVDV 59
LKG + G + GLG A ++EG +V + ++ + + K L ++ + DV
Sbjct: 3 LKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSKYGNIHYVVGDV 62
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
+S E + + +D V G Y + TV + +L +
Sbjct: 63 SSTESARNVIEKAAKVLNAIDGLVVTVG--------GYVEDTVEEFSGLEEMLTNHIKIP 114
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
S + + E +++ ++ Y+ Q++Y+ +K+G+ +A +
Sbjct: 115 LYAVNASLRFLKEGS-------SIVLVSSMSGIYKASPDQLSYAVAKAGLAKAVEILASE 167
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP- 238
L G GIRVN IAP N K R + P++FA+++ ++T+
Sbjct: 168 LLGRGIRVNGIAPTTISGDFEPERNWKK----LRKLGDDM--APPEDFAKVIIWLLTDEA 221
Query: 239 -LINGEVIRIDGALRM 253
++G VI +DG R+
Sbjct: 222 DWVDGVVIPVDGGARL 237
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 68.4 bits (168), Expect = 1e-13
Identities = 60/242 (24%), Positives = 103/242 (42%), Gaps = 30/242 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV--DV 59
LK L+TG + G+G+A E + G R++L + E++A L + V D+
Sbjct: 3 LKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPYPGRHRWVVADL 62
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGT 119
TSE + AVL G ++V +N AG++ F + + +R+L +N
Sbjct: 63 TSEAGRE-AVLARAREMGGINVLINNAGVNH-FALL-----EDQDPEAIERLLALNLTAP 115
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
+ R L+ +++N S G G +Y ASK + G + + R+
Sbjct: 116 MQLTRALLPLLRAQP------SAMVVNVGSTFGSIGYPGYASYCASKFALRGFSEALRRE 169
Query: 180 LAGAGIRVNTIAPGLFDTPLLS----MLNEKVRNFLARSIPAPQRLGHPDEFA-QLVQSI 234
LA G+RV +AP T + S LN + N + P++ A ++Q+I
Sbjct: 170 LADTGVRVLYLAPRATRTAMNSEAVQALNRALGN----------AMDDPEDVAAAVLQAI 219
Query: 235 IT 236
Sbjct: 220 EK 221
>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 = 67.4 bits (165), Expect = 2e-13
Identities = 55/198 (27%), Positives = 86/198 (43%), Gaps = 17/198 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVA----KELGPDVKFAPVDVTS 61
V V G GLG A R EG V L ++ E++ ++ G K P D
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGGSAKAVPTDARD 60
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
E++V L ++ G L+V V AG + F I + F+++ + G F
Sbjct: 61 EDEVIALFDLIEEEIGPLEVLVYNAGANVWFPI------LETTPRVFEKVWEMAAFGGFL 114
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
AR +A+ + RG II T + A+ G++G A++ +K + + MAR+L
Sbjct: 115 AAREAAKRMLARG------RGTIIFTGATASLRGRAGFAAFAGAKFALRALAQSMARELG 168
Query: 182 GAGIRV-NTIAPGLFDTP 198
GI V + I G DT
Sbjct: 169 PKGIHVAHVIIDGGIDTD 186
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 68.0 bits (167), Expect = 2e-13
Identities = 58/196 (29%), Positives = 85/196 (43%), Gaps = 24/196 (12%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAK---ELGPDVKFA-PVDVTSEE 63
L+TG +SG G+A + + G RVV T E+ L PD A +DVT +
Sbjct: 8 LITGVSSGFGRALAQAALAAGHRVVG----TVRSEAARADFEALHPDRALARLLDVTDFD 63
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTFN 121
+ V + +FG +DV VN AG ++G + L + +R VN G
Sbjct: 64 AIDAVVADAEATFGPIDVLVNNAGYG--------HEGAIEESPLAEMRRQFEVNVFGA-- 113
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
VA A L RG I+N S+ G Y SK + G++ +A+++A
Sbjct: 114 VAMTKAVLPGMRARR----RGHIVNITSMGGLITMPGIGYYCGSKFALEGISESLAKEVA 169
Query: 182 GAGIRVNTIAPGLFDT 197
GI V + PG F T
Sbjct: 170 PFGIHVTAVEPGSFRT 185
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 66.5 bits (163), Expect = 4e-13
Identities = 61/253 (24%), Positives = 106/253 (41%), Gaps = 29/253 (11%)
Query: 11 GGASGLGKATVERIVREGGRVVLCDLPTSEG----ESVAKELGPDVKFAPVDVTSEEDVQ 66
+ + A + EG VVL P + + +AKEL DV P+DVTS+ED+
Sbjct: 3 ADDNSIAWAIAKAAAEEGAEVVLTTWPPALRMGAVDELAKELPADVI--PLDVTSDEDID 60
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD----DFKRILLVNTVGTFNV 122
+ K+ GK+D V+ +S + LD F + L ++ ++
Sbjct: 61 ELFEKVKEDGGKIDFLVHSIAMS------PEIRKGKPYLDTSREGFLKALDISAYSFISL 114
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
A+ + + +NE G I+ + IAA G +K+ + + +A +L
Sbjct: 115 AKAA-----KPLMNEG---GSIVALSYIAAERVFPGYGGMGVAKAALESLARYLAYELGR 166
Query: 183 AGIRVNTIAPGLFDTPLLS--MLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN--P 238
GIRVNTI+ G T S +K+ + P R +E A ++++
Sbjct: 167 KGIRVNTISAGPTKTTAGSGIGGFDKMVEYAEEMAPL-GRNASAEEVANAAAFLLSDLAR 225
Query: 239 LINGEVIRIDGAL 251
I G+++ +DG
Sbjct: 226 GITGQILYVDGGF 238
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 66.1 bits (162), Expect = 5e-13
Identities = 60/236 (25%), Positives = 99/236 (41%), Gaps = 31/236 (13%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDV 65
L+TG + G+G A + ++L P + +A EL P PVD+T E +
Sbjct: 5 TALITGASRGIGAAIARELAP-THTLLLGGRPAERLDELAAEL-PGATPFPVDLTDPEAI 62
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGTFNVA 123
AV + G+LDV V+ AG++ + G V D+++ L VN V A
Sbjct: 63 AAAV----EQLGRLDVLVHNAGVA--------DLGPVAESTVDEWRATLEVNVVA---PA 107
Query: 124 RLSAQLIHENKLNEDGLRGVIINT-ASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
L+ L+ L V IN+ A + A G +Y+ASK + + + + G
Sbjct: 108 ELTRLLL--PALRAAHGHVVFINSGAGLRANPGWG---SYAASKFALRALADALREEEPG 162
Query: 183 AGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP 238
+RV ++ PG DT + + P+R P+ A+ V+ + P
Sbjct: 163 N-VRVTSVHPGRTDTDMQ----RGLVAQEGGEY-DPERYLRPETVAKAVRFAVDAP 212
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 66.1 bits (162), Expect = 7e-13
Identities = 62/206 (30%), Positives = 89/206 (43%), Gaps = 31/206 (15%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVT 60
M V LVTG +SG+G+AT E++ R G RV TS + A + P V+ +DVT
Sbjct: 1 MSNSKVALVTGASSGIGRATAEKLARAGYRVF----GTSRNPARAAPI-PGVELLELDVT 55
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVG 118
+ VQ AV G++DV VN AG+ A G S+ + + N G
Sbjct: 56 DDASVQAAVDEVIARAGRIDVLVNNAGVGLA--------GAAEESSIAQAQALFDTNVFG 107
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASI-----AAYEGQSGQVAYSASKSGIVGMT 173
+ R A L H G IIN +S+ A Y Y+ASK + G +
Sbjct: 108 ILRMTR--AVLPHMRAQG----SGRIINISSVLGFLPAPYMA-----LYAASKHAVEGYS 156
Query: 174 LPMARDLAGAGIRVNTIAPGLFDTPL 199
+ ++ GIRV+ + P T
Sbjct: 157 ESLDHEVRQFGIRVSLVEPAYTKTNF 182
>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 = 65.5 bits (160), Expect = 1e-12
Identities = 66/254 (25%), Positives = 109/254 (42%), Gaps = 37/254 (14%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLC-------------DLPTSEGESV--AK 46
L G V VTG + G+G+A R+ + G VV+ LP + E+ +
Sbjct: 1 LSGKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIE 60
Query: 47 ELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD 106
G VDV E+ V+ V D FG+LD+ VN AG + +
Sbjct: 61 AAGGQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGAIWLSLVEDT------PAK 114
Query: 107 DFKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASK 166
F + VN GT+ +++ + + + +G I+N + + G VAY+A K
Sbjct: 115 RFDLMQRVNLRGTYLLSQAALPHMVKAG------QGHILNISPPLSLRPARGDVAYAAGK 168
Query: 167 SGIVGMTLPMARDLAGAGIRVNTIAPG-LFDTPLLSMLNEKVRNFLARSIPAPQRLGHPD 225
+G+ +TL +A +L GI VN++ P +TP + L+ ARS P+
Sbjct: 169 AGMSRLTLGLAAELRRHGIAVNSLWPSTAIETPAATELSGGSDPARARS---------PE 219
Query: 226 EFAQLVQSIITNPL 239
+ V +I++ P
Sbjct: 220 ILSDAVLAILSRPA 233
>gnl|CDD|219957 pfam08659, KR, KR domain. This enzymatic domain is part of
bacterial polyketide synthases and catalyzes the first
step in the reductive modification of the beta-carbonyl
centres in the growing polyketide chain. It uses NADPH
to reduce the keto group to a hydroxy group.
Length = 181
Score = 62.9 bits (154), Expect = 3e-12
Identities = 41/164 (25%), Positives = 66/164 (40%), Gaps = 23/164 (14%)
Query: 8 LVTGGASGLGKATVERIVREGGR-VVLC---DLPTSEGESVAKEL---GPDVKFAPVDVT 60
LVTGG GLG + G R +VL P E E++ EL G +V DV+
Sbjct: 4 LVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAEVTVVACDVS 63
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
+ V+ + + L ++ AG+ + N + +DF R+L G +
Sbjct: 64 DRDAVRALLAEIRADGPPLRGVIHAAGVLRDALLAN------MTAEDFARVLAPKVTGAW 117
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSA 164
N+ + + L ++ +SIA G GQ Y+A
Sbjct: 118 NLHEATR---------DRPLDFFVL-FSSIAGVLGSPGQANYAA 151
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 436
Score = 65.1 bits (159), Expect = 4e-12
Identities = 42/173 (24%), Positives = 78/173 (45%), Gaps = 29/173 (16%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGG-RVVLC--------DLPTSEGESVAKELGPDVK 53
G V LVTGGA G+G+A + R G R+VL + ++ + + LG V
Sbjct: 204 PGGVYLVTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKAQTLAALEALGARVL 263
Query: 54 FAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRI 111
+ DVT V++ + ++ +G +D ++ AG+ + + +DF+ +
Sbjct: 264 YISADVTDAAAVRRLLEKVRERYGAIDGVIHAAGVL--------RDALLAQKTAEDFEAV 315
Query: 112 LLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSA 164
L G N+A+ A + L ++ +S++A+ G +GQ Y+A
Sbjct: 316 LAPKVDGLLNLAQALAD---------EPLDFFVL-FSSVSAFFGGAGQADYAA 358
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 63.2 bits (154), Expect = 6e-12
Identities = 66/275 (24%), Positives = 110/275 (40%), Gaps = 46/275 (16%)
Query: 2 LKGVVGLVTGGA--SGLGKATVERIVREGGRVVL-----------CDLPTSEGESVAKEL 48
L + LVTG + +G+G A R+ +G + + E + +E+
Sbjct: 3 LMKKIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEI 62
Query: 49 G-PDVKFAPVDVT-SEEDVQKAVL-LCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL 105
V+ +++ S+ V + G + +N A S + T L
Sbjct: 63 ESYGVRCEHMEIDLSQPYAPNRVFYAVSERLGDPSILINNAAYSTHT---RLEELTAEQL 119
Query: 106 DDFKRILLVNTVGTFNVARLSAQLIHENKLNEDGLR-GVIINTASIAAYEGQS-----GQ 159
D VN T ++ A+ DG G IIN S GQS +
Sbjct: 120 DKH---YAVNVRATMLLSSAFAK-------QYDGKAGGRIINLTS-----GQSLGPMPDE 164
Query: 160 VAYSASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQ 219
+AY+A+K I T +A +LA GI VN + PG DT + E++++ L P
Sbjct: 165 LAYAATKGAIEAFTKSLAPELAEKGITVNAVNPGPTDT---GWITEELKHHLVPKFPQ-G 220
Query: 220 RLGHPDEFAQLVQSIITN--PLINGEVIRIDGALR 252
R+G P + A+L+ +++ I G+VI +G
Sbjct: 221 RVGEPVDAARLIAFLVSEEAKWITGQVIHSEGGFS 255
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 62.4 bits (151), Expect = 1e-11
Identities = 70/264 (26%), Positives = 113/264 (42%), Gaps = 29/264 (10%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKELGPDVKFA---P 56
MLKG V LVTG + G+G+A +R+ +G V + E E E+ + A
Sbjct: 1 MLKGKVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQSNGGSAFSIG 60
Query: 57 VDVTSEEDVQKAV------LLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKR 110
++ S V+ L + K D+ +N AGI I + T F R
Sbjct: 61 ANLESLHGVEALYSSLDNELQNRTGSTKFDILINNAGIGPGAFI----EETTEQF--FDR 114
Query: 111 ILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIV 170
++ VN F + + + + +N IIN +S A +AYS +K I
Sbjct: 115 MVSVNAKAPFFIIQQALSRLRDNSR--------IINISSAATRISLPDFIAYSMTKGAIN 166
Query: 171 GMTLPMARDLAGAGIRVNTIAPGLFDTPL-LSMLNEKVRNFLARSIPAPQRLGHPDEFAQ 229
MT +A+ L GI VN I PG T + +L++ + A +I A RLG ++ A
Sbjct: 167 TMTFTLAKQLGARGITVNAILPGFIKTDMNAELLSDPMMKQYATTISAFNRLGEVEDIAD 226
Query: 230 LVQSIITNP---LINGEVIRIDGA 250
+ + +P + G++I + G
Sbjct: 227 -TAAFLASPDSRWVTGQLIDVSGG 249
>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 = 61.9 bits (151), Expect = 2e-11
Identities = 49/197 (24%), Positives = 81/197 (41%), Gaps = 19/197 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVL--CDLPTSEGE-SVAKELGPDVKFAPVDVTSEED 64
L+TG + G+G V +++ G V+ C P++ E + + +DVT E
Sbjct: 2 LITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAALGASHSRLHILELDVTDEIA 61
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVAR 124
+ + LDV +N AGI + +Y + +D + VN +G + +
Sbjct: 62 ESAEAVAERLGDAGLDVLINNAGI-----LHSYGPASEVDSEDLLEVFQVNVLGPLLLTQ 116
Query: 125 LSAQLIHENKLNEDGLRGVIINT----ASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
L+ G R IIN SI G +Y ASK+ + +T +A +L
Sbjct: 117 AFLPLL------LKGARAKIINISSRVGSIGD-NTSGGWYSYRASKAALNMLTKSLAVEL 169
Query: 181 AGAGIRVNTIAPGLFDT 197
GI V ++ PG T
Sbjct: 170 KRDGITVVSLHPGWVRT 186
>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 = 61.8 bits (150), Expect = 2e-11
Identities = 43/204 (21%), Positives = 87/204 (42%), Gaps = 17/204 (8%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAP 56
+L + LVTG + G+G+ R G V+L + VA + G ++
Sbjct: 1 LLNDRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFI 60
Query: 57 VDV--TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLV 114
+D+ + E+ Q+ ++ +LD ++ AG+ + + + + ++ + V
Sbjct: 61 LDLLTCTSENCQQLAQRIAVNYPRLDGVLHNAGL-----LGDVCPLSEQNPQVWQDVXQV 115
Query: 115 NTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTL 174
N TF + + L+ ++ G ++ T+S +G++ AY+ SK G+
Sbjct: 116 NVNATFMLTQALLPLL---LKSDAG---SLVFTSSSVGRQGRANWGAYAVSKFATEGLXQ 169
Query: 175 PMARDLAGAGIRVNTIAPGLFDTP 198
+A + +RVN I PG T
Sbjct: 170 VLADEYQQRNLRVNCINPGGTRTA 193
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 62.0 bits (151), Expect = 2e-11
Identities = 54/194 (27%), Positives = 84/194 (43%), Gaps = 16/194 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDV 65
V +TG + G G+A E + G RVV T+ +A++ G + +DVT V
Sbjct: 5 VWFITGASRGFGRAWTEAALERGDRVVATARDTATLADLAEKYGDRLLPLALDVTDRAAV 64
Query: 66 QKAVLLCKDSFGKLDVNVNCAGI--SCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
AV + FG+LD+ VN AG + + + + + N G V
Sbjct: 65 FAAVETAVEHFGRLDIVVNNAGYGLFGMIEEV--------TESEARAQIDTNFFGALWVT 116
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGA 183
+ A L + L E G II +SI Y ASK + GM+ +A+++A
Sbjct: 117 Q--AVLPY---LREQR-SGHIIQISSIGGISAFPMSGIYHASKWALEGMSEALAQEVAEF 170
Query: 184 GIRVNTIAPGLFDT 197
GI+V + PG + T
Sbjct: 171 GIKVTLVEPGGYST 184
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 61.9 bits (151), Expect = 2e-11
Identities = 62/254 (24%), Positives = 106/254 (41%), Gaps = 32/254 (12%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRV-VLCDLPTSEGESVAKELGPDVKFAPV---DVTS 61
LVTG A +G+A + G V V + E E++A E+ + A D+
Sbjct: 11 AALVTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRALGRRAVALQADLAD 70
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
E +V+ V + G + + VN A +F Y+ + + R + N F
Sbjct: 71 EAEVRALVARASAALGPITLLVNNA------SLFEYDSAASFTRASWDRHMATNLRAPFV 124
Query: 122 VAR-LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
+A+ + L RG+++N + ++Y+ SK+ + T +A+ L
Sbjct: 125 LAQAFARAL-------PADARGLVVNMIDQRVWNLNPDFLSYTLSKAALWTATRTLAQAL 177
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLA--RSIPAPQRLGH---PDEFAQLVQSII 235
A IRVN I PG P L + +F + P LG P+E A V+ ++
Sbjct: 178 APR-IRVNAIGPG----PTLPSGRQSPEDFARQHAATP----LGRGSTPEEIAAAVRYLL 228
Query: 236 TNPLINGEVIRIDG 249
P + G++I +DG
Sbjct: 229 DAPSVTGQMIAVDG 242
>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 = 60.5 bits (147), Expect = 5e-11
Identities = 51/194 (26%), Positives = 82/194 (42%), Gaps = 11/194 (5%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+TGGASG+G A +R + G V++C E P++ DV + ++
Sbjct: 9 LITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKAEN-PEIHTEVCDVADRDSRRE 67
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
V K + L+V +N AGI + LDD ++ + N + RL+A
Sbjct: 68 LVEWLKKEYPNLNVLINNAGIQRNEDLTGAED----LLDDAEQEIATNLLAPI---RLTA 120
Query: 128 QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRV 187
L+ + IIN +S A+ + Y A+K+ I TL + L + V
Sbjct: 121 LLLPHLLRQPEAT---IINVSSGLAFVPMASTPVYCATKAAIHSYTLALREQLKDTSVEV 177
Query: 188 NTIAPGLFDTPLLS 201
+AP L DT +
Sbjct: 178 IELAPPLVDTTEGN 191
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 60.4 bits (147), Expect = 6e-11
Identities = 64/253 (25%), Positives = 113/253 (44%), Gaps = 28/253 (11%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTSEED 64
+V GG SG+ + R G V + + ++ +L GP+ DV
Sbjct: 13 VVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQQAGPEGLGVSADVRDYAA 72
Query: 65 VQKAVLLCKDSFGKLDVNVNCAG---ISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
V+ A D FG +DV V+ A + A + S + FK ++ ++ +GTFN
Sbjct: 73 VEAAFAQIADEFGPIDVLVSGAAGNFPAPAAGM---------SANGFKTVVDIDLLGTFN 123
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLA 181
V + + L L G II ++ A+ Q A+K+G+ +T +A +
Sbjct: 124 VLKAAYPL-----LRRPG--ASIIQISAPQAFVPMPMQAHVCAAKAGVDMLTRTLALEWG 176
Query: 182 GAGIRVNTIAPG-LFDTPLLSML--NEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN- 237
GIRVN+I PG + T ++ L + +++ +A+S+P +R G + A + ++
Sbjct: 177 PEGIRVNSIVPGPIAGTEGMARLAPSPELQAAVAQSVPL-KRNGTKQDIANAALFLASDM 235
Query: 238 -PLINGEVIRIDG 249
I G V+ +DG
Sbjct: 236 ASYITGVVLPVDG 248
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 60.4 bits (147), Expect = 7e-11
Identities = 59/254 (23%), Positives = 108/254 (42%), Gaps = 36/254 (14%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVV--LCDLPTSEG-ESVAKELGP--DVKFAPVDVT 60
+ +VTG +SG G T + ++G V+ + + E S A +L ++K +DVT
Sbjct: 5 IAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQNIKVQQLDVT 64
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVG 118
+ + L+ K G++D+ VN AG + N G V ++++++ N G
Sbjct: 65 DQNSIHNFQLVLK-EIGRIDLLVNNAGYA--------NGGFVEEIPVEEYRKQFETNVFG 115
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+V + + + K G IIN +SI+ G G Y +SK + G + +
Sbjct: 116 AISVTQAVLPYMRKQK------SGKIINISSISGRVGFPGLSPYVSSKYALEGFSESLRL 169
Query: 179 DLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRL--------------GHP 224
+L GI V I PG ++T + + + N + P + + G+P
Sbjct: 170 ELKPFGIDVALIEPGSYNTNIWEVGKQLAENQSETTSPYKEYMKKIQKHINSGSDTFGNP 229
Query: 225 DEFAQLVQSIITNP 238
+ A L+ I +
Sbjct: 230 IDVANLIVEIAESK 243
>gnl|CDD|212495 cd09807, retinol-DH_like_SDR_c, retinol dehydrogenases
(retinol-DHs), classical (c) SDRs. Classical SDR-like
subgroup containing retinol-DHs and related proteins.
Retinol is processed by a medium chain alcohol
dehydrogenase followed by retinol-DHs. Proteins in this
subfamily share the glycine-rich NAD-binding motif of
the classical SDRs, have a partial match to the
canonical active site tetrad, but lack the typical
active site Ser. This subgroup includes the human
proteins: retinol dehydrogenase -12, -13 ,and -14. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 274
Score = 60.6 bits (147), Expect = 8e-11
Identities = 56/216 (25%), Positives = 90/216 (41%), Gaps = 37/216 (17%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV-----D 58
G ++TG +G+GK T + R G RV++ ++ E A E+ D V D
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNHEVIVRHLD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGI-SCAFKIFNYNKGTVHSL--DDFKRILLVN 115
+ S + ++ +LDV +N AG+ C +S D F+ VN
Sbjct: 61 LASLKSIRAFAAEFLAEEDRLDVLINNAGVMRCP-----------YSKTEDGFEMQFGVN 109
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQ------------SGQVAYS 163
+G F + L L+ ++ + I+N +S+A G+ + AY
Sbjct: 110 HLGHFLLTNLLLDLLKKSAPSR------IVNVSSLAHKAGKINFDDLNSEKSYNTGFAYC 163
Query: 164 ASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPL 199
SK V T +AR L G G+ VN + PG+ T L
Sbjct: 164 QSKLANVLFTRELARRLQGTGVTVNALHPGVVRTEL 199
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 60.5 bits (147), Expect = 8e-11
Identities = 51/208 (24%), Positives = 88/208 (42%), Gaps = 22/208 (10%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVD 58
L G L+TG +SG+G+A E+ R G VV ++VA + G D P D
Sbjct: 38 LTGKRILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRITRAGGDAMAVPCD 97
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLD---DFKRILLVN 115
++ + V V + G +D+ +N AG S + SLD D +R +++N
Sbjct: 98 LSDLDAVDALVADVEKRIGGVDILINNAGRSI-------RRPLAESLDRWHDVERTMVLN 150
Query: 116 TVGTFNVAR-LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQV-AYSASKSGIVGMT 173
+ R L+ ++ G IIN A+ S Y+ASK+ + ++
Sbjct: 151 YYAPLRLIRGLAPGMLERGD-------GHIINVATWGVLSEASPLFSVYNASKAALSAVS 203
Query: 174 LPMARDLAGAGIRVNTIAPGLFDTPLLS 201
+ + G+ T+ L TP+++
Sbjct: 204 RVIETEWGDRGVHSTTLYYPLVATPMIA 231
>gnl|CDD|212497 cd11731, Lin1944_like_SDR_c, Lin1944 and related proteins,
classical (c) SDRs. Lin1944 protein from Listeria
Innocua is a classical SDR, it contains a glycine-rich
motif similar to the canonical motif of the SDR
NAD(P)-binding site. However, the typical SDR active
site residues are absent in this subgroup of proteins of
undetermined function. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 198
Score = 57.6 bits (140), Expect = 3e-10
Identities = 49/241 (20%), Positives = 83/241 (34%), Gaps = 44/241 (18%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
+V G +G A + + G V+ G VD+T E ++
Sbjct: 2 IVIGATGTIGLAVAQLLSAHGHEVIT--------------AGRSSGDYQVDITDEASIKA 47
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
+ G D V+ AG F + DF+R L +G N+ R
Sbjct: 48 LF----EKVGHFDAIVSTAG-DAEFAPLAE-----LTDADFQRGLNSKLLGQINLVRHGL 97
Query: 128 QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRV 187
+++ G I T+ I A G A + + G A +L GIR+
Sbjct: 98 PYLNDG--------GSITLTSGILAQRPIPGGAAAATVNGALEGFVRAAAIELP-RGIRI 148
Query: 188 NTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLINGEVIRI 247
N ++PG+ + L E +F P P ++ A+ + G+V+ +
Sbjct: 149 NAVSPGVVEESL-----EAYGDFFPGFEPVP-----AEDVAKAYVRSVEGA-FTGQVLHV 197
Query: 248 D 248
D
Sbjct: 198 D 198
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 58.2 bits (141), Expect = 5e-10
Identities = 50/191 (26%), Positives = 87/191 (45%), Gaps = 19/191 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFA---PVDVTSEED 64
LV G +SG+G AT + G V L + E + ++ D A P+DVT +
Sbjct: 14 LVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRADGGEAVAFPLDVTDPDS 73
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTFNV 122
V+ V +++ G+++V V+ AG + G +H S + F+ + ++ VG +
Sbjct: 74 VKSFVAQAEEALGEIEVLVSGAG--------DTYFGKLHEISTEQFESQVQIHLVGANRL 125
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
A + E + RG +I S A + AY A+K+G+ M + +L G
Sbjct: 126 ATAVLPGMIERR------RGDLIFVGSDVALRQRPHMGAYGAAKAGLEAMVTNLQMELEG 179
Query: 183 AGIRVNTIAPG 193
G+R + + PG
Sbjct: 180 TGVRASIVHPG 190
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 57.6 bits (140), Expect = 5e-10
Identities = 57/209 (27%), Positives = 89/209 (42%), Gaps = 24/209 (11%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFA--PVDVTSE 62
L+TG +SGLG +G + LC T E + EL P +K A +DV
Sbjct: 6 LITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAELLARYPGIKVAVAALDVNDH 65
Query: 63 EDVQKAVLLCKDSFGKLD-VNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ V + +D G LD V VN AGI ++ GT K N V
Sbjct: 66 DQVFEVFAEFRDELGGLDRVIVN-AGIGKGARL-----GTGK-FWANKATAETNFVAALA 118
Query: 122 VARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQV-AYSASKSGIVGMTLPMARDL 180
+ ++ E G ++ +S++A G G AY+ASK+G+ + + +L
Sbjct: 119 QCEAAMEIFREQG------SGHLVLISSVSAVRGLPGVKAAYAASKAGVASLGEGLRAEL 172
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRN 209
A I+V+TI PG + +N K ++
Sbjct: 173 AKTPIKVSTIEPGYIRSE----MNAKAKS 197
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 57.1 bits (138), Expect = 8e-10
Identities = 53/205 (25%), Positives = 91/205 (44%), Gaps = 23/205 (11%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV---- 57
LKG V L+ GGA LG + +G + V ++ ++ A+E VK A
Sbjct: 6 LKGKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADAEETVAAVKAAGAKAVA 65
Query: 58 ---DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH-SLDDFKRILL 113
D+T+ V+K K +FG+ D+ +N G K+ K V S ++ +
Sbjct: 66 FQADLTTAAAVEKLFDDAKAAFGRPDIAINTVG-----KVL--KKPIVEISEAEYDEMFA 118
Query: 114 VNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMT 173
VN+ F + + + LN++G + V + T+ + A+ AY+ SK+ + T
Sbjct: 119 VNSKSAFFFIKEAGR-----HLNDNG-KIVTLVTSLLGAFTP--FYSAYAGSKAPVEHFT 170
Query: 174 LPMARDLAGAGIRVNTIAPGLFDTP 198
+++ GI V + PG DTP
Sbjct: 171 RAASKEFGARGISVTAVGPGPMDTP 195
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 57.2 bits (139), Expect = 1e-09
Identities = 57/220 (25%), Positives = 89/220 (40%), Gaps = 58/220 (26%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLC--------DLPTSEGESVAKEL---GP 50
L G +TG + G+G A R R+G +V+ LP + + A+E+ G
Sbjct: 4 LSGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTI-HTAAEEIEAAG- 61
Query: 51 DVKFAPV--DVTSEEDVQKAVLLCKDSFGKLDVNVNCAG-ISCAFKIFNYNKGTVHSLDD 107
+ P+ DV E+ V AV + FG +D+ VN A I+ GT +
Sbjct: 62 -GQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNASAINLT--------GTEDT--P 110
Query: 108 FKRILL---VNTVGTFNVARLSAQLIHENKLNEDGLRG------------VIINTASIAA 152
KR L +N GTF V++ A L H L+ + ++ A
Sbjct: 111 MKRFDLMQQINVRGTFLVSQ--ACLPH--------LKKSENPHILTLSPPLNLDPKWFAP 160
Query: 153 YEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRVNTIAP 192
+ AY+ +K G+ TL +A + GI VN + P
Sbjct: 161 H------TAYTMAKYGMSLCTLGLAEEFRDDGIAVNALWP 194
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 56.1 bits (136), Expect = 2e-09
Identities = 62/203 (30%), Positives = 89/203 (43%), Gaps = 35/203 (17%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDV 65
V LVTG +SG+GKAT R+ +G V + E +A LG V +DVT E +
Sbjct: 5 VALVTGASSGIGKATARRLAAQGYTVYGAARRVDKMEDLA-SLG--VHPLSLDVTDEASI 61
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNTVGTFNVA 123
+ AV G++DV VN AG G + +D+ +R VN F A
Sbjct: 62 KAAVDTIIAEEGRIDVLVNNAGYGSY--------GAIEDVPIDEARRQFEVN---LFGAA 110
Query: 124 RLSAQLI--HENKLNEDGLRGVIINTASIAAYEGQSGQVA------YSASKSGIVGMTLP 175
RL+ QL+ H G IIN +S+ G++ Y A+K + G +
Sbjct: 111 RLT-QLVLPHMRAQR----SGRIINISSMG------GKIYTPLGAWYHATKFALEGFSDA 159
Query: 176 MARDLAGAGIRVNTIAPGLFDTP 198
+ ++A GI V I PG T
Sbjct: 160 LRLEVAPFGIDVVVIEPGGIKTE 182
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 55.1 bits (133), Expect = 5e-09
Identities = 65/269 (24%), Positives = 106/269 (39%), Gaps = 45/269 (16%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTS-EGESVAKE---LGPDVKFAP 56
+ G V LVTG + G+GKA R+ EG + + + E A+E LG
Sbjct: 1 VFSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEALGRKALAVK 60
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
+V E +++ + FG+LDV VN N G + + + +
Sbjct: 61 ANVGDVEKIKEMFAQIDEEFGRLDVFVN-----------NAASGVL------RPAMELEE 103
Query: 117 VG---TFNVARLS----AQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGI 169
T N+ + AQ KL E G II+ +S+ + SK+ +
Sbjct: 104 SHWDWTMNINAKALLFCAQ--EAAKLMEKVGGGKIISLSSLGSIRYLENYTTVGVSKAAL 161
Query: 170 VGMTLPMARDLAGAGIRVNTIAPGLFDTPLLS-------MLNEKVRNFLARSIPAPQRLG 222
+T +A +LA GI VN ++ G DT L +L + A R+
Sbjct: 162 EALTRYLAVELAPKGIAVNAVSGGAVDTDALKHFPNREELLEDARAKTPA------GRMV 215
Query: 223 HPDEFAQLVQSIITNP--LINGEVIRIDG 249
P++ A V + + +I G+ I +DG
Sbjct: 216 EPEDVANAVLFLCSPEADMIRGQTIIVDG 244
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 54.6 bits (132), Expect = 6e-09
Identities = 46/200 (23%), Positives = 81/200 (40%), Gaps = 35/200 (17%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESV---AKELGPDVKFAPVDVTSEED 64
L+TG SG G+ R+ R+G V+ + ++ A G ++ +D+T D
Sbjct: 6 LITGAGSGFGREVALRLARKGHNVIAGVQIAPQVTALRAEAARRGLALRVEKLDLTDAID 65
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHS--LDDFKRILLVNTVGTFNV 122
+A +DV +N AGI A G V ++ + + N G +
Sbjct: 66 RAQAAEW------DVDVLLNNAGIGEA--------GAVVDIPVELVRELFETNVFGPLEL 111
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIA-----AYEGQSGQVAYSASKSGIVGMTLPMA 177
+ + + +G ++ T+S+A + G AY ASK + + M
Sbjct: 112 TQGFVRKMVARG------KGKVVFTSSMAGLITGPFTG-----AYCASKHALEAIAEAMH 160
Query: 178 RDLAGAGIRVNTIAPGLFDT 197
+L GI+V T+ PG + T
Sbjct: 161 AELKPFGIQVATVNPGPYLT 180
>gnl|CDD|131732 TIGR02685, pter_reduc_Leis, pteridine reductase. Pteridine
reductase is an enzyme used by trypanosomatids
(including Trypanosoma cruzi and Leishmania major) to
obtain reduced pteridines by salvage rather than
biosynthetic pathways. Enzymes in T. cruzi described as
pteridine reductase 1 (PTR1) and pteridine reductase 2
(PTR2) have different activity profiles. PTR1 is more
active with with fully oxidized biopterin and folate
than with reduced forms, while PTR2 reduces
dihydrobiopterin and dihydrofolate but not oxidized
pteridines. T. cruzi PTR1 and PTR2 are more similar to
each other in sequence than either is to the pteridine
reductase of Leishmania major, and all are included in
this family.
Length = 267
Score = 54.2 bits (130), Expect = 1e-08
Identities = 60/268 (22%), Positives = 105/268 (39%), Gaps = 24/268 (8%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDV 65
+VTG A +G + + +EG RVVL S + + + VT + D+
Sbjct: 3 AAVVTGAAKRIGSSIAVALHQEGYRVVL-HYHRSAAAASTLAAELNARRPNSAVTCQADL 61
Query: 66 QKAVLL----------CKDSFGKLDVNVNCAGISCAFKIF-------NYNKGTVHSLDDF 108
+ L C +FG+ DV VN A + +K ++
Sbjct: 62 SNSATLFSRCEAIIDACFRAFGRCDVLVNNASAFYPTPLLRGDAGEGVGDKKSLEV--QV 119
Query: 109 KRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSG 168
+ N + + + + AQ + + I+N + G Y+ +K
Sbjct: 120 AELFGSNAIAPYFLIKAFAQRQAGTRAEQRSTNLSIVNLCDAMTDQPLLGFTMYTMAKHA 179
Query: 169 IVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFA 228
+ G+T A +LA IRVN +APGL P + +V+ R +P QR ++ A
Sbjct: 180 LEGLTRSAALELAPLQIRVNGVAPGLSLLP--DAMPFEVQEDYRRKVPLGQREASAEQIA 237
Query: 229 QLVQSIITNP--LINGEVIRIDGALRMI 254
+V +++ I G I++DG L +
Sbjct: 238 DVVIFLVSPKAKYITGTCIKVDGGLSLT 265
>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 = 53.4 bits (129), Expect = 2e-08
Identities = 50/198 (25%), Positives = 87/198 (43%), Gaps = 31/198 (15%)
Query: 9 VTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPVDVTSEED 64
VTG G+GKA E + + G V+L + ++VAKE+ G + K D ++ +D
Sbjct: 6 VTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEEKYGVETKTIAADFSAGDD 65
Query: 65 VQKAVLLCKDSFGKLDVN--VNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+ + + + LD+ VN GIS + + D+ + I+ VN + T +
Sbjct: 66 IYERI---EKELEGLDIGILVNNVGISHSIPEYFLET----PEDELQDIINVNVMATLKM 118
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQV------AYSASKSGIVGMTLPM 176
RL + + K +G I+N +S A G + YSASK+ + + +
Sbjct: 119 TRLILPGMVKRK------KGAIVNISSFA------GLIPTPLLATYSASKAFLDFFSRAL 166
Query: 177 ARDLAGAGIRVNTIAPGL 194
+ GI V ++ P L
Sbjct: 167 YEEYKSQGIDVQSLLPYL 184
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 52.9 bits (127), Expect = 2e-08
Identities = 50/202 (24%), Positives = 77/202 (38%), Gaps = 38/202 (18%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG---PDVKFAPVDVTSEED 64
L+TG SG+GK ++G +V+ C +SV EL ++ DVT
Sbjct: 5 LITGATSGIGKQLALDYAKQGWQVIAC----GRNQSVLDELHTQSANIFTLAFDVTDHPG 60
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-------FKRILLVNTV 117
+ A+ + + +++ +N G +DD R+ VN +
Sbjct: 61 TKAAL----------------SQLPFIPELWIFNAGDCEYMDDGKVDATLMARVFNVNVL 104
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
G N + G R VI+ SIA+ AY ASK+ + +
Sbjct: 105 GVANCIEGIQPHL------SCGHRVVIV--GSIASELALPRAEAYGASKAAVAYFARTLQ 156
Query: 178 RDLAGAGIRVNTIAPGLFDTPL 199
DL GI V T+ PG TPL
Sbjct: 157 LDLRPKGIEVVTVFPGFVATPL 178
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 53.2 bits (128), Expect = 3e-08
Identities = 59/207 (28%), Positives = 86/207 (41%), Gaps = 46/207 (22%)
Query: 8 LVTGGASGLGKATVERIVREGGRVV--------LCDLPTSEGESVAKELGPDVKFAPVDV 59
+TG +SG G+ ER++ G RV L DL G+ + +DV
Sbjct: 6 FITGASSGFGRGMTERLLARGDRVAATVRRPDALDDLKARYGDR--------LWVLQLDV 57
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVNTV 117
T V+ V + G++DV V+ AG + +F G L D +R + N +
Sbjct: 58 TDSAAVRAVVDRAFAALGRIDVVVSNAG----YGLF----GAAEELSDAQIRRQIDTNLI 109
Query: 118 GTFNVARLSAQLIHENKLNEDGLR----GVIINTASI---AAYEGQSGQVAYSASKSGIV 170
G+ V R A L H LR G I+ +S AY G S Y A+K GI
Sbjct: 110 GSIQVIR--AALPH--------LRRQGGGRIVQVSSEGGQIAYPGFS---LYHATKWGIE 156
Query: 171 GMTLPMARDLAGAGIRVNTIAPGLFDT 197
G +A+++A GI + PG T
Sbjct: 157 GFVEAVAQEVAPFGIEFTIVEPGPART 183
>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 = 51.8 bits (124), Expect = 5e-08
Identities = 53/263 (20%), Positives = 90/263 (34%), Gaps = 36/263 (13%)
Query: 5 VVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAK--ELGPDVKFAPVDVTSE 62
+ LVT G A+ E + +G VV D ++ P K SE
Sbjct: 2 SIALVTHARHFAGPASAEALTEDGYTVVCHDASFADAAERQAFESENPGTK-----ALSE 56
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFK-IFNYN----KGTVHSLDDFKRILLVNTV 117
+ ++ V + G +DV V+ I I + + +L L+
Sbjct: 57 QKPEELVDAVLQAGGAIDVLVSNDYIPRPMNPIDGTSEADIRQAFEALS-IFPFALLQAA 115
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
+A++ G II S + + Y +++ V + +A
Sbjct: 116 ----IAQMKKAG-----------GGSIIFITSAVPKKPLAYNSLYGPARAAAVALAESLA 160
Query: 178 RDLAGAGIRVNTIAPGLFDTPL-----LSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQ 232
++L+ I V I P F++P N ++R + R +P RLG PDE LV
Sbjct: 161 KELSRDNILVYAIGPNFFNSPTYFPTSDWENNPELRERVKRDVPL-GRLGRPDEMGALVA 219
Query: 233 SII--TNPLINGEVIRIDGALRM 253
+ I G+ G
Sbjct: 220 FLASRRADPITGQFFAFAGGYLP 242
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to reduce
the keto group to a hydroxy group.
Length = 180
Score = 50.9 bits (123), Expect = 6e-08
Identities = 38/168 (22%), Positives = 62/168 (36%), Gaps = 24/168 (14%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGR-VVLC---DLPTSEGESVAKEL---GPDVKFAP 56
G L+TGG GLG+A + G R +VL ++ EL G V
Sbjct: 1 GTY-LITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVA 59
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNT 116
DV + + + G L ++ AG+ + + + + F +L
Sbjct: 60 CDVADRDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLAS------LTPERFAAVLAPKA 113
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSA 164
G +N+ L+A + L + +SIA G GQ Y+A
Sbjct: 114 AGAWNLHELTA---------DLPLD-FFVLFSSIAGVLGSPGQANYAA 151
>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 = 51.0 bits (122), Expect = 6e-08
Identities = 49/233 (21%), Positives = 80/233 (34%), Gaps = 58/233 (24%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTGG+ G+G A + G VL V S
Sbjct: 2 LVTGGSGGIGGAIARWLASRGSPKVL-------------------------VVS------ 30
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFK--RILLVNTVGTFNVARL 125
+ DV V+ A I + G + L + R + N VGT +
Sbjct: 31 ----------RRDVVVHNAAIL--------DDGRLIDLTGSRIERAIRANVVGTRRLLEA 72
Query: 126 SAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGI 185
+ +L+ +L G I +S+A G G Y+ASK+ + G+ A + G G+
Sbjct: 73 ARELMKAKRL------GRFILISSVAGLFGAPGLGGYAASKAALDGLAQQWASEGWGNGL 126
Query: 186 RVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITNP 238
+A G + ++ L R P+E A+ + + + P
Sbjct: 127 PATAVACGTWAGSGMAKGPVAPEEILGNRRHG-VRTMPPEEVARALLNALDRP 178
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 51.7 bits (124), Expect = 7e-08
Identities = 63/265 (23%), Positives = 112/265 (42%), Gaps = 36/265 (13%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGP--DVKFAPVDVTSEEDV 65
LVT + G+G ++++G RVV+ E KEL +V D++ ++D+
Sbjct: 4 LVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYGEVYAVKADLSDKDDL 63
Query: 66 QKAVLLCKDSFGKLDVNV-NCAGISCAFKIFNYNKGTVHSLD--DFKRILLVNTVGTFNV 122
+ V + G +D V N + C +H D+ L++ V +
Sbjct: 64 KNLVKEAWELLGGIDALVWNAGNVRC-------EPCMLHEAGYSDWLEAALLHLVAPGYL 116
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
L Q E K+ +GV++ +S++ E V +++G+V + ++R G
Sbjct: 117 TTLLIQAWLEKKM-----KGVLVYLSSVSVKEPMPPLVLADVTRAGLVQLAKGVSRTYGG 171
Query: 183 AGIRVNTIAPGLFDTP----LLSMLNEKV---------RNFLARSIPAP-QRLGHPDEFA 228
GIR T+ G FDTP L+ + E+ R L R+ P +R G +E
Sbjct: 172 KGIRAYTVLLGSFDTPGARENLARIAEERGVSFEETWEREVLERT---PLKRTGRWEELG 228
Query: 229 QLVQSIITN--PLINGEVIRIDGAL 251
L+ +++ + G I DGA+
Sbjct: 229 SLIAFLLSENAEYMLGSTIVFDGAM 253
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 51.0 bits (123), Expect = 9e-08
Identities = 50/203 (24%), Positives = 88/203 (43%), Gaps = 27/203 (13%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
LK + LVTG G+G+ R G V+L + E+V E+ GP P+
Sbjct: 10 LKDRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAIIPL 69
Query: 58 DV--TSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV-----HSLDDFKR 110
D+ + ++ Q+ ++ FG+LD ++ AG+ G + + ++
Sbjct: 70 DLLTATPQNYQQLADTIEEQFGRLDGVLHNAGLL----------GELGPMEQQDPEVWQD 119
Query: 111 ILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIV 170
++ VN TF L+ L+ + ++ T+S +G++ AY+ SK
Sbjct: 120 VMQVNVNATF---MLTQALLPLLLKSPAA---SLVFTSSSVGRQGRANWGAYAVSKFATE 173
Query: 171 GMTLPMARDLAGAGIRVNTIAPG 193
GM +A + G +RVN I PG
Sbjct: 174 GMMQVLADEYQGTNLRVNCINPG 196
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 50.2 bits (120), Expect = 2e-07
Identities = 69/271 (25%), Positives = 116/271 (42%), Gaps = 44/271 (16%)
Query: 2 LKGVVGLVTGG--ASGLGKATVERIVREGGRVVLC-------DLP----TSEGESVAKEL 48
LK V +VTG G+G A + + G + ++P E + +EL
Sbjct: 4 LKNKVAVVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQIQLQEEL 63
Query: 49 ---GPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL 105
G V +D+T + ++ + + G + VN A S +++ T L
Sbjct: 64 LKNGVKVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNN---DFSNLTAEEL 120
Query: 106 DDFKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQS-----GQV 160
D + +VN T LS+Q + + G IIN S GQ G++
Sbjct: 121 D---KHYMVNVRATT---LLSSQFA---RGFDKKSGGRIINMTS-----GQFQGPMVGEL 166
Query: 161 AYSASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQR 220
AY+A+K I +T +A ++A GI VN I PG DT + E+++ L P R
Sbjct: 167 AYAATKGAIDALTSSLAAEVAHLGITVNAINPGPTDT---GWMTEEIKQGLLPMFPF-GR 222
Query: 221 LGHPDEFAQLVQSIITN--PLINGEVIRIDG 249
+G P + A+L++ + + I G++I +G
Sbjct: 223 IGEPKDAARLIKFLASEEAEWITGQIIHSEG 253
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 48.4 bits (115), Expect = 4e-07
Identities = 27/102 (26%), Positives = 54/102 (52%), Gaps = 3/102 (2%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKE---LGPDVKFAPVD 58
L G V +VTGG G+G+ T + ++G +V++ D+ G++ +E LG + F D
Sbjct: 14 LAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEITNLGGEALFVSYD 73
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKG 100
+ + D Q+ + + ++F ++D+ AG+ IF+ +
Sbjct: 74 MEKQGDWQRVISITLNAFSRIDMLFQNAGLYKIDSIFSRQQE 115
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 48.4 bits (116), Expect = 7e-07
Identities = 38/128 (29%), Positives = 58/128 (45%), Gaps = 20/128 (15%)
Query: 133 NKLNEDGLRGVIINTASI------AAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIR 186
N ED LRG + I +G +AY+ASK+ + MTL A LA ++
Sbjct: 113 NLALEDLLRGHGHAASDIIHITDYVVEKGSDKHIAYAASKAALDNMTLSFAAKLA-PEVK 171
Query: 187 VNTIAPGLFDTPLLSMLNEK-----VRNFLARSIPAPQRLGHPDEFAQLVQSIITNPLIN 241
VN+IAP L + NE + LA+S+ G +E LV ++T+ +
Sbjct: 172 VNSIAPALI------LFNEGDDAAYRQKALAKSL-LKIEPG-EEEIIDLVDYLLTSCYVT 223
Query: 242 GEVIRIDG 249
G + +DG
Sbjct: 224 GRSLPVDG 231
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 48.8 bits (116), Expect = 7e-07
Identities = 29/121 (23%), Positives = 42/121 (34%), Gaps = 19/121 (15%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTGGA +G VER++ G V D L V+F +D+T + V +
Sbjct: 4 LVTGGAGFIGSHLVERLLAAGHDVRGLDR----LRDGLDPLLSGVEFVVLDLTDRDLVDE 59
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
D ++ A S + D L VN GT N+ +
Sbjct: 60 LAKGVP------DAVIHLAAQS---------SVPDSNASDPAEFLDVNVDGTLNLLEAAR 104
Query: 128 Q 128
Sbjct: 105 A 105
>gnl|CDD|187552 cd05241, 3b-HSD-like_SDR_e, 3beta-hydroxysteroid dehydrogenases
(3b-HSD)-like, extended (e) SDRs. Extended SDR family
domains belonging to this subgroup have the
characteristic active site tetrad and a fairly
well-conserved NAD(P)-binding motif. 3b-HSD catalyzes
the NAD-dependent conversion of various steroids, such
as pregnenolone to progesterone, or androstenediol to
testosterone. This subgroup includes an unusual
bifunctional 3b-HSD/C-4 decarboxylase from Arabidopsis
thaliana, and Saccharomyces cerevisiae ERG26, a
3b-HSD/C-4 decarboxylase, involved in the synthesis of
ergosterol, the major sterol of yeast. It also includes
human 3 beta-HSD/HSD3B1 and C(27) 3beta-HSD/
[3beta-hydroxy-delta(5)-C(27)-steroid oxidoreductase;
HSD3B7]. C(27) 3beta-HSD/HSD3B7 is a membrane-bound
enzyme of the endoplasmic reticulum, that catalyzes the
isomerization and oxidation of 7alpha-hydroxylated
sterol intermediates, an early step in bile acid
biosynthesis. Mutations in the human NSDHL (NAD(P)H
steroid dehydrogenase-like protein) cause CHILD syndrome
(congenital hemidysplasia with ichthyosiform nevus and
limb defects), an X-linked dominant, male-lethal trait.
Mutations in the human gene encoding C(27) 3beta-HSD
underlie a rare autosomal recessive form of neonatal
cholestasis. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase 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 = 331
Score = 48.6 bits (116), Expect = 1e-06
Identities = 30/123 (24%), Positives = 48/123 (39%), Gaps = 22/123 (17%)
Query: 8 LVTGGASGLGKATVERIVREGG-RVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTGG+ G+ V++++ GG V D+ GE+++ P+++F D+T DV+
Sbjct: 3 LVTGGSGFFGERLVKQLLERGGTYVRSFDIAPP-GEALSAWQHPNIEFLKGDITDRNDVE 61
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLS 126
+A +G C F V VN GT NV
Sbjct: 62 QA----------------LSGADCVFHTAAI----VPLAGPRDLYWEVNVGGTQNVLDAC 101
Query: 127 AQL 129
+
Sbjct: 102 QRC 104
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 48.0 bits (114), Expect = 1e-06
Identities = 49/209 (23%), Positives = 82/209 (39%), Gaps = 27/209 (12%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
L LVTG + GLG+ + G V+L + E V + P+
Sbjct: 4 LSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIRF 63
Query: 58 DVTSEEDV---QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLV 114
D+ S E+ Q A + + + GKLD V+CAG A ++ ++ ++ +
Sbjct: 64 DLMSAEEKEFEQFAATIAEATQGKLDGIVHCAGYFYALSPLDF-----QTVAEWVNQYRI 118
Query: 115 NTVGTFNVARLSAQLIHENKLNEDGLRGVII----NTASIAAYEGQSGQVAYSASKSGIV 170
NTV + R L L + VI + + AY G + ASK+ +
Sbjct: 119 NTVAPMGLTRALFPL-----LKQSPDASVIFVGESHGETPKAYWG-----GFGASKAALN 168
Query: 171 GMTLPMARDLAGAG-IRVNTIAPGLFDTP 198
+ A + G +R N + PG ++P
Sbjct: 169 YLCKVAADEWERFGNLRANVLVPGPINSP 197
>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
Length = 275
Score = 47.7 bits (114), Expect = 1e-06
Identities = 69/254 (27%), Positives = 101/254 (39%), Gaps = 47/254 (18%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL---GPDVKFAPVDVTSEED 64
+V GA G+G+A R V G +V+L D E+ AK L G DV VDV+S E
Sbjct: 5 VVVIGAGGIGQAIARR-VGAGKKVLLADYNEENLEAAAKTLREAGFDVSTQEVDVSSRES 63
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCA-------FKIFNYNKGTVHSLDDFKRILLVNTV 117
V+ A+ + G + V+ AG+S + K+ Y GT L++F +++
Sbjct: 64 VK-ALAATAQTLGPVTGLVHTAGVSPSQASPEAILKVDLY--GTALVLEEFGKVIAPGGA 120
Query: 118 G--------------TFNVARLSAQLIHENKLNEDGLR-GVIINTASIAAYEGQSGQVAY 162
G T R A E L+ L+ I ++ AY
Sbjct: 121 GVVIASQSGHRLPALTAEQERALATTPTEELLSLPFLQPDAIEDSL-----------HAY 169
Query: 163 SASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTP-----LLSMLNEKVRNFLARSIPA 217
+K + A G R+N+I+PG+ TP L + RN A+S
Sbjct: 170 QIAKRANALRVMAEAVKWGERGARINSISPGIISTPLAQDELNGPRGDGYRNMFAKS--P 227
Query: 218 PQRLGHPDEFAQLV 231
R G PDE A L
Sbjct: 228 AGRPGTPDEIAALA 241
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 375
Score = 47.8 bits (114), Expect = 2e-06
Identities = 49/215 (22%), Positives = 78/215 (36%), Gaps = 32/215 (14%)
Query: 8 LVTGGASGLGKATVERIVREGGR-VVLCDL--PTSEGESVAKEL---GPDVKFAPVDVTS 61
L+TGG GLG + G R +VL P + A L G V DVT
Sbjct: 154 LITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAGGARVSVVRCDVTD 213
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV--HSLDDFKRILLVNTVGT 119
+ A+L + G L ++ AG+ + + F +L G
Sbjct: 214 PAALA-ALLAELAAGGPLAGVIHAAGV--------LRDALLAELTPAAFAAVLAAKVAGA 264
Query: 120 FNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARD 179
N+ L+ L V+ +S+AA G +GQ AY+A+ + +A
Sbjct: 265 LNLHELTPDL--------PLDFFVL--FSSVAALLGGAGQAAYAAANA----FLDALAAQ 310
Query: 180 LAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARS 214
G+ ++ G + + +R LARS
Sbjct: 311 RRRRGLPATSVQWGAWAGGGM-AAAAALRARLARS 344
>gnl|CDD|187663 cd09762, HSDL2_SDR_c, human hydroxysteroid dehydrogenase-like
protein 2 (HSDL2), classical (c) SDRs. This subgroup
includes human HSDL2 and related protens. These are
members of the classical SDR family, with a canonical
Gly-rich NAD-binding motif and the typical YXXXK active
site motif. However, the rest of the catalytic tetrad is
not strongly conserved. HSDL2 may play a part in fatty
acid metabolism, as it is found in peroxisomes. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 46.3 bits (110), Expect = 4e-06
Identities = 66/254 (25%), Positives = 101/254 (39%), Gaps = 42/254 (16%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGE--------SVAKEL---GP 50
L G +TG + G+GKA + R+G VV+ T+E + A+E+ G
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIA-AKTAEPHPKLPGTIYTAAEEIEAAGG 59
Query: 51 DVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCA-GISCAFKIFNYNKGTVHSLDDFK 109
VD+ E+ V+ AV + FG +D+ VN A IS GT+ + K
Sbjct: 60 KALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNASAISLT--------GTLDT--PMK 109
Query: 110 RILL---VNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQ--SGQVAYSA 164
R L VNT GT+ ++ A L + K I+N + + AY+
Sbjct: 110 RYDLMMGVNTRGTYLCSK--ACLPYLKKSKNPH----ILNLSPPLNLNPKWFKNHTAYTM 163
Query: 165 SKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHP 224
+K G+ L MA + GI VN + P + + N L A P
Sbjct: 164 AKYGMSMCVLGMAEEFKPGGIAVNALWP-------RTAIATAAMNMLGGVDVA-ACCRKP 215
Query: 225 DEFAQLVQSIITNP 238
+ A +I+T P
Sbjct: 216 EIMADAAYAILTKP 229
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 46.2 bits (110), Expect = 6e-06
Identities = 23/87 (26%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
L G +VTGG SGLG T + + G V++ + V+ +D+
Sbjct: 24 LSGKTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGI-DGVEVVMLDLAD 82
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGI 88
E V+ DS ++D+ +N AG+
Sbjct: 83 LESVRAFAERFLDSGRRIDILINNAGV 109
>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 = 45.5 bits (108), Expect = 7e-06
Identities = 53/219 (24%), Positives = 87/219 (39%), Gaps = 29/219 (13%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREG------GRVVLCDLPTSEGESVAKELGPDVKFA 55
L G + LVTG + G+G+ ++ G GR +L LP + E + G
Sbjct: 1 LSGKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEE--IEARGGKCIPV 58
Query: 56 PVDVTSEEDVQKAV-LLCKDSFGKLDVNVNCAGISCAFKIFNYNKG----TVHSLDDFKR 110
D + +++V+ + ++ G+LD+ VN A + + K DD
Sbjct: 59 RCDHSDDDEVEALFERVAREQQGRLDILVNNAYAAVQLILVGVAKPFWEEPPTIWDD--- 115
Query: 111 ILLVNTVGTFNVARLSAQLI---HENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKS 167
+N VG L A + L +G+I+ +S E VAY K+
Sbjct: 116 ---INNVG------LRAHYACSVYAAPLMVKAGKGLIVIISSTGGLEYLF-NVAYGVGKA 165
Query: 168 GIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNEK 206
I M MA +L G+ V ++ PG T L+ + E
Sbjct: 166 AIDRMAADMAHELKPHGVAVVSLWPGFVRTELVLEMPED 204
>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 = 45.3 bits (107), Expect = 9e-06
Identities = 44/217 (20%), Positives = 83/217 (38%), Gaps = 26/217 (11%)
Query: 5 VVGLVTGGASGLGKATVERIVR----EGGRVVLCD-----LPTSEGESVAKELGPDVKFA 55
V LVTG + G G+ + + + G +VL L + E A+ G V
Sbjct: 1 AVCLVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRVVRV 60
Query: 56 PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH-------SLDDF 108
+D+ +E ++ L G+ + N GT+ L D
Sbjct: 61 SLDLGAEAGLE-------QLLKALRELPRPKGLQRL--LLINNAGTLGDVSKGFVDLSDS 111
Query: 109 KRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSG 168
++ + ++ L++ ++ K + GL ++N +S+ A + G Y A K+
Sbjct: 112 TQVQNYWALNLTSMLCLTSSVLKAFK-DSPGLNRTVVNISSLCAIQPFKGWALYCAGKAA 170
Query: 169 IVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLNE 205
+ +A + +RV APG+ DT + + E
Sbjct: 171 RDMLFQVLALEEKNPNVRVLNYAPGVLDTDMQQQVRE 207
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase (ENR),
divergent SDR. This bacterial subgroup of ENRs includes
Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the typical
Gly-rich NAD-binding pattern. Such so-called divergent
SDRs have a GXXXXXSXA NAD-binding motif and a YXXMXXXK
(or YXXXMXXXK) active site motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 44.9 bits (107), Expect = 1e-05
Identities = 47/203 (23%), Positives = 82/203 (40%), Gaps = 31/203 (15%)
Query: 4 GVVGLVTGGAS--GLGKATVERIVREGGRVVLCDLPTS---EGESVAKELGPDVKFAPVD 58
G L+TG A+ + + + G + P + E +A+ LG P D
Sbjct: 1 GKRILITGIANDRSIAWGIAKALHEAGAELAFTYQPEALRKRVEKLAERLGESALVLPCD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH--SLDDFKRILLVNT 116
V+++E++++ K +GKLD V+ S AF KG S F + L ++
Sbjct: 61 VSNDEEIKELFAEVKKDWGKLDGLVH----SIAFAPKVQLKGPFLDTSRKGFLKALDISA 116
Query: 117 VGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAA------YEGQSGQVAYSASKSGIV 170
++A+ + G G I+ + + + Y VA +A +S +
Sbjct: 117 YSLVSLAK------AALPIMNPG--GSIVTLSYLGSERVVPGYNVMG--VAKAALESSVR 166
Query: 171 GMTLPMARDLAGAGIRVNTIAPG 193
+A +L GIRVN I+ G
Sbjct: 167 ----YLAYELGRKGIRVNAISAG 185
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 44.5 bits (105), Expect = 2e-05
Identities = 69/277 (24%), Positives = 113/277 (40%), Gaps = 55/277 (19%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSE------GESVAKELGPDVKFA 55
L G + T + G+G + R G V+L L +E E + E DV +
Sbjct: 6 LSGKLAFTTASSKGIGFGVARVLARAGADVIL--LSRNEENLKKAREKIKSESNVDVSYI 63
Query: 56 PVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH-------SLDDF 108
D+T ED+++ V K+ G+ D IF ++ G S++D+
Sbjct: 64 VADLTKREDLERTVKELKN-IGEPD-------------IFFFSTGGPKPGYFMEMSMEDW 109
Query: 109 K---RILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSAS 165
+ ++LL V L+ L+ + G G II + S+A E +
Sbjct: 110 EGAVKLLLYPAV------YLTRALV--PAMERKGF-GRIIYSTSVAIKEPIPNIALSNVV 160
Query: 166 KSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLN-----------EKVRNFLARS 214
+ + G+ +A++L GI VN I PG+ T + L E+ A+
Sbjct: 161 RISMAGLVRTLAKELGPKGITVNGIMPGIIRTDRVIQLAQDRAKREGKSVEEALQEYAKP 220
Query: 215 IPAPQRLGHPDEFAQLVQSIITN--PLINGEVIRIDG 249
IP RLG P+E LV + ++ ING +I +DG
Sbjct: 221 IPL-GRLGEPEEIGYLVAFLASDLGSYINGAMIPVDG 256
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 43.5 bits (103), Expect = 5e-05
Identities = 27/91 (29%), Positives = 46/91 (50%), Gaps = 5/91 (5%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL-----GPDVKFAPV 57
G V +VTG +GLG T + +G VVL +G++ A + G DV +
Sbjct: 15 SGRVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQEL 74
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGI 88
D+TS V+ A + ++ ++D+ +N AG+
Sbjct: 75 DLTSLASVRAAADALRAAYPRIDLLINNAGV 105
>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 = 42.8 bits (101), Expect = 6e-05
Identities = 43/193 (22%), Positives = 73/193 (37%), Gaps = 21/193 (10%)
Query: 8 LVTGGASGLGKATVERIVREGGR-----VVLCDLPTSEG--ESVAKELGPDVKFAPVDVT 60
L+TG +SG+G R+ + + + DL E+ G ++ +DV
Sbjct: 4 LITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGTLETLQLDVC 63
Query: 61 SEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTF 120
+ V AV + +DV V AG+ + S D + VN GT
Sbjct: 64 DSKSVAAAVERVTE--RHVDVLVCNAGVGLLGPL------EALSEDAMASVFDVNVFGT- 114
Query: 121 NVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDL 180
R+ + + K G I+ T+S+ +G Y ASK + G+ +A L
Sbjct: 115 --VRMLQAFLPDMKRRGSGR---ILVTSSVGGLQGLPFNDVYCASKFALEGLCESLAVQL 169
Query: 181 AGAGIRVNTIAPG 193
+ ++ I G
Sbjct: 170 LPFNVHLSLIECG 182
>gnl|CDD|187668 cd09808, DHRS-12_like_SDR_c-like, human dehydrogenase/reductase SDR
family member (DHRS)-12/FLJ13639-like, classical
(c)-like SDRs. Classical SDR-like subgroup containing
human DHRS-12/FLJ13639, the 36K protein of zebrafish CNS
myelin, and related proteins. DHRS-12/FLJ13639 is
expressed in neurons and oligodendrocytes in the human
cerebral cortex. Proteins in this subgroup share the
glycine-rich NAD-binding motif of the classical SDRs,
have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 255
Score = 42.6 bits (100), Expect = 7e-05
Identities = 56/210 (26%), Positives = 88/210 (41%), Gaps = 28/210 (13%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL-----GPDVKFAPVD 58
G L+TG SG+GKA I + GG V + + E KE+ ++ VD
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIFLHIVD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
++ + V + V K+ KL V +N AG C NK + D ++ NT+G
Sbjct: 61 MSDPKQVWEFVEEFKEEGKKLHVLINNAG--CMV-----NKRELTE-DGLEKNFATNTLG 112
Query: 119 TFNVARLSAQLIHENKLNED---------GLRGVIINTASIAAYEGQ-SGQVAYSASKSG 168
T+ L+ LI + ED G+ +NT ++ + G + Y+ +K
Sbjct: 113 TY---ILTTHLIPVLEKEEDPRVITVSSGGMLVQKLNTNNLQSERTAFDGTMVYAQNKRQ 169
Query: 169 IVGMTLPMARDLAGAGIRVNTIAPGLFDTP 198
V MT A+ I + + PG DTP
Sbjct: 170 QVIMTEQWAK--KHPEIHFSVMHPGWADTP 197
>gnl|CDD|237099 PRK12428, PRK12428, 3-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 241
Score = 42.3 bits (100), Expect = 8e-05
Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 10/97 (10%)
Query: 162 YSASKSGIVGMTLPMAR-DLAGAGIRVNTIAPGLFDTPLL----SMLNEKVRNFLARSIP 216
Y SK ++ T+ A+ GIRVN +APG TP+L SML ++ +
Sbjct: 137 YQLSKEALILWTMRQAQPWFGARGIRVNCVAPGPVFTPILGDFRSMLGQE---RVDSDAK 193
Query: 217 APQRLGHPDEFAQLVQSIITNP--LINGEVIRIDGAL 251
R DE A ++ + ++ ING + +DG L
Sbjct: 194 RMGRPATADEQAAVLVFLCSDAARWINGVNLPVDGGL 230
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 42.5 bits (100), Expect = 9e-05
Identities = 60/270 (22%), Positives = 102/270 (37%), Gaps = 42/270 (15%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLC-----DLPTSEGESVAKELGPDVKFAP 56
+KG +++GG G+GKA V + G + + E + ++ G K P
Sbjct: 6 MKGKTLVISGGTRGIGKAIVYEFAQSGVNIAFTYNSNVEEANKIAEDLEQKYGIKAKAYP 65
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRI----- 111
+++ E ++ + F ++D ++ A I + V F R+
Sbjct: 66 LNILEPETYKELFKKIDEDFDRVDFFISNAII--------SGRAVVGGYTKFMRLKPKGL 117
Query: 112 --LLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTAS------IAAYEGQSGQVAYS 163
+ TV F V A K E G II+ +S I Y G +
Sbjct: 118 NNIYTATVNAFVVGAQEAA-----KRMEKVGGGSIISLSSTGNLVYIENYAG------HG 166
Query: 164 ASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDTPLLSMLN--EKVRNFLARSIPAPQRL 221
SK+ + M A +L IRVN ++ G DT L E+V+ P R+
Sbjct: 167 TSKAAVETMVKYAATELGEKNIRVNAVSGGPIDTDALKAFTNYEEVKAKTEELSPL-NRM 225
Query: 222 GHPDEFAQLVQSIITN--PLINGEVIRIDG 249
G P++ A + + + G+ I +DG
Sbjct: 226 GQPEDLAGACLFLCSEKASWLTGQTIVVDG 255
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 41.2 bits (97), Expect = 2e-04
Identities = 55/206 (26%), Positives = 84/206 (40%), Gaps = 42/206 (20%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAK--ELGPDVKFAPV 57
M K V L+TG +SG+G + R G RV+ C P + VA+ LG F +
Sbjct: 1 MQKSV--LITGCSSGIGLEAALELKRRGYRVLAACRKP----DDVARMNSLG----FTGI 50
Query: 58 --DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFN------YNKGTVHSLDDFK 109
D+ E V++A D L N + +FN Y + S +
Sbjct: 51 LLDLDDPESVERAA----DEVIALTDN-------RLYGLFNNAGFGVYGPLSTISRQQME 99
Query: 110 RILLVNTVGTFNVAR--LSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKS 167
+ N GT + L A L H G I+ T+S+ G+ AY+ASK
Sbjct: 100 QQFSTNFFGTHQLTMLLLPAMLPHGE--------GRIVMTSSVMGLISTPGRGAYAASKY 151
Query: 168 GIVGMTLPMARDLAGAGIRVNTIAPG 193
+ + + +L +GI+V+ I PG
Sbjct: 152 ALEAWSDALRMELRHSGIKVSLIEPG 177
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 41.2 bits (97), Expect = 2e-04
Identities = 63/267 (23%), Positives = 107/267 (40%), Gaps = 39/267 (14%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPV 57
L G L+TG + G+G A E EG + L E++A +L G DV +
Sbjct: 5 LAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVDVAVHAL 64
Query: 58 DVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD--FKRILLVN 115
D++S E ++ G +D+ VN AG G + +DD ++ +
Sbjct: 65 DLSSPEAREQLA----AEAGDIDILVNNAG--------AIPGGGLDDVDDAAWRAGWELK 112
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLP 175
G ++ RL+ ++ G GVI+N A + + SA + ++ T
Sbjct: 113 VFGYIDLTRLAYP-----RMKARG-SGVIVNVIGAAGENPDADYICGSAGNAALMAFTRA 166
Query: 176 MARDLAGAGIRVNTIAPG---------LFDTPLLSMLNEKVR-NFLARSIPAPQRLGHPD 225
+ G+RV + PG L + L ++ R L +P R P+
Sbjct: 167 LGGKSLDDGVRVVGVNPGPVATDRMLTLLKGRARAELGDESRWQELLAGLPL-GRPATPE 225
Query: 226 EFAQLVQSIITNP---LINGEVIRIDG 249
E A LV + + +P +G V+ +DG
Sbjct: 226 EVADLV-AFLASPRSGYTSGTVVTVDG 251
>gnl|CDD|187672 cd09812, 3b-HSD_like_1_SDR_e, 3beta-hydroxysteroid dehydrogenase
(3b-HSD)-like, subgroup1, extended (e) SDRs. An
uncharacterized subgroup of the 3b-HSD-like extended-SDR
family. Proteins in this subgroup have the
characteristic active site tetrad and NAD(P)-binding
motif of extended-SDRs. 3 beta-HSD catalyzes the
oxidative conversion of delta 5-3 beta-hydroxysteroids
to the delta 4-3-keto configuration; this activity is
essential for the biosynthesis of all classes of
hormonal steroids. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase 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 = 339
Score = 40.9 bits (96), Expect = 3e-04
Identities = 30/117 (25%), Positives = 46/117 (39%), Gaps = 22/117 (18%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+TGG G + + G V+L D+ +EL +KF DV ++K
Sbjct: 3 LITGGGGYFGFRLGCALAKSGVHVILFDI-----RRPQQELPEGIKFIQADVRDLSQLEK 57
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVAR 124
AV AG+ C F I +Y L+ + I +N GT N+ +
Sbjct: 58 AV----------------AGVDCVFHIASYGMSGREQLNR-ELIEEINVRGTENIIQ 97
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 40.4 bits (95), Expect = 3e-04
Identities = 51/273 (18%), Positives = 107/273 (39%), Gaps = 61/273 (22%)
Query: 8 LVTGGASGLGKATVERIVREGGRVV-LCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
++TG + GLG+A +++ +G V+ + E +A++ ++ F +D+ +++
Sbjct: 5 IITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQYNSNLTFHSLDLQDVHELE 64
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN----V 122
F ++ ++ D+ I L+N G +
Sbjct: 65 TN-------FNEILSSIQ--------------------EDNVSSIHLINNAGMVAPIKPI 97
Query: 123 ARLSAQLIHEN----------------KLNED-GLRGVIINTASIAAYEGQSGQVAYSAS 165
+ ++ + N K +D + +IN +S AA G AY +S
Sbjct: 98 EKAESEELITNVHLNLLAPMILTSTFMKHTKDWKVDKRVINISSGAAKNPYFGWSAYCSS 157
Query: 166 KSGIVGMTLPMARDLAGAGIRVNTIA--PGLFDTPLLSMLNE-------KVRNFLARSIP 216
K+G+ T +A + V +A PG+ DT + + + + F ++
Sbjct: 158 KAGLDMFTQTVATEQEEEEYPVKIVAFSPGVMDTNMQAQIRSSSKEDFTNLDRF--ITLK 215
Query: 217 APQRLGHPDEFAQLVQSIITNPLI-NGEVIRID 248
+L P+ A+ +++++ NGEVI ID
Sbjct: 216 EEGKLLSPEYVAKALRNLLETEDFPNGEVIDID 248
>gnl|CDD|187645 cd08941, 3KS_SDR_c, 3-keto steroid reductase, classical (c) SDRs.
3-keto steroid reductase (in concert with other enzymes)
catalyzes NADP-dependent sterol C-4 demethylation, as
part of steroid biosynthesis. 3-keto reductase is a
classical SDR, with a well conserved canonical active
site tetrad and fairly well conserved characteristic
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 290
Score = 40.4 bits (95), Expect = 4e-04
Identities = 50/238 (21%), Positives = 80/238 (33%), Gaps = 47/238 (19%)
Query: 5 VVGLVTGGASGLGKATVERIV-----REGGRVVLCDLPTSEGESVAKEL-------GPDV 52
V LVTG SGLG A ER++ ++L E+ + L
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASHPDARVVF 61
Query: 53 KFAPVDVTSEEDVQKAVLLCKDSFGKLD-VNVNCAGISCAFKIFNYNKGTVHSLDDFKRI 111
+ VD+++ V A K + +LD + +N AGI ++ L +
Sbjct: 62 DYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLN-AGIM-PNPGIDWIGAIKEVLTNPLFA 119
Query: 112 LLVNTVGTFNVARLSAQ---------------------LIHENK--LNEDGLRGVIINTA 148
+ T LS LI E + L II T+
Sbjct: 120 VTNPTYKIQAEGLLSQGDKATEDGLGEVFQTNVFGHYYLIRELEPLLCRSDGGSQIIWTS 179
Query: 149 SIAA---------YEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDT 197
S+ A + G YS+SK + ++L + R G+ + PG+ T
Sbjct: 180 SLNASPKYFSLEDIQHLKGPAPYSSSKYLVDLLSLALNRKFNKLGVYSYVVHPGICTT 237
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 38.3 bits (90), Expect = 0.002
Identities = 53/207 (25%), Positives = 81/207 (39%), Gaps = 36/207 (17%)
Query: 2 LKGVVGLVTGGAS------GLGKATVERIVREGGRVVLCDLPTSEGESV---AKELGPDV 52
L+G L+ G A+ G+ KA E +G + + V A+ELG D+
Sbjct: 4 LEGKRILIMGVANNRSIAWGIAKALAE----QGAELAFTYQGERLEKRVEELAEELGSDL 59
Query: 53 KFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTV--HSLDDFKR 110
P DVT++E + K +GKLD V+ AF KG S + F
Sbjct: 60 VL-PCDVTNDESIDALFATIKKKWGKLDGLVHSI----AFAPKEELKGDYLDTSREGFLI 114
Query: 111 ILLVNTVGTFNVARLSAQLIHEN----KLNEDGLRGVIINTASIAAYEGQSGQVAYSASK 166
+ ++ +A+ + L++ L G V+ N Y VA K
Sbjct: 115 AMDISAYSFTALAKAARPLMNNGGSILTLTYLGSERVVPN------YNVMG--VA----K 162
Query: 167 SGIVGMTLPMARDLAGAGIRVNTIAPG 193
+ + +A DL GIRVN I+ G
Sbjct: 163 AALEASVRYLAADLGKEGIRVNAISAG 189
>gnl|CDD|181162 PRK07904, PRK07904, short chain dehydrogenase; Provisional.
Length = 253
Score = 38.1 bits (89), Expect = 0.002
Identities = 49/195 (25%), Positives = 75/195 (38%), Gaps = 25/195 (12%)
Query: 8 LVTGGASGLGKATVERIVREGG-RVVLCDLPTSEGESVA----KELGPD----VKFAPVD 58
L+ GG S +G A ER ++ RVVL LP A K G + F +D
Sbjct: 12 LLLGGTSEIGLAICERYLKNAPARVVLAALPDDPRRDAAVAQMKAAGASSVEVIDFDALD 71
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
S V +F DV+V AF + + + +I +N
Sbjct: 72 TDSHPKV------IDAAFAGGDVDVAIV----AFGLLGDAEELWQNQRKAVQIAEINYTA 121
Query: 119 TFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMAR 178
+V L + K+ G G II +S+A + Y ++K+G+ G L +
Sbjct: 122 AVSVGVLLGE-----KMRAQG-FGQIIAMSSVAGERVRRSNFVYGSTKAGLDGFYLGLGE 175
Query: 179 DLAGAGIRVNTIAPG 193
L G+RV + PG
Sbjct: 176 ALREYGVRVLVVRPG 190
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 37.9 bits (88), Expect = 0.003
Identities = 44/157 (28%), Positives = 65/157 (41%), Gaps = 21/157 (13%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVLC----DLPTSEGESVAKELGPDVKFAPVDV 59
G LVTG G+GK ++ R+G +VL D +S+ + + V V
Sbjct: 53 GSWALVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYS-KTQIKTVVV 111
Query: 60 TSEEDVQKAVLLCKDSFGKLDVNV--NCAGISCAFKIFNYNKGTVHSLDD--FKRILLVN 115
D+ + V K++ LDV V N G+S + F H +D+ K ++ VN
Sbjct: 112 DFSGDIDEGVKRIKETIEGLDVGVLINNVGVSYPYARF------FHEVDEELLKNLIKVN 165
Query: 116 TVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAA 152
GT V Q + L +G IIN S AA
Sbjct: 166 VEGTTKV----TQAVLPGMLKRK--KGAIINIGSGAA 196
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 37.4 bits (87), Expect = 0.003
Identities = 50/248 (20%), Positives = 92/248 (37%), Gaps = 43/248 (17%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAK---ELGPDVKFAPVDVTSEED 64
L+T S LG+ R G ++LCD S + + L +V + S+E
Sbjct: 9 LITSAGSVLGRTISCHFARLGATLILCDQDQSALKDTYEQCSALTDNVYSFQLKDFSQES 68
Query: 65 VQKAVLLCKDSFGK-LDVNVNCAGISCAFKIFNYNKGTVHSL------DDFKRILLVNTV 117
++ + F + DV VN + + SL + F + L
Sbjct: 69 IRHLFDAIEQQFNRAPDVLVNN-----------WTSSPLPSLFDEQPSESFIQQLSSLAS 117
Query: 118 GTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMA 177
F +++A+ + + +GVI+N S ++ +G +S + + G T A
Sbjct: 118 TLFTYGQVAAERMRKRNK-----KGVIVNVISHDDHQDLTG---VESSNALVSGFTHSWA 169
Query: 178 RDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLVQSIITN 237
++L IRV + P +F N ++ I DE + + I+ N
Sbjct: 170 KELTPFNIRVGGVVPSIFSA------NGELDAVHWAEI--------QDELIRNTEYIVAN 215
Query: 238 PLINGEVI 245
+G V+
Sbjct: 216 EYFSGRVV 223
>gnl|CDD|187566 cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase,
extended (e) SDRs. This subgroup contains
UDP-N-acetylglucosamine 4-epimerase of Pseudomonas
aeruginosa, WbpP, an extended SDR, that catalyzes the
NAD+ dependent conversion of UDP-GlcNAc and UDPGalNA to
UDP-Glc and UDP-Gal. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 304
Score = 37.6 bits (88), Expect = 0.004
Identities = 25/63 (39%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCD-LPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTGGA +G VER++ G V++ D L T + E++ E+ P+VKF D+ +E V+
Sbjct: 3 LVTGGAGFIGSHLVERLLERGHEVIVLDNLSTGKKENL-PEVKPNVKFIEGDIRDDELVE 61
Query: 67 KAV 69
A
Sbjct: 62 FAF 64
>gnl|CDD|187669 cd09809, human_WWOX_like_SDR_c-like, human WWOX (WW
domain-containing oxidoreductase)-like, classical
(c)-like SDRs. Classical-like SDR domain of human WWOX
and related proteins. Proteins in this subfamily share
the glycine-rich NAD-binding motif of the classical
SDRs, have a partial match to the canonical active site
tetrad, but lack the typical active site Ser. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 284
Score = 37.2 bits (86), Expect = 0.005
Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 5/90 (5%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKELGP----DVKFAPVD 58
G V ++TG SG+G T G V+L C + +V++ L V+ +D
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVEAMTLD 60
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGI 88
+ S VQ+ K L V V A +
Sbjct: 61 LASLRSVQRFAEAFKAKNSPLHVLVCNAAV 90
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 36.9 bits (86), Expect = 0.006
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 6/56 (10%)
Query: 141 RGVIINTASI---AAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRVNTIAPG 193
+G I+ +SI + + AY+ASK I G++L + +L G+GI V+ I PG
Sbjct: 127 QGRIVQCSSILGLVPMKYRG---AYNASKFAIEGLSLTLRMELQGSGIHVSLIEPG 179
>gnl|CDD|177883 PLN02240, PLN02240, UDP-glucose 4-epimerase.
Length = 352
Score = 36.5 bits (85), Expect = 0.009
Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 7/67 (10%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCD-LPTSEGESV------AKELGPDVKFAPVDVT 60
LVTGGA +G TV +++ G +VV+ D L S E++ A +LG ++ F VD+
Sbjct: 9 LVTGGAGYIGSHTVLQLLLAGYKVVVIDNLDNSSEEALRRVKELAGDLGDNLVFHKVDLR 68
Query: 61 SEEDVQK 67
+E ++K
Sbjct: 69 DKEALEK 75
>gnl|CDD|216283 pfam01073, 3Beta_HSD, 3-beta hydroxysteroid dehydrogenase/isomerase
family. The enzyme 3 beta-hydroxysteroid
dehydrogenase/5-ene-4-ene isomerase (3 beta-HSD)
catalyzes the oxidation and isomerisation of 5-ene-3
beta-hydroxypregnene and 5-ene-hydroxyandrostene steroid
precursors into the corresponding 4-ene-ketosteroids
necessary for the formation of all classes of steroid
hormones.
Length = 280
Score = 36.2 bits (84), Expect = 0.009
Identities = 35/120 (29%), Positives = 50/120 (41%), Gaps = 26/120 (21%)
Query: 8 LVTGGASGLGKATVERIVREGG----RVVLCDL-PTSEGESVAKELGPDVKFAPVDVTSE 62
LVTGG LG+ V ++REG RV DL + E +L + DVT +
Sbjct: 1 LVTGGGGFLGRHIVRLLLREGELQEVRVF--DLRFSPELLEDFSKLQVI-TYIEGDVTDK 57
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
+D+++A + S DV ++ A I V I+ VN GT NV
Sbjct: 58 QDLRRA---LQGS----DVVIHTAAII-----------DVFGKAYRDTIMKVNVKGTQNV 99
>gnl|CDD|187673 cd09813, 3b-HSD-NSDHL-like_SDR_e, human NSDHL (NAD(P)H steroid
dehydrogenase-like protein)-like, extended (e) SDRs.
This subgroup includes human NSDHL and related proteins.
These proteins have the characteristic active site
tetrad of extended SDRs, and also have a close match to
their NAD(P)-binding motif. Human NSDHL is a
3beta-hydroxysteroid dehydrogenase (3 beta-HSD) which
functions in the cholesterol biosynthetic pathway. 3
beta-HSD catalyzes the oxidative conversion of delta 5-3
beta-hydroxysteroids to the delta 4-3-keto
configuration; this activity is essential for the
biosynthesis of all classes of hormonal steroids.
Mutations in the gene encoding NSDHL cause CHILD
syndrome (congenital hemidysplasia with ichthyosiform
nevus and limb defects), an X-linked dominant,
male-lethal trait. This subgroup also includes an
unusual bifunctional [3beta-hydroxysteroid dehydrogenase
(3b-HSD)/C-4 decarboxylase from Arabidopsis thaliana,
and Saccharomyces cerevisiae ERG26, a 3b-HSD/C-4
decarboxylase, involved in the synthesis of ergosterol,
the major sterol of yeast. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase 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 = 335
Score = 36.6 bits (85), Expect = 0.009
Identities = 29/118 (24%), Positives = 47/118 (39%), Gaps = 26/118 (22%)
Query: 8 LVTGGASGLGKATVERIVREGG-RVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LV GG+ LG+ VE+++R G V + D+ + V+F D+T +D++
Sbjct: 3 LVVGGSGFLGRHLVEQLLRRGNPTVHVFDI--RPTFELDPSSSGRVQFHTGDLTDPQDLE 60
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL--DDFKRILLVNTVGTFNV 122
KA + +V + A H D + + VN GT NV
Sbjct: 61 KAF-----NEKGPNVVFHTA-------------SPDHGSNDDLYYK---VNVQGTRNV 97
>gnl|CDD|216461 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
This family of proteins utilise NAD as a cofactor. The
proteins in this family use nucleotide-sugar substrates
for a variety of chemical reactions.
Length = 233
Score = 36.1 bits (84), Expect = 0.011
Identities = 21/122 (17%), Positives = 45/122 (36%), Gaps = 19/122 (15%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTGG +G V R+++EG V++ + +F D+T + +++
Sbjct: 2 LVTGGTGFIGSHLVRRLLQEGYEVIVLGRRRRSESLNTGRI----RFHEGDLTDPDALER 57
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
+ + + D ++ A S F + + N +GT + +
Sbjct: 58 LL-----AEVQPDAVIHLAAQSGVGASFEDPADFIRA----------NVLGTLRLLEAAR 102
Query: 128 QL 129
+
Sbjct: 103 RA 104
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 35.9 bits (83), Expect = 0.011
Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 5/92 (5%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSE-GESVAKEL---GPDVKFAP 56
L G LVTG + G+G T + + G VV+ + V E+ G
Sbjct: 3 DLPGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIEAAGGRASAVG 62
Query: 57 VDVTSEEDVQKAVLLCKDSFGKLDVNV-NCAG 87
D+T EE V + ++ FG LD V N +G
Sbjct: 63 ADLTDEESVAALMDTAREEFGGLDALVLNASG 94
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase, extended
(e) SDRs. UDP-Glcnac inverting 4,6-dehydratase was
identified in Helicobacter pylori as the hexameric flaA1
gene product (FlaA1). FlaA1 is hexameric, possesses
UDP-GlcNAc-inverting 4,6-dehydratase activity, and
catalyzes the first step in the creation of a
pseudaminic acid derivative in protein glycosylation.
Although this subgroup has the NADP-binding motif
characteristic of extended SDRs, its members tend to
have a Met substituted for the active site Tyr found in
most SDR families. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 287
Score = 35.3 bits (82), Expect = 0.021
Identities = 28/124 (22%), Positives = 51/124 (41%), Gaps = 15/124 (12%)
Query: 8 LVTGGASGLGKATVERIVREG-GRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTGGA +G V +I++ G ++++ D ++ + +EL DV+
Sbjct: 6 LVTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVREL-RSRFPHDKLRFIIGDVR 64
Query: 67 KAVLLCKD-SFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDD-FKRILLVNTVGTFNVAR 124
L + D+ + A A K V S++D + + N +GT NV
Sbjct: 65 DKERLRRAFKERGPDIVFHAA----ALK-------HVPSMEDNPEEAIKTNVLGTKNVID 113
Query: 125 LSAQ 128
+ +
Sbjct: 114 AAIE 117
>gnl|CDD|181609 PRK09009, PRK09009, C factor cell-cell signaling protein;
Provisional.
Length = 235
Score = 34.7 bits (80), Expect = 0.027
Identities = 32/127 (25%), Positives = 61/127 (48%), Gaps = 27/127 (21%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD-----VKFAPVDVTSE 62
L+ GG+ G+GKA V+++ L P + + + PD V++ +DVT E
Sbjct: 4 LIVGGSGGIGKAMVKQL--------LERYPDATVHATYRHHKPDFQHDNVQWHALDVTDE 55
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSL-----DDFKRILLVNTV 117
++++ + F +LD +NC G+ + +KG SL D F + + +NT+
Sbjct: 56 AEIKQ----LSEQFTQLDWLINCVGM-----LHTQDKGPEKSLQALDADFFLQNITLNTL 106
Query: 118 GTFNVAR 124
+ +A+
Sbjct: 107 PSLLLAK 113
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR family
domains have the characteristic active site tetrad and a
well-conserved NAD(P)-binding motif. This subgroup is
not well characterized, its members are annotated as
having a variety of putative functions. One
characterized member is Pseudomonas fluorescens MupV a
protein involved in the biosynthesis of Mupirocin, a
polyketide-derived antibiotic. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 34.7 bits (80), Expect = 0.031
Identities = 29/128 (22%), Positives = 50/128 (39%), Gaps = 21/128 (16%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
VTGG LG+ V+R++ G +V++ S GE+ + + A E D+ +
Sbjct: 2 FVTGGTGFLGRHLVKRLLENGFKVLVLVRSESLGEA-HERIEEAGLEADRVRVLEGDLTQ 60
Query: 68 AVL-LCKDSFGKL----DVNVNCAGISCAFKIFNYNKGTVHSLD-DFKRILLVNTVGTFN 121
L L + +L D ++CA + + N GT +
Sbjct: 61 PNLGLSAAASRELAGKVDHVIHCAA--------------SYDFQAPNEDAWRTNIDGTEH 106
Query: 122 VARLSAQL 129
V L+A+L
Sbjct: 107 VLELAARL 114
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 34.8 bits (80), Expect = 0.031
Identities = 45/190 (23%), Positives = 77/190 (40%), Gaps = 20/190 (10%)
Query: 6 VGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV--DVTSEE 63
V L+TG +SG+G+A + G V T+ + L F V DV
Sbjct: 3 VVLITGCSSGIGRALADAFKAAGYEV----WATARKAEDVEALA-AAGFTAVQLDVNDGA 57
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
+ + + G LDV +N AG + + G V ++ +R N V
Sbjct: 58 ALARLAEELEAEHGGLDVLINNAGYGAMGPLLD---GGVEAM---RRQFETNVFAVVGVT 111
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGA 183
R L+ + RG+++N S++ AY ASK+ + ++ + +LA
Sbjct: 112 RALFPLLRRS-------RGLVVNIGSVSGVLVTPFAGAYCASKAAVHALSDALRLELAPF 164
Query: 184 GIRVNTIAPG 193
G++V + PG
Sbjct: 165 GVQVMEVQPG 174
>gnl|CDD|187541 cd05230, UGD_SDR_e, UDP-glucuronate decarboxylase (UGD) and related
proteins, extended (e) SDRs. UGD catalyzes the
formation of UDP-xylose from UDP-glucuronate; it is an
extended-SDR, and has the characteristic glycine-rich
NAD-binding pattern, TGXXGXXG, and active site tetrad.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 34.1 bits (79), Expect = 0.049
Identities = 28/120 (23%), Positives = 47/120 (39%), Gaps = 24/120 (20%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCD-LPTSEGESVAKELG-PDVKFAPVDVTSEEDV 65
L+TGGA LG +R++ +G V+ D T ++ +G P+ +F DVT
Sbjct: 4 LITGGAGFLGSHLCDRLLEDGHEVICVDNFFTGRKRNIEHLIGHPNFEFIRHDVTEPL-- 61
Query: 66 QKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARL 125
+ ++D + A C +Y + L N +GT N+ L
Sbjct: 62 ----------YLEVDQIYHLA---CPASPVHYQYNPIK-------TLKTNVLGTLNMLGL 101
>gnl|CDD|187581 cd05273, GME-like_SDR_e, Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME)-like, extended (e)
SDRs. This subgroup of NDP-sugar
epimerase/dehydratases are extended SDRs; they have the
characteristic active site tetrad, and an NAD-binding
motif: TGXXGXX[AG], which is a close match to the
canonical NAD-binding motif. Members include
Arabidopsis thaliana GDP-mannose-3',5'-epimerase (GME)
which catalyzes the epimerization of two positions of
GDP-alpha-D-mannose to form GDP-beta-L-galactose.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 328
Score = 34.4 bits (79), Expect = 0.049
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTG +G ER+ EG V D + E + D +F VD+ E+ K
Sbjct: 4 LVTGAGGFIGSHLAERLKAEGHYVRGADWKSPE---HMTQPTDDDEFHLVDLREMENCLK 60
Query: 68 AV 69
A
Sbjct: 61 AT 62
>gnl|CDD|217556 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family
comprised of three structural domains that can not be
separated in the linear sequence. In some organisms
this enzyme is found as a bifunctional polypeptide with
lysine ketoglutarate reductase. The saccharopine
dehydrogenase can also function as a saccharopine
reductase.
Length = 380
Score = 34.2 bits (79), Expect = 0.051
Identities = 16/85 (18%), Positives = 34/85 (40%), Gaps = 9/85 (10%)
Query: 12 GASGLGKATVERIVREG-GRVVLCDLPTSEGESV-AKELGPDVKFAPVDVTSEEDVQKAV 69
GA G+G+ + R G + + D + +++ A +LG VD + E + +
Sbjct: 5 GAGGVGQGVAPLLARHGDLEITVADRSLEKAQALAAPKLGLRFIAIAVDADNYEALVALL 64
Query: 70 LLCKDSFGKLDVNVNCAGISCAFKI 94
+ D+ +N A + +
Sbjct: 65 -------KEGDLVINLAPPFLSLTV 82
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 33.8 bits (78), Expect = 0.067
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTG LG A VE ++ + VV E V+ D E +++
Sbjct: 2 LVTGATGKLGTAVVELLLAKVASVV---ALVRNPEKAKAFAADGVEVRQGDYDDPETLER 58
Query: 68 A 68
A
Sbjct: 59 A 59
>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 = 32.9 bits (75), Expect = 0.094
Identities = 46/224 (20%), Positives = 79/224 (35%), Gaps = 33/224 (14%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+ G G+G+A + G R++L +A E+G + P DV +E +V
Sbjct: 2 LILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAEVGALAR--PADVAAELEVWA 59
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
G LD+ V AG + ++RIL N G V + +
Sbjct: 60 LA----QELGPLDLLVYAAGAILGKPLAR------TKPAAWRRILDANLTGAALVLKHAL 109
Query: 128 QLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRV 187
L+ G R V + G AY+A+K+ + +++ G R+
Sbjct: 110 ALLAA------GARLVFLGAYP--ELVMLPGLSAYAAAKAALEAYVEVARKEVRGL--RL 159
Query: 188 NTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRLGHPDEFAQLV 231
+ P DT L + + L P++ A +
Sbjct: 160 TLVRPPAVDTGLWAPPGRLPKGAL-----------SPEDVAAAI 192
>gnl|CDD|135642 PRK05884, PRK05884, short chain dehydrogenase; Provisional.
Length = 223
Score = 32.9 bits (75), Expect = 0.10
Identities = 49/189 (25%), Positives = 68/189 (35%), Gaps = 24/189 (12%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPD-VKFAPVDVTSEEDVQ 66
LVTGG + LG+ E +G +V L + E AKEL D + D S E+ +
Sbjct: 4 LVTGGDTDLGRTIAEGFRNDGHKVTLVGARRDDLEVAAKELDVDAIVCDNTDPASLEEAR 63
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLS 126
LD VN S ++ +SL D T A L+
Sbjct: 64 GLFP------HHLDTIVNVPAPS-----WDAGDPRTYSLADTANAWRNALDATVLSAVLT 112
Query: 127 AQLIHENKLNEDGLR--GVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAG 184
Q + D LR G II+ G A +A K+ + T A G
Sbjct: 113 VQSVG------DHLRSGGSIISVVPENPPAGS----AEAAIKAALSNWTAGQAAVFGTRG 162
Query: 185 IRVNTIAPG 193
I +N +A G
Sbjct: 163 ITINAVACG 171
>gnl|CDD|236124 PRK07889, PRK07889, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 256
Score = 32.6 bits (75), Expect = 0.14
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 12/46 (26%)
Query: 176 MARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAPQRL 221
+ARDL GIRVN +A G P+ R A++IP + L
Sbjct: 172 LARDLGPRGIRVNLVAAG----PI--------RTLAAKAIPGFELL 205
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 32.8 bits (75), Expect = 0.16
Identities = 37/116 (31%), Positives = 52/116 (44%), Gaps = 19/116 (16%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTS------EGESVAKEL-GPDVKFA 55
K V LV G +GK V +VR G VV S E KEL G +V F
Sbjct: 59 KDVTVLVVGATGYIGKFVVRELVRRGYNVVAVAREKSGIRGKNGKEDTKKELPGAEVVFG 118
Query: 56 PVDVTSEEDVQKAVLLCKDSFGKLDVNVNC-----AGISCAFKIFNYNKGTVHSLD 106
DVT + ++K + +DV V+C G+ ++KI +Y + T +SLD
Sbjct: 119 --DVTDADSLRKVL---FSEGDPVDVVVSCLASRTGGVKDSWKI-DY-QATKNSLD 167
>gnl|CDD|219687 pfam07993, NAD_binding_4, Male sterility protein. This family
represents the C-terminal region of the male sterility
protein in a number of arabidopsis and drosophila. A
sequence-related jojoba acyl CoA reductase is also
included.
Length = 245
Score = 31.8 bits (73), Expect = 0.23
Identities = 29/136 (21%), Positives = 56/136 (41%), Gaps = 28/136 (20%)
Query: 9 VTGGASGLGKATVERIVREGGRV-VLCDLPTSEGESVAKELGPDVKFAPV-DVTSEEDVQ 66
+TG LGK +E+++R V + C + +GES + L ++ + D +
Sbjct: 1 LTGATGFLGKVLLEKLLRSTPEVKIYCLVRAKDGESALERLRQELLKYGLFDRLKALERI 60
Query: 67 KAVL--LCKDSFG-----------KLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILL 113
V L + + G ++DV ++ A TV+ ++ + +
Sbjct: 61 IPVAGDLSEPNLGLSDEDFQELAEEVDVIIHNAA-------------TVNFVEPYSDLRA 107
Query: 114 VNTVGTFNVARLSAQL 129
N +GT V RL+ Q+
Sbjct: 108 TNVLGTREVLRLAKQM 123
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 32.1 bits (73), Expect = 0.25
Identities = 33/127 (25%), Positives = 54/127 (42%), Gaps = 10/127 (7%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGG-RVVLCDLPTSEGESVAKELG--PD-VKFAPVD 58
K V ++TG +SGLG + + G V++ + E AK LG D +D
Sbjct: 3 KPTV-IITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSLGMPKDSYTIMHLD 61
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
+ S + V++ V ++S LD V A + F K + D F+ + N +G
Sbjct: 62 LGSLDSVRQFVQQFRESGRPLDALVCNAAV-----YFPTAKEPRFTADGFELSVGTNHLG 116
Query: 119 TFNVARL 125
F + L
Sbjct: 117 HFLLCNL 123
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 31.9 bits (73), Expect = 0.25
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELG--PD-VKFAPVDV 59
KG V ++TG +SG+G + + + G V++ + E+ A+ELG PD +D+
Sbjct: 6 KGTV-IITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGIPPDSYTIIHIDL 64
Query: 60 TSEEDVQKAV 69
+ V++ V
Sbjct: 65 GDLDSVRRFV 74
>gnl|CDD|187658 cd08955, KR_2_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 2, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase, has 2 subdomains, each corresponding to a
short-chain dehydrogenases/reductase (SDR) family
monomer. The C-terminal subdomain catalyzes the
NADPH-dependent reduction of the beta-carbonyl of a
polyketide to a hydroxyl group, a step in the
biosynthesis of polyketides, such as erythromycin. The
N-terminal subdomain, an interdomain linker, is a
truncated Rossmann fold which acts to stabilizes the
catalytic subdomain. Unlike typical SDRs, the isolated
domain does not oligomerizes but is composed of 2
subdomains, each resembling an SDR monomer. In some
instances, as in porcine FAS, an enoyl reductase (a
Rossman fold NAD binding domain of the MDR family)
module is inserted between the sub-domains. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic asparagine and tyrosine
are swapped, so that the canonical YXXXK motif changes
to YXXXN. Modular polyketide synthases are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
fatty acid synthase. In some instances, such as
porcine FAS , an enoyl reductase module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER).
Polyketide syntheses also proceeds via the addition of
2-carbon units as in fatty acid synthesis. The complex
SDR NADP binding motif, GGXGXXG, is often present, but
is not strictly conserved in each instance of the
module. This subfamily includes the KR domain of the
Lyngbya majuscule Jam J, -K, and #L which are encoded
on the jam gene cluster and are involved in the
synthesis of the Jamaicamides (neurotoxins); Lyngbya
majuscule Jam P belongs to a different KR_FAS_SDR_x
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 376
Score = 31.9 bits (73), Expect = 0.26
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 6/68 (8%)
Query: 8 LVTGGASGLGKATVERIVREGGR-VVLC--DLPTSEGESVAKEL---GPDVKFAPVDVTS 61
L+TGG GLG E +V G R +VL P++ L G +V DV+
Sbjct: 153 LITGGLGGLGLLVAEWLVERGARHLVLTGRRAPSAAARQAIAALEEAGAEVVVLAADVSD 212
Query: 62 EEDVQKAV 69
+ + A+
Sbjct: 213 RDALAAAL 220
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 31.9 bits (73), Expect = 0.26
Identities = 34/157 (21%), Positives = 51/157 (32%), Gaps = 38/157 (24%)
Query: 8 LVTGGASGLGKATVERIVREGGRV-VLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTG LG V ++ +G RV L S+ + G V+ D+T +
Sbjct: 2 LVTGATGFLGSNLVRALLAQGYRVRALV-RSGSDAVLL---DGLPVEVVEGDLTDAASLA 57
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLS 126
A+ C D + A + L N GT NV +
Sbjct: 58 AAMKGC-------DRVFHLAA------FTSLWAKDRKELYR------TNVEGTRNVLDAA 98
Query: 127 AQLIHENKLNEDGLRGV--IINTASIAAYEGQSGQVA 161
+ GV +++T+SIAA G
Sbjct: 99 LE------------AGVRRVVHTSSIAALGGPPDGRI 123
>gnl|CDD|187670 cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide
reductase (LPOR)-like, classical (c)-like SDRs.
Classical SDR-like subgroup containing LPOR and related
proteins. Protochlorophyllide (Pchlide) reductases act
in chlorophyll biosynthesis. There are distinct enzymes
that catalyze Pchlide reduction in light or dark
conditions. Light-dependent reduction is via an
NADP-dependent SDR, LPOR. Proteins in this subfamily
share the glycine-rich NAD-binding motif of the
classical SDRs, have a partial match to the canonical
active site tetrad, but lack the typical active site
Ser. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 311
Score = 31.7 bits (72), Expect = 0.27
Identities = 53/226 (23%), Positives = 88/226 (38%), Gaps = 40/226 (17%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGG-RVVLCDLPTSEGESVAKELGP---DVKFAPVD 58
KG V ++TG +SGLG A + + R G VV+ + E A+E+G D
Sbjct: 1 KGTV-VITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEVGMPKDSYSVLHCD 59
Query: 59 VTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVG 118
+ S + V++ V + + LD V A + K + D F+ + VN +G
Sbjct: 60 LASLDSVRQFVDNFRRTGRPLDALVCNAAVY-----LPTAKEPRFTADGFELTVGVNHLG 114
Query: 119 TFNVARLSAQLIHENKL-------------NEDGLRGVIINTASIAAYEGQSGQV----- 160
F + L + + ++ N + L G + A++ EG +G +
Sbjct: 115 HFLLTNLLLEDLQRSENASPRIVIVGSITHNPNTLAGNVPPRATLGDLEGLAGGLKGFNS 174
Query: 161 -----------AYSASKSGIVGMTLPMARDL-AGAGIRVNTIAPGL 194
AY SK + T + R L GI N++ PG
Sbjct: 175 MIDGGEFEGAKAYKDSKVCNMLTTYELHRRLHEETGITFNSLYPGC 220
>gnl|CDD|187558 cd05247, UDP_G4E_1_SDR_e, UDP-glucose 4 epimerase, subgroup 1,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 323
Score = 31.7 bits (73), Expect = 0.33
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCD-LPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTGGA +G TV ++ G VV+ D L E++ + ++F D+ +
Sbjct: 3 LVTGGAGYIGSHTVVELLEAGYDVVVLDNLSNGHREALPRIEKIRIEFYEGDIRDRAALD 62
Query: 67 K 67
K
Sbjct: 63 K 63
>gnl|CDD|235694 PRK06079, PRK06079, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 252
Score = 31.6 bits (72), Expect = 0.34
Identities = 38/177 (21%), Positives = 67/177 (37%), Gaps = 10/177 (5%)
Query: 21 VERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLD 80
+ I +G V+ +S+ K + + DV S+E +++A K+ GK+D
Sbjct: 26 AQAIKDQGATVIYTYQNDRMKKSLQKLVDEEDLLVECDVASDESIERAFATIKERVGKID 85
Query: 81 VNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSAQLIHENKLNEDGL 140
V+ I+ A K T S D + ++ VA+ + L++
Sbjct: 86 GIVH--AIAYAKKEELGGNVTDTSRDGYALAQDISAYSLIAVAKYARPLLNPG------- 136
Query: 141 RGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDT 197
I+ + +K+ + +ARDL GIRVN I+ G T
Sbjct: 137 -ASIVTLTYFGSERAIPNYNVMGIAKAALESSVRYLARDLGKKGIRVNAISAGAVKT 192
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 31.6 bits (72), Expect = 0.35
Identities = 32/124 (25%), Positives = 54/124 (43%), Gaps = 19/124 (15%)
Query: 2 LKGVVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTS 61
LKG VTG + LG+A ++ + ++G +VV TS + + E+ + + PV
Sbjct: 176 LKGKTVAVTGASGTLGQALLKELHQQGAKVVAL---TSNSDKITLEI--NGEDLPVKTLH 230
Query: 62 EEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN 121
+ Q+A L + K+D+ + GI+ VH + I V TF+
Sbjct: 231 WQVGQEAAL--AELLEKVDILIINHGIN------------VHGERTPEAINKSYEVNTFS 276
Query: 122 VARL 125
RL
Sbjct: 277 AWRL 280
>gnl|CDD|180949 PRK07370, PRK07370, enoyl-(acyl carrier protein) reductase;
Validated.
Length = 258
Score = 31.6 bits (72), Expect = 0.35
Identities = 35/164 (21%), Positives = 62/164 (37%), Gaps = 17/164 (10%)
Query: 36 LPTSEGESVAK------ELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGIS 89
LP +G K L P + F P DV + +++ K +GKLD+ V+C +
Sbjct: 40 LPDEKGRFEKKVRELTEPLNPSL-FLPCDVQDDAQIEETFETIKQKWGKLDILVHCLAFA 98
Query: 90 CAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTAS 149
++ T S + F R L ++ + + + L+ E G I+
Sbjct: 99 GKEELIGDFSAT--SREGFARALEISAYSLAPLCKAAKPLMSEG--------GSIVTLTY 148
Query: 150 IAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRVNTIAPG 193
+ +K+ + +A +L IRVN I+ G
Sbjct: 149 LGGVRAIPNYNVMGVAKAALEASVRYLAAELGPKNIRVNAISAG 192
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 30.7 bits (70), Expect = 0.47
Identities = 32/172 (18%), Positives = 47/172 (27%), Gaps = 77/172 (44%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTGGA +G V R++ G VV+
Sbjct: 2 LVTGGAGFIGSHLVRRLLERGHEVVV---------------------------------- 27
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSA 127
+LDV V+ A + G S D+ N VGT N+ +
Sbjct: 28 --------IDRLDVVVHLAALV----------GVPASWDNPDEDFETNVVGTLNLLEAAR 69
Query: 128 QLIHENKLNEDGLRGV--IINTASIAAY-EGQSGQVA----------YSASK 166
+ GV + +S + Y + Y SK
Sbjct: 70 K------------AGVKRFVYASSASVYGSPEGLPEEEETPPRPLSPYGVSK 109
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 31.0 bits (71), Expect = 0.49
Identities = 35/196 (17%), Positives = 61/196 (31%), Gaps = 19/196 (9%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKEL----GPDVKFAPVDVTSEE 63
L+ G S + +A R G R+ L E +A +L V +D+
Sbjct: 5 LIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLRARGAVAVSTHELDILDTA 64
Query: 64 DVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
+ D+ + A R N G +
Sbjct: 65 SHAAFLDSLP---ALPDIVL------IAVGTLGDQAACEADPALALREFRTNFEGPIALL 115
Query: 124 RLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGA 183
L A G I+ +S+A G++ Y ++K+ + + L +
Sbjct: 116 TLLANRFEARG------SGTIVGISSVAGDRGRASNYVYGSAKAALTAFLSGLRNRLFKS 169
Query: 184 GIRVNTIAPGLFDTPL 199
G+ V T+ PG TP+
Sbjct: 170 GVHVLTVKPGFVRTPM 185
>gnl|CDD|187579 cd05271, NDUFA9_like_SDR_a, NADH dehydrogenase (ubiquinone) 1 alpha
subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical
(a) SDRs. This subgroup of extended SDR-like proteins
are atypical SDRs. They have a glycine-rich
NAD(P)-binding motif similar to the typical SDRs,
GXXGXXG, and have the YXXXK active site motif (though
not the other residues of the SDR tetrad). Members
identified include NDUFA9 (mitochondrial) and putative
nucleoside-diphosphate-sugar epimerase. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 273
Score = 30.7 bits (70), Expect = 0.57
Identities = 29/134 (21%), Positives = 52/134 (38%), Gaps = 29/134 (21%)
Query: 5 VVGLVTGGASGLGKATVERIVREGGRVVLC--DLPTSEGESVAKELGPDVKFAPVDVTSE 62
+V V G +G+ V R+ + G +V++ + V +LG V F D+ +
Sbjct: 1 MVVTVFGATGFIGRYVVNRLAKRGSQVIVPYRCEAYARRLLVMGDLG-QVLFVEFDLRDD 59
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNV 122
E ++KA+ DV +N G K F++ V+ G +
Sbjct: 60 ESIRKAL-------EGSDVVINLVGRLYETKNFSFE--------------DVHVEGPERL 98
Query: 123 ARLSAQ-----LIH 131
A+ + + LIH
Sbjct: 99 AKAAKEAGVERLIH 112
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 30.4 bits (69), Expect = 0.77
Identities = 47/213 (22%), Positives = 79/213 (37%), Gaps = 50/213 (23%)
Query: 5 VVGLVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEED 64
V +VTG + GLG A E++++ G V+ + S S+A G + +D++
Sbjct: 2 VRAIVTGHSRGLGAALAEQLLQPGIAVL--GVARSRHPSLAAAAGERLAEVELDLSDAAA 59
Query: 65 VQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFN-VA 123
A L D +D R+LL+N GT +
Sbjct: 60 A--AAWLAGDLLAAF-------------------------VDGASRVLLINNAGTVEPIG 92
Query: 124 RLSAQ----LIHENKLN---------------EDGLRGVIINTASIAAYEGQSGQVAYSA 164
L+ + LN D I++ +S AA +G Y A
Sbjct: 93 PLATLDAAAIARAVGLNVAAPLMLTAALAQAASDAAERRILHISSGAARNAYAGWSVYCA 152
Query: 165 SKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDT 197
+K+ + +A D A +R+ ++APG+ DT
Sbjct: 153 TKAALDHHARAVALD-ANRALRIVSLAPGVVDT 184
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 30.4 bits (69), Expect = 0.89
Identities = 22/63 (34%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LV G A G+G A ++ G VV +SE + KELG D V EED +
Sbjct: 147 LVHGAAGGVGSAAIQLAKALGATVVAVVS-SSEKLELLKELGADH----VINYREEDFVE 201
Query: 68 AVL 70
V
Sbjct: 202 QVR 204
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 328
Score = 30.3 bits (69), Expect = 1.0
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+T +S +G A ++ I G V+ TSE LG V VT EED+
Sbjct: 149 LITAASSSVGLAAIQ-IANAAGATVIATTRTSEKRDALLALGAAH----VIVTDEEDLVA 203
Query: 68 AVL 70
VL
Sbjct: 204 EVL 206
>gnl|CDD|130249 TIGR01181, dTDP_gluc_dehyt, dTDP-glucose 4,6-dehydratase. This
protein is related to UDP-glucose 4-epimerase (GalE) and
likewise has an NAD cofactor [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 317
Score = 30.0 bits (68), Expect = 1.2
Identities = 42/172 (24%), Positives = 66/172 (38%), Gaps = 29/172 (16%)
Query: 8 LVTGGASGLGKATVERIVREGG--RVVLCDLPTSEG--ESVAK-ELGPDVKFAPVDVTSE 62
LVTGGA +G V I+ E V++ D T G E++A E P +F D+
Sbjct: 3 LVTGGAGFIGSNFVRYILNEHPDAEVIVLDKLTYAGNLENLADLEDNPRYRFVKGDIGDR 62
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH---SLDDFKRILLVNTVGT 119
E V + L + + D V+ A S H S+ + N VGT
Sbjct: 63 ELVSR---LFTEH--QPDAVVHFAAES-------------HVDRSISGPAAFIETNVVGT 104
Query: 120 FNVARLSAQLIHENKL---NEDGLRGVIINTASIAAYEGQSGQVAYSASKSG 168
+ + + HE + + D + G + + + YSASK+
Sbjct: 105 YTLLEAVRKYWHEFRFHHISTDEVYGDLEKGDAFTETTPLAPSSPYSASKAA 156
>gnl|CDD|181260 PRK08159, PRK08159, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 272
Score = 29.7 bits (67), Expect = 1.4
Identities = 41/156 (26%), Positives = 61/156 (39%), Gaps = 11/156 (7%)
Query: 42 ESVAKELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGT 101
E +A ELG V DVT E + + +GKLD V+ G S ++ T
Sbjct: 53 EPLAAELGAFV-AGHCDVTDEASIDAVFETLEKKWGKLDFVVHAIGFSDKDELTGRYVDT 111
Query: 102 VHSLDDFKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVA 161
S D+F + ++ VA+ + KL DG G I+ A +
Sbjct: 112 --SRDNFTMTMDISVYSFTAVAQRAE------KLMTDG--GSILTLTYYGAEKVMPHYNV 161
Query: 162 YSASKSGIVGMTLPMARDLAGAGIRVNTIAPGLFDT 197
+K+ + +A DL IRVN I+ G T
Sbjct: 162 MGVAKAALEASVKYLAVDLGPKNIRVNAISAGPIKT 197
>gnl|CDD|187540 cd05229, SDR_a3, atypical (a) SDRs, subgroup 3. These atypical
SDR family members of unknown function have a
glycine-rich NAD(P)-binding motif consensus that is
very similar to the extended SDRs, GXXGXXG. Generally,
this group has poor conservation of the active site
tetrad, However, individual sequences do contain
matches to the YXXXK active site motif, and generally
Tyr or Asn in place of the upstream Ser found in most
SDRs. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a
negative transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 302
Score = 29.6 bits (67), Expect = 1.5
Identities = 19/80 (23%), Positives = 27/80 (33%), Gaps = 12/80 (15%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
V G + +G+ + R G V L S S L P V+ D V
Sbjct: 3 HVLGASGPIGREVARELRRRGWDVRL----VSRSGSKLAWL-PGVEIVAADAMDASSVIA 57
Query: 68 AVLLCKDSFGKLDVNVNCAG 87
A + + DV +CA
Sbjct: 58 A---ARGA----DVIYHCAN 70
>gnl|CDD|187557 cd05246, dTDP_GD_SDR_e, dTDP-D-glucose 4,6-dehydratase, extended
(e) SDRs. This subgroup contains dTDP-D-glucose
4,6-dehydratase and related proteins, members of the
extended-SDR family, with the characteristic Rossmann
fold core region, active site tetrad and NAD(P)-binding
motif. dTDP-D-glucose 4,6-dehydratase is closely related
to other sugar epimerases of the SDR family.
dTDP-D-dlucose 4,6,-dehydratase catalyzes the second of
four steps in the dTDP-L-rhamnose pathway (the
dehydration of dTDP-D-glucose to
dTDP-4-keto-6-deoxy-D-glucose) in the synthesis of
L-rhamnose, a cell wall component of some pathogenic
bacteria. In many gram negative bacteria, L-rhamnose is
an important constituent of lipopoylsaccharide
O-antigen. The larger N-terminal portion of
dTDP-D-Glucose 4,6-dehydratase forms a Rossmann fold
NAD-binding domain, while the C-terminus binds the sugar
substrate. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 315
Score = 29.4 bits (67), Expect = 1.6
Identities = 27/122 (22%), Positives = 47/122 (38%), Gaps = 26/122 (21%)
Query: 8 LVTGGASGLGKATVERIVREGG--RVVLCDLPTSEG--ESVAK-ELGPDVKFAPVDVTSE 62
LVTGGA +G V ++ + +++ D T G E++ P +F D+
Sbjct: 4 LVTGGAGFIGSNFVRYLLNKYPDYKIINLDKLTYAGNLENLEDVSSSPRYRFVKGDICDA 63
Query: 63 EDVQKAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVH---SLDDFKRILLVNTVGT 119
E V + K+D ++ A S H S+ D + + N +GT
Sbjct: 64 ELVDRLF-----EEEKIDAVIHFAAES-------------HVDRSISDPEPFIRTNVLGT 105
Query: 120 FN 121
+
Sbjct: 106 YT 107
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are
approximately 350 residues. Sequence identity between
different SDR enzymes are typically in the 15-30%
range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 260
Score = 29.4 bits (66), Expect = 1.7
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPV-DVTSEEDVQ 66
+TG + GLG A ++ +G VVL + + + AK P + D++S + +
Sbjct: 11 FITGSSDGLGLAAARTLLHQGHEVVL-HARSQKRAADAKAACPGAAGVLIGDLSSLAETR 69
Query: 67 KAVLLCKD--SFGKLDVNVNCAGI 88
K L + G+ D ++ AGI
Sbjct: 70 K---LADQVNAIGRFDAVIHNAGI 90
>gnl|CDD|240946 cd12502, RRM2_RMB19, RNA recognition motif 2 in RNA-binding
protein 19 (RBM19) and similar proteins. This
subfamily corresponds to the RRM2 of RBM19, also termed
RNA-binding domain-1 (RBD-1), a nucleolar protein
conserved in eukaryotes. It is involved in ribosome
biogenesis by processing rRNA and is also essential for
preimplantation development. RBM19 has a unique domain
organization containing 6 conserved RNA recognition
motifs (RRMs), also termed RBDs (RNA binding domains)
or RNPs (ribonucleoprotein domains). .
Length = 72
Score = 27.3 bits (61), Expect = 1.8
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 54 FAPVDVTSEEDVQKAVLLCKDSFG 77
FA VD+ SEED++KA+ KD G
Sbjct: 42 FAFVDLKSEEDLKKALKRNKDYMG 65
>gnl|CDD|181020 PRK07533, PRK07533, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 258
Score = 29.1 bits (66), Expect = 2.0
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 176 MARDLAGAGIRVNTIAPG 193
+A +L GIRV+ I+PG
Sbjct: 176 LAAELGPKGIRVHAISPG 193
>gnl|CDD|200072 TIGR01068, thioredoxin, thioredoxin. Several proteins, such as
protein disulfide isomerase, have two or more copies of
a domain closely related to thioredoxin. This model is
designed to recognize authentic thioredoxin, a small
protein that should be hit exactly once by This model.
Any protein that hits once with a score greater than
the second (per domain) trusted cutoff may be taken as
thioredoxin [Energy metabolism, Electron transport].
Length = 101
Score = 27.6 bits (62), Expect = 2.2
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 42 ESVAKELGPDVKFAPVDVTSEEDV 65
E +AKE VKF ++V D+
Sbjct: 37 EELAKEYEGKVKFVKLNVDENPDI 60
>gnl|CDD|187545 cd05234, UDP_G4E_2_SDR_e, UDP-glucose 4 epimerase, subgroup 2,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
archaeal and bacterial proteins, and has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 28.8 bits (65), Expect = 2.3
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCD 35
LVTGGA +G V+R++ EG VV+ D
Sbjct: 3 LVTGGAGFIGSHLVDRLLEEGNEVVVVD 30
>gnl|CDD|177856 PLN02206, PLN02206, UDP-glucuronate decarboxylase.
Length = 442
Score = 29.2 bits (65), Expect = 2.4
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 3 KGVVGLVTGGASGLGKATVERIVREGGRVVLCD 35
KG+ +VTGGA +G V+R++ G V++ D
Sbjct: 118 KGLRVVVTGGAGFVGSHLVDRLMARGDSVIVVD 150
>gnl|CDD|206379 pfam14211, DUF4323, Domain of unknown function (DUF4323). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and eukaryotes.
Proteins in this family are typically between 85 and 171
amino acids in length.
Length = 126
Score = 27.9 bits (62), Expect = 2.4
Identities = 13/73 (17%), Positives = 23/73 (31%), Gaps = 6/73 (8%)
Query: 173 TLPMARDLAGAGIRVNTIAPGLFD---TPLLSMLNEKVRNFLA---RSIPAPQRLGHPDE 226
TLP ++A + + + + N LA + P+P L P
Sbjct: 29 TLPWIDSPVSGLAAATSLALFRLAFRCASMHRLTSPRASNSLAHSTKGTPSPLYLVAPTA 88
Query: 227 FAQLVQSIITNPL 239
+ V + P
Sbjct: 89 CGRTVSGTFSLPS 101
>gnl|CDD|240849 cd12403, RRM1_NCL, RNA recognition motif 1 in vertebrate
nucleolin. This subfamily corresponds to the RRM1 of
ubiquitously expressed protein nucleolin, also termed
protein C23. Nucleolin is a multifunctional major
nucleolar phosphoprotein that has been implicated in
various metabolic processes, such as ribosome
biogenesis, cytokinesis, nucleogenesis, cell
proliferation and growth, cytoplasmic-nucleolar
transport of ribosomal components, transcriptional
repression, replication, signal transduction, inducing
chromatin decondensation, etc. Nucleolin exhibits
intrinsic self-cleaving, DNA helicase, RNA helicase and
DNA-dependent ATPase activities. It can be
phosphorylated by many protein kinases, such as the
major mitotic kinase Cdc2, casein kinase 2 (CK2), and
protein kinase C-zeta. Nucleolin shares similar domain
architecture with gar2 from Schizosaccharomyces pombe
and NSR1 from Saccharomyces cerevisiae. The highly
phosphorylated N-terminal domain of nucleolin is made
up of highly acidic regions separated from each other
by basic sequences, and contains multiple
phosphorylation sites. The central domain of nucleolin
contains four closely adjacent N-terminal RNA
recognition motifs (RRMs), also termed RBDs (RNA
binding domains) or RNPs (ribonucleoprotein domains),
which suggests that nucleolin is potentially able to
interact with multiple RNA targets. The C-terminal RGG
(or GAR) domain of nucleolin is rich in glycine,
arginine and phenylalanine residues, and contains high
levels of NG,NG-dimethylarginines. RRM1, together with
RRM2, binds specifically to RNA stem-loops containing
the sequence (U/G)CCCG(A/G) in the loop. .
Length = 75
Score = 27.1 bits (60), Expect = 2.7
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 48 LGPDVKFAPVDVTSEEDVQKAVLL 71
+G KF VD S ED++KA+ L
Sbjct: 37 IGSSKKFGYVDFESAEDLEKALEL 60
>gnl|CDD|215704 pfam00085, Thioredoxin, Thioredoxin. Thioredoxins are small
enzymes that participate in redox reactions, via the
reversible oxidation of an active centre disulfide
bond. Some members with only the active site are not
separated from the noise.
Length = 104
Score = 27.6 bits (62), Expect = 2.8
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 42 ESVAKELGPDVKFAPVDVTSEEDV 65
E +A+E DVKFA VD D+
Sbjct: 41 EKLAQEYKDDVKFAKVDADENPDL 64
>gnl|CDD|139768 PRK13691, PRK13691, (3R)-hydroxyacyl-ACP dehydratase subunit
HadC; Provisional.
Length = 166
Score = 28.3 bits (63), Expect = 3.0
Identities = 19/57 (33%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 25 VREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDV 81
+R+ R V CD P E A ELG D AP+ + A + D F +DV
Sbjct: 25 IRQFARAVKCDHPAFFSEDAAAELGYDALVAPLTFVT----IFAKYVQLDFFRHVDV 77
>gnl|CDD|179560 PRK03333, coaE, dephospho-CoA kinase/protein folding accessory
domain-containing protein; Provisional.
Length = 395
Score = 28.8 bits (65), Expect = 3.0
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 13/61 (21%)
Query: 1 MLKGVVGLVTGGASGLGKATVERIVRE-GGRVVLCDL-------PTSEG-ESVAKELGPD 51
ML+ +GL TGG G GK+TV + E G VV D+ P +EG ++ G D
Sbjct: 1 MLR--IGL-TGGI-GAGKSTVAARLAELGAVVVDADVLAREVVEPGTEGLAALVAAFGDD 56
Query: 52 V 52
+
Sbjct: 57 I 57
>gnl|CDD|183143 PRK11459, PRK11459, multidrug resistance outer membrane protein
MdtQ; Provisional.
Length = 478
Score = 28.8 bits (64), Expect = 3.1
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 8/79 (10%)
Query: 74 DSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLSAQLIHEN 133
DS G+L+ N++ A I +YNK V +++D R V L+ + H+
Sbjct: 362 DS-GRLNANLDIAKAQSNLSIASYNKAVVDAVNDVAR-------AASQVETLAEKNQHQQ 413
Query: 134 KLNEDGLRGVIINTASIAA 152
++ D LR V + A A
Sbjct: 414 QIERDALRVVGLAQARFNA 432
>gnl|CDD|215531 PLN02981, PLN02981, glucosamine:fructose-6-phosphate
aminotransferase.
Length = 680
Score = 28.6 bits (64), Expect = 3.8
Identities = 32/103 (31%), Positives = 40/103 (38%), Gaps = 31/103 (30%)
Query: 113 LVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGM 172
+ NTVG+ ++R + +H N G I AS AY Q IV M
Sbjct: 443 ITNTVGS-AISRGTHCGVHINA-------GAEIGVASTKAYTSQ------------IVAM 482
Query: 173 TLPMARDLAGAGI----RVNTIAPGLFDTPLLSMLNEKVRNFL 211
T+ +A L I R I GLFD P KVR L
Sbjct: 483 TM-LALALGEDSISSRSRREAIIDGLFDLP------NKVREVL 518
>gnl|CDD|187564 cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose
reductase and related proteins, extended (e) SDRs.
dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended
SDR, synthesizes dTDP-L-rhamnose from
alpha-D-glucose-1-phosphate, providing the precursor of
L-rhamnose, an essential cell wall component of many
pathogenic bacteria. This subgroup has the
characteristic active site tetrad and NADP-binding
motif. This subgroup also contains human MAT2B, the
regulatory subunit of methionine adenosyltransferase
(MAT); MAT catalyzes S-adenosylmethionine synthesis. The
human gene encoding MAT2B encodes two major splicing
variants which are induced in human cell liver cancer
and regulate HuR, an mRNA-binding protein which
stabilizes the mRNA of several cyclins, to affect cell
proliferation. Both MAT2B variants include this extended
SDR domain. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 280
Score = 28.4 bits (64), Expect = 3.9
Identities = 32/130 (24%), Positives = 51/130 (39%), Gaps = 36/130 (27%)
Query: 8 LVTGGASG-LGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
L+TG A+G LG+A V + G V+ + +D+T + V+
Sbjct: 3 LITG-ATGMLGRALVRLLKERGYEVIGTGRSRAS-------------LFKLDLTDPDAVE 48
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFK-RILLVNTVGTFNVARL 125
+A+ K DV +NCA Y + V + VN + N+AR
Sbjct: 49 EAI-----RDYKPDVIINCAA---------YTR--VDKCESDPELAYRVNVLAPENLARA 92
Query: 126 S----AQLIH 131
+ A+LIH
Sbjct: 93 AKEVGARLIH 102
>gnl|CDD|176210 cd08248, RTN4I1, Human Reticulon 4 Interacting Protein 1. Human
Reticulon 4 Interacting Protein 1 is a member of the
medium chain dehydrogenase/ reductase (MDR) family.
Riticulons are endoplasmic reticulum associated proteins
involved in membrane trafficking and neuroendocrine
secretion. The MDR/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 350
Score = 28.3 bits (64), Expect = 4.0
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 12/83 (14%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVL-CDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
L+ GG+ G+G ++ + G V C +++ + K LG D +D +E+ +
Sbjct: 167 LILGGSGGVGTFAIQLLKAWGAHVTTTC---STDAIPLVKSLGADDV---IDYNNEDFEE 220
Query: 67 KAVLLCKDSFGKLDVNVNCAGIS 89
+ L GK DV ++ G
Sbjct: 221 E---LT--ERGKFDVILDTVGGD 238
>gnl|CDD|187655 cd08952, KR_1_SDR_x, ketoreductase (KR), subgroup 1, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
KR domains found in many multidomain PKSs, including six
of seven Sorangium cellulosum PKSs (encoded by
spiDEFGHIJ) which participate in the synthesis of the
polyketide scaffold of the cytotoxic spiroketal
polyketide spirangien. These seven PKSs have either a
single PKS module (SpiF), two PKR modules
(SpiD,-E,-I,-J), or three PKS modules (SpiG,-H). This
subfamily includes the single KR domain of SpiF, the
first KR domains of SpiE,-G,H,-I,and #J, the third KR
domain of SpiG, and the second KR domain of SpiH. The
second KR domains of SpiE,-G, I, and #J, and the KR
domains of SpiD, belong to a different KR_FAS_SDR
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 480
Score = 28.3 bits (64), Expect = 4.0
Identities = 22/64 (34%), Positives = 24/64 (37%), Gaps = 15/64 (23%)
Query: 8 LVTGGASGLGKATVERIVREG-GRVVLCDLPTS--------EGESVA--KELGPDVKFAP 56
LVTGG LG + R G +VL TS E VA LG V A
Sbjct: 234 LVTGGTGALGAHVARWLARRGAEHLVL----TSRRGPDAPGAAELVAELTALGARVTVAA 289
Query: 57 VDVT 60
DV
Sbjct: 290 CDVA 293
>gnl|CDD|224013 COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope
biogenesis, outer membrane].
Length = 340
Score = 28.3 bits (64), Expect = 4.0
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 8 LVTGGASGLGKATVERIVREGG--RVVLCDLPTSEG--ESVAKELG-PDVKFAPVDVTSE 62
LVTGGA +G V I+ + VV D T G E++A P +F D+
Sbjct: 4 LVTGGAGFIGSNFVRYILNKHPDDHVVNLDKLTYAGNLENLADVEDSPRYRFVQGDICDR 63
Query: 63 EDV 65
E V
Sbjct: 64 ELV 66
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended or
atypical short-chain dehydrogenases/reductases (SDRs,
aka tyrosine-dependent oxidoreductases) are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. Atypical SDRs generally
lack the catalytic residues characteristic of the SDRs,
and their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 27.8 bits (62), Expect = 4.1
Identities = 22/116 (18%), Positives = 37/116 (31%), Gaps = 26/116 (22%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+ G +G+A ++ +G V L + ++KE V D+ + +
Sbjct: 2 LILGATGFIGRALARELLEQGHEVT---LLVRNTKRLSKEDQEPVAVVEGDLRDLDSLSD 58
Query: 68 AVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVA 123
AV G+ + G DF V+ GT NV
Sbjct: 59 AV----------------QGVDVVI----HLAGAPRDTRDFCE---VDVEGTRNVL 91
>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit.
Archaeal ATP synthase shares extensive sequence
similarity with eukaryotic and prokaryotic V-type
(H+)-ATPases [Energy metabolism, ATP-proton motive force
interconversion].
Length = 578
Score = 28.5 bits (64), Expect = 4.1
Identities = 35/98 (35%), Positives = 51/98 (52%), Gaps = 16/98 (16%)
Query: 127 AQLIHENKLNEDGLRGVII----NTASIAAYEGQSGQVAYSASKSG--IVGMTLPMARDL 180
AQ+ K+ E+GL G II + A I YE SG K G +VG P++ +L
Sbjct: 20 AQMYEVVKVGEEGLIGEIIRIEGDKAFIQVYEETSG------IKPGEPVVGTGAPLSVEL 73
Query: 181 AGAGIRVNTIAPGLFDTPLLSMLNEKVRNFLARSIPAP 218
G G+ + +I G+ PL +L EK +F+AR + AP
Sbjct: 74 -GPGL-LGSIYDGV-QRPL-DVLKEKTGDFIARGVDAP 107
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 28.5 bits (64), Expect = 4.2
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 26 REGGRVVLCDLPTSEGES-----VAKELGPDVKFAPV 57
+ GR +L P G++ +A+ELG DV F +
Sbjct: 62 KMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAI 98
>gnl|CDD|180596 PRK06505, PRK06505, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 271
Score = 28.2 bits (63), Expect = 4.2
Identities = 39/165 (23%), Positives = 65/165 (39%), Gaps = 22/165 (13%)
Query: 38 TSEGESVAK-------ELGPDVKFAPVDVTSEEDVQKAVLLCKDSFGKLDVNVNCAGISC 90
T +GE++ K LG D P DV V + +GKLD V+ G
Sbjct: 39 TYQGEALGKRVKPLAESLGSDFVL-PCDVEDIASVDAVFEALEKKWGKLDFVVHAIG--- 94
Query: 91 AFKIFNYNKGTV--HSLDDFKRILLVNTVGTFNVARLSAQLIHENKLNEDGLRGVIINTA 148
F N KG + ++F R ++++ +A+ +A+L+ DG G ++
Sbjct: 95 -FSDKNELKGRYADTTRENFSRTMVISCFSFTEIAKRAAKLM------PDG--GSMLTLT 145
Query: 149 SIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAGAGIRVNTIAPG 193
+ +K+ + +A D GIRVN I+ G
Sbjct: 146 YGGSTRVMPNYNVMGVAKAALEASVRYLAADYGPQGIRVNAISAG 190
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 27.9 bits (62), Expect = 4.3
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 8 LVTGGASGLGKATVERIVREGGRVV 32
LVTG +G A V ++ G V
Sbjct: 4 LVTGATGFVGGAVVRELLARGHEVR 28
>gnl|CDD|235527 PRK05599, PRK05599, hypothetical protein; Provisional.
Length = 246
Score = 27.9 bits (62), Expect = 4.4
Identities = 16/71 (22%), Positives = 33/71 (46%)
Query: 123 ARLSAQLIHENKLNEDGLRGVIINTASIAAYEGQSGQVAYSASKSGIVGMTLPMARDLAG 182
A++S + ++L I+ +SIA + + Y ++K+G+ +A L G
Sbjct: 111 AQVSMLTVLADELRAQTAPAAIVAFSSIAGWRARRANYVYGSTKAGLDAFCQGLADSLHG 170
Query: 183 AGIRVNTIAPG 193
+ +R+ PG
Sbjct: 171 SHVRLIIARPG 181
>gnl|CDD|187659 cd08956, KR_3_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 3, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase (PKS), has 2 subdomains, each corresponding to
a SDR family monomer. The C-terminal subdomain catalyzes
the NADPH-dependent reduction of the beta-carbonyl of a
polyketide to a hydroxyl group, a step in the
biosynthesis of polyketides, such as erythromycin. The
N-terminal subdomain, an interdomain linker, is a
truncated Rossmann fold which acts to stabilizes the
catalytic subdomain. Unlike typical SDRs, the isolated
domain does not oligomerize but is composed of 2
subdomains, each resembling an SDR monomer. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. In some instances, such as
porcine FAS, an enoyl reductase (ER) module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems 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-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta- ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
This subfamily includes KR domains found in many
multidomain PKSs, including six of seven Sorangium
cellulosum PKSs (encoded by spiDEFGHIJ) which
participate in the synthesis of the polyketide scaffold
of the cytotoxic spiroketal polyketide spirangien. These
seven PKSs have either a single PKS module (SpiF), two
PKR modules (SpiD,-E,-I,-J), or three PKS modules
(SpiG,-H). This subfamily includes the second KR domains
of SpiE,-G, I, and -J, both KR domains of SpiD, and the
third KR domain of SpiH. The single KR domain of SpiF,
the first and second KR domains of SpiH, the first KR
domains of SpiE,-G,- I, and -J, and the third KR domain
of SpiG, belong to a different KR_FAS_SDR subfamily.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 448
Score = 28.0 bits (63), Expect = 5.7
Identities = 19/65 (29%), Positives = 26/65 (40%), Gaps = 9/65 (13%)
Query: 4 GVVGLVTGGASGLGKATVERIVREGG--RVVLCDLPTSEGESVAK------ELGPDVKFA 55
G V L+TGG LG +V E G ++L + A+ LG +V A
Sbjct: 194 GTV-LITGGTGTLGALLARHLVTEHGVRHLLLVSRRGPDAPGAAELVAELAALGAEVTVA 252
Query: 56 PVDVT 60
DV
Sbjct: 253 ACDVA 257
>gnl|CDD|223552 COG0476, ThiF, Dinucleotide-utilizing enzymes involved in
molybdopterin and thiamine biosynthesis family 2
[Coenzyme metabolism].
Length = 254
Score = 27.7 bits (62), Expect = 6.0
Identities = 29/96 (30%), Positives = 40/96 (41%), Gaps = 16/96 (16%)
Query: 155 GQSGQVAYSASKSGIVGMTL---PMARDLAGAGIRVNTIAPGLFDTPLLSMLNEKVRNFL 211
G GQ S+ +VG P A+ LA AG+ TI FDT LS L R FL
Sbjct: 21 GGEGQQKLKDSRVLVVGAGGLGSPAAKYLALAGVGKLTIVD--FDTVELSNLQ---RQFL 75
Query: 212 ARSIPAPQRLGHP--DEFAQLVQSIITNPLINGEVI 245
+G P + A+ ++ + NPL+
Sbjct: 76 FTE----ADVGKPKAEVAAKALRKL--NPLVEVVAY 105
>gnl|CDD|163279 TIGR03466, HpnA, hopanoid-associated sugar epimerase. The
sequences in this family are members of the pfam01370
superfamily of NAD-dependent epimerases and
dehydratases typically acting on nucleotide-sugar
substrates. The genes of the family modeled here are
generally in the same locus with genes involved in the
biosynthesis and elaboration of hopene, the cyclization
product of the polyisoprenoid squalene. This gene and
its association with hopene biosynthesis in Zymomonas
mobilis has been noted in the literature where the gene
symbol hpnA was assigned. Hopanoids are known to be
components of the plasma membrane and to have polar
sugar head groups in Z. mobilis and other species.
Length = 328
Score = 27.7 bits (62), Expect = 6.4
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
LVTG +G A V ++ +G V + PTS+ ++ G DV+ D+ ++K
Sbjct: 4 LVTGATGFVGSAVVRLLLEQGEEVRVLVRPTSDRRNLE---GLDVEIVEGDLRDPASLRK 60
Query: 68 AVLLCK 73
AV C+
Sbjct: 61 AVAGCR 66
>gnl|CDD|215370 PLN02686, PLN02686, cinnamoyl-CoA reductase.
Length = 367
Score = 27.4 bits (61), Expect = 7.3
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 9 VTGGASGLGKATVERIVREG 28
VTGG S LG A V+R++R G
Sbjct: 58 VTGGVSFLGLAIVDRLLRHG 77
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 27.0 bits (60), Expect = 8.6
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 5/81 (6%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQK 67
L+ G + G+G+ V R R G V+ + + + LG + +DV V
Sbjct: 5 LIVGASRGIGREFV-RQYRADGWRVIATARDAAALAALQALGAEA--LALDVADPASV-- 59
Query: 68 AVLLCKDSFGKLDVNVNCAGI 88
A L K LD V AG+
Sbjct: 60 AGLAWKLDGEALDAAVYVAGV 80
>gnl|CDD|233006 TIGR00521, coaBC_dfp, phosphopantothenoylcysteine decarboxylase /
phosphopantothenate--cysteine ligase. This model
represents a bifunctional enzyme that catalyzes the
second and third steps (cysteine ligation, EC 6.3.2.5,
and decarboxylation, EC 4.1.1.36) in the biosynthesis of
coenzyme A (CoA) from pantothenate in bacteria. In early
descriptions of this flavoprotein, a ts mutation in one
region of the protein appeared to cause a defect in DNA
metaobolism rather than an increased need for the
pantothenate precursor beta-alanine. This protein was
then called dfp, for DNA/pantothenate metabolism
flavoprotein. The authors responsible for detecting
phosphopantothenate--cysteine ligase activity suggest
renaming this bifunctional protein coaBC for its role in
CoA biosynthesis. This enzyme contains the FMN cofactor,
but no FAD or pyruvoyl group. The amino-terminal region
contains the phosphopantothenoylcysteine decarboxylase
activity [Biosynthesis of cofactors, prosthetic groups,
and carriers, Pantothenate and coenzyme A].
Length = 390
Score = 27.3 bits (61), Expect = 8.8
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 10/74 (13%)
Query: 16 LGKATVERIVREGGRVVLCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQKAVLLCKDS 75
+G A E + G V L P S P VK + V++ E++ +A L +
Sbjct: 213 MGLALAEAAYKRGADVTLITGPVSL------LTPPGVKS--IKVSTAEEMLEAAL--NEL 262
Query: 76 FGKLDVNVNCAGIS 89
D+ ++ A ++
Sbjct: 263 AKDFDIFISAAAVA 276
>gnl|CDD|224012 COG1087, GalE, UDP-glucose 4-epimerase [Cell envelope biogenesis,
outer membrane].
Length = 329
Score = 27.1 bits (61), Expect = 9.2
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 8 LVTGGASGLGKATVERIVREGGRVVLCD-LPTSEGESVAKELGP 50
LVTGGA +G TV ++++ G VV+ D L ++ K
Sbjct: 4 LVTGGAGYIGSHTVRQLLKTGHEVVVLDNLSNGHKIALLKLQFK 47
>gnl|CDD|187543 cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
bacterial proteins, and includes the Staphylococcus
aureus capsular polysaccharide Cap5N, which may have a
role in the synthesis of UDP-N-acetyl-d-fucosamine. This
subgroup has the characteristic active site tetrad and
NAD-binding motif of the extended SDRs. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 303
Score = 26.9 bits (60), Expect = 9.4
Identities = 28/122 (22%), Positives = 44/122 (36%), Gaps = 26/122 (21%)
Query: 8 LVTGGASGLGKATVERIVREGGRVV-LCDLPTSEGESVAKELGPDVKFAPVDVTSEEDVQ 66
LVTG +G+A V++++ G V + SV PD+
Sbjct: 3 LVTGANGFIGRALVDKLLSRGEEVRIAVRNAENAEPSVVLAELPDIDSF----------- 51
Query: 67 KAVLLCKDSFGKLDVNVNCAGISCAFKIFNYNKGTVHSLDDFKRILLVNTVGTFNVARLS 126
D F +D V+ A N L D+++ VNT T +AR +
Sbjct: 52 ------TDLFLGVDAVVHLAARV-----HVMNDQGADPLSDYRK---VNTELTRRLARAA 97
Query: 127 AQ 128
A+
Sbjct: 98 AR 99
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
0.319 0.137 0.388
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,000,720
Number of extensions: 1258017
Number of successful extensions: 2644
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2057
Number of HSP's successfully gapped: 388
Length of query: 254
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 159
Effective length of database: 6,723,972
Effective search space: 1069111548
Effective search space used: 1069111548
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 (21.7 bits)
S2: 58 (25.9 bits)