RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16220
(223 letters)
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in mitochondria
or in peroxisomes. (3R)-hydroxyacyl-CoA dehydrogenase is
part of rat peroxisomal multifunctional MFE-2, it is a
member of the NAD-dependent SDRs, but contains an
additional small C-terminal domain that completes the
active site pocket and participates in dimerization. The
atypical, additional C-terminal extension allows for
more extensive dimerization contact than other SDRs.
MFE-2 catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 250
Score = 357 bits (919), Expect = e-126
Identities = 136/203 (66%), Positives = 169/203 (83%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
+RFDGRV +VTGAG GLGR+YAL AERGA VVVNDLGG R G GKSS AAD VV EI++
Sbjct: 1 LRFDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKA 60
Query: 65 KGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
GGKAV NY+SV DG+KIV+TA++ FGR+DI++NNAGILRD+SFA++S+ DW LV VHL
Sbjct: 61 AGGKAVANYDSVEDGEKIVKTAIDAFGRVDILVNNAGILRDRSFAKMSEEDWDLVMRVHL 120
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G+F+V+RAAWP+M+KQ +GR++ T+S +GL GNFGQANYSAAK+ L+GLSNTL+IEG K
Sbjct: 121 KGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGNFGQANYSAAKLGLLGLSNTLAIEGAK 180
Query: 185 NNIHCNVIVPTAASRLTEDILPP 207
NI CN I P A SR+TE ++P
Sbjct: 181 YNITCNTIAPAAGSRMTETVMPE 203
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 194 bits (494), Expect = 1e-61
Identities = 87/208 (41%), Positives = 121/208 (58%), Gaps = 9/208 (4%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
DGRV IVTGAG G+GR++AL A GA VVVND+G DG AA VV EI + GG
Sbjct: 5 DGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAAGG 64
Query: 68 KAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+AV N + + D D +V A+E FG +D+++NNAGILRD+ A +S+ +W V VHL
Sbjct: 65 EAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAGILRDRMIANMSEEEWDAVIAVHL 124
Query: 125 TGAFRVSRAAWPHMK------KQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
G F R A + + + R++ T+S +GL G+ GQ NYSAAK + L+
Sbjct: 125 KGHFATLRHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNYSAAKAGIAALTLVA 184
Query: 179 SIEGEKNNIHCNVIVPTAASRLTEDILP 206
+ E + + N I P A +R+TE +
Sbjct: 185 AAELGRYGVTVNAIAPAARTRMTETVFA 212
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 180 bits (459), Expect = 6e-57
Identities = 83/208 (39%), Positives = 118/208 (56%), Gaps = 22/208 (10%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+ A+VTGA G+GR+ AL LA GA VV+ D + +AA+ + AE+R+
Sbjct: 2 SLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDS---------NEEAAEALAAELRAA 52
Query: 66 GGKA------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
GG+A V + +V +++ A+E FG +DI++NNAGI RD R+S+ DW V
Sbjct: 53 GGEARVLVFDVSDEAAV---RALIEAAVEAFGALDILVNNAGITRDALLPRMSEEDWDRV 109
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
DV+LTG F V RAA P M K YGR+V +S SG+ GN GQ NYSAAK ++G + L+
Sbjct: 110 IDVNLTGTFNVVRAALPPMIKARYGRIVNISSVSGVTGNPGQTNYSAAKAGVIGFTKALA 169
Query: 180 IEGEKNNIHCNVIVP----TAASRLTED 203
+E I N + P T + +
Sbjct: 170 LELASRGITVNAVAPGFIDTDMTEGLPE 197
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 180 bits (459), Expect = 7e-57
Identities = 76/192 (39%), Positives = 111/192 (57%), Gaps = 11/192 (5%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+G+VA+VTGA G+GR+ A LA +GA+VV+N S A+ +VAEI +
Sbjct: 2 SLEGKVALVTGASRGIGRAIAERLAAQGANVVINYAS--------SEAGAEALVAEIGAL 53
Query: 66 GGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GGKA+ V D + + V A FG +DI++NNAGI RD R+ + DW V D
Sbjct: 54 GGKALAVQGDVSDAESVERAVDEAKAEFGGVDILVNNAGITRDNLLMRMKEEDWDRVIDT 113
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+LTG F +++A M KQ GR++ +S GL+GN GQANY+A+K ++G + +L+ E
Sbjct: 114 NLTGVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQANYAASKAGVIGFTKSLAREL 173
Query: 183 EKNNIHCNVIVP 194
I N + P
Sbjct: 174 ASRGITVNAVAP 185
>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 = 177 bits (451), Expect = 8e-56
Identities = 75/191 (39%), Positives = 109/191 (57%), Gaps = 18/191 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA G+GR+ AL LA GA V V D S +AA V EI++ GG A
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDR---------SEEAAAETVEEIKALGGNA 51
Query: 70 ------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
V + +V + +V+ FG +DI++NNAGI RD R+S+ DW V +V+
Sbjct: 52 AALEADVSDREAV---EALVEKVEAEFGPVDILVNNAGITRDNLLMRMSEEDWDAVINVN 108
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
LTG F V++A M K+ GR++ +S GL+GN GQANY+A+K ++G + +L+ E
Sbjct: 109 LTGVFNVTQAVIRAMIKRRSGRIINISSVVGLIGNPGQANYAASKAGVIGFTKSLAKELA 168
Query: 184 KNNIHCNVIVP 194
I N + P
Sbjct: 169 SRGITVNAVAP 179
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 175 bits (445), Expect = 1e-54
Identities = 82/192 (42%), Positives = 111/192 (57%), Gaps = 11/192 (5%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
GRVA+VTGA GLGR+ AL LA GA VVV+ +AA+ +V + +
Sbjct: 3 SLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRS--------DEEAAEELVEAVEAL 54
Query: 66 GGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G +A V D V A+E FGRIDI++NNAGI DK A +SD +W V DV
Sbjct: 55 GRRAQAVQADVTDKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLADMSDDEWDEVIDV 114
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L+G F + RA P M+KQ GR+V +S +GL G G++NY+AAK LVGL+ L+ E
Sbjct: 115 NLSGVFHLLRAVVPPMRKQRGGRIVNISSVAGLPGWPGRSNYAAAKAGLVGLTKALAREL 174
Query: 183 EKNNIHCNVIVP 194
+ I N++ P
Sbjct: 175 AEYGITVNMVAP 186
>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 = 169 bits (430), Expect = 1e-52
Identities = 71/186 (38%), Positives = 107/186 (57%), Gaps = 11/186 (5%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTGA G+GR+ AL LA+ GA V++ S + A+ VV E+++ G KA+
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIITY--------RSSEEGAEEVVEELKAYGVKALG 52
Query: 72 ---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
+ + D +V+ E G IDI++NNAGI RD R+ + DW V D +LTG F
Sbjct: 53 VVCDVSDREDVKAVVEEIEEELGPIDILVNNAGITRDNLLMRMKEEDWDAVIDTNLTGVF 112
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
+++A M KQ GR++ +S GL+GN GQANY+A+K ++G + +L+ E NI
Sbjct: 113 NLTQAVLRIMIKQRSGRIINISSVVGLMGNAGQANYAASKAGVIGFTKSLAKELASRNIT 172
Query: 189 CNVIVP 194
N + P
Sbjct: 173 VNAVAP 178
>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 = 165 bits (420), Expect = 4e-51
Identities = 80/186 (43%), Positives = 111/186 (59%), Gaps = 13/186 (6%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTGA +G+GR+ A LA GA VV+ D R+ + + +A I + GG AV
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLAD----RNEEALAE------LAAIEALGGNAVA 50
Query: 72 NYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V D + +V+ ALE FGR+DI++NNAGI R ++D DW V DV+LTG F
Sbjct: 51 VQADVSDEEDVEALVEEALEEFGRLDILVNNAGIARPGPLEELTDEDWDRVLDVNLTGVF 110
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
++RAA PHMKKQ GR+V +S +GL GQA Y+A+K AL GL+ +L++E I
Sbjct: 111 LLTRAALPHMKKQGGGRIVNISSVAGLRPLPGQAAYAASKAALEGLTRSLALELAPYGIR 170
Query: 189 CNVIVP 194
N + P
Sbjct: 171 VNAVAP 176
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 160 bits (407), Expect = 2e-48
Identities = 85/207 (41%), Positives = 117/207 (56%), Gaps = 19/207 (9%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA AGLGR+ AL LA GA+VVVND+ S+ A V+ EIR+ G
Sbjct: 11 SGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVA--------SALDASDVLDEIRAAGA 62
Query: 68 KAVPNYNSVVD---GDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
KAV + D++V TA+ G +DIV+NNAGI RD+ +SD +W V VHL
Sbjct: 63 KAVAVAGDISQRATADELVATAVG-LGGLDIVVNNAGITRDRMLFNMSDEEWDAVIAVHL 121
Query: 125 TGAFRVSRAA---WPHMKKQN----YGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNT 177
G F ++R A W K YGR+V T+S +GL+G GQANY AAK + L+ +
Sbjct: 122 RGHFLLTRNAAAYWRAKAKAAGGPVYGRIVNTSSEAGLVGPVGQANYGAAKAGITALTLS 181
Query: 178 LSIEGEKNNIHCNVIVPTAASRLTEDI 204
+ + + N I P A + +T D+
Sbjct: 182 AARALGRYGVRANAICPRARTAMTADV 208
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 152 bits (387), Expect = 6e-46
Identities = 73/195 (37%), Positives = 108/195 (55%), Gaps = 18/195 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VA+VTGA +G+G AL LA+ GA VV+ DL + AA ++
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDE---------AAAAAAEALQKA 51
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISD---TDWQLV 119
GGKA+ V D + I + A+E FG +DI++NNAGI + A I D W+ +
Sbjct: 52 GGKAIGVAMDVTDEEAINAGIDYAVETFGGVDILVNNAGI---QHVAPIEDFPTEKWKKM 108
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
+ L GAF ++AA P MK Q GR++ AS GL+G+ G+A Y +AK L+GL+ ++
Sbjct: 109 IAIMLDGAFLTTKAALPIMKAQGGGRIINMASVHGLVGSAGKAAYVSAKHGLIGLTKVVA 168
Query: 180 IEGEKNNIHCNVIVP 194
+EG + + N I P
Sbjct: 169 LEGATHGVTVNAICP 183
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 151 bits (383), Expect = 2e-45
Identities = 70/194 (36%), Positives = 110/194 (56%), Gaps = 11/194 (5%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+ G+VAIVTGA G+GR+ A LLA+ GA VV+ + +AA ++ EI+ +
Sbjct: 2 KLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAY--------DINEEAAQELLEEIKEE 53
Query: 66 GGKAVP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GG A+ + +S D + +V+ +E FG+IDI++NNAGI ++D +W V DV
Sbjct: 54 GGDAIAVKADVSSEEDVENLVEQIVEKFGKIDILVNNAGISNFGLVTDMTDEEWDRVIDV 113
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+LTG ++R A P+M K+ G +V +S GL+G + YSA+K A+ + L+ E
Sbjct: 114 NLTGVMLLTRYALPYMIKRKSGVIVNISSIWGLIGASCEVLYSASKGAVNAFTKALAKEL 173
Query: 183 EKNNIHCNVIVPTA 196
+ I N + P A
Sbjct: 174 APSGIRVNAVAPGA 187
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 150 bits (381), Expect = 3e-45
Identities = 73/195 (37%), Positives = 108/195 (55%), Gaps = 13/195 (6%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+GRVA+VTGA G+GR+ A+ LA GA V+V D+ G A + +
Sbjct: 3 DLEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGD---------DAAATAELVEAA 53
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GGKA V D + V +E+FGR+DI++ NAGI FA + D W+ V DV
Sbjct: 54 GGKARARQVDVRDRAALKAAVAAGVEDFGRLDILVANAGIFPLTPFAEMDDEQWERVIDV 113
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL-LGNFGQANYSAAKMALVGLSNTLSIE 181
+LTG F +++AA P + + GR+V+T+S +G +G G A+Y+A+K LVG + L++E
Sbjct: 114 NLTGTFLLTQAALPALIRAGGGRIVLTSSVAGPRVGYPGLAHYAASKAGLVGFTRALALE 173
Query: 182 GEKNNIHCNVIVPTA 196
NI N + P
Sbjct: 174 LAARNITVNSVHPGG 188
>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 = 144 bits (365), Expect = 7e-43
Identities = 77/195 (39%), Positives = 107/195 (54%), Gaps = 16/195 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VA+VTGA +G+GR+ A LA GA VVV +AA+ + A I+
Sbjct: 2 DLSGKVALVTGASSGIGRAIARALAREGARVVVA-------ARRSEEEAAEALAAAIKEA 54
Query: 66 GGKAVPNY-----NSVVDGDKIVQTALENFGRIDIVINNAGILR-DKSFARISDTDWQLV 119
GG + + +V A E FGRIDI++NNAGI D +++ DW V
Sbjct: 55 GGGRAAAVAADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPLEELTEEDWDRV 114
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
DV+L GAF ++RAA P MKKQ R+V +S +GL G GQA Y+A+K AL+GL+ L+
Sbjct: 115 IDVNLLGAFLLTRAALPLMKKQ---RIVNISSVAGLGGPPGQAAYAASKAALIGLTKALA 171
Query: 180 IEGEKNNIHCNVIVP 194
+E I N + P
Sbjct: 172 LELAPRGIRVNAVAP 186
>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 = 137 bits (347), Expect = 5e-40
Identities = 72/192 (37%), Positives = 102/192 (53%), Gaps = 18/192 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A+VTGA +G+G + A LA GA+VVVND G + A+ GG
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEE---------GAEAAAKVAGDAGGS 51
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISD---TDWQLVQDV 122
+ V D+I + A FG +DI++NNAGI + A I + DW + V
Sbjct: 52 VIYLPADVTKEDEIADMIAAAAAEFGGLDILVNNAGI---QHVAPIEEFPPEDWDRIIAV 108
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
LT AF RAA PHMKKQ +GR++ AS GL+ + ++ Y AAK L+GL+ L++E
Sbjct: 109 MLTSAFHTIRAALPHMKKQGWGRIINIASAHGLVASPFKSAYVAAKHGLIGLTKVLALEV 168
Query: 183 EKNNIHCNVIVP 194
++ I N I P
Sbjct: 169 AEHGITVNAICP 180
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 133 bits (337), Expect = 9e-39
Identities = 70/193 (36%), Positives = 118/193 (61%), Gaps = 11/193 (5%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
V+ +G+VAIVTG G+G++ + LA+ GA VV+N S +AA+ +V E+
Sbjct: 2 VQLNGKVAIVTGGAKGIGKAITVALAQEGAKVVINY--------NSSKEAAENLVNELGK 53
Query: 65 KGGKAVP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
+G + + V D +++V+ A+ +FG++DI++NNAGI RD++F +++ DW+ V D
Sbjct: 54 EGHDVYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNAGITRDRTFKKLNREDWERVID 113
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V+L+ F + A P++ + GR++ +S G G FGQ NYSAAK ++G + +L++E
Sbjct: 114 VNLSSVFNTTSAVLPYITEAEEGRIISISSIIGQAGGFGQTNYSAAKAGMLGFTKSLALE 173
Query: 182 GEKNNIHCNVIVP 194
K N+ N I P
Sbjct: 174 LAKTNVTVNAICP 186
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 133 bits (336), Expect = 2e-38
Identities = 86/221 (38%), Positives = 118/221 (53%), Gaps = 15/221 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
D R ++TG GLGR+ A+ LA GA V+V D+ R AD V A I + GG
Sbjct: 5 DSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMR-----GRAEADAVAAGIEAAGG 59
Query: 68 KAVPNYNSVVDGDKIVQTAL----ENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
KA+ V D + AL E FGR+DI++NNAGI D +FA +S +W V DV+
Sbjct: 60 KALGLAFDVRDFAA-TRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIEEWDDVIDVN 118
Query: 124 LTGAFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
L G F V++AA P M + + GR+V AS +G+ GN GQ NY+A+K L+GL+ TL+ E
Sbjct: 119 LDGFFNVTQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASKAGLIGLTKTLANEL 178
Query: 183 EKNNIHCNVIVPTAASRLTEDILPPGSYPVKGFDPPVSFNR 223
I N + P A + D P + + PV R
Sbjct: 179 APRGITVNAVAPGAINTPMADNAAPTEHLLN----PVPVQR 215
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 133 bits (336), Expect = 2e-38
Identities = 64/191 (33%), Positives = 99/191 (51%), Gaps = 13/191 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+G+ A+VTGA +G+G+ AL LA GA+V + DL A+ V EI GG
Sbjct: 6 NGKTAVVTGAASGIGKEIALELARAGAAVAIADLN---------QDGANAVADEINKAGG 56
Query: 68 KAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
KA+ V + D + + E FG +DI+++NAGI S DW+ +Q +H+
Sbjct: 57 KAIGVAMDVTNEDAVNAGIDKVAERFGSVDILVSNAGIQIVNPIENYSFADWKKMQAIHV 116
Query: 125 TGAFRVSRAAWPHMKK-QNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
GAF ++AA HM K G ++ S + ++ Y AK L+GL+ L+ EG
Sbjct: 117 DGAFLTTKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAYVTAKHGLLGLARVLAKEGA 176
Query: 184 KNNIHCNVIVP 194
K+N+ +V+ P
Sbjct: 177 KHNVRSHVVCP 187
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 126 bits (319), Expect = 9e-36
Identities = 63/193 (32%), Positives = 97/193 (50%), Gaps = 12/193 (6%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEI-RSK 65
DG +VTG +G+GR+ A AE GA V V D+ S A A + +K
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDV---------SEAALAATAARLPGAK 59
Query: 66 GGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGI-LRDKSFARISDTDWQLVQDVHL 124
V + +++ TA+E FG +D+++NNAGI I+ W+ V+L
Sbjct: 60 VTATVADVADPAQVERVFDTAVERFGGLDVLVNNAGIAGPTGGIDEITPEQWEQTLAVNL 119
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMT-ASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
G F +RAA P +K +G +++ +S +G LG G+ Y+A+K A+VGL +L+IE
Sbjct: 120 NGQFYFARAAVPLLKASGHGGVIIALSSVAGRLGYPGRTPYAASKWAVVGLVKSLAIELG 179
Query: 184 KNNIHCNVIVPTA 196
I N I+P
Sbjct: 180 PLGIRVNAILPGI 192
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 125 bits (316), Expect = 1e-35
Identities = 58/185 (31%), Positives = 90/185 (48%), Gaps = 5/185 (2%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
++A+VTGA G+G + A L G V+ G +K +
Sbjct: 3 KIALVTGAKRGIGSAIARELLNDGYRVIATYFSG-----NDCAKDWFEEYGFTEDQVRLK 57
Query: 70 VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFR 129
+ + + + E G +DI++NNAGI RD F R+S +W V + +L F
Sbjct: 58 ELDVTDTEECAEALAEIEEEEGPVDILVNNAGITRDSVFKRMSHQEWNDVINTNLNSVFN 117
Query: 130 VSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHC 189
V++ + M +Q YGR++ +S +GL G FGQ NYSAAK ++G + L+ EG + I
Sbjct: 118 VTQPLFAAMCEQGYGRIINISSVNGLKGQFGQTNYSAAKAGMIGFTKALASEGARYGITV 177
Query: 190 NVIVP 194
N I P
Sbjct: 178 NCIAP 182
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 124 bits (315), Expect = 3e-35
Identities = 67/203 (33%), Positives = 103/203 (50%), Gaps = 15/203 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R +G+VAIVTGA +G+G A A GA VVV D +AA+ V AEI +
Sbjct: 2 RLEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNE---------EAAERVAAEILA- 51
Query: 66 GGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGI-LRDKSFARISDTDWQLVQD 121
GG+A+ V D V ALE FG +DI++NNAG R+ + + ++ +
Sbjct: 52 GGRAIAVAADVSDEADVEAAVAAALERFGSVDILVNNAGTTHRNGPLLDVDEAEFDRIFA 111
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V++ + ++AA P M+ + G +V AS +GL G Y+A+K A++ L+ L+ E
Sbjct: 112 VNVKSPYLWTQAAVPAMRGEGGGAIVNVASTAGLRPRPGLGWYNASKGAVITLTKALAAE 171
Query: 182 GEKNNIHCNVIVPTA-ASRLTED 203
+ I N + P + L E
Sbjct: 172 LGPDKIRVNAVAPVVVETGLLEA 194
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 124 bits (314), Expect = 4e-35
Identities = 70/199 (35%), Positives = 102/199 (51%), Gaps = 24/199 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R +G+VAI+TGA +G+GR+ A L A GA VVV + D +VAEIR++
Sbjct: 3 RLNGKVAIITGASSGIGRAAAKLFAREGAKVVVG---------ARRQAELDQLVAEIRAE 53
Query: 66 GGKAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRD-KSFARISDTDW 116
GG+AV + GD +V A+E FG +DI NNAG L + A +S W
Sbjct: 54 GGEAV-----ALAGDVRDEAYAKALVALAVERFGGLDIAFNNAGTLGEMGPVAEMSLEGW 108
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNF-GQANYSAAKMALVGLS 175
+ +LT AF ++ P M + G L+ T++ G F G A Y+A+K L+GL+
Sbjct: 109 RETLATNLTSAFLGAKHQIPAMLARGGGSLIFTSTFVGHTAGFPGMAAYAASKAGLIGLT 168
Query: 176 NTLSIEGEKNNIHCNVIVP 194
L+ E I N ++P
Sbjct: 169 QVLAAEYGAQGIRVNALLP 187
>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 = 123 bits (311), Expect = 8e-35
Identities = 68/193 (35%), Positives = 106/193 (54%), Gaps = 12/193 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA +G+G++ A+ LA GA+VVVN + AA+ VV EI++ GG
Sbjct: 2 KGKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKE--------DAAEEVVEEIKAVGG 53
Query: 68 KAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
KA+ V + + Q+A++ FG +DI++NNAG+ D S ++ DW V DV+L
Sbjct: 54 KAIAVQADVSKEEDVVALFQSAIKEFGTLDILVNNAGLQGDASSHEMTLEDWNKVIDVNL 113
Query: 125 TGAFRVSRAAWPHMKKQN-YGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
TG F +R A +K G+++ +S + G NY+A+K + ++ TL+ E
Sbjct: 114 TGQFLCAREAIKRFRKSKIKGKIINMSSVHEKIPWPGHVNYAASKGGVKMMTKTLAQEYA 173
Query: 184 KNNIHCNVIVPTA 196
I N I P A
Sbjct: 174 PKGIRVNAIAPGA 186
>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 = 123 bits (310), Expect = 1e-34
Identities = 61/189 (32%), Positives = 96/189 (50%), Gaps = 13/189 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA G+GR+ A LA GASVVVN S AA+ VVAEI + GGK
Sbjct: 3 GKVALVTGASRGIGRAIAKRLARDGASVVVNYAS--------SKAAAEEVVAEIEAAGGK 54
Query: 69 AV---PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
A+ + + ++ A + FG +DI++NNAG++ K A S+ ++ + V+
Sbjct: 55 AIAVQADVSDPSQVARLFDAAEKAFGGVDILVNNAGVMLKKPIAETSEEEFDRMFTVNTK 114
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
GAF V + A ++ GR++ +S+ Y+ +K A+ + L+ E
Sbjct: 115 GAFFVLQEAAKRLRDG--GRIINISSSLTAAYTPNYGAYAGSKAAVEAFTRVLAKELGGR 172
Query: 186 NIHCNVIVP 194
I N + P
Sbjct: 173 GITVNAVAP 181
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 121 bits (305), Expect = 7e-34
Identities = 72/207 (34%), Positives = 99/207 (47%), Gaps = 24/207 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
RFD +VAIVTGA G+G++YA LA GASVVV D+ + A+ V +I +
Sbjct: 3 RFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAE---------GAERVAKQIVAD 53
Query: 66 GGKAVPNYNSVVDGDK---IVQTALENFGRIDIVINNAGILRDKSFARISDTDW---QLV 119
GG A+ V D D + + FG ID ++NNA I + W +
Sbjct: 54 GGTAIAVQVDVSDPDSAKAMADATVSAFGGIDYLVNNAAIYGGMKLDLLITVPWDYYKKF 113
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL-GNFGQANYSAAKMALVGLSNTL 178
V+L GA +RA + HM K+ G +V +S + L NF Y AK+ L GL+ L
Sbjct: 114 MSVNLDGALVCTRAVYKHMAKRGGGAIVNQSSTAAWLYSNF----YGLAKVGLNGLTQQL 169
Query: 179 SIEGEKNNIHCNVIVP----TAASRLT 201
+ E NI N I P T A+R
Sbjct: 170 ARELGGMNIRVNAIAPGPIDTEATRTV 196
>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 = 120 bits (303), Expect = 1e-33
Identities = 59/189 (31%), Positives = 91/189 (48%), Gaps = 13/189 (6%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGG-QRDGDGKSSKAA---DTVVAEIRSK 65
R+A+VTG G+G + LA+ G V N +R + A D V E
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGD-- 58
Query: 66 GGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
V ++ S V G ID+++NNAGI RD +F +++ W V D +L
Sbjct: 59 ----VSSFESCKAA---VAKVEAELGPIDVLVNNAGITRDATFKKMTYEQWSAVIDTNLN 111
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
F V++ M+++ +GR++ +S +G G FGQ NYSAAK ++G + L+ EG
Sbjct: 112 SVFNVTQPVIDGMRERGWGRIINISSVNGQKGQFGQTNYSAAKAGMIGFTKALAQEGATK 171
Query: 186 NIHCNVIVP 194
+ N I P
Sbjct: 172 GVTVNTISP 180
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 120 bits (304), Expect = 1e-33
Identities = 60/193 (31%), Positives = 92/193 (47%), Gaps = 15/193 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VA+VTG +G+G + A L A +GA V + D R D A
Sbjct: 12 DLSGKVAVVTGGASGIGHAIAELFAAKGARVALLD----RSEDVAEVAAQ--------LL 59
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GG A V D + V + FGRIDI++N+AG+ +S+ DW D+
Sbjct: 60 GGNAKGLVCDVSDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDVSEEDWDKTIDI 119
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L G+F +++A HM G++V AS +G++ Y A+K +VG++ L++E
Sbjct: 120 NLKGSFLMAQAVGRHMIAAGGGKIVNLASQAGVVALERHVAYCASKAGVVGMTKVLALEW 179
Query: 183 EKNNIHCNVIVPT 195
I N I PT
Sbjct: 180 GPYGITVNAISPT 192
>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 = 119 bits (301), Expect = 2e-33
Identities = 65/189 (34%), Positives = 100/189 (52%), Gaps = 12/189 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA G+G A LAE GA++V+N ++ + A+ I +G +
Sbjct: 5 GKVALVTGASRGIGFGIASGLAEAGANIVINS---------RNEEKAEEAQQLIEKEGVE 55
Query: 69 AVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
A V D + V+ E+FG+IDI++NNAGI+R + +W+ V DV+L
Sbjct: 56 ATAFTCDVSDEEAIKAAVEAIEEDFGKIDILVNNAGIIRRHPAEEFPEAEWRDVIDVNLN 115
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
G F VS+A HM KQ +G+++ S LG Y+A+K + GL+ L+ E ++
Sbjct: 116 GVFFVSQAVARHMIKQGHGKIINICSLLSELGGPPVPAYAASKGGVAGLTKALATEWARH 175
Query: 186 NIHCNVIVP 194
I N I P
Sbjct: 176 GIQVNAIAP 184
>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 = 119 bits (301), Expect = 3e-33
Identities = 68/197 (34%), Positives = 106/197 (53%), Gaps = 8/197 (4%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA----DTVVAEIR 63
+G+VA +TGA G GR++A+ LA GA ++ DL A D +
Sbjct: 2 EGKVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLVE 61
Query: 64 SKGGKAVPNYNSVVDGDK---IVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
+ G K + V D + +V+ +E FGR+D+V+ NAG+L +S+ W V
Sbjct: 62 ALGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWELSEEQWDTVL 121
Query: 121 DVHLTGAFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
D++LTG +R +A PHM ++ N G +++T+S +GL G A+Y+AAK LVGL+ TL+
Sbjct: 122 DINLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHYAAAKHGLVGLTKTLA 181
Query: 180 IEGEKNNIHCNVIVPTA 196
E + I N I P +
Sbjct: 182 NELAEYGIRVNSIHPYS 198
>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 = 119 bits (301), Expect = 3e-33
Identities = 69/197 (35%), Positives = 97/197 (49%), Gaps = 15/197 (7%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
G+VAIVTG G+G + A LAE GA V + S+ A+ E+
Sbjct: 3 LFSLKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYN---------SAPRAEEKAEELA 53
Query: 64 SKGGKAVPNYNSVVDGDKIVQTAL----ENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
K G Y V + V+ ++FG+IDI+I NAGI K + W V
Sbjct: 54 KKYGVKTKAYKCDVSSQESVEKTFKQIQKDFGKIDILIANAGITVHKPALDYTYEQWNKV 113
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ--ANYSAAKMALVGLSNT 177
DV+L G F ++AA KKQ G L++TAS SG + N Q A Y+A+K A++ L+ +
Sbjct: 114 IDVNLNGVFNCAQAAAKIFKKQGKGSLIITASMSGTIVNRPQPQAAYNASKAAVIHLAKS 173
Query: 178 LSIEGEKNNIHCNVIVP 194
L++E K I N I P
Sbjct: 174 LAVEWAKYFIRVNSISP 190
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 124 bits (314), Expect = 7e-33
Identities = 67/194 (34%), Positives = 94/194 (48%), Gaps = 14/194 (7%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+VA+VTGA G+G++ A LA GA VV+ DL D + AA+ AE+
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADL----DEE-----AAEAAAAEL-GGP 469
Query: 67 GKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
+A+ V D + + A FG +DIV++NAGI SD DW+ DV+
Sbjct: 470 DRALGVACDVTDEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEETSDEDWRRSFDVN 529
Query: 124 LTGAFRVSRAAWPHMKKQN-YGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
TG F V+R A MK Q G +V AS + + Y AAK A + L L++E
Sbjct: 530 ATGHFLVAREAVRIMKAQGLGGSIVFIASKNAVNPGPNFGAYGAAKAAELHLVRQLALEL 589
Query: 183 EKNNIHCNVIVPTA 196
+ I N + P A
Sbjct: 590 GPDGIRVNGVNPDA 603
>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 = 118 bits (297), Expect = 1e-32
Identities = 55/190 (28%), Positives = 91/190 (47%), Gaps = 19/190 (10%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDG-KSSKAADTVVAEIRSKGGK 68
+V ++TG +G+G + AL LA +G V+ R+ D +S + +
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVI----ATARNPDKLESLGEL-------LNDNLE 49
Query: 69 AVP----NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+ + S+ V+ +E FGRID+++NNAG S + + + +V++
Sbjct: 50 VLELDVTDEESI---KAAVKEVIERFGRIDVLVNNAGYGLFGPLEETSIEEVRELFEVNV 106
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G RV+RA P M+KQ GR+V +S +GL+ Y A+K AL LS +L +E
Sbjct: 107 FGPLRVTRAFLPLMRKQGSGRIVNVSSVAGLVPTPFLGPYCASKAALEALSESLRLELAP 166
Query: 185 NNIHCNVIVP 194
I +I P
Sbjct: 167 FGIKVTIIEP 176
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 118 bits (297), Expect = 1e-32
Identities = 61/190 (32%), Positives = 93/190 (48%), Gaps = 12/190 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ A+VTGA GLG ++A LAE GA+V ND + A + A + + GG
Sbjct: 6 AGKRALVTGAARGLGAAFAEALAEAGATVAFNDG---------LAAEARELAAALEAAGG 56
Query: 68 KAVP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+A + + A G +D ++NNAGI KS + W V +V++
Sbjct: 57 RAHAIAADLADPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATELDIDTWDAVMNVNV 116
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G F + RAA PH++ GR+V AS++ L G Y A+K A++G++ +L+ E
Sbjct: 117 RGTFLMLRAALPHLRDSGRGRIVNLASDTALWGAPKLGAYVASKGAVIGMTRSLARELGG 176
Query: 185 NNIHCNVIVP 194
I N I P
Sbjct: 177 RGITVNAIAP 186
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 118 bits (297), Expect = 2e-32
Identities = 61/191 (31%), Positives = 92/191 (48%), Gaps = 19/191 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVV---VNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
RV I TGA +GLGR+ AL A G + VN+ GG+ + +R G
Sbjct: 2 RVMI-TGAASGLGRAIALRWAREGWRLALADVNEEGGEE------------TLKLLREAG 48
Query: 67 GKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
G V D ++ Q E +G ID+++NNAG+ F +S DW ++
Sbjct: 49 GDGFYQRCDVRDYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLEDWDWQIAIN 108
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
L G + +A P K+Q GR+V AS +GL+ ++Y+ AK +V LS TL +E
Sbjct: 109 LMGVVKGCKAFLPLFKRQKSGRIVNIASMAGLMQGPAMSSYNVAKAGVVALSETLLVELA 168
Query: 184 KNNIHCNVIVP 194
+ I +V+ P
Sbjct: 169 DDEIGVHVVCP 179
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 117 bits (295), Expect = 2e-32
Identities = 59/193 (30%), Positives = 103/193 (53%), Gaps = 14/193 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+ G+ A++TGA G+G A + A GA++++ D+ S + + E+ +
Sbjct: 3 KLTGKTALITGALQGIGEGIARVFARHGANLILLDI----------SPEIEKLADELCGR 52
Query: 66 GGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G + V D ++ A E GRIDI++NNAG+ R SF +SD D D+
Sbjct: 53 GHRCTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHIDI 112
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG-LLGNFGQANYSAAKMALVGLSNTLSIE 181
++ G + V++A P M + GR+VM +S +G ++ + G+ Y+ K A+VGL+ +L++E
Sbjct: 113 NIKGVWNVTKAVLPEMIARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLAVE 172
Query: 182 GEKNNIHCNVIVP 194
++ I N I P
Sbjct: 173 YAQSGIRVNAICP 185
>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 = 117 bits (294), Expect = 2e-32
Identities = 65/195 (33%), Positives = 102/195 (52%), Gaps = 6/195 (3%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTV---VAEIRSK 65
G+VA VTGA G+GR+ AL LA+ GA+VVV +G + T+ EI +
Sbjct: 3 GKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEAA 62
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GG+A+P V D D++ V+ ++ FGR+DI++NNAG + + L+Q V
Sbjct: 63 GGQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGAIWLSLVEDTPAKRFDLMQRV 122
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L G + +S+AA PHM K G ++ + L G Y+A K + L+ L+ E
Sbjct: 123 NLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAYAAGKAGMSRLTLGLAAEL 182
Query: 183 EKNNIHCNVIVPTAA 197
++ I N + P+ A
Sbjct: 183 RRHGIAVNSLWPSTA 197
>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 = 117 bits (295), Expect = 3e-32
Identities = 60/197 (30%), Positives = 94/197 (47%), Gaps = 28/197 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDG---------KSSKAADTVV 59
G+VA+VT A +G+G + A LA GA V + R+ + VV
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICA----RNRENLERAASELRAGGAGVLAVV 56
Query: 60 AEIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
A++ D D++V+ A + FGR+DI++NNAG FA ++D DW
Sbjct: 57 ADLTDPE-----------DIDRLVEKAGDAFGRVDILVNNAGGPPPGPFAELTDEDWLEA 105
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL--LGNFGQANYSAAKMALVGLSNT 177
D+ L R+ RA P MK++ +GR+V +S + N +N A+ L+GL T
Sbjct: 106 FDLKLLSVIRIVRAVLPGMKERGWGRIVNISSLTVKEPEPNLVLSN--VARAGLIGLVKT 163
Query: 178 LSIEGEKNNIHCNVIVP 194
LS E + + N ++P
Sbjct: 164 LSRELAPDGVTVNSVLP 180
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 115 bits (290), Expect = 1e-31
Identities = 68/195 (34%), Positives = 103/195 (52%), Gaps = 15/195 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R GRVAIVTGAG+G+GR+ A L A GA VVV D RD + A+ V A I +
Sbjct: 2 RLAGRVAIVTGAGSGIGRATAKLFAREGARVVVAD----RDAEA-----AERVAAAIAA- 51
Query: 66 GGKAVPNYNSVVDGDKIVQTALEN----FGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
GG+A V + V+ ++ +GR+D+++NNAG + + DW V
Sbjct: 52 GGRAFARQGDVGSAEA-VEALVDFVAARWGRLDVLVNNAGFGCGGTVVTTDEADWDAVMR 110
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V++ G F ++ A P M++Q G +V TAS L G G+A Y A+K A+ L+ ++++
Sbjct: 111 VNVGGVFLWAKYAIPIMQRQGGGSIVNTASQLALAGGRGRAAYVASKGAIASLTRAMALD 170
Query: 182 GEKNNIHCNVIVPTA 196
+ I N + P
Sbjct: 171 HATDGIRVNAVAPGT 185
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 115 bits (289), Expect = 1e-31
Identities = 59/202 (29%), Positives = 101/202 (50%), Gaps = 19/202 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A++TGAG G+GR+ A+ LA+ G +V + ++ + V E+ + G K
Sbjct: 7 GKNALITGAGRGIGRAVAIALAKEGVNVGLL---------ARTEENLKAVAEEVEAYGVK 57
Query: 69 A------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
V +Y V ++ G IDI+INNAGI + F + +W+ + V
Sbjct: 58 VVIATADVSDYEEV---TAAIEQLKNELGSIDILINNAGISKFGKFLELDPAEWEKIIQV 114
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L G + +RA P M ++ G ++ +S +G G + YSA+K ++GL+ +L E
Sbjct: 115 NLMGVYYATRAVLPSMIERQSGDIINISSTAGQKGAAVTSAYSASKFGVLGLTESLMQEV 174
Query: 183 EKNNIHCNVIVP-TAASRLTED 203
K+NI + P T A+ + D
Sbjct: 175 RKHNIRVTALTPSTVATDMAVD 196
>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 = 113 bits (286), Expect = 4e-31
Identities = 53/196 (27%), Positives = 97/196 (49%), Gaps = 22/196 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ ++TG +G+G++ A L + GA+V++ +S + V EI ++
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIV---------ARSESKLEEAVEEIEAEANA 51
Query: 69 A----------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL 118
+ + +Y V ++ A+E G D+V+N AGI F ++ +++
Sbjct: 52 SGQKVSYISADLSDYEEV---EQAFAQAVEKGGPPDLVVNCAGISIPGLFEDLTAEEFER 108
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
DV+ G+ V+ A P MK+Q G +V +S + L+G +G + Y +K AL GL+ +L
Sbjct: 109 GMDVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQAALVGIYGYSAYCPSKFALRGLAESL 168
Query: 179 SIEGEKNNIHCNVIVP 194
E + NI +V+ P
Sbjct: 169 RQELKPYNIRVSVVYP 184
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 113 bits (284), Expect = 1e-30
Identities = 59/188 (31%), Positives = 88/188 (46%), Gaps = 15/188 (7%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F G+ VTGA G+G + AL E GA V+ D + + T V ++
Sbjct: 6 FSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFD----QAFLTQEDYPFATFVLDVSD-- 59
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
AV ++ Q L G +D+++N AGILR + +SD DWQ V+ G
Sbjct: 60 AAAV---------AQVCQRLLAETGPLDVLVNAAGILRMGATDSLSDEDWQQTFAVNAGG 110
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
AF + RA P ++Q G +V SN+ + G A Y A+K AL L+ + +E
Sbjct: 111 AFNLFRAVMPQFRRQRSGAIVTVGSNAAHVPRIGMAAYGASKAALTSLAKCVGLELAPYG 170
Query: 187 IHCNVIVP 194
+ CNV+ P
Sbjct: 171 VRCNVVSP 178
>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 = 112 bits (282), Expect = 1e-30
Identities = 66/195 (33%), Positives = 101/195 (51%), Gaps = 20/195 (10%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V ++TGA +G+GR+ AL AERGA VV+ +S++A + E+R GG+A
Sbjct: 1 QVVVITGASSGIGRATALAFAERGAKVVLA---------ARSAEALHELAREVRELGGEA 51
Query: 70 VPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDT---DWQLVQDVH 123
+ V D + TA+E FGRID +NNAG+ F R D +++ V DV+
Sbjct: 52 IAVVADVADAAQVERAADTAVERFGRIDTWVNNAGV---AVFGRFEDVTPEEFRRVFDVN 108
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
G + AA PH++++ G L+ S G QA YSA+K A+ G + +L E
Sbjct: 109 YLGHVYGTLAALPHLRRRGGGALINVGSLLGYRSAPLQAAYSASKHAVRGFTESLRAELA 168
Query: 184 KN--NIHCNVIVPTA 196
+ I ++ PTA
Sbjct: 169 HDGAPISVTLVQPTA 183
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 112 bits (282), Expect = 3e-30
Identities = 60/190 (31%), Positives = 102/190 (53%), Gaps = 14/190 (7%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V I+TGA G+GR+ A+ LA GA +V+ + ++ E+ GG+
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAAR---------NETRLASLAQELADHGGE 51
Query: 69 AVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDW-QLVQDVHL 124
A+ V D + ++++ A+ FG IDI++NNAGI F ++D + V V+
Sbjct: 52 ALVVPTDVSDAEACERLIEAAVARFGGIDILVNNAGITMWSRFDELTDLSVFERVMRVNY 111
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
GA + AA PH+K + G++V+ +S +GL G ++ Y+A+K AL G ++L IE
Sbjct: 112 LGAVYCTHAALPHLKA-SRGQIVVVSSLAGLTGVPTRSGYAASKHALHGFFDSLRIELAD 170
Query: 185 NNIHCNVIVP 194
+ + V+ P
Sbjct: 171 DGVAVTVVCP 180
>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 = 112 bits (281), Expect = 3e-30
Identities = 62/190 (32%), Positives = 98/190 (51%), Gaps = 12/190 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK-GG 67
G+VA+VTG+ +G+G A LA GA++V+N G + + V A + +K G
Sbjct: 2 GKVALVTGSTSGIGLGIARALAAAGANIVLNGFG--------DAAEIEAVRAGLAAKHGV 53
Query: 68 KAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
K + + + I V A FG +DI++NNAGI W + ++L
Sbjct: 54 KVLYHGADLSKPAAIEDMVAYAQRQFGGVDILVNNAGIQHVAPIEDFPTEKWDAIIALNL 113
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
+ F +R A PHMKKQ +GR++ AS GL+ + ++ Y AAK +VGL+ +++E
Sbjct: 114 SAVFHTTRLALPHMKKQGWGRIINIASVHGLVASANKSAYVAAKHGVVGLTKVVALETAG 173
Query: 185 NNIHCNVIVP 194
+ CN I P
Sbjct: 174 TGVTCNAICP 183
>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 = 110 bits (278), Expect = 7e-30
Identities = 65/186 (34%), Positives = 93/186 (50%), Gaps = 12/186 (6%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
+VTGA G+G + A LAE GA V D ++ +VA++R G
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQ---------LLELVADLRRYGYPFAT 51
Query: 72 NYNSVVDG---DKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V D D++VQ +G ID+++N AGILR + +SD DWQ V+ G F
Sbjct: 52 YKLDVADSAAVDEVVQRLEREYGPIDVLVNVAGILRLGAIDSLSDEDWQATFAVNTFGVF 111
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
VS+A P MK++ G +V SN+ + G A Y+A+K AL L+ L +E I
Sbjct: 112 NVSQAVSPRMKRRRSGAIVTVGSNAANVPRMGMAAYAASKAALTMLTKCLGLELAPYGIR 171
Query: 189 CNVIVP 194
CNV+ P
Sbjct: 172 CNVVSP 177
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 108 bits (272), Expect = 9e-30
Identities = 50/181 (27%), Positives = 82/181 (45%), Gaps = 23/181 (12%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
++TG GLG + A LA GA +V G + AA+ +VAE+ + G +
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLV-----SRRGPAPGAAE-LVAELEALGAEV 54
Query: 70 VPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
V D ++ G +D V++NAG+L D ++ ++ V
Sbjct: 55 T-----VAACDVADRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEELTPERFERVLA 109
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+TGA+ + + + G V+ +S +G+LG+ GQANY+AA AL L+ E
Sbjct: 110 PKVTGAWNLHEL----TRDLDLGAFVLFSSVAGVLGSPGQANYAAANAALDALAEHRRAE 165
Query: 182 G 182
G
Sbjct: 166 G 166
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 110 bits (277), Expect = 9e-30
Identities = 64/212 (30%), Positives = 107/212 (50%), Gaps = 19/212 (8%)
Query: 2 PEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAE 61
+ +R DG+ AI+TGAGAG+G+ A+ A GASVVV+D+ ++ AA+ VV E
Sbjct: 4 SDNLRLDGKCAIITGAGAGIGKEIAITFATAGASVVVSDI---------NADAANHVVDE 54
Query: 62 IRSKGGKAVP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL 118
I+ GG+A + S + + AL G++DI++NNAG K F D++
Sbjct: 55 IQQLGGQAFACRCDITSEQELSALADFALSKLGKVDILVNNAGGGGPKPFDMPMA-DFRR 113
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
++++ F +S+ P M+K G ++ S + N +Y+++K A L +
Sbjct: 114 AYELNVFSFFHLSQLVAPEMEKNGGGVILTITSMAAENKNINMTSYASSKAAASHLVRNM 173
Query: 179 SIEGEKNNIHCNVIVPTA------ASRLTEDI 204
+ + + NI N I P A S +T +I
Sbjct: 174 AFDLGEKNIRVNGIAPGAILTDALKSVITPEI 205
>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 = 110 bits (277), Expect = 1e-29
Identities = 69/192 (35%), Positives = 99/192 (51%), Gaps = 14/192 (7%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTG +G+G + A LA GA+VVV D+ + A+ V AE G +
Sbjct: 1 GKVALVTGGASGIGLAIAKRLAAEGAAVVVADI---------DPEIAEKV-AEAAQGGPR 50
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
A+ V ++ + A+ FG +DIV++NAGI A S DW D++LT
Sbjct: 51 ALGVQCDVTSEAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAETSLEDWNRSMDINLT 110
Query: 126 GAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G F VSR A+ MK Q G +V AS + + A YSAAK A L+ L++EG +
Sbjct: 111 GHFLVSREAFRIMKSQGIGGNIVFNASKNAVAPGPNAAAYSAAKAAEAHLARCLALEGGE 170
Query: 185 NNIHCNVIVPTA 196
+ I N + P A
Sbjct: 171 DGIRVNTVNPDA 182
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 110 bits (277), Expect = 1e-29
Identities = 60/202 (29%), Positives = 95/202 (47%), Gaps = 27/202 (13%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+V ++TG GLGR+ A LA++GA + + DL + + + VAE + G
Sbjct: 4 KDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDL---------NQEKLEEAVAECGALGT 54
Query: 68 KA------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRD---------KSFARIS 112
+ V + V E+FG+++ +INNAGILRD K +++S
Sbjct: 55 EVRGYAANVTDEEDVEAT---FAQIAEDFGQLNGLINNAGILRDGLLVKAKDGKVTSKMS 111
Query: 113 DTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALV 172
+Q V DV+LTG F R A M + +++ S+ GN GQ NYSA+K +
Sbjct: 112 LEQFQSVIDVNLTGVFLCGREAAAKMIESGSKGVIINISSIARAGNMGQTNYSASKAGVA 171
Query: 173 GLSNTLSIEGEKNNIHCNVIVP 194
++ T + E + I I P
Sbjct: 172 AMTVTWAKELARYGIRVAAIAP 193
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 109 bits (273), Expect = 3e-29
Identities = 64/186 (34%), Positives = 99/186 (53%), Gaps = 9/186 (4%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
GR A+VTGA G+G A LL +GA V ++ G + + + AE+ +
Sbjct: 6 GRKALVTGASGGIGEEIARLLHAQGAIVGLH---------GTRVEKLEALAAELGERVKI 56
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
N + + + Q A + +DI++NNAGI +D F R+SD DW V +V+LT F
Sbjct: 57 FPANLSDRDEVKALGQKAEADLEGVDILVNNAGITKDGLFVRMSDEDWDSVLEVNLTATF 116
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
R++R M ++ YGR++ S G+ GN GQANY A+K ++G S +L+ E N+
Sbjct: 117 RLTRELTHPMMRRRYGRIINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQEIATRNVT 176
Query: 189 CNVIVP 194
N + P
Sbjct: 177 VNCVAP 182
>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 = 108 bits (272), Expect = 4e-29
Identities = 57/194 (29%), Positives = 94/194 (48%), Gaps = 21/194 (10%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA- 69
+ ++TG G+G+GR AL A+RGA VV+ D+ + K A+ +R GGK
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDI---------NEKGAEETANNVRKAGGKVH 51
Query: 70 -----VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
V V + + + G + I+INNAG++ K + D + + +V+
Sbjct: 52 YYKCDVSKREEV---YEAAKKIKKEVGDVTILINNAGVVSGKKLLELPDEEIEKTFEVNT 108
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE--- 181
F ++A P M ++N+G +V AS +GL+ G A+Y A+K A VG +L +E
Sbjct: 109 LAHFWTTKAFLPDMLERNHGHIVTIASVAGLISPAGLADYCASKAAAVGFHESLRLELKA 168
Query: 182 GEKNNIHCNVIVPT 195
K I ++ P
Sbjct: 169 YGKPGIKTTLVCPY 182
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 109 bits (273), Expect = 5e-29
Identities = 63/195 (32%), Positives = 93/195 (47%), Gaps = 13/195 (6%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEI 62
+ DG+VAIVTG GLG+ YA+ LA+ GA +++ G D I
Sbjct: 9 DFFSLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTN----------WDETRRLI 58
Query: 63 RSKGGKAV---PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
+G K + +K+V+ ALE FG+IDI++NNAG +R D DW V
Sbjct: 59 EKEGRKVTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNAGTIRRAPLLEYKDEDWNAV 118
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
D++L + +S+A M KQ G+++ AS G Y+A+K + GL+ +
Sbjct: 119 MDINLNSVYHLSQAVAKVMAKQGSGKIINIASMLSFQGGKFVPAYTASKHGVAGLTKAFA 178
Query: 180 IEGEKNNIHCNVIVP 194
E NI N I P
Sbjct: 179 NELAAYNIQVNAIAP 193
>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 = 108 bits (271), Expect = 6e-29
Identities = 56/188 (29%), Positives = 84/188 (44%), Gaps = 11/188 (5%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTG G+G++ AL LAERGA VV+N KS AA V AEI GGKAV
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYR--------KSKDAAAEVAAEIEELGGKAVV 52
Query: 72 NYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V + E FGR+D++++NA + + ++ W + +L
Sbjct: 53 VRADVSQPQDVEEMFAAVKERFGRLDVLVSNAAAGAFRPLSELTPAHWDAKMNTNLKALV 112
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
++ A M+++ GR+V +S + AK AL L L++E I
Sbjct: 113 HCAQQAAKLMRERGGGRIVAISSLGSIRALPNYLAVGTAKAALEALVRYLAVELGPRGIR 172
Query: 189 CNVIVPTA 196
N + P
Sbjct: 173 VNAVSPGV 180
>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 = 107 bits (269), Expect = 2e-28
Identities = 61/190 (32%), Positives = 94/190 (49%), Gaps = 12/190 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VAI+TGA G+GR+ A LA G ++V+ DL + AA + + EI G
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEE--------AAKSTIQEISEAGYN 53
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
AV V D D + + A+E FG D+++NNAGI I++ D + V V++
Sbjct: 54 AVAVGADVTDKDDVEALIDQAVEKFGSFDVMVNNAGIAPITPLLTITEEDLKKVYAVNVF 113
Query: 126 GAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G +AA KK + G+++ +S +G+ G YSA+K A+ GL+ T + E
Sbjct: 114 GVLFGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAYSASKFAVRGLTQTAAQELAP 173
Query: 185 NNIHCNVIVP 194
I N P
Sbjct: 174 KGITVNAYAP 183
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 112 bits (281), Expect = 2e-28
Identities = 71/205 (34%), Positives = 98/205 (47%), Gaps = 15/205 (7%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
MP++ RVA VTG G+GR A LA GA VV+ DL + AA+ V A
Sbjct: 406 MPKEKTLARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLE---------AAEAVAA 456
Query: 61 EIRSKGG--KAVPNYNSVVDGDKIVQT---ALENFGRIDIVINNAGILRDKSFARISDTD 115
EI + G +AV V D + +G +DIV+NNAGI F + +
Sbjct: 457 EINGQFGAGRAVALKMDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPFEETTLQE 516
Query: 116 WQLVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGL 174
WQL D+ TG F V+R A+ M++Q G +V AS + + + YSAAK A L
Sbjct: 517 WQLNLDILATGYFLVAREAFRQMREQGLGGNIVFIASKNAVYAGKNASAYSAAKAAEAHL 576
Query: 175 SNTLSIEGEKNNIHCNVIVPTAASR 199
+ L+ EG I N + P A +
Sbjct: 577 ARCLAAEGGTYGIRVNTVNPDAVLQ 601
>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 = 106 bits (267), Expect = 2e-28
Identities = 62/201 (30%), Positives = 96/201 (47%), Gaps = 13/201 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA +G+G + A LA GA+V + + + + E+ ++GG
Sbjct: 2 QGKVALVTGASSGIGEATARALAAEGAAVAIA---------ARRVDRLEALADELEAEGG 52
Query: 68 KAVPNYNSVVD---GDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
KA+ V D D V+ +E GR+DI++NNAGI+ TDW + D +L
Sbjct: 53 KALVLELDVTDEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTTDWTRMIDTNL 112
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G + AA PH +N G +V +S +G + A Y+A K + S L E +
Sbjct: 113 LGLMYTTHAALPHHLLRNKGTIVNISSVAGRVAVRNSAVYNATKFGVNAFSEGLRQEVTE 172
Query: 185 NNIHCNVIVP-TAASRLTEDI 204
+ VI P T + L + I
Sbjct: 173 RGVRVVVIEPGTVDTELRDHI 193
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 110 bits (277), Expect = 2e-28
Identities = 63/193 (32%), Positives = 95/193 (49%), Gaps = 21/193 (10%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTGA G+G + A +LA GA VV D+ + A V + GG
Sbjct: 209 AGKVALVTGAARGIGAAIAEVLARDGAHVVCLDVPAAGE-------ALAAVANRV---GG 258
Query: 68 KAVPNYNSVVD------GDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
A+ +D +I + E G +DIV++NAGI RDK+ A + + W V
Sbjct: 259 TALA-----LDITAPDAPARIAEHLAERHGGLDIVVHNAGITRDKTLANMDEARWDSVLA 313
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V+L R++ A + GR+V +S SG+ GN GQ NY+A+K ++GL L+
Sbjct: 314 VNLLAPLRITEALLAAGALGDGGRIVGVSSISGIAGNRGQTNYAASKAGVIGLVQALAPL 373
Query: 182 GEKNNIHCNVIVP 194
+ I N + P
Sbjct: 374 LAERGITINAVAP 386
>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 = 106 bits (266), Expect = 3e-28
Identities = 67/192 (34%), Positives = 95/192 (49%), Gaps = 16/192 (8%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+G+VAIVTGAGAG+G + A LA GA VVV D+ G AA VVA+I
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGG---------AAQAVVAQI---A 48
Query: 67 GKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKS-FARISDTDWQLVQDV 122
G A+ V D ++ + A+E FG +D+++NNAG + W +
Sbjct: 49 GGALALRVDVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDTDLAVWDQTMAI 108
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L G F R A P M + G +V +S +G G+ G Y A+K A+ L+ TL+ E
Sbjct: 109 NLRGTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYGAYGASKAAIRNLTRTLAAEL 168
Query: 183 EKNNIHCNVIVP 194
I CN + P
Sbjct: 169 RHAGIRCNALAP 180
>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 = 106 bits (266), Expect = 3e-28
Identities = 70/209 (33%), Positives = 108/209 (51%), Gaps = 13/209 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+ AIVTG G G+G + AE GA V V DL + +AA+ V A+IR+KGG
Sbjct: 3 DKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDL---------NREAAEKVAADIRAKGGN 53
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
A + D D + V A + G +D+++NNAG + F + W+ + ++LT
Sbjct: 54 AQAFACDITDRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWERLIAINLT 113
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
GA + A P M ++ GR+V AS++ +G+ G+A Y+A K LV S T++ E ++
Sbjct: 114 GALHMHHAVLPGMVERGAGRIVNIASDAARVGSSGEAVYAACKGGLVAFSKTMAREHARH 173
Query: 186 NIHCNVIVPTAA-SRLTEDILPPGSYPVK 213
I NV+ P + L +DI P K
Sbjct: 174 GITVNVVCPGPTDTALLDDICGGAENPEK 202
>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 = 106 bits (267), Expect = 3e-28
Identities = 58/200 (29%), Positives = 100/200 (50%), Gaps = 27/200 (13%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+V I+TGA +G+G A LA GA +V++ + + + V +E G
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLS---------ARREERLEEVKSECLELG 51
Query: 67 GKAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL 118
+ VV D ++V+ AL+ FG +DI+INNAGI + DT +
Sbjct: 52 APSP----HVVPLDMSDLEDAEQVVEEALKLFGGLDILINNAGI---SMRSLFHDTSIDV 104
Query: 119 VQ---DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLS 175
+ +V+ G +++AA PH+ +++ G +V+ +S +G +G + Y+A+K AL G
Sbjct: 105 DRKIMEVNYFGPVALTKAALPHLIERSQGSIVVVSSIAGKIGVPFRTAYAASKHALQGFF 164
Query: 176 NTLSIEGEKNNIHCNVIVPT 195
++L E + NI V+ P
Sbjct: 165 DSLRAELSEPNISVTVVCPG 184
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 105 bits (264), Expect = 9e-28
Identities = 57/194 (29%), Positives = 87/194 (44%), Gaps = 16/194 (8%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA++TGA +G+G + A LAE GA VV L +R + + + EI +
Sbjct: 5 KGKVALITGASSGIGEATARALAEAGAKVV---LAARR------EERLEALADEIGAGAA 55
Query: 68 KAVP----NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
A+ + +V + ++ E FGRIDI++NNAG+ DW + D +
Sbjct: 56 LALALDVTDRAAV---EAAIEALPEEFGRIDILVNNAGLALGDPLDEADLDDWDRMIDTN 112
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
+ G +RA P M ++ G ++ S +G G A Y A K A+ S L E
Sbjct: 113 VKGLLNGTRAVLPGMVERKSGHIINLGSIAGRYPYPGGAVYGATKAAVRAFSLGLRQELA 172
Query: 184 KNNIHCNVIVPTAA 197
I VI P
Sbjct: 173 GTGIRVTVISPGLV 186
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 104 bits (262), Expect = 2e-27
Identities = 71/196 (36%), Positives = 106/196 (54%), Gaps = 22/196 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R GRVA++TG G+G+G + A LA GA+VVV D+ D ++ KAA E+
Sbjct: 4 RLAGRVAVITGGGSGIGLATARRLAAEGATVVVGDI------DPEAGKAA---ADEV--- 51
Query: 66 GGKAVP-NYNSVVDGDKIVQTALENFGRIDIVINNAGIL--RDKSFARISDTD---WQLV 119
GG VP + + + TA E +G +DI NNAGI D S I +T WQ V
Sbjct: 52 GGLFVPTDVTDEDAVNALFDTAAETYGSVDIAFNNAGISPPEDDS---ILNTGLDAWQRV 108
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN-FGQANYSAAKMALVGLSNTL 178
QDV+LT + +AA PHM +Q G ++ TAS ++G+ Q +Y+A+K ++ +S L
Sbjct: 109 QDVNLTSVYLCCKAALPHMVRQGKGSIINTASFVAVMGSATSQISYTASKGGVLAMSREL 168
Query: 179 SIEGEKNNIHCNVIVP 194
++ + I N + P
Sbjct: 169 GVQFARQGIRVNALCP 184
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 103 bits (259), Expect = 3e-27
Identities = 51/193 (26%), Positives = 76/193 (39%), Gaps = 16/193 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADT-VVAEIRS 64
G+V +TG GLGR+ A LA RGA V + G AD + I
Sbjct: 4 SLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPADALRIGGI-- 61
Query: 65 KGGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
+VD + V FGR+D ++N AG + A W +
Sbjct: 62 ----------DLVDPQAARRAVDEVNRQFGRLDALVNIAGAFVWGTIADGDADTWDRMYG 111
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V++ S+AA P + GR+V + + L G Y+AAK + L+ L+ E
Sbjct: 112 VNVKTTLNASKAALPALTASGGGRIVNIGAGAALKAGPGMGAYAAAKAGVARLTEALAAE 171
Query: 182 GEKNNIHCNVIVP 194
I N ++P
Sbjct: 172 LLDRGITVNAVLP 184
>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 = 103 bits (259), Expect = 3e-27
Identities = 64/191 (33%), Positives = 103/191 (53%), Gaps = 11/191 (5%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VAIVTG GLG ++A LL GA VV++D+ D +G++ AE+
Sbjct: 2 RLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDI---LDEEGQA------AAAELGDA 52
Query: 66 GGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
+ +V TA E FGR+D+++NNAGIL + + +W+ + D++LT
Sbjct: 53 ARFFHLDVTDEDGWTAVVDTAREAFGRLDVLVNNAGILTGGTVETTTLEEWRRLLDINLT 112
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE--GE 183
G F +RA P MK+ G ++ +S GL+G+ A Y+A+K A+ GL+ + ++E +
Sbjct: 113 GVFLGTRAVIPPMKEAGGGSIINMSSIEGLVGDPALAAYNASKGAVRGLTKSAALECATQ 172
Query: 184 KNNIHCNVIVP 194
I N + P
Sbjct: 173 GYGIRVNSVHP 183
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 103 bits (260), Expect = 4e-27
Identities = 59/202 (29%), Positives = 89/202 (44%), Gaps = 21/202 (10%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD--TVVA 60
E G+ A+VTG GLG A L E GA VV++ + KA + A
Sbjct: 6 ELFDLSGKTALVTGGSRGLGLQIAEALGEAGARVVLS-----------ARKAEELEEAAA 54
Query: 61 EIRSKGGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQ 117
+ + G A+ V D I + LE FG +DI++NNAG W
Sbjct: 55 HLEALGIDALWIAADVADEADIERLAEETLERFGHVDILVNNAGATWGAPAEDHPVEAWD 114
Query: 118 LVQDVHLTGAFRVSRAAWPH-MKKQNYGRLVMTASNSGLLGN----FGQANYSAAKMALV 172
V ++++ G F +S+A M + YGR++ AS +GL GN Y+ +K A++
Sbjct: 115 KVMNLNVRGLFLLSQAVAKRSMIPRGYGRIINVASVAGLGGNPPEVMDTIAYNTSKGAVI 174
Query: 173 GLSNTLSIEGEKNNIHCNVIVP 194
+ L+ E + I N I P
Sbjct: 175 NFTRALAAEWGPHGIRVNAIAP 196
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 103 bits (258), Expect = 6e-27
Identities = 61/190 (32%), Positives = 89/190 (46%), Gaps = 12/190 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA+VTG+ GLG A LA GA V+VN G+++ + VA +R+ GG
Sbjct: 10 AGQVALVTGSARGLGFEIARALAGAGAHVLVN---------GRNAATLEAAVAALRAAGG 60
Query: 68 KAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
A + D + GR+DI++NN G + A + D + + + L
Sbjct: 61 AAEALAFDIADEEAVAAAFARIDAEHGRLDILVNNVGARDRRPLAELDDAAIRALLETDL 120
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
+SR A MK+Q YGR++ S +G + G A Y AAK L GL L+ E
Sbjct: 121 VAPILLSRLAAQRMKRQGYGRIIAITSIAGQVARAGDAVYPAAKQGLTGLMRALAAEFGP 180
Query: 185 NNIHCNVIVP 194
+ I N I P
Sbjct: 181 HGITSNAIAP 190
>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 = 103 bits (258), Expect = 6e-27
Identities = 66/206 (32%), Positives = 101/206 (49%), Gaps = 22/206 (10%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA GLG+ A+ LAE GA +V G ++ + G +
Sbjct: 5 GKVALVTGANTGLGQGIAVGLAEAGADIV-----------GAGRSEPSETQQQVEALGRR 53
Query: 69 AVP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
+ + + + +V +A+E FG IDI++NNAGI+R S+ DW V +V+L
Sbjct: 54 FLSLTADLSDIEAIKALVDSAVEEFGHIDILVNNAGIIRRADAEEFSEKDWDDVMNVNLK 113
Query: 126 GAFRVSRAAWPHMKKQ-NYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
F +++AA H KQ G+++ AS G +Y+A+K A+ GL+ L+ E
Sbjct: 114 SVFFLTQAAAKHFLKQGRGGKIINIASMLSFQGGIRVPSYTASKHAVAGLTKLLANEWAA 173
Query: 185 NNIHCNVIVP-------TAASRLTED 203
I+ N I P T A R ED
Sbjct: 174 KGINVNAIAPGYMATNNTQALRADED 199
>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 = 102 bits (257), Expect = 8e-27
Identities = 60/192 (31%), Positives = 98/192 (51%), Gaps = 14/192 (7%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VAI+TG +G+G + A LL ++GA V + D R+ + ++ + ++++ +
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILD----RNENPGAAAELQAINPKVKATFVQC 56
Query: 70 -VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKS--FARISDTDWQLVQDVHLTG 126
V ++ + + A+E FGR+DI+INNAGIL +KS FA W+ DV+LTG
Sbjct: 57 DVTSWEQLA---AAFKKAIEKFGRVDILINNAGILDEKSYLFAGKLPPPWEKTIDVNLTG 113
Query: 127 AFRVSRAAWPHMKKQNY---GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
+ A +M K G +V S +GL YSA+K +VG + +L+ E
Sbjct: 114 VINTTYLALHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSASKHGVVGFTRSLADLLE 173
Query: 184 -KNNIHCNVIVP 194
K + N I P
Sbjct: 174 YKTGVRVNAICP 185
>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 = 102 bits (256), Expect = 1e-26
Identities = 68/202 (33%), Positives = 107/202 (52%), Gaps = 19/202 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R DG+VAI+TG +G+G + A L A+ GA VV+ D+ A V AE+
Sbjct: 1 RLDGKVAIITGGASGIGEATARLFAKHGARVVIADI---------DDDAGQAVAAELGDP 51
Query: 66 GGKAVPNYNSV-VDGD--KIVQTALENFGRIDIVINNAGILRDKSFARISDT---DWQLV 119
V + V V+ D V TA+ FGR+DI+ NNAG+L + I +T +++ V
Sbjct: 52 DISFV--HCDVTVEADVRAAVDTAVARFGRLDIMFNNAGVLGAPCY-SILETSLEEFERV 108
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
DV++ GAF ++ A M G +V AS +G++G G Y+A+K A++GL+ + +
Sbjct: 109 LDVNVYGAFLGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPHAYTASKHAVLGLTRSAA 168
Query: 180 IEGEKNNIHCNVIVP-TAASRL 200
E ++ I N + P A+ L
Sbjct: 169 TELGEHGIRVNCVSPYGVATPL 190
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 102 bits (256), Expect = 1e-26
Identities = 66/210 (31%), Positives = 101/210 (48%), Gaps = 28/210 (13%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD---TVVAEIRS 64
G++A+VTGA G+G + A LLA++GA V+V SS+ D V I +
Sbjct: 7 TGKIALVTGASRGIGEAIAKLLAQQGAHVIV------------SSRKLDGCQAVADAIVA 54
Query: 65 KGGKAVPNYNSVVDGDKIVQT---ALENFGRIDIVINNAGILRDKSFARISDTD---WQL 118
GGKA + + ++I E GR+DI++NNA + F I DTD +Q
Sbjct: 55 AGGKAEALACHIGEMEQIDALFAHIRERHGRLDILVNNAAA--NPYFGHILDTDLGAFQK 112
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
DV++ G F +S A MK+Q G +V AS +G+ Q YS K A++ ++
Sbjct: 113 TVDVNIRGYFFMSVEAGKLMKEQGGGSIVNVASVNGVSPGDFQGIYSITKAAVISMTKAF 172
Query: 179 SIEGEKNNIHCNVIVPTA-----ASRLTED 203
+ E I N ++P AS L ++
Sbjct: 173 AKECAPFGIRVNALLPGLTDTKFASALFKN 202
>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 = 101 bits (254), Expect = 2e-26
Identities = 60/210 (28%), Positives = 95/210 (45%), Gaps = 29/210 (13%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V +VTGA GLG + A A GA VVVN +S+++A+ V AE G +A
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYY--------RSTESAEAVAAEA---GERA 49
Query: 70 VPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSF-----ARISDTDWQLVQD 121
+ V D D++ ++ A +FG +D ++NNA L D F DW+ Q
Sbjct: 50 IAIQADVRDRDQVQAMIEEAKNHFGPVDTIVNNA--LIDFPFDPDQRKTFDTIDWEDYQQ 107
Query: 122 ---VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
+ GA + +A P K++ GR++ +N +Y+ AK AL+G + +
Sbjct: 108 QLEGAVKGALNLLQAVLPDFKERGSGRVINIGTNLFQNPVVPYHDYTTAKAALLGFTRNM 167
Query: 179 SIEGEKNNIHCNVIVP-----TAASRLTED 203
+ E I N++ T AS T
Sbjct: 168 AKELGPYGITVNMVSGGLLKVTDASAATPK 197
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 101 bits (254), Expect = 3e-26
Identities = 65/196 (33%), Positives = 101/196 (51%), Gaps = 13/196 (6%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
+ F G+VA+VTG AG+GR+ AL A GA VVV D RD G + VA IR
Sbjct: 3 MTFSGKVALVTGGAAGIGRATALAFAREGAKVVVAD----RDAAG-----GEETVALIRE 53
Query: 65 KGGKAV---PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKS-FARISDTDWQLVQ 120
GG+A+ + + +V+ + +GR+D NNAGI ++ A S+ ++ +
Sbjct: 54 AGGEALFVACDVTRDAEVKALVEQTIAAYGRLDYAFNNAGIEIEQGRLAEGSEAEFDAIM 113
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
V++ G + + P M Q G +V TAS +GL + Y+A+K A++GL+ + +I
Sbjct: 114 GVNVKGVWLCMKYQIPLMLAQGGGAIVNTASVAGLGAAPKMSIYAASKHAVIGLTKSAAI 173
Query: 181 EGEKNNIHCNVIVPTA 196
E K I N + P
Sbjct: 174 EYAKKGIRVNAVCPAV 189
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 101 bits (253), Expect = 3e-26
Identities = 64/195 (32%), Positives = 101/195 (51%), Gaps = 16/195 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R +G+VAIVTGAG+G G A A+ GA VV+ D+ A+ V A+I
Sbjct: 2 RLEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINA---------DGAERVAADI--- 49
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGIL-RDKSFARISDTDWQLVQD 121
G A+ V + V+ AL FGR+DI++NNAGI R+K + + ++ V
Sbjct: 50 GEAAIAIQADVTKRADVEAMVEAALSKFGRLDILVNNAGITHRNKPMLEVDEEEFDRVFA 109
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V++ + ++A PHM++Q G ++ AS +GL G Y+A+K +V + +++E
Sbjct: 110 VNVKSIYLSAQALVPHMEEQGGGVIINIASTAGLRPRPGLTWYNASKGWVVTATKAMAVE 169
Query: 182 GEKNNIHCNVIVPTA 196
NI N + P A
Sbjct: 170 LAPRNIRVNCLCPVA 184
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 101 bits (253), Expect = 4e-26
Identities = 62/192 (32%), Positives = 104/192 (54%), Gaps = 6/192 (3%)
Query: 8 DGRVAIVTGA-GAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+V +VT A G G+G + A E GA VV++D+ +R G+ AA+ + + +
Sbjct: 16 AGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAELGLGRVEAV- 74
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
V + S D ++ A+E GR+D+++NNAG+ ++D +W V DV LTG
Sbjct: 75 ---VCDVTSEAQVDALIDAAVERLGRLDVLVNNAGLGGQTPVVDMTDDEWSRVLDVTLTG 131
Query: 127 AFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
FR +RAA +M+ + + G +V AS G GQA+Y+AAK ++ L+ ++E +
Sbjct: 132 TFRATRAALRYMRARGHGGVIVNNASVLGWRAQHGQAHYAAAKAGVMALTRCSALEAAEY 191
Query: 186 NIHCNVIVPTAA 197
+ N + P+ A
Sbjct: 192 GVRINAVAPSIA 203
>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 = 100 bits (251), Expect = 6e-26
Identities = 57/183 (31%), Positives = 85/183 (46%), Gaps = 13/183 (7%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
IVTGA G+GR+ A L + GA+V+ DL + ++ AV
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIALDLPFVLLL--EYGDPLRLTPLDVAD--AAAV- 55
Query: 72 NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVS 131
++ L G ID ++N AG+LR + +S DW+ V++TG F +
Sbjct: 56 --------REVCSRLLAEHGPIDALVNCAGVLRPGATDPLSTEDWEQTFAVNVTGVFNLL 107
Query: 132 RAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHCNV 191
+A PHMK + G +V ASN+ + A Y A+K AL LS L +E + CNV
Sbjct: 108 QAVAPHMKDRRTGAIVTVASNAAHVPRISMAAYGASKAALASLSKCLGLELAPYGVRCNV 167
Query: 192 IVP 194
+ P
Sbjct: 168 VSP 170
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 100 bits (252), Expect = 6e-26
Identities = 61/190 (32%), Positives = 97/190 (51%), Gaps = 12/190 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G++A++TGA G+G + A A+ GA++V ND+ + + D +A R G
Sbjct: 9 KGKIALITGASYGIGFAIAKAYAKAGATIVFNDI---------NQELVDKGLAAYRELGI 59
Query: 68 KAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+A V D D + V + G IDI++NNAGI++ +S D++ V D+ L
Sbjct: 60 EAHGYVCDVTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPMLEMSAEDFRQVIDIDL 119
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
F VS+A P M K+ +G+++ S LG + Y+AAK L L+ ++ E +
Sbjct: 120 NAPFIVSKAVIPSMIKKGHGKIINICSMMSELGRETVSAYAAAKGGLKMLTKNIASEYGE 179
Query: 185 NNIHCNVIVP 194
NI CN I P
Sbjct: 180 ANIQCNGIGP 189
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 100 bits (251), Expect = 7e-26
Identities = 65/198 (32%), Positives = 98/198 (49%), Gaps = 13/198 (6%)
Query: 2 PEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAE 61
P+ DG+VA VTGAG+G+G+ A+ LA+ GA V + DL R DG +
Sbjct: 1 PQLFDLDGQVAFVTGAGSGIGQRIAIGLAQAGADVALFDL---RTDDGLAE-----TAEH 52
Query: 62 IRSKGGKAV---PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL 118
I + G +A+ + S D V G + + +N AGI + + WQ
Sbjct: 53 IEAAGRRAIQIAADVTSKADLRAAVARTEAELGALTLAVNAAGIANANPAEEMEEEQWQT 112
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFG--QANYSAAKMALVGLSN 176
V D++LTG F +A M + G +V AS SG++ N G QA+Y+A+K ++ LS
Sbjct: 113 VMDINLTGVFLSCQAEARAMLENGGGSIVNIASMSGIIVNRGLLQAHYNASKAGVIHLSK 172
Query: 177 TLSIEGEKNNIHCNVIVP 194
+L++E I N I P
Sbjct: 173 SLAMEWVGRGIRVNSISP 190
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 100 bits (251), Expect = 7e-26
Identities = 61/194 (31%), Positives = 92/194 (47%), Gaps = 18/194 (9%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+V +V+G G GLGR+ A+ A GA VV+ R + D V AEI G
Sbjct: 3 LKGKVVVVSGVGPGLGRTLAVRAARAGADVVL----AARTAE-----RLDEVAAEIDDLG 53
Query: 67 GKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTD---WQLVQ 120
+A+ + D D+ V ALE FGR+D ++NNA R S ++D D W+ V
Sbjct: 54 RRALAVPTDITDEDQCANLVALALERFGRVDALVNNA--FRVPSMKPLADADFAHWRAVI 111
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
++++ G R+++A P + + G +VM S Y AK AL+ S +L+
Sbjct: 112 ELNVLGTLRLTQAFTPALAESG-GSIVMINSMVLRHSQPKYGAYKMAKGALLAASQSLAT 170
Query: 181 EGEKNNIHCNVIVP 194
E I N + P
Sbjct: 171 ELGPQGIRVNSVAP 184
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 100 bits (251), Expect = 8e-26
Identities = 69/229 (30%), Positives = 94/229 (41%), Gaps = 38/229 (16%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VA+VTGA G+G + A A GA+V + DL A+ A I
Sbjct: 4 RLAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAAL---------AERAAAAIARD 54
Query: 66 --GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFA---RISDTDWQ 117
G + + V D + V A E FG +D+++NNAGI FA ++D DW+
Sbjct: 55 VAGARVLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNAGI---NVFADPLAMTDEDWR 111
Query: 118 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNT 177
V L GA+ RA P M ++ G +V AS G Y AK L+GL+
Sbjct: 112 RCFAVDLDGAWNGCRAVLPGMVERGRGSIVNIASTHAFKIIPGCFPYPVAKHGLLGLTRA 171
Query: 178 LSIEGEKNNIHCNVIV------------------PTAASRLTEDILPPG 208
L IE N+ N I P AA T + P
Sbjct: 172 LGIEYAARNVRVNAIAPGYIETQLTEDWWNAQPDPAAARAETLALQPMK 220
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 99.8 bits (249), Expect = 9e-26
Identities = 65/189 (34%), Positives = 96/189 (50%), Gaps = 13/189 (6%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VAIVTGA G+G + A LA G +V VN G S+ AAD +VAEI + GG+
Sbjct: 5 NKVAIVTGASRGIGAAIARRLAADGFAVAVNYAG--------SAAAADELVAEIEAAGGR 56
Query: 69 AVPNYNSVVDG---DKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
A+ V D ++ A FGRID+++NNAG++ + A D+ +L
Sbjct: 57 AIAVQADVADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFDLEDFDRTIATNLR 116
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
GAF V R A H+ GR++ +++ L G Y+A+K A+ GL + L+ E
Sbjct: 117 GAFVVLREAARHLG--QGGRIINLSTSVIALPLPGYGPYAASKAAVEGLVHVLANELRGR 174
Query: 186 NIHCNVIVP 194
I N + P
Sbjct: 175 GITVNAVAP 183
>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 = 99.4 bits (248), Expect = 1e-25
Identities = 59/206 (28%), Positives = 91/206 (44%), Gaps = 19/206 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA G+G A LA G V + G R+ + + A S G
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSL----GLRNPED--------LAALSASGGDVE 48
Query: 70 VPNY--NSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
Y D +V + FGRID++++NAGI R + SD + + +++
Sbjct: 49 AVPYDARDPEDARALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDAELEAHFSINVIAP 108
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
++RA P +++ GR+V S SG G A YSA+K AL L++ L EG + +
Sbjct: 109 AELTRALLPALREAGSGRVVFLNSLSGKRVLAGNAGYSASKFALRALAHALRQEGWDHGV 168
Query: 188 HCNVIVPTA-----ASRLTEDILPPG 208
+ + P A LT P
Sbjct: 169 RVSAVCPGFVDTPMAQGLTLVGAFPP 194
>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 = 98.3 bits (245), Expect = 4e-25
Identities = 49/188 (26%), Positives = 89/188 (47%), Gaps = 16/188 (8%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
DG+VA++T A G+GR+ AL A GA+V+ D+ ++ + + T V ++ K
Sbjct: 1 DGKVALITAAAQGIGRAIALAFAREGANVIATDINEEKLKELERGPGITTRVLDVTDK-- 58
Query: 68 KAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
+ V + GRID++ N AG + S D DW ++++
Sbjct: 59 -------------EQVAALAKEEGRIDVLFNCAGFVHHGSILDCEDDDWDFAMNLNVRSM 105
Query: 128 FRVSRAAWPHMKKQNYGRLVMTAS-NSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
+ + +A P M + G ++ +S S + G + YS K A++GL+ +++ + +
Sbjct: 106 YLMIKAVLPKMLARKDGSIINMSSVASSIKGVPNRFVYSTTKAAVIGLTKSVAADFAQQG 165
Query: 187 IHCNVIVP 194
I CN I P
Sbjct: 166 IRCNAICP 173
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 98.3 bits (245), Expect = 6e-25
Identities = 60/197 (30%), Positives = 98/197 (49%), Gaps = 22/197 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V ++TG GLGR+ A+ + A VV+N + + A+ V EI+ GG+
Sbjct: 7 GKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEE--------ANDVAEEIKKAGGE 58
Query: 69 AVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
A+ V GD ++QTA++ FG +D++INNAGI +S DW V
Sbjct: 59 AI-----AVKGDVTVESDVVNLIQTAVKEFGTLDVMINNAGIENAVPSHEMSLEDWNKVI 113
Query: 121 DVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
+ +LTGAF SR A + + + G ++ +S + +Y+A+K + ++ TL+
Sbjct: 114 NTNLTGAFLGSREAIKYFVEHDIKGNIINMSSVHEQIPWPLFVHYAASKGGVKLMTETLA 173
Query: 180 IEGEKNNIHCNVIVPTA 196
+E I N I P A
Sbjct: 174 MEYAPKGIRVNNIGPGA 190
>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 = 98.0 bits (244), Expect = 6e-25
Identities = 63/190 (33%), Positives = 100/190 (52%), Gaps = 13/190 (6%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
VAIVTG AG+G++ A LA+ GASVV+ DL + A+ V A I+ GG+A+
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSE---------GAEAVAAAIQQAGGQAI 51
Query: 71 P---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFAR-ISDTDWQLVQDVHLTG 126
N S D + +V+ + FG I I++NNAG K F +++ D++ ++L
Sbjct: 52 GLECNVTSEQDLEAVVKATVSQFGGITILVNNAGGGGPKPFDMPMTEEDFEWAFKLNLFS 111
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
AFR+S+ PHM+K G ++ +S S N A Y ++K A+ ++ L+ +
Sbjct: 112 AFRLSQLCAPHMQKAGGGAILNISSMSSENKNVRIAAYGSSKAAVNHMTRNLAFDLGPKG 171
Query: 187 IHCNVIVPTA 196
I N + P A
Sbjct: 172 IRVNAVAPGA 181
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 97.8 bits (244), Expect = 6e-25
Identities = 56/195 (28%), Positives = 92/195 (47%), Gaps = 22/195 (11%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+VA++TG G+G + A L G V + + K + AE+ +KG
Sbjct: 4 LKGKVALITGGSKGIGFAIAEALLAEGYKVAIT---------ARDQKELEEAAAELNNKG 54
Query: 67 G-----KAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
V + V + V + FG +D++I NAG+ ++ +W+LV D
Sbjct: 55 NVLGLAADVRDEADV---QRAVDAIVAAFGGLDVLIANAGVGHFAPVEELTPEEWRLVID 111
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNF--GQANYSAAKMALVGLSNTLS 179
+LTGAF +AA P +K+ G ++ +S +G NF G A Y+A+K LVG S
Sbjct: 112 TNLTGAFYTIKAAVPALKRGG-GYIINISSLAGT--NFFAGGAAYNASKFGLVGFSEAAM 168
Query: 180 IEGEKNNIHCNVIVP 194
++ + I + I+P
Sbjct: 169 LDLRQYGIKVSTIMP 183
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 97.8 bits (244), Expect = 7e-25
Identities = 53/195 (27%), Positives = 88/195 (45%), Gaps = 21/195 (10%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+V G G LG LAE G V V D+ ++ A V EI ++ G+
Sbjct: 2 NQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEK---------AANVAQEINAEYGE 52
Query: 69 A--------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
+ SV+ + + E FGR+D+++ NAGI + D+
Sbjct: 53 GMAYGFGADATSEQSVL---ALSRGVDEIFGRVDLLVYNAGIAKAAFITDFQLGDFDRSL 109
Query: 121 DVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
V+L G F +R M + GR++ S SG +G+ + YSAAK VGL+ +L+
Sbjct: 110 QVNLVGYFLCAREFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLA 169
Query: 180 IEGEKNNIHCNVIVP 194
++ + I + ++
Sbjct: 170 LDLAEYGITVHSLML 184
>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 = 98.0 bits (244), Expect = 8e-25
Identities = 59/191 (30%), Positives = 92/191 (48%), Gaps = 5/191 (2%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F +V ++TG G+GLG + A+ LA+ GA + + DL +G + A + +
Sbjct: 1 FKDKVVLITGGGSGLGLATAVRLAKEGAKLSLVDL--NEEGLEAAKAALLEIAPDAEVLL 58
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTD-WQLVQDVHLT 125
KA + + + V +E FGRID NNAGI ++ D + V ++L
Sbjct: 59 IKA--DVSDEAQVEAYVDATVEQFGRIDGFFNNAGIEGKQNLTEDFGADEFDKVVSINLR 116
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
G F M++Q G +V TAS G+ G Q+ Y+AAK +VGL+ ++E +
Sbjct: 117 GVFYGLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGYAAAKHGVVGLTRNSAVEYGQY 176
Query: 186 NIHCNVIVPTA 196
I N I P A
Sbjct: 177 GIRINAIAPGA 187
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 97.5 bits (243), Expect = 9e-25
Identities = 62/198 (31%), Positives = 101/198 (51%), Gaps = 14/198 (7%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M + G+ ++TG+ G+G A LAE GA +++ND+ +R A+ VA
Sbjct: 1 MNDLFSLAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAER---------AELAVA 51
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALE----NFGRIDIVINNAGILRDKSFARISDTDW 116
++R +G KA +V + V+ A+E + G ID++INNAGI R F + +W
Sbjct: 52 KLRQEGIKAHAAPFNVTHKQE-VEAAIEHIEKDIGPIDVLINNAGIQRRHPFTEFPEQEW 110
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
V V+ T F VS+A +M K+ G+++ S LG Y+A+K A+ L+
Sbjct: 111 NDVIAVNQTAVFLVSQAVARYMVKRQAGKIINICSMQSELGRDTITPYAASKGAVKMLTR 170
Query: 177 TLSIEGEKNNIHCNVIVP 194
+ +E ++NI N I P
Sbjct: 171 GMCVELARHNIQVNGIAP 188
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 97.0 bits (242), Expect = 1e-24
Identities = 48/191 (25%), Positives = 82/191 (42%), Gaps = 22/191 (11%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F + ++TGA +G+G + A +GA V D + S + ++
Sbjct: 3 FMTKTVLITGAASGIGLAQARAFLAQGAQVYGVDKQDK----PDLSGNFHFLQLDLSDD- 57
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRD-KSFARISDTDWQLVQDVHLT 125
++ + +DI+ N AGIL D K S +WQ + D +LT
Sbjct: 58 ----------------LEPLFDWVPSVDILCNTAGILDDYKPLLDTSLEEWQHIFDTNLT 101
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
F ++RA P M ++ G ++ S + + G A Y+A+K AL G + L+++ K+
Sbjct: 102 STFLLTRAYLPQMLERKSGIIINMCSIASFVAGGGGAAYTASKHALAGFTKQLALDYAKD 161
Query: 186 NIHCNVIVPTA 196
I I P A
Sbjct: 162 GIQVFGIAPGA 172
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 97.4 bits (243), Expect = 1e-24
Identities = 65/191 (34%), Positives = 96/191 (50%), Gaps = 16/191 (8%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
VTGA +G+GR+ AL LA +GA + + D RD DG VA+ R+ GG VP
Sbjct: 3 CFVTGAASGIGRATALRLAAQGAELFLTD----RDADG-----LAQTVADARALGGT-VP 52
Query: 72 NYNS--VVDGDKIVQTALE---NFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
+ + + D D + A + G +D+V+N AGI + R++ W+ + DV+L G
Sbjct: 53 EHRALDISDYDAVAAFAADIHAAHGSMDVVMNIAGISAWGTVDRLTHEQWRRMVDVNLMG 112
Query: 127 AFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
V P M G LV +S +GL+ A YSA+K L GLS L + ++
Sbjct: 113 PIHVIETFVPPMVAAGRGGHLVNVSSAAGLVALPWHAAYSASKFGLRGLSEVLRFDLARH 172
Query: 186 NIHCNVIVPTA 196
I +V+VP A
Sbjct: 173 GIGVSVVVPGA 183
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 96.9 bits (242), Expect = 2e-24
Identities = 59/179 (32%), Positives = 85/179 (47%), Gaps = 17/179 (9%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPNY 73
+TGA +G+GR+ ALL A G V D + G + AE+ G A
Sbjct: 6 ITGAASGIGRATALLFAAEGWRVGAYD----INEAG-----LAALAAEL--GAGNAWTGA 54
Query: 74 NSVVDGDKIVQTALENF-----GRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V D AL +F GR+D++ NNAGILR F I V D+++ G
Sbjct: 55 LDVTDRAA-WDAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLEAHDRVIDINVKGVL 113
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
+ AA P++K R++ T+S S + G G A YSA K A+ GL+ L +E ++ I
Sbjct: 114 NGAHAALPYLKATPGARVINTSSASAIYGQPGLAVYSATKFAVRGLTEALDLEWRRHGI 172
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 97.7 bits (244), Expect = 3e-24
Identities = 55/196 (28%), Positives = 92/196 (46%), Gaps = 14/196 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+V ++TGA AG+GR+ A A RGA VV+ R +G + + AEIR+
Sbjct: 5 PIGRQVVVITGASAGVGRATARAFARRGAKVVL----LARGEEG-----LEALAAEIRAA 55
Query: 66 GGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GG+A+ V D + A E G ID +NNA + F ++ +++ V +V
Sbjct: 56 GGEALAVVADVADAEAVQAAADRAEEELGPIDTWVNNAMVTVFGPFEDVTPEEFRRVTEV 115
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE- 181
G + AA HM+ ++ G ++ S Q+ Y AAK A+ G +++L E
Sbjct: 116 TYLGVVHGTLAALRHMRPRDRGAIIQVGSALAYRSIPLQSAYCAAKHAIRGFTDSLRCEL 175
Query: 182 -GEKNNIHCNVIVPTA 196
+ + + ++ P A
Sbjct: 176 LHDGSPVSVTMVQPPA 191
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 96.5 bits (241), Expect = 3e-24
Identities = 42/193 (21%), Positives = 83/193 (43%), Gaps = 19/193 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A++TGA +G+G A LA RG ++++ + + + E+ K G
Sbjct: 6 GKTALITGASSGIGAELAKQLARRGYNLILV---------ARREDKLEALAKELEDKTGV 56
Query: 69 AVP----NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD--- 121
V + + +++ E G ID+++NNAG F + ++
Sbjct: 57 EVEVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFGTFGPFL---ELSLDEEEEMIQ 113
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+++ R+++A P M ++ G ++ S +GL+ A YSA K ++ S L E
Sbjct: 114 LNILALTRLTKAVLPGMVERGAGHIINIGSAAGLIPTPYMAVYSATKAFVLSFSEALREE 173
Query: 182 GEKNNIHCNVIVP 194
+ + + P
Sbjct: 174 LKGTGVKVTAVCP 186
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 96.4 bits (240), Expect = 4e-24
Identities = 59/195 (30%), Positives = 106/195 (54%), Gaps = 19/195 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R + +VA++TGA G+G++ A+ LA+ GA V+ D+ ++A V +I+S
Sbjct: 3 RLENKVAVITGASTGIGQASAIALAQEGAYVLAVDI----------AEAVSETVDKIKSN 52
Query: 66 GGKAVPNYNSVVDGDKIVQTA---LENFGRIDIVINNAGILRDKSFARISDTD---WQLV 119
GGKA + + D ++ A E FGR+D++ NNAG+ D + RI + + +
Sbjct: 53 GGKAKAYHVDISDEQQVKDFASEIKEQFGRVDVLFNNAGV--DNAAGRIHEYPVDVFDKI 110
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
V + G F +++ P M +Q G ++ T+S SG + ++ Y+AAK A++ + +++
Sbjct: 111 MAVDMRGTFLMTKMLLPLMMEQG-GSIINTSSFSGQAADLYRSGYNAAKGAVINFTKSIA 169
Query: 180 IEGEKNNIHCNVIVP 194
IE ++ I N I P
Sbjct: 170 IEYGRDGIRANAIAP 184
>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 = 95.2 bits (237), Expect = 7e-24
Identities = 64/195 (32%), Positives = 99/195 (50%), Gaps = 17/195 (8%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTG G+G+ A LA+ G +V V DL + + A EI GGKA
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADL---------NEETAKETAKEINQAGGKA 51
Query: 70 VPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
V V D D++ + A E FG D+++NNAG+ I++ + + V +V++ G
Sbjct: 52 VAYKLDVSDKDQVFSAIDQAAEKFGGFDVMVNNAGVAPITPILEITEEELKKVYNVNVKG 111
Query: 127 AFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNT----LSIE 181
+AA KKQ + G+++ AS +G GN + YS+ K A+ GL+ T L+ +
Sbjct: 112 VLFGIQAAARQFKKQGHGGKIINAASIAGHEGNPILSAYSSTKFAVRGLTQTAAQELAPK 171
Query: 182 GEKNNIHCNVIVPTA 196
G N +C IV T
Sbjct: 172 GITVNAYCPGIVKTP 186
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 94.3 bits (235), Expect = 2e-23
Identities = 59/191 (30%), Positives = 101/191 (52%), Gaps = 12/191 (6%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VAIVT + +G+G++ ALLLA++G + + D +G A E+RS G +A
Sbjct: 3 QVAIVTASDSGIGKACALLLAQQGFDIGIT---WHSDEEG-----AKETAEEVRSHGVRA 54
Query: 70 VP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
+ + + +G + + ++ GRID+++NNAG + F + +W+ + V + G
Sbjct: 55 EIRQLDLSDLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDFDEWRKIFTVDVDG 114
Query: 127 AFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
AF S+ A HM KQ GR++ S G + Y+AAK AL GL+ +++E ++
Sbjct: 115 AFLCSQIAARHMVKQGQGGRIINITSVHEHTPLPGASAYTAAKHALGGLTKAMALELVEH 174
Query: 186 NIHCNVIVPTA 196
I N + P A
Sbjct: 175 GILVNAVAPGA 185
>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 = 93.4 bits (232), Expect = 2e-23
Identities = 68/187 (36%), Positives = 99/187 (52%), Gaps = 14/187 (7%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
+VTGA G+GR+ A LA G + V+ G+ D A++VV+ I+++GG A
Sbjct: 2 LVTGASRGIGRAIANRLAADGFEICVHYHSGRSD--------AESVVSAIQAQGGNARLL 53
Query: 73 YNSVVDGDKIVQTALE----NFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V D +T LE G V+ NAGI RD +F +S+ DW +V +L G +
Sbjct: 54 QFDVADRVA-CRTLLEADIAEHGAYYGVVLNAGITRDAAFPALSEEDWDIVIHTNLDGFY 112
Query: 129 RVSR-AAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
V P ++ + GR++ AS SG++GN GQ NYSAAK L+G + L++E K I
Sbjct: 113 NVIHPCTMPMIRARQGGRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVELAKRKI 172
Query: 188 HCNVIVP 194
N I P
Sbjct: 173 TVNCIAP 179
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 93.5 bits (233), Expect = 4e-23
Identities = 55/194 (28%), Positives = 87/194 (44%), Gaps = 16/194 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+V +TG G+G + A LA GA V + DL D A AE+
Sbjct: 2 DLRGKVVAITGGARGIGLATARALAALGARVAIGDL----DEA-----LAKETAAEL--- 49
Query: 66 GGKAVPNYNSVVDGD---KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G V V D + + G ID+++NNAG++ F D + + DV
Sbjct: 50 -GLVVGGPLDVTDPASFAAFLDAVEADLGPIDVLVNNAGVMPVGPFLDEPDAVTRRILDV 108
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
++ G S+ A P M + G +V AS +G + G A Y A+K A+VG ++ +E
Sbjct: 109 NVYGVILGSKLAAPRMVPRGRGHVVNVASLAGKIPVPGMATYCASKHAVVGFTDAARLEL 168
Query: 183 EKNNIHCNVIVPTA 196
+H +V++P+
Sbjct: 169 RGTGVHVSVVLPSF 182
>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 = 92.7 bits (231), Expect = 5e-23
Identities = 63/201 (31%), Positives = 87/201 (43%), Gaps = 28/201 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G VA+VTG +GLG + L +GA VV+ DL +S VA++
Sbjct: 2 GLVAVVTGGASGLGLATVERLLAQGAKVVILDLP--------NSPGET--VAKLGDNCRF 51
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGIL-------RDKSFARISDTDWQLVQD 121
+ S D + A FGR+DIV+N AGI + + +Q V +
Sbjct: 52 VPVDVTSEKDVKAALALAKAKFGRLDIVVNCAGIAVAAKTYNKKGQQPHSLE-LFQRVIN 110
Query: 122 VHLTGAFRVSRAAWPHMKKQ------NYGRLVMTASNSGLLGNFGQANYSAAKMALVGLS 175
V+L G F V R A M K G ++ TAS + G GQA YSA+K +VG+
Sbjct: 111 VNLIGTFNVIRLAAGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAYSASKGGIVGM- 169
Query: 176 NTLSIEGE--KNNIHCNVIVP 194
TL I + I I P
Sbjct: 170 -TLPIARDLAPQGIRVVTIAP 189
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 92.7 bits (230), Expect = 6e-23
Identities = 67/208 (32%), Positives = 102/208 (49%), Gaps = 22/208 (10%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+G+VAI+TG GLG+ A+ LA+ GA +V G A A++ + G
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIV-----------GVGVAEAPETQAQVEALG 54
Query: 67 GK---AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
K + D D IV A+E G IDI+INNAGI+R + + DW V +++
Sbjct: 55 RKFHFITADLIQQKDIDSIVSQAVEVMGHIDILINNAGIIRRQDLLEFGNKDWDDVININ 114
Query: 124 LTGAFRVSRA-AWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
F +S+A A +K+ N G+++ AS G +Y+A+K A++GL+ L+ E
Sbjct: 115 QKTVFFLSQAVAKQFVKQGNGGKIINIASMLSFQGGIRVPSYTASKSAVMGLTRALATEL 174
Query: 183 EKNNIHCNVIVP-------TAASRLTED 203
+ NI+ N I P TAA R
Sbjct: 175 SQYNINVNAIAPGYMATDNTAALRADTA 202
>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 = 91.4 bits (227), Expect = 2e-22
Identities = 61/192 (31%), Positives = 95/192 (49%), Gaps = 14/192 (7%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
D VA+VTGA +G+G + A L + G V V G + T V E+R G
Sbjct: 2 DSEVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEG---------LATTVKELREAGV 52
Query: 68 KA---VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+A + SV + + +V A+ +G ID+++NNAG + A ++D W V + +L
Sbjct: 53 EADGRTCDVRSVPEIEALVAAAVARYGPIDVLVNNAGRSGGGATAELADELWLDVVETNL 112
Query: 125 TGAFRVSRA--AWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
TG FRV++ M ++ GR++ AS G G A YSA+K +VG + L +E
Sbjct: 113 TGVFRVTKEVLKAGGMLERGTGRIINIASTGGKQGVVHAAPYSASKHGVVGFTKALGLEL 172
Query: 183 EKNNIHCNVIVP 194
+ I N + P
Sbjct: 173 ARTGITVNAVCP 184
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 91.6 bits (228), Expect = 2e-22
Identities = 55/190 (28%), Positives = 93/190 (48%), Gaps = 17/190 (8%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK-GG 67
+V +TGA G GR++ ERG VV RD +A++ K G
Sbjct: 3 EKVWFITGASRGFGRAWTEAALERGDRVV----ATARDTA---------TLADLAEKYGD 49
Query: 68 KAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+ +P V D + V+TA+E+FGR+DIV+NNAG +++++ + D +
Sbjct: 50 RLLPLALDVTDRAAVFAAVETAVEHFGRLDIVVNNAGYGLFGMIEEVTESEARAQIDTNF 109
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
GA V++A P++++Q G ++ +S G+ Y A+K AL G+S L+ E +
Sbjct: 110 FGALWVTQAVLPYLREQRSGHIIQISSIGGISAFPMSGIYHASKWALEGMSEALAQEVAE 169
Query: 185 NNIHCNVIVP 194
I ++ P
Sbjct: 170 FGIKVTLVEP 179
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 91.2 bits (226), Expect = 3e-22
Identities = 60/192 (31%), Positives = 92/192 (47%), Gaps = 13/192 (6%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F GR A++TG +G+G + A RGA VV+ D+ V +R++G
Sbjct: 4 FPGRGAVITGGASGIGLATGTEFARRGARVVLGDV---------DKPGLRQAVNHLRAEG 54
Query: 67 GKAVPNYNSVVDGDKIVQTALENF---GRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
V +++ A E F G +D+V +NAGI+ ++ DW+ V DV
Sbjct: 55 FDVHGVMCDVRHREEVTHLADEAFRLLGHVDVVFSNAGIVVGGPIVEMTHDDWRWVIDVD 114
Query: 124 LTGAFRVSRAAWPHMKKQNYG-RLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
L G+ A P + +Q G +V TAS +GL+ N G Y AK +VGL+ TL+ E
Sbjct: 115 LWGSIHTVEAFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYGVVGLAETLAREV 174
Query: 183 EKNNIHCNVIVP 194
+ I +V+ P
Sbjct: 175 TADGIGVSVLCP 186
>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 = 90.8 bits (226), Expect = 4e-22
Identities = 51/198 (25%), Positives = 95/198 (47%), Gaps = 23/198 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+ G+ A++TG +G+GR+ A+ A GA V +N L + D A+ I +
Sbjct: 23 KLKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEED-------DAEETKKLIEEE 75
Query: 66 GGKAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRD-KSFARISDTDW 116
G K + ++ GD +V+ ++ FG++DI++NNA +S I+
Sbjct: 76 GRKCL-----LIPGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQESIEDITTEQL 130
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
+ ++ F +++AA PH+KK ++ T S + G+ +Y+A K A+V +
Sbjct: 131 EKTFRTNIFSMFYLTKAALPHLKKG--SSIINTTSVTAYKGSPHLLDYAATKGAIVAFTR 188
Query: 177 TLSIEGEKNNIHCNVIVP 194
LS++ + I N + P
Sbjct: 189 GLSLQLAEKGIRVNAVAP 206
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 90.0 bits (224), Expect = 4e-22
Identities = 52/190 (27%), Positives = 87/190 (45%), Gaps = 12/190 (6%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
A++TGA +G+G++ AL A+ G + + + R D A + + AE+RS G KA
Sbjct: 7 PRALITGASSGIGKATALAFAKAGWDLAL--VA--RSQD-----ALEALAAELRSTGVKA 57
Query: 70 VPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
+ + + I + LE FG D++INNAG+ + +DWQ V ++LT
Sbjct: 58 AAYSIDLSNPEAIAPGIAELLEQFGCPDVLINNAGMAYTGPLLEMPLSDWQWVIQLNLTS 117
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
F+ A P M+ + G ++ +S + Y +K AL + L+ E +
Sbjct: 118 VFQCCSAVLPGMRARGGGLIINVSSIAARNAFPQWGAYCVSKAALAAFTKCLAEEERSHG 177
Query: 187 IHCNVIVPTA 196
I I A
Sbjct: 178 IRVCTITLGA 187
>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 = 90.2 bits (224), Expect = 5e-22
Identities = 59/202 (29%), Positives = 98/202 (48%), Gaps = 14/202 (6%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
+G+ A+VTG G+G + LA GA V ++ K D + E R K
Sbjct: 3 NLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTC---------ARNQKELDECLTEWREK 53
Query: 66 GGKA---VPNYNSVVDGDKIVQTALENF-GRIDIVINNAGILRDKSFARISDTDWQLVQD 121
G K V + +S + +++ T +F G+++I++NNAG K ++ D+ L+
Sbjct: 54 GFKVEGSVCDVSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEEDYSLIMS 113
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+ A+ +SR A P +K G +V +S +G++ A Y A K AL L+ +L+ E
Sbjct: 114 TNFEAAYHLSRLAHPLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGALNQLTRSLACE 173
Query: 182 GEKNNIHCNVIVP-TAASRLTE 202
K+NI N + P A+ L E
Sbjct: 174 WAKDNIRVNAVAPWVIATPLVE 195
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 90.1 bits (223), Expect = 6e-22
Identities = 58/189 (30%), Positives = 93/189 (49%), Gaps = 13/189 (6%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R+A VTG G+G S L + G VV G G +S + + ++ G
Sbjct: 4 RIAYVTGGMGGIGTSICQRLHKDGFKVVA--------GCGPNSPRRVKWLEDQKALGFDF 55
Query: 70 VPNYNSVVDGDKIVQTALENF----GRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
+ + +V D D + A + G ID+++NNAGI RD F +++ DW V D +LT
Sbjct: 56 IASEGNVGDWDS-TKAAFDKVKAEVGEIDVLVNNAGITRDVVFRKMTREDWTAVIDTNLT 114
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
F V++ M ++ +GR++ +S +G G FGQ NYS AK + G + +L+ E
Sbjct: 115 SLFNVTKQVIDGMVERGWGRIINISSVNGQKGQFGQTNYSTAKAGIHGFTMSLAQEVATK 174
Query: 186 NIHCNVIVP 194
+ N + P
Sbjct: 175 GVTVNTVSP 183
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 90.3 bits (225), Expect = 7e-22
Identities = 65/222 (29%), Positives = 97/222 (43%), Gaps = 44/222 (19%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+ G+ +TGA G+G + AL A GA++V+ + K T EI
Sbjct: 1 MMSLSGKTLFITGASRGIGLAIALRAARDGANIVI--AAKTAEPHPKLPGTIHTAAEEIE 58
Query: 64 SKGGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTD---WQ 117
+ GG+A+P V D D++ V A+E FG IDI +NNA + + DT +
Sbjct: 59 AAGGQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNASAI---NLTGTEDTPMKRFD 115
Query: 118 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN----------FGQ-ANYSA 166
L+Q +++ G F VS+A PH+KK + N +L F Y+
Sbjct: 116 LMQQINVRGTFLVSQACLPHLKK---------SENPHILTLSPPLNLDPKWFAPHTAYTM 166
Query: 167 AK--MALVGLSNTLSIEGE--KNNIHCNVIVP-----TAASR 199
AK M+L TL + E + I N + P TAA R
Sbjct: 167 AKYGMSLC----TLGLAEEFRDDGIAVNALWPRTTIATAAVR 204
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 89.7 bits (223), Expect = 1e-21
Identities = 56/190 (29%), Positives = 90/190 (47%), Gaps = 26/190 (13%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDL-GGQRDGDGKSSKAADTVVAEIRSKG 66
G++ IVTG +G+G + L GA+VV D+ GG + D
Sbjct: 8 QGKIIIVTGGSSGIGLAIVKELLANGANVVNADIHGGDGQHENYQFVPTD---------- 57
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGI-----LRD----KSFARISDTDWQ 117
V + V + V +E FGRID ++NNAGI L D +++ +
Sbjct: 58 ---VSSAEEV---NHTVAEIIEKFGRIDGLVNNAGINIPRLLVDEKDPAGKYELNEAAFD 111
Query: 118 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNT 177
+ +++ G F +S+A M KQ+ G +V +S +GL G+ GQ+ Y+A K AL + +
Sbjct: 112 KMFNINQKGVFLMSQAVARQMVKQHDGVIVNMSSEAGLEGSEGQSCYAATKAALNSFTRS 171
Query: 178 LSIEGEKNNI 187
+ E K+NI
Sbjct: 172 WAKELGKHNI 181
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 88.6 bits (220), Expect = 2e-21
Identities = 56/194 (28%), Positives = 93/194 (47%), Gaps = 19/194 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
F G+VA+VTG+ G+G++ AL LAE G + VN +S KAA+ EI +
Sbjct: 1 VFSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYA--------RSRKAAEETAEEIEAL 52
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G KA+ +V D +KI E FGR+D+ +NNA + + ++ W ++
Sbjct: 53 GRKALAVKANVGDVEKIKEMFAQIDEEFGRLDVFVNNAASGVLRPAMELEESHWDWTMNI 112
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ-ANYSA---AKMALVGLSNTL 178
+ ++ A M+K G+++ +S LG+ NY+ +K AL L+ L
Sbjct: 113 NAKALLFCAQEAAKLMEKVGGGKIISLSS----LGSIRYLENYTTVGVSKAALEALTRYL 168
Query: 179 SIEGEKNNIHCNVI 192
++E I N +
Sbjct: 169 AVELAPKGIAVNAV 182
>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 = 88.7 bits (220), Expect = 2e-21
Identities = 58/196 (29%), Positives = 91/196 (46%), Gaps = 18/196 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
RF+G+V +VTGA G+GR A LA GA V++ D S+ V+AEI +
Sbjct: 1 RFEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDR----------SELVHEVLAEILAA 50
Query: 66 GGKAV---PNYNSVVDGDKIVQTALENFGRIDIVINNAG--ILRDKSFARISDTDWQLVQ 120
G A + + +V+ A+E FGR+D++INN G I K + + +
Sbjct: 51 GDAAHVHTADLETYAGAQGVVRAAVERFGRVDVLINNVGGTIWA-KPYEHYEEEQIEAEI 109
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
L RA PHM ++ G +V +S + + YSAAK + L+ +L+
Sbjct: 110 RRSLFPTLWCCRAVLPHMLERQQGVIVNVSSIATRGIY--RIPYSAAKGGVNALTASLAF 167
Query: 181 EGEKNNIHCNVIVPTA 196
E ++ I N + P
Sbjct: 168 EHARDGIRVNAVAPGG 183
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 90.0 bits (224), Expect = 6e-21
Identities = 62/183 (33%), Positives = 97/183 (53%), Gaps = 24/183 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V ++TGA +G+GR+ A+ +AE GA+V + R+G+ A D +VAEIR+KGG
Sbjct: 371 GKVVLITGASSGIGRATAIKVAEAGATVFL----VARNGE-----ALDELVAEIRAKGGT 421
Query: 69 AVPNYNSVVDG---DKIVQTALENFGRIDIVINNAG--ILR--DKSFARISDTDWQLVQD 121
A + D D V+ L G +D ++NNAG I R + S R D++
Sbjct: 422 AHAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNAGRSIRRSVENSTDRFH--DYERTMA 479
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN---FGQANYSAAKMALVGLSNTL 178
V+ GA R+ PHM+++ +G +V S+ G+ N F + Y A+K AL S+
Sbjct: 480 VNYFGAVRLILGLLPHMRERRFGHVV-NVSSIGVQTNAPRF--SAYVASKAALDAFSDVA 536
Query: 179 SIE 181
+ E
Sbjct: 537 ASE 539
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 87.2 bits (216), Expect = 7e-21
Identities = 58/206 (28%), Positives = 101/206 (49%), Gaps = 22/206 (10%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTG GLG+ AL LAE G +V G + + ++ + G +
Sbjct: 10 GKVAVVTGCDTGLGQGMALGLAEAGCDIV-----------GINIVEPTETIEQVTALGRR 58
Query: 69 AV---PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
+ + + +++ A+ FG IDI++NNAG++R + S+ DW V ++++
Sbjct: 59 FLSLTADLRKIDGIPALLERAVAEFGHIDILVNNAGLIRREDAIEFSEKDWDDVMNLNIK 118
Query: 126 GAFRVSRAAWPHMKKQ-NYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
F +S+AA H Q N G+++ AS G +Y+A+K ++G++ ++ E K
Sbjct: 119 SVFFMSQAAAKHFIAQGNGGKIINIASMLSFQGGIRVPSYTASKSGVMGVTRLMANEWAK 178
Query: 185 NNIHCNVIVP-------TAASRLTED 203
+NI+ N I P T R E
Sbjct: 179 HNINVNAIAPGYMATNNTQQLRADEQ 204
>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 = 87.0 bits (216), Expect = 9e-21
Identities = 49/206 (23%), Positives = 87/206 (42%), Gaps = 32/206 (15%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
++ ++TGA +G+++ L GA +++ D+ A + + E+ +
Sbjct: 2 DKIILITGAAGLIGKAFCKALLSAGARLILADINA---------PALEQLKEELTNLYKN 52
Query: 69 A-------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGI---LRDKSFARISDTDWQL 118
+ + S+ +++++ LE FGRIDI+INNA + F W
Sbjct: 53 RVIALELDITSKESI---KELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYEQWNE 109
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG----NFGQAN------YSAAK 168
V +V+L GAF S+A KKQ G ++ AS G++ + YS K
Sbjct: 110 VLNVNLGGAFLCSQAFIKLFKKQGKGSIINIASIYGVIAPDFRIYENTQMYSPVEYSVIK 169
Query: 169 MALVGLSNTLSIEGEKNNIHCNVIVP 194
++ L+ L+ I N I P
Sbjct: 170 AGIIHLTKYLAKYYADTGIRVNAISP 195
>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 = 86.9 bits (216), Expect = 1e-20
Identities = 59/209 (28%), Positives = 98/209 (46%), Gaps = 22/209 (10%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS-K 65
G+VA +TG G G+G++ A AE GASV + G+ + + EI S
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIA---------GRKPEVLEAAAEEISSAT 51
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
GG+A P V D + + V L+ FG+IDI+INNA +S ++ V D+
Sbjct: 52 GGRAHPIQCDVRDPEAVEAAVDETLKEFGKIDILINNAAGNFLAPAESLSPNGFKTVIDI 111
Query: 123 HLTGAFRVSRAAWPH-MKKQNYGRLV-MTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
L G F ++A ++ ++ G ++ ++A+ + G+ Q + +AAK + L+ +L++
Sbjct: 112 DLNGTFNTTKAVGKRLIEAKHGGSILNISATYAY-TGSPFQVHSAAAKAGVDALTRSLAV 170
Query: 181 EGEKNNIHCNVIVP------TAASRLTED 203
E I N I P RL
Sbjct: 171 EWGPYGIRVNAIAPGPIPTTEGMERLAPS 199
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 87.0 bits (216), Expect = 1e-20
Identities = 63/202 (31%), Positives = 99/202 (49%), Gaps = 24/202 (11%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
F G+VA++TGA +G G ++A + A G +V+ D+ Q+D A D VAE+R++
Sbjct: 3 DFAGKVAVITGAASGFGLAFARIGAALGMKLVLADV--QQD-------ALDRAVAELRAQ 53
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G + + V D ++ ALE FG + ++ NNAG+ S DW+ V V
Sbjct: 54 GAEVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNAGVGAGGLVWENSLADWEWVLGV 113
Query: 123 HLTGAFRVSRAAWPHMKKQN------YGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
+L G RA P M G +V TAS +GLL Y+ +K A+V L+
Sbjct: 114 NLWGVIHGVRAFTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTE 173
Query: 177 T----LSIEGEKNNIHCNVIVP 194
T LS+ ++ + +V+ P
Sbjct: 174 TLYQDLSLVTDQ--VGASVLCP 193
>gnl|CDD|187622 cd05364, SDR_c11, classical (c) SDR, subgroup 11. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 253
Score = 86.3 bits (214), Expect = 2e-20
Identities = 50/195 (25%), Positives = 85/195 (43%), Gaps = 18/195 (9%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+VAI+TG+ +G+G A+L A GA + + G+ ++ + G
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALT---------GRDAERLEETRQSCLQAG 51
Query: 67 GKAVPNYNSVV-------DGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
VV D+I+ T L FGR+DI++NNAGIL ++ V
Sbjct: 52 VSEKK-ILLVVADLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIEEYDKV 110
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
+++L +++ A PH+ K G +V +S +G G Y +K AL + +
Sbjct: 111 MNLNLRAVIYLTKLAVPHLIKTK-GEIVNVSSVAGGRSFPGVLYYCISKAALDQFTRCTA 169
Query: 180 IEGEKNNIHCNVIVP 194
+E + N + P
Sbjct: 170 LELAPKGVRVNSVSP 184
>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 = 85.7 bits (212), Expect = 2e-20
Identities = 55/195 (28%), Positives = 94/195 (48%), Gaps = 16/195 (8%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
R+ +VTGA G+GR AL A GA+V++ G++ + V I +GG+
Sbjct: 4 DRIILVTGASDGIGREAALTYARYGATVILL---------GRNEEKLRQVADHINEEGGR 54
Query: 69 A----VPNYNSVV--DGDKIVQTALENFGRIDIVINNAGILRDKS-FARISDTDWQLVQD 121
+ + + + ++ Q N+ R+D V++NAG+L D + + WQ V
Sbjct: 55 QPQWFILDLLTCTSENCQQLAQRIAVNYPRLDGVLHNAGLLGDVCPLSEQNPQVWQDVXQ 114
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V++ F +++A P + K + G LV T+S+ G G Y+ +K A GL L+ E
Sbjct: 115 VNVNATFMLTQALLPLLLKSDAGSLVFTSSSVGRQGRANWGAYAVSKFATEGLXQVLADE 174
Query: 182 GEKNNIHCNVIVPTA 196
++ N+ N I P
Sbjct: 175 YQQRNLRVNCINPGG 189
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 85.9 bits (213), Expect = 2e-20
Identities = 58/195 (29%), Positives = 97/195 (49%), Gaps = 17/195 (8%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+VTGAG G+G + A L E G V + D + A ++ GGK
Sbjct: 2 SKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEE---------TAQAAADKLSKDGGK 52
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
A+ V D D++ V+ ++ FG +++V+NNAG+ I++ + V ++++
Sbjct: 53 AIAVKADVSDRDQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPIETITEEQFDKVYNINVG 112
Query: 126 GAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNT----LSI 180
G +AA KK + G+++ S +G++GN A YS+ K A+ GL+ T L+
Sbjct: 113 GVIWGIQAAQEAFKKLGHGGKIINATSQAGVVGNPELAVYSSTKFAVRGLTQTAARDLAS 172
Query: 181 EGEKNNIHCNVIVPT 195
EG N + IV T
Sbjct: 173 EGITVNAYAPGIVKT 187
>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 = 85.2 bits (211), Expect = 2e-20
Identities = 60/201 (29%), Positives = 91/201 (45%), Gaps = 20/201 (9%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPNY 73
+TGA +G+GR ALL A G V + D D DG ++ + AE+ V
Sbjct: 5 ITGAASGIGRETALLFARNGWFVGLYD----IDEDGLAA-----LAAEL--GAENVVAGA 53
Query: 74 NSVVDGDKIVQTALENF-----GRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V D AL +F GR+D + NNAG+ R F + + D+++ G
Sbjct: 54 LDVTDRAAWAA-ALADFAAATGGRLDALFNNAGVGRGGPFEDVPLAAHDRMVDINVKGVL 112
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
+ AA P++K R++ TAS+S + G A YSA K A+ GL+ L +E ++ I
Sbjct: 113 NGAYAALPYLKATPGARVINTASSSAIYGQPDLAVYSATKFAVRGLTEALDVEWARHGIR 172
Query: 189 CNVIVPTAASRLTEDILPPGS 209
+ P + IL G
Sbjct: 173 VADVWP---WFVDTPILTKGE 190
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 86.1 bits (214), Expect = 3e-20
Identities = 61/212 (28%), Positives = 96/212 (45%), Gaps = 27/212 (12%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
MP G+VA++TG G LG + A LA GA V + D + + A+ VVA
Sbjct: 2 MPNLFSLKGKVAVITGGGGVLGGAMAKELARAGAKVAILDR---------NQEKAEAVVA 52
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTA---LENFGRIDIVINNAG---------------I 102
EI++ GG+A+ V+D + + Q LE+FG DI+IN AG I
Sbjct: 53 EIKAAGGEALAVKADVLDKESLEQARQQILEDFGPCDILINGAGGNHPKATTDNEFHELI 112
Query: 103 LRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQA 162
K+F + + ++ V D++L G ++ M + G ++ +S +
Sbjct: 113 EPTKTFFDLDEEGFEFVFDLNLLGTLLPTQVFAKDMVGRKGGNIINISSMNAFTPLTKVP 172
Query: 163 NYSAAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
YSAAK A+ + L++ K I N I P
Sbjct: 173 AYSAAKAAISNFTQWLAVHFAKVGIRVNAIAP 204
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 85.6 bits (212), Expect = 3e-20
Identities = 51/208 (24%), Positives = 92/208 (44%), Gaps = 19/208 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVV-----NDLGGQRD--GDGKSSKAADTV 58
R DG+ A++TGA G+G + A GA V++ + L RD + + +
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGL 65
Query: 59 VAEIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL 118
A++ + I+ +++ + I++NNAG K+ ++ +W+
Sbjct: 66 AADVSDDEDR-----------RAILDWVEDHWDGLHILVNNAGGNIRKAAIDYTEDEWRG 114
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
+ + +L AF +SR A P +K+ +V S SGL A Y K AL+ ++ L
Sbjct: 115 IFETNLFSAFELSRYAHPLLKQHASSAIVNIGSVSGLTHVRSGAPYGMTKAALLQMTRNL 174
Query: 179 SIEGEKNNIHCNVIVPTAAS-RLTEDIL 205
++E ++ I N + P LT L
Sbjct: 175 AVEWAEDGIRVNAVAPWYIRTPLTSGPL 202
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 88.1 bits (219), Expect = 3e-20
Identities = 61/185 (32%), Positives = 82/185 (44%), Gaps = 23/185 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
F G++ +VTGAG+G+GR AL A GA VV +D+ AA+ IR+
Sbjct: 312 PFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDI---------DEAAAERTAELIRAA 362
Query: 66 GGKAVPNYNSVVDGDKIVQTALENF--------GRIDIVINNAGILRDKSFARISDTDWQ 117
G A V D D A+E F G DIV+NNAGI F S DW
Sbjct: 363 GAVAHAYRVDVSDAD-----AMEAFAEWVRAEHGVPDIVVNNAGIGMAGGFLDTSAEDWD 417
Query: 118 LVQDVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
V DV+L G R M ++ G +V AS + + Y+ +K A++ LS
Sbjct: 418 RVLDVNLWGVIHGCRLFGRQMVERGTGGHIVNVASAAAYAPSRSLPAYATSKAAVLMLSE 477
Query: 177 TLSIE 181
L E
Sbjct: 478 CLRAE 482
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 85.2 bits (211), Expect = 4e-20
Identities = 52/196 (26%), Positives = 82/196 (41%), Gaps = 16/196 (8%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M F G+ +VTGA +G+GR+ A+ LA+RGA VV + +
Sbjct: 1 MNMAFDFSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGETGCEPLRL 60
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
+ V D ++ AL G D ++N AGI +S ++ + V
Sbjct: 61 D---------------VGDDAAIRAALAAAGAFDGLVNCAGIASLESALDMTAEGFDRVM 105
Query: 121 DVHLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
V+ GA V+R M G +V +S + L+G Y A+K AL ++ L
Sbjct: 106 AVNARGAALVARHVARAMIAAGRGGSIVNVSSQAALVGLPDHLAYCASKAALDAITRVLC 165
Query: 180 IEGEKNNIHCNVIVPT 195
+E + I N + PT
Sbjct: 166 VELGPHGIRVNSVNPT 181
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 85.1 bits (210), Expect = 5e-20
Identities = 57/192 (29%), Positives = 95/192 (49%), Gaps = 15/192 (7%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+ A++TGA G+G+ AL E GA V + + A + + EI + GGK
Sbjct: 9 GKRALITGASTGIGKRVALAYVEAGAQVAIA---------ARHLDALEKLADEIGTSGGK 59
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
VP V ++ + G IDI + NAGI+ + ++Q +Q+ ++T
Sbjct: 60 VVPVCCDVSQHQQVTSMLDQVTAELGGIDIAVCNAGIITVTPMLDMPLEEFQRLQNTNVT 119
Query: 126 GAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQ--ANYSAAKMALVGLSNTLSIEG 182
G F ++AA M KQ G ++ TAS SG + N Q ++Y A+K A++ L+ +++E
Sbjct: 120 GVFLTAQAAAKAMVKQGQGGVIINTASMSGHIINVPQQVSHYCASKAAVIHLTKAMAVEL 179
Query: 183 EKNNIHCNVIVP 194
+ I N + P
Sbjct: 180 APHKIRVNSVSP 191
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 84.6 bits (210), Expect = 7e-20
Identities = 62/195 (31%), Positives = 93/195 (47%), Gaps = 20/195 (10%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
RF G+V +VTGA G+GR AL A GA VV+ D S+ V AE+R+
Sbjct: 5 RFAGKVVVVTGAAQGIGRGVALRAAAEGARVVLVD----------RSELVHEVAAELRAA 54
Query: 66 GGKAVP---NYNSVVDGDKIVQTALENFGRIDIVINN-AGILRDKSFARISDTDWQLVQD 121
GG+A+ + + + A+E FGRID++INN G + K F + Q+ +
Sbjct: 55 GGEALALTADLETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEYEEE--QIEAE 112
Query: 122 VH--LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
+ L RA PHM Q G +V +S + + YSAAK + L+ +L+
Sbjct: 113 IRRSLFPTLWCCRAVLPHMLAQGGGAIVNVSSIA--TRGINRVPYSAAKGGVNALTASLA 170
Query: 180 IEGEKNNIHCNVIVP 194
E ++ I N + P
Sbjct: 171 FEYAEHGIRVNAVAP 185
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 84.4 bits (209), Expect = 8e-20
Identities = 48/194 (24%), Positives = 85/194 (43%), Gaps = 24/194 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+V +VTG+G G+GR+ A+ LA+ G+ VVVN + + + ++ GG+
Sbjct: 6 DKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEM--------NETLKMVKENGGE 57
Query: 69 AVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
+ V D + + ++ +G DI++NNAG+ F + D
Sbjct: 58 GI-----GVLADVSTREGCETLAKATIDRYGVADILVNNAGLGLFSPFLNVDDKLIDKHI 112
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
S+ M++ G +V AS +G+ +G + Y A K A++ L+ L++
Sbjct: 113 STDFKSVIYCSQELAKEMREG--GAIVNIASVAGIRPAYGLSIYGAMKAAVINLTKYLAL 170
Query: 181 EGEKNNIHCNVIVP 194
E I N I P
Sbjct: 171 E-LAPKIRVNAIAP 183
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 84.2 bits (209), Expect = 8e-20
Identities = 59/201 (29%), Positives = 93/201 (46%), Gaps = 28/201 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
R+ +VTGAG G+GR AL A GA+V++ G++ + + V EI + GG
Sbjct: 12 DRIILVTGAGDGIGREAALTYARHGATVILL---------GRTEEKLEAVYDEIEAAGGP 62
Query: 69 A---VP---------NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKS-FARISDTD 115
+P NY ++ T E FGR+D V++NAG+L + +
Sbjct: 63 QPAIIPLDLLTATPQNY------QQLADTIEEQFGRLDGVLHNAGLLGELGPMEQQDPEV 116
Query: 116 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLS 175
WQ V V++ F +++A P + K LV T+S+ G G Y+ +K A G+
Sbjct: 117 WQDVMQVNVNATFMLTQALLPLLLKSPAASLVFTSSSVGRQGRANWGAYAVSKFATEGMM 176
Query: 176 NTLSIEGEKNNIHCNVIVPTA 196
L+ E + N+ N I P
Sbjct: 177 QVLADEYQGTNLRVNCINPGG 197
>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 = 84.4 bits (209), Expect = 8e-20
Identities = 51/187 (27%), Positives = 85/187 (45%), Gaps = 6/187 (3%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+V G G LG LAE G V V D+ + + K AD + AE K
Sbjct: 2 NQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSE-----NAEKVADEINAEYGEKAYG 56
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
+ + + + E F R+D+++ +AGI + D+ V+L G F
Sbjct: 57 FGADATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKITDFELGDFDRSLQVNLVGYF 116
Query: 129 RVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
+R M + GR++ S SG +G+ + YSAAK VGL+ +L+++ ++ I
Sbjct: 117 LCAREFSKLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEHGI 176
Query: 188 HCNVIVP 194
N ++
Sbjct: 177 TVNSLML 183
>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 = 84.5 bits (209), Expect = 8e-20
Identities = 54/192 (28%), Positives = 96/192 (50%), Gaps = 17/192 (8%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+VA+VT + G+G + A LA+ GA VVV+ + + D VA ++ +G
Sbjct: 10 NKVALVTASTDGIGLAIARRLAQDGAHVVVSS---------RKQQNVDRAVATLQGEGLS 60
Query: 69 ---AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTD---WQLVQDV 122
V + D +++V TA+ G +DI+++NA + + F I D+ W + DV
Sbjct: 61 VTGTVCHVGKAEDRERLVATAVNLHGGVDILVSNAAV--NPFFGNILDSTEEVWDKILDV 118
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
++ +++A P M+K+ G +V+ +S + G Y+ +K AL+GL+ L+ E
Sbjct: 119 NVKATALMTKAVVPEMEKRGGGSVVIVSSVAAFHPFPGLGPYNVSKTALLGLTKNLAPEL 178
Query: 183 EKNNIHCNVIVP 194
NI N + P
Sbjct: 179 APRNIRVNCLAP 190
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 84.4 bits (209), Expect = 8e-20
Identities = 54/170 (31%), Positives = 78/170 (45%), Gaps = 13/170 (7%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R D +VA+VTGAG GLG + AL AE GA V++ ++ D V +IR+
Sbjct: 7 RLDDQVAVVTGAGRGLGAAIALAFAEAGADVLIA---------ARTESQLDEVAEQIRAA 57
Query: 66 GGKAVPNYNSVVDGDK---IVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G +A + + + A+E FGR+DIV+NN G S D
Sbjct: 58 GRRAHVVAADLAHPEATAGLAGQAVEAFGRLDIVVNNVGGTMPNPLLSTSTKDLADAFTF 117
Query: 123 HLTGAFRVSRAAWPHM-KKQNYGRLVMTASNSGLLGNFGQANYSAAKMAL 171
++ A ++ AA P M + G ++ +S G L G A Y AK AL
Sbjct: 118 NVATAHALTVAAVPLMLEHSGGGSVINISSTMGRLAGRGFAAYGTAKAAL 167
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 84.2 bits (209), Expect = 1e-19
Identities = 54/187 (28%), Positives = 88/187 (47%), Gaps = 16/187 (8%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA-EIRSKGGK 68
+VA+VTGA +G+GR+ A LA G V G R+ + ++ ++
Sbjct: 5 KVALVTGASSGIGRATAEKLARAGYRVF----GTSRNPARAAPIPGVELLELDVTDDA-- 58
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
SV V + GRID+++NNAG+ + S Q + D ++ G
Sbjct: 59 ------SV---QAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSIAQAQALFDTNVFGIL 109
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
R++RA PHM+ Q GR++ +S G L A Y+A+K A+ G S +L E + I
Sbjct: 110 RMTRAVLPHMRAQGSGRIINISSVLGFLPAPYMALYAASKHAVEGYSESLDHEVRQFGIR 169
Query: 189 CNVIVPT 195
+++ P
Sbjct: 170 VSLVEPA 176
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 84.3 bits (209), Expect = 2e-19
Identities = 52/195 (26%), Positives = 90/195 (46%), Gaps = 24/195 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA++TG +G+GR+ A+L A+ GA + + L D +K V E G K
Sbjct: 46 GKVALITGGDSGIGRAVAVLFAKEGADIAIVYL--DEHEDANETKQR--VEKE----GVK 97
Query: 69 AVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGI-LRDKSFARISDTDWQLV 119
+ ++ GD V+ + GR+DI++NNA +S I+
Sbjct: 98 CL-----LIPGDVSDEAFCKDAVEETVRELGRLDILVNNAAFQYPQQSLEDITAEQLDKT 152
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
++ F +++AA PH+K+ ++ T S +G GN +YSA K A+ + +L+
Sbjct: 153 FKTNIYSYFHMTKAALPHLKQG--SAIINTGSITGYEGNETLIDYSATKGAIHAFTRSLA 210
Query: 180 IEGEKNNIHCNVIVP 194
+ I N + P
Sbjct: 211 QSLVQKGIRVNAVAP 225
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 83.3 bits (206), Expect = 2e-19
Identities = 47/188 (25%), Positives = 77/188 (40%), Gaps = 15/188 (7%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R A+VTGA G+G++ A G V+ D D A + +
Sbjct: 3 RTALVTGAAGGIGQALARRFLAAGDRVLALD----IDAA-----ALAAFADAL--GDARF 51
Query: 70 VPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
VP + D + + A G +D+++ NAG R S + W+ ++L
Sbjct: 52 VPVACDLTDAASLAAALANAAAERGPVDVLVANAGAARAASLHDTTPASWRADNALNLEA 111
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
A+ A M K++ G +V S +G + G YSAAK L+ + L++E +
Sbjct: 112 AYLCVEAVLEGMLKRSRGAVVNIGSVNG-MAALGHPAYSAAKAGLIHYTKLLAVEYGRFG 170
Query: 187 IHCNVIVP 194
I N + P
Sbjct: 171 IRANAVAP 178
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 83.3 bits (206), Expect = 2e-19
Identities = 55/196 (28%), Positives = 90/196 (45%), Gaps = 20/196 (10%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+RF G+VA++TG G+GR+ A GA V V + +K E+R
Sbjct: 2 SMRFKGKVALITGGTRGIGRAIAEAFLREGAKVAVL-----YNSAENEAK-------ELR 49
Query: 64 SKGGKA----VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
KG V N + V ++V+ + FGR+D+++NNAGI+ F + + +
Sbjct: 50 EKGVFTIKCDVGNRDQVKKSKEVVE---KEFGRVDVLVNNAGIMYLMPFEEFDEEKYNKM 106
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGL-LGNFGQANYSAAKMALVGLSNTL 178
++L GA + P +K G +V ASN+G+ G Y+ K ++ L+ L
Sbjct: 107 IKINLNGAIYTTYEFLPLLKLSKNGAIVNIASNAGIGTAAEGTTFYAITKAGIIILTRRL 166
Query: 179 SIEGEKNNIHCNVIVP 194
+ E K I N + P
Sbjct: 167 AFELGKYGIRVNAVAP 182
>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 = 83.3 bits (206), Expect = 2e-19
Identities = 60/209 (28%), Positives = 94/209 (44%), Gaps = 24/209 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSK-AADTVVAEIRSKGG 67
G++A+VTGA G+GR AL L E GA+V + G++ EI ++GG
Sbjct: 3 GKIALVTGASRGIGRGIALQLGEAGATVYIT---------GRTILPQLPGTAEEIEARGG 53
Query: 68 KAVPNYNSVVDGDKI----VQTALENFGRIDIVINNA-------GILRDKSFARISDTDW 116
K +P D D++ + A E GR+DI++NNA + K F T W
Sbjct: 54 KCIPVRCDHSDDDEVEALFERVAREQQGRLDILVNNAYAAVQLILVGVAKPFWEEPPTIW 113
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
+ +V L + S A P M K G +V+ +S GL F A Y K A+ ++
Sbjct: 114 DDINNVGLRAHYACSVYAAPLMVKAGKGLIVIISSTGGLEYLFNVA-YGVGKAAIDRMAA 172
Query: 177 TLSIEGEKNNIHCNVIVPTAASRLTEDIL 205
++ E + + + + P TE +L
Sbjct: 173 DMAHELKPHGVAVVSLWPGFV--RTELVL 199
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 85.7 bits (212), Expect = 2e-19
Identities = 60/193 (31%), Positives = 92/193 (47%), Gaps = 20/193 (10%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
RV +VTGA G+GR+ A G VVV D +R S G
Sbjct: 5 SRVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVER------------ARERADSLGPD 52
Query: 69 AVPNYNSVVDGDKIVQTA---LENFGRIDIVINNAGILRDKSFARISDT---DWQLVQDV 122
V D +I + FGRID+++NNAG+ D + DT ++ +Q +
Sbjct: 53 HHALAMDVSDEAQIREGFEQLHREFGRIDVLVNNAGVT-DPTMTATLDTTLEEFARLQAI 111
Query: 123 HLTGAFRVSRAAWPHMKKQNYGR-LVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+LTGA+ V+R A M +Q +G +V AS +GL+ + YSA+K A++ L+ +L+ E
Sbjct: 112 NLTGAYLVAREALRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAAVISLTRSLACE 171
Query: 182 GEKNNIHCNVIVP 194
I N ++P
Sbjct: 172 WAAKGIRVNAVLP 184
Score = 65.6 bits (160), Expect = 1e-12
Identities = 54/196 (27%), Positives = 82/196 (41%), Gaps = 28/196 (14%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQR--------DGDGKSSKAADTVV 59
RV +TG G+GR+ A A G +++ D + + S +A T
Sbjct: 268 SPRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEALGDEHLSVQADITDE 327
Query: 60 AEIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRD-KSFARISDTDWQL 118
A + S +GR+D+++NNAGI K S D+
Sbjct: 328 AAVES-----------------AFAQIQARWGRLDVLVNNAGIAEVFKPSLEQSAEDFTR 370
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
V DV+L+GAF +RAA M + G +V S + LL + Y A+K A+ LS +L
Sbjct: 371 VYDVNLSGAFACARAAARLMSQG--GVIVNLGSIASLLALPPRNAYCASKAAVTMLSRSL 428
Query: 179 SIEGEKNNIHCNVIVP 194
+ E I N + P
Sbjct: 429 ACEWAPAGIRVNTVAP 444
>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 = 82.9 bits (205), Expect = 3e-19
Identities = 52/205 (25%), Positives = 88/205 (42%), Gaps = 26/205 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+VA++TG LG + A LA+ GA V ++ D V EI + G
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEK---------GDKVAKEITALG 53
Query: 67 GKAVPNYNSVVDGDKIVQTA---LENFGRIDIVINNAG--------------ILRDKSFA 109
G+A+ V+D + + + FG +DI+IN AG +++F
Sbjct: 54 GRAIALAADVLDRASLERAREEIVAQFGTVDILINGAGGNHPDATTDPEHYEPETEQNFF 113
Query: 110 RISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKM 169
+ + W+ V D++L G+F S+ M +Q G ++ +S + YSAAK
Sbjct: 114 DLDEEGWEFVFDLNLNGSFLPSQVFGKDMLEQKGGSIINISSMNAFSPLTKVPAYSAAKA 173
Query: 170 ALVGLSNTLSIEGEKNNIHCNVIVP 194
A+ + L++E + N I P
Sbjct: 174 AVSNFTQWLAVEFATTGVRVNAIAP 198
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 81.5 bits (202), Expect = 9e-19
Identities = 50/182 (27%), Positives = 84/182 (46%), Gaps = 21/182 (11%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+ GRV +VTG G+G A GA+VVV G+R + + A+ A++R
Sbjct: 1 NLDLTGRVVLVTGGTRGIGAGIARAFLAAGATVVV---CGRRAPETVDGRPAEFHAADVR 57
Query: 64 SKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV- 122
+V +E GR+D+++NNAG +A ++ + + +
Sbjct: 58 DPD-----------QVAALVDAIVERHGRLDVLVNNAG---GSPYALAAEASPRFHEKIV 103
Query: 123 --HLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLS 179
+L V++AA M++Q G +V S SG + G A Y AAK L+ L+ +L+
Sbjct: 104 ELNLLAPLLVAQAANAVMQQQPGGGSIVNIGSVSGRRPSPGTAAYGAAKAGLLNLTRSLA 163
Query: 180 IE 181
+E
Sbjct: 164 VE 165
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 81.9 bits (203), Expect = 1e-18
Identities = 54/189 (28%), Positives = 84/189 (44%), Gaps = 24/189 (12%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD---- 56
P G+V +VTGA G+G A L RGA + + DL + ++ AA+
Sbjct: 1 GPPMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDL----EEAELAALAAELGGD 56
Query: 57 ----TVVAEIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARIS 112
TVVA++ + A+E FG ID+V+ NAGI S A++
Sbjct: 57 DRVLTVVADVTDLAAMQ-----------AAAEEAVERFGGIDVVVANAGIASGGSVAQVD 105
Query: 113 DTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALV 172
++ V DV+L G F RA P + + G ++ +S + G A Y A+K +
Sbjct: 106 PDAFRRVIDVNLLGVFHTVRATLPAL-IERRGYVLQVSSLAAFAAAPGMAAYCASKAGVE 164
Query: 173 GLSNTLSIE 181
+N L +E
Sbjct: 165 AFANALRLE 173
>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 = 79.9 bits (197), Expect = 1e-18
Identities = 31/103 (30%), Positives = 52/103 (50%)
Query: 92 RIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 151
R D+V++NA IL D ++ + + ++ G R+ AA MK + GR ++ +S
Sbjct: 31 RRDVVVHNAAILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARELMKAKRLGRFILISS 90
Query: 152 NSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
+GL G G Y+A+K AL GL+ + EG N + +
Sbjct: 91 VAGLFGAPGLGGYAASKAALDGLAQQWASEGWGNGLPATAVAC 133
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 80.5 bits (199), Expect = 2e-18
Identities = 64/202 (31%), Positives = 98/202 (48%), Gaps = 29/202 (14%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
++ + +VTG GLG + A A GA VVVN +S AA+ + E+
Sbjct: 1 MQISEQTVLVTGGSRGLGAAIARAFAREGARVVVNYH--------QSEDAAEALADEL-- 50
Query: 65 KGGKAVPNYNSVVDGDKI---VQTALENFGR-IDIVINNAGILRDKSF---AR--ISDTD 115
G +A+ V D +++ TA E+FG+ I V+NNA L D SF AR D
Sbjct: 51 -GDRAIALQADVTDREQVQAMFATATEHFGKPITTVVNNA--LADFSFDGDARKKADDIT 107
Query: 116 WQLVQ---DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGN--FGQANYSAAKMA 170
W+ Q + + GA +AA P M++Q +GR++ +N L N +Y+ AK A
Sbjct: 108 WEDFQQQLEGSVKGALNTIQAALPGMREQGFGRIINIGTN--LFQNPVVPYHDYTTAKAA 165
Query: 171 LVGLSNTLSIEGEKNNIHCNVI 192
L+GL+ L+ E I N++
Sbjct: 166 LLGLTRNLAAELGPYGITVNMV 187
>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 = 80.0 bits (198), Expect = 2e-18
Identities = 57/190 (30%), Positives = 87/190 (45%), Gaps = 18/190 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA G+G LA+ G V+ L RD + + A V ++R++G
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVI--LTA-RDVE-RGQAA----VEKLRAEGLSV 52
Query: 70 VPNYNSVVDGDKIVQTAL---ENFGRIDIVINNAGILRDKSFARISDTD--WQLVQDVHL 124
+ V D I A E +G +DI++NNAGI K F + T + +
Sbjct: 53 RFHQLDVTDDASIEAAADFVEEKYGGLDILVNNAGIAF-KGFDDSTPTREQARETMKTNF 111
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G V++A P +KK GR+V +S G L + Y +K AL L+ L+ E ++
Sbjct: 112 FGTVDVTQALLPLLKKSPAGRIVNVSSGLGSL----TSAYGVSKAALNALTRILAKELKE 167
Query: 185 NNIHCNVIVP 194
I N P
Sbjct: 168 TGIKVNACCP 177
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 80.4 bits (199), Expect = 3e-18
Identities = 54/174 (31%), Positives = 86/174 (49%), Gaps = 12/174 (6%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R DG+VA+VTG GLG + A AERGA+ +V G++++ + AE+ +
Sbjct: 3 RLDGKVALVTGGTQGLGAAIARAFAERGAAGLV--------ICGRNAEKGEAQAAELEAL 54
Query: 66 GGKAV---PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G KAV + + V D ++V A E FGR+D ++N AG+ + S + V
Sbjct: 55 GAKAVFVQADLSDVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTILDTSPELFDRHFAV 114
Query: 123 HLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLS 175
++ F + + A M+++ G +V S S G A Y A+K AL L+
Sbjct: 115 NVRAPFFLMQEAIKLMRRRKAEGTIVNIGSMSAHGGQPFLAAYCASKGALATLT 168
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 80.1 bits (198), Expect = 3e-18
Identities = 46/191 (24%), Positives = 89/191 (46%), Gaps = 15/191 (7%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK--- 68
A +TGA GLGR+ A +AE+GA V + D+ D AEI + G+
Sbjct: 2 AFITGAAGGLGRAIARRMAEQGAKVFLTDINDA--------AGLDAFAAEINAAHGEGVA 53
Query: 69 --AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
AV + ++ A + G + +++NNAG+ + +I +W+ V +++
Sbjct: 54 FAAVQDVTDEAQWQALLAQAADAMGGLSVLVNNAGVGSFGAIEQIELDEWRRVMAINVES 113
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN- 185
F + A P+++ +V +S + Y+A+K A+ L+ +++++ +
Sbjct: 114 IFLGCKHALPYLRASQPASIVNISSVAAFKAEPDYTAYNASKAAVASLTKSIALDCARRG 173
Query: 186 -NIHCNVIVPT 195
++ CN I PT
Sbjct: 174 LDVRCNSIHPT 184
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 80.1 bits (198), Expect = 4e-18
Identities = 54/190 (28%), Positives = 89/190 (46%), Gaps = 10/190 (5%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VA++TGA +G+G + A GA VV+ D+ R A EI
Sbjct: 3 RLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPAR---------ARLAALEIGPA 53
Query: 66 GGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
+ D+IV A+E FG IDI+ NNA + IS + + V++
Sbjct: 54 AIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNAALFDMAPILDISRDSYDRLFAVNVK 113
Query: 126 GAFRVSRAAWPHMKKQNYG-RLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
G F + +A HM +Q G +++ AS +G G ++Y A K A++ + + ++ +
Sbjct: 114 GLFFLMQAVARHMVEQGRGGKIINMASQAGRRGEALVSHYCATKAAVISYTQSAALALIR 173
Query: 185 NNIHCNVIVP 194
+ I+ N I P
Sbjct: 174 HGINVNAIAP 183
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 80.0 bits (198), Expect = 4e-18
Identities = 49/185 (26%), Positives = 83/185 (44%), Gaps = 27/185 (14%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+VA++TG G+G+GR+ GA V V + ++ +A +R + G
Sbjct: 5 HGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEK-------------LASLRQRFG 51
Query: 68 KAVP----NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ--- 120
V + S D + V ++ FG++D + NAGI + D + +
Sbjct: 52 DHVLVVEGDVTSYADNQRAVDQTVDAFGKLDCFVGNAGIW--DYNTSLVDIPAETLDTAF 109
Query: 121 ----DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
+V++ G ++AA P +K G ++ T SNS G Y+A+K A+VGL
Sbjct: 110 DEIFNVNVKGYLLGAKAALPALKASG-GSMIFTLSNSSFYPGGGGPLYTASKHAVVGLVR 168
Query: 177 TLSIE 181
L+ E
Sbjct: 169 QLAYE 173
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 79.9 bits (197), Expect = 5e-18
Identities = 52/191 (27%), Positives = 89/191 (46%), Gaps = 24/191 (12%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+VAIVTG G+G++ L E G++V+ D+ D K
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINFDIKEPSYNDVDYFKVD----------- 52
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTD---WQLVQDVH 123
V N V+ G + + +GRIDI++NNAGI +S+ I + W + +V+
Sbjct: 53 ---VSNKEQVIKG---IDYVISKYGRIDILVNNAGI---ESYGAIHAVEEDEWDRIINVN 103
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
+ G F +S+ P+M KQ+ G ++ AS A Y +K A++GL+ +++++
Sbjct: 104 VNGIFLMSKYTIPYMLKQDKGVIINIASVQSFAVTRNAAAYVTSKHAVLGLTRSIAVD-Y 162
Query: 184 KNNIHCNVIVP 194
I C + P
Sbjct: 163 APTIRCVAVCP 173
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 79.4 bits (196), Expect = 5e-18
Identities = 60/195 (30%), Positives = 100/195 (51%), Gaps = 20/195 (10%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+V I+TGA G+G + ALL AERG +V +N L ++ AA+ VV IR +GG+A
Sbjct: 3 KVMIITGASRGIGAATALLAAERGYAVCLNYL--------RNRDAAEAVVQAIRRQGGEA 54
Query: 70 VPNYNSVVDGDKIV---QTALENFGRIDIVINNAGILRDKSFARISDTD---WQLVQDVH 123
+ V D ++ + GR+D ++NNAGIL + R+ D + +
Sbjct: 55 LAVAADVADEADVLRLFEAVDRELGRLDALVNNAGILEAQ--MRLEQMDAARLTRIFATN 112
Query: 124 LTGAFRVSRAAWPHMKKQNYGR---LVMTASNSGLLGNFGQ-ANYSAAKMALVGLSNTLS 179
+ G+F +R A M ++ GR +V +S + LG+ G+ +Y+A+K A+ ++ L+
Sbjct: 113 VVGSFLCAREAVKRMSTRHGGRGGAIVNVSSMAARLGSPGEYIDYAASKGAIDTMTIGLA 172
Query: 180 IEGEKNNIHCNVIVP 194
E I N + P
Sbjct: 173 KEVAAEGIRVNAVRP 187
>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 = 79.3 bits (196), Expect = 5e-18
Identities = 57/200 (28%), Positives = 92/200 (46%), Gaps = 15/200 (7%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
++TGA +G+GR+ A A+ G +V L +R D + AE+ +
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVA---LAARRT------DRLDELKAELLNPNPSVEV 51
Query: 72 NYNSVVDGDKIVQTALENF----GRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
V D + Q + G +D+VI NAG+ + S +S ++ D +L GA
Sbjct: 52 EILDVTDEE-RNQLVIAELEAELGGLDLVIINAGVGKGTSLGDLSFKAFRETIDTNLLGA 110
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
+ AA P + + G LV+ +S + L G G A YSA+K AL L+ +L + +K I
Sbjct: 111 AAILEAALPQFRAKGRGHLVLISSVAALRGLPGAAAYSASKAALSSLAESLRYDVKKRGI 170
Query: 188 HCNVIVPT-AASRLTEDILP 206
VI P + LT ++
Sbjct: 171 RVTVINPGFIDTPLTANMFT 190
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 79.6 bits (197), Expect = 6e-18
Identities = 55/212 (25%), Positives = 87/212 (41%), Gaps = 23/212 (10%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M + G+ A+VTG G+G + L E GA VV R + + V A
Sbjct: 1 MSFFLELAGKRALVTGGTKGIGAATVARLLEAGARVVTT----ARSRPDDLPEGVEFVAA 56
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKS--FARISDTDWQL 118
++ + G + + LE G +DI+++ G + FA ++D +WQ
Sbjct: 57 DLTTAEG-----------CAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALTDEEWQD 105
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQ-ANYSAAKMALVGLSNT 177
+++L A R+ RA P M + G ++ S L Y+AAK AL S +
Sbjct: 106 ELNLNLLAAVRLDRALLPGMIARGSGVIIHVTSIQRRLPLPESTTAYAAAKAALSTYSKS 165
Query: 178 LSIEGEKNNIHCNVIVP-----TAASRLTEDI 204
LS E + N + P AA L E +
Sbjct: 166 LSKEVAPKGVRVNTVSPGWIETEAAVALAERL 197
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 78.9 bits (195), Expect = 8e-18
Identities = 55/192 (28%), Positives = 85/192 (44%), Gaps = 17/192 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+VAIVTG +G + A L GA V + D+ V A +
Sbjct: 3 GLAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDAD---------NGAAVAASL--- 50
Query: 66 GGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G +A + D I V T + FGR+DI++N A D A S DW DV
Sbjct: 51 GERARFIATDITDDAAIERAVATVVARFGRVDILVNLACTYLDDGLAS-SRADWLAALDV 109
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L A +++AA PH+ + G +V S S G+ Y A+K A+ L+ +++++
Sbjct: 110 NLVSAAMLAQAAHPHLARGG-GAIVNFTSISAKFAQTGRWLYPASKAAIRQLTRSMAMDL 168
Query: 183 EKNNIHCNVIVP 194
+ I N + P
Sbjct: 169 APDGIRVNSVSP 180
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 78.7 bits (194), Expect = 1e-17
Identities = 66/209 (31%), Positives = 102/209 (48%), Gaps = 28/209 (13%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M + +G+VA+VTGA +GLG +A +LA+ GA VV L +R K + A
Sbjct: 1 MGRSINLEGKVALVTGASSGLGARFAQVLAQAGAKVV---LASRRVERLKELR------A 51
Query: 61 EIRSKGGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQ 117
EI ++GG A V D I V A G IDI++NN+G+ + ++ D+
Sbjct: 52 EIEAEGGAAHVVSLDVTDYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDVTPADFD 111
Query: 118 LVQDVHLTGAFRVS---------RA-AWPHMKKQNYGRLVMTASNSGL--LGNFGQANYS 165
V D + GAF V+ RA + K GR++ AS +GL L G Y
Sbjct: 112 FVFDTNTRGAFFVAQEVAKRMIARAKGAGNTKPG--GRIINIASVAGLRVLPQIGL--YC 167
Query: 166 AAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
+K A+V ++ +++E ++ I+ N I P
Sbjct: 168 MSKAAVVHMTRAMALEWGRHGINVNAICP 196
>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 = 78.0 bits (193), Expect = 2e-17
Identities = 50/209 (23%), Positives = 91/209 (43%), Gaps = 38/209 (18%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V ++TGA +G+G+ A LA+RGA V++ ++ + + AEI+ + G
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIA---------CRNEEKGEEAAAEIKKETGN 51
Query: 69 A--------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL-V 119
A + + SV + + L F R+DI+INNAGI+ R++ ++L
Sbjct: 52 AKVEVIQLDLSSLASV---RQFAEEFLARFPRLDILINNAGIMAPP--RRLTKDGFELQF 106
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQAN--------------YS 165
+L G F ++ P +K R+V +S + G + Y
Sbjct: 107 AVNYL-GHFLLTNLLLPVLKASAPSRIVNVSSIAHRAGPIDFNDLDLENNKEYSPYKAYG 165
Query: 166 AAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
+K+A + + L+ E + N + P
Sbjct: 166 QSKLANILFTRELARRLEGTGVTVNALHP 194
>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 = 79.7 bits (197), Expect = 2e-17
Identities = 46/168 (27%), Positives = 78/168 (46%), Gaps = 20/168 (11%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G V +VTG G+GR+ A LA R + +V L G+ + A T+ A + + G
Sbjct: 204 PGGVYLVTGGAGGIGRALARALARRYGARLV--LLGRSPLPPEEEWKAQTL-AALEALGA 260
Query: 68 KAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
+ + D ++++ E +G ID VI+ AG+LRD A+ + D++ V
Sbjct: 261 RV-----LYISADVTDAAAVRRLLEKVRERYGAIDGVIHAAGVLRDALLAQKTAEDFEAV 315
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAA 167
+ G +++A + V+ +S S G GQA+Y+AA
Sbjct: 316 LAPKVDGLLNLAQAL----ADEPLDFFVLFSSVSAFFGGAGQADYAAA 359
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 77.5 bits (191), Expect = 3e-17
Identities = 56/190 (29%), Positives = 89/190 (46%), Gaps = 12/190 (6%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
D R A+V GA +G+G + A+ LA G V LG +R + + +V +IR+ GG
Sbjct: 9 DRRPALVAGASSGIGAATAIELAAAGFPVA---LGARR------VEKCEELVDKIRADGG 59
Query: 68 KAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+AV V D D + V A E G I+++++ AG IS ++ +HL
Sbjct: 60 EAVAFPLDVTDPDSVKSFVAQAEEALGEIEVLVSGAGDTYFGKLHEISTEQFESQVQIHL 119
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
GA R++ A P M ++ G L+ S+ L Y AAK L + L +E E
Sbjct: 120 VGANRLATAVLPGMIERRRGDLIFVGSDVALRQRPHMGAYGAAKAGLEAMVTNLQMELEG 179
Query: 185 NNIHCNVIVP 194
+ +++ P
Sbjct: 180 TGVRASIVHP 189
>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 = 76.6 bits (189), Expect = 5e-17
Identities = 51/219 (23%), Positives = 83/219 (37%), Gaps = 22/219 (10%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G ++TG +G+G + A E G +V++ G+ + E+ +
Sbjct: 3 LTGNTVLITGGTSGIGLALARKFLEAGNTVIIT---------GRREERLAEAKKELPNIH 53
Query: 67 GKA--VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ--DV 122
V + SV + + L + +DI+INNAGI R + + D
Sbjct: 54 TIVLDVGDAESVE---ALAEALLSEYPNLDILINNAGIQRPIDLRDPASDLDKADTEIDT 110
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+L G R+ +A PH+KKQ +V +S + Y A K AL + L +
Sbjct: 111 NLIGPIRLIKAFLPHLKKQPEATIVNVSSGLAFVPMAANPVYCATKAALHSYTLALRHQL 170
Query: 183 EKNNIHCNVIVPTA------ASRLTEDILPPGSYPVKGF 215
+ + IVP A R D P P+ F
Sbjct: 171 KDTGVEVVEIVPPAVDTELHEERRNPDGGTPRKMPLDEF 209
>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 = 76.6 bits (189), Expect = 7e-17
Identities = 56/186 (30%), Positives = 88/186 (47%), Gaps = 25/186 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G VA++TG G+GLGR+ GA V V D ++ VAE+R+
Sbjct: 1 WLKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEK-------------VAELRAD 47
Query: 66 GGKAVP----NYNSVVDGDKIVQTALENFGRIDIVINNAGI------LRDKSFARISDTD 115
G AV + S+ D ++ V +E FG++D I NAGI L D ++ +
Sbjct: 48 FGDAVVGVEGDVRSLADNERAVARCVERFGKLDCFIGNAGIWDYSTSLVDIPEEKLDEAF 107
Query: 116 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLS 175
+L +++ G ++AA P + G ++ T SN+G G Y+A+K A+VGL
Sbjct: 108 DELF-HINVKGYILGAKAALPALYATE-GSVIFTVSNAGFYPGGGGPLYTASKHAVVGLV 165
Query: 176 NTLSIE 181
L+ E
Sbjct: 166 KQLAYE 171
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 76.5 bits (189), Expect = 8e-17
Identities = 47/190 (24%), Positives = 79/190 (41%), Gaps = 15/190 (7%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+ ++TG +G GR+ A G VV + ++
Sbjct: 3 SMKTWLITGVSSGFGRALAQAALAAGHRVVG------------TVRSEAARADFEALHPD 50
Query: 68 KAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+A+ V D D I V A FG ID+++NNAG + + + + +V++
Sbjct: 51 RALARLLDVTDFDAIDAVVADAEATFGPIDVLVNNAGYGHEGAIEESPLAEMRRQFEVNV 110
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
GA +++A P M+ + G +V S GL+ G Y +K AL G+S +L+ E
Sbjct: 111 FGAVAMTKAVLPGMRARRRGHIVNITSMGGLITMPGIGYYCGSKFALEGISESLAKEVAP 170
Query: 185 NNIHCNVIVP 194
IH + P
Sbjct: 171 FGIHVTAVEP 180
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 76.8 bits (189), Expect = 8e-17
Identities = 59/215 (27%), Positives = 97/215 (45%), Gaps = 28/215 (13%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+VA+VTG G+G S L + GA V + DL Q D S
Sbjct: 15 RLLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDL--QDDLGQNVCD----------SL 62
Query: 66 GGKAVPNY---NSVVDGD--KIVQTALENFGRIDIVINNAGILRDKSFARISD------T 114
GG+ + + V+ D + V ++ FG +DI++NNAG+ + D +
Sbjct: 63 GGEPNVCFFHCDVTVEDDVSRAVDFTVDKFGTLDIMVNNAGL----TGPPCPDIRNVELS 118
Query: 115 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGL 174
+++ V DV++ G F + A M G +V S + +G G Y+ +K A++GL
Sbjct: 119 EFEKVFDVNVKGVFLGMKHAARIMIPLKKGSIVSLCSVASAIGGLGPHAYTGSKHAVLGL 178
Query: 175 SNTLSIEGEKNNIHCNVIVPTA-ASRLTEDILPPG 208
+ +++ E K+ I N + P A + L LP
Sbjct: 179 TRSVAAELGKHGIRVNCVSPYAVPTALALAHLPED 213
>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 = 75.7 bits (186), Expect = 1e-16
Identities = 48/174 (27%), Positives = 79/174 (45%), Gaps = 14/174 (8%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADT--VVAEIRSKG 66
G+VAIVTG G G+G+ L E G VV D+ +R D ++ + V ++ +
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEAEGPNLFFVHGDVADET 60
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
+V LE GRID+++NNA + + +W + V+LTG
Sbjct: 61 LVKF-----------VVYAMLEKLGRIDVLVNNAARGSKGILSSLLLEEWDRILSVNLTG 109
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
+ +SR + K GR++ AS Y+A+K LV L++ L++
Sbjct: 110 PYELSRYCRDELIKNK-GRIINIASTRAFQSEPDSEAYAASKGGLVALTHALAM 162
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 75.6 bits (186), Expect = 1e-16
Identities = 53/191 (27%), Positives = 89/191 (46%), Gaps = 14/191 (7%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
GR A+VTG+ G+G + A LA+ GA V++N G+ ++ +G
Sbjct: 9 TGRRALVTGSSQGIGYALAEGLAQAGAEVILN---------GRDPAKLAAAAESLKGQGL 59
Query: 68 KAVPNYNSVVDGDKIVQTALENF----GRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
A V D D V+ A++ F G IDI++NNAG+ ++ + +
Sbjct: 60 SAHALAFDVTDHDA-VRAAIDAFEAEIGPIDILVNNAGMQFRTPLEDFPADAFERLLRTN 118
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
++ F V +A HM + G+++ AS L G A Y+A K A+ L+ ++ +
Sbjct: 119 ISSVFYVGQAVARHMIARGAGKIINIASVQSALARPGIAPYTATKGAVGNLTKGMATDWA 178
Query: 184 KNNIHCNVIVP 194
K+ + CN I P
Sbjct: 179 KHGLQCNAIAP 189
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 75.8 bits (187), Expect = 1e-16
Identities = 48/175 (27%), Positives = 93/175 (53%), Gaps = 9/175 (5%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVV--VNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
++AIVTGA +G G L LA++G V+ + + Q + ++++ +++
Sbjct: 3 KKIAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQNIKVQQLD 62
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
V + NS+ + +++ GRID+++NNAG I +++ + ++ G
Sbjct: 63 ---VTDQNSIHNFQLVLKE----IGRIDLLVNNAGYANGGFVEEIPVEEYRKQFETNVFG 115
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
A V++A P+M+KQ G+++ +S SG +G G + Y ++K AL G S +L +E
Sbjct: 116 AISVTQAVLPYMRKQKSGKIINISSISGRVGFPGLSPYVSSKYALEGFSESLRLE 170
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 75.7 bits (187), Expect = 2e-16
Identities = 45/181 (24%), Positives = 76/181 (41%), Gaps = 18/181 (9%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVV-----NDLGGQRDGDGKSSKAADTVVA 60
+ ++TGA G+G++ A LA GA +++ L + VVA
Sbjct: 2 DLKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPYPGRH-RWVVA 60
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
++ S+ G + V G I+++INNAG+ + +
Sbjct: 61 DLTSE------------AGREAVLARAREMGGINVLINNAGVNHFALLEDQDPEAIERLL 108
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
++LT +++RA P ++ Q +V S G +G G A+Y A+K AL G S L
Sbjct: 109 ALNLTAPMQLTRALLPLLRAQPSAMVVNVGSTFGSIGYPGYASYCASKFALRGFSEALRR 168
Query: 181 E 181
E
Sbjct: 169 E 169
>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 = 73.7 bits (182), Expect = 2e-16
Identities = 48/163 (29%), Positives = 78/163 (47%), Gaps = 22/163 (13%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
+VTG GLG A LAERGA +V L + ++A +AE+ ++G +
Sbjct: 4 LVTGGLGGLGLELARWLAERGARHLV--LLSRSGAPDPEAEAL---LAELEARGAEVT-- 56
Query: 73 YNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
VV D ++ + + VI+ AG+LRD A ++ D+ V +
Sbjct: 57 ---VVACDVSDRDAVRALLAEIRADGPPLRGVIHAAGVLRDALLANMTAEDFARVLAPKV 113
Query: 125 TGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAA 167
TGA+ + A + + V+ +S +G+LG+ GQANY+AA
Sbjct: 114 TGAWNLHEAT----RDRPLDFFVLFSSIAGVLGSPGQANYAAA 152
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 73.2 bits (180), Expect = 7e-16
Identities = 49/192 (25%), Positives = 80/192 (41%), Gaps = 33/192 (17%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGK-------SSKAADTVVAEI 62
R +VTGA G+G + +L LA G V+ D G+ + +A+I
Sbjct: 4 RTVLVTGATKGIGLALSLRLANLGHQVIGIARSAIDDFPGELFACDLADIEQTAATLAQI 63
Query: 63 RSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
+D ++NN GI + +I Q V D+
Sbjct: 64 NEIHP-------------------------VDAIVNNVGIALPQPLGKIDLAALQDVYDL 98
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
++ A +V++A MK + GR+V S + + G + +YSAAK ALVG + T ++E
Sbjct: 99 NVRAAVQVTQAFLEGMKLREQGRIVNICSRA-IFGALDRTSYSAAKSALVGCTRTWALEL 157
Query: 183 EKNNIHCNVIVP 194
+ I N + P
Sbjct: 158 AEYGITVNAVAP 169
>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 = 72.7 bits (179), Expect = 1e-15
Identities = 44/181 (24%), Positives = 76/181 (41%), Gaps = 23/181 (12%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
VA+VTGA +GR+ A LA G VVV+ +S A + E+ + A
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVHY--------NRSEAEAQRLKDELNALRNSA 52
Query: 70 VPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
V +V D +V A FGR D+++NNA + S+ W +
Sbjct: 53 V-----LVQADLSDFAACADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGSEDAWAELFG 107
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLV-MTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
++L + + +A + G ++ + + + G Y +K AL GL+ + ++
Sbjct: 108 INLKAPYLLIQAFARRLAGSRNGSIINIIDAMTD-RPLTGYFAYCMSKAALEGLTRSAAL 166
Query: 181 E 181
E
Sbjct: 167 E 167
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 73.0 bits (179), Expect = 1e-15
Identities = 57/192 (29%), Positives = 92/192 (47%), Gaps = 16/192 (8%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
+A+VTG G+GR+ ALLLA+ G +V VN ++ AA VV I GGKA
Sbjct: 3 IALVTGGSRGIGRATALLLAQEGYTVAVNYQ--------QNLHAAQEVVNLITQAGGKAF 54
Query: 71 PNYNSVVDGDKIV---QTALENFGRIDIVINNAGILRDKS-FARISDTDWQLVQDVHLTG 126
+ D +++V ++ + ++NNAGIL + ++ V ++TG
Sbjct: 55 VLQADISDENQVVAMFTAIDQHDEPLAALVNNAGILFTQCTVENLTAERINRVLSTNVTG 114
Query: 127 AFRVSRAAWPHMKKQNYGR---LVMTASNSGLLGNFGQ-ANYSAAKMALVGLSNTLSIEG 182
F R A M ++ G +V +S + LG G+ +Y+A+K A+ L+ LS+E
Sbjct: 115 YFLCCREAVKRMALKHGGSGGAIVNVSSAASRLGAPGEYVDYAASKGAIDTLTTGLSLEV 174
Query: 183 EKNNIHCNVIVP 194
I N + P
Sbjct: 175 AAQGIRVNCVRP 186
>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 = 72.5 bits (178), Expect = 1e-15
Identities = 53/183 (28%), Positives = 82/183 (44%), Gaps = 9/183 (4%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A+VTGA G+G + A LL G V + RD A+
Sbjct: 3 ALVTGASRGIGEATARLLHAEGYRVGIC----ARDEAR-----LAAAAAQELEGVLGLAG 53
Query: 72 NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVS 131
+ D + V E FG +D ++NNAG+ K ++ +W+LV D +LTGAF
Sbjct: 54 DVRDEADVRRAVDAMEEAFGGLDALVNNAGVGVMKPVEELTPEEWRLVLDTNLTGAFYCI 113
Query: 132 RAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHCNV 191
A P + ++ G +V S +G G A Y+A+K L+GLS ++ + NI
Sbjct: 114 HKAAPALLRRGGGTIVNVGSLAGKNAFKGGAAYNASKFGLLGLSEAAMLDLREANIRVVN 173
Query: 192 IVP 194
++P
Sbjct: 174 VMP 176
>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 = 71.9 bits (176), Expect = 3e-15
Identities = 46/189 (24%), Positives = 86/189 (45%), Gaps = 10/189 (5%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
DG+ A++TG+ G+GR++A GA V + D+ + +AA AEI
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADI---------NLEAARATAAEIGPAA 51
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
+ D+ V ++ +G IDI++NNA + I+ + + ++++G
Sbjct: 52 CAISLDVTDQASIDRCVAALVDRWGSIDILVNNAALFDLAPIVDITRESYDRLFAINVSG 111
Query: 127 AFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
+ +A M Q G+++ AS +G G Y A K A++ L+ + + ++
Sbjct: 112 TLFMMQAVARAMIAQGRGGKIINMASQAGRRGEALVGVYCATKAAVISLTQSAGLNLIRH 171
Query: 186 NIHCNVIVP 194
I+ N I P
Sbjct: 172 GINVNAIAP 180
>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 = 70.2 bits (173), Expect = 4e-15
Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 16/160 (10%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
++TG GLGR+ A LAERGA +V L + G + A ++AE+ + G +
Sbjct: 4 LITGGLGGLGRALARWLAERGARRLV--LLSRS---GPDAPGAAALLAELEAAGARVT-- 56
Query: 73 YNSVVDGDKI-----VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
+ D+ + G + VI+ AG+L D A ++ + V GA
Sbjct: 57 VVACDVADRDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLASLTPERFAAVLAPKAAGA 116
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAA 167
+ + V+ +S +G+LG+ GQANY+AA
Sbjct: 117 WNLHELT----ADLPLDFFVLFSSIAGVLGSPGQANYAAA 152
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 70.0 bits (171), Expect = 4e-15
Identities = 45/116 (38%), Positives = 71/116 (61%), Gaps = 13/116 (11%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
+++ G+VAIVTG G G+GR+ ALLLA++GA V+V D+ D +S +A V EI
Sbjct: 11 KMKLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDI------DQESGQAT---VEEIT 61
Query: 64 SKGGKAV-PNYNSVVDGD--KIVQTALENFGRIDIVINNAGILR-DKSFARISDTD 115
+ GG+A+ +Y+ GD +++ L F RID++ NAG+ + D F+R + D
Sbjct: 62 NLGGEALFVSYDMEKQGDWQRVISITLNAFSRIDMLFQNAGLYKIDSIFSRQQEND 117
>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 = 71.3 bits (175), Expect = 5e-15
Identities = 49/173 (28%), Positives = 83/173 (47%), Gaps = 19/173 (10%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
VAIVTGA G+GR+ A LA RG + +NDL D D A VVAE+ + G +A
Sbjct: 2 PVAIVTGASRGIGRAIATELAARGFDIAINDL---PDDD-----QATEVVAEVLAAGRRA 53
Query: 70 V---PNYNSVVDGDKIVQTALENFGRIDIVINNAGI--LRDKSFARISDTDWQLVQDVHL 124
+ + + D + ++ A E+FGR+D ++NNAGI +++ + + ++L
Sbjct: 54 IYFQADIGELSDHEALLDQAWEDFGRLDCLVNNAGIAVRPRGDLLDLTEDSFDRLIAINL 113
Query: 125 TGAFRVSRAA------WPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMAL 171
G F +++A P + ++ S + L + + Y +K L
Sbjct: 114 RGPFFLTQAVARRMVEQPDRFDGPHRSIIFVTSINAYLVSPNRGEYCISKAGL 166
>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 = 70.9 bits (174), Expect = 6e-15
Identities = 47/152 (30%), Positives = 74/152 (48%), Gaps = 31/152 (20%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD---------- 56
G+ +TGA G+G++ AL A GA+VV+ ++K A+
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVI------------AAKTAEPHPKLPGTIY 48
Query: 57 TVVAEIRSKGGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISD 113
T EI + GGKA+P + D D++ V+ A+E FG IDI++NNA + S D
Sbjct: 49 TAAEEIEAAGGKALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNASAI---SLTGTLD 105
Query: 114 TD---WQLVQDVHLTGAFRVSRAAWPHMKKQN 142
T + L+ V+ G + S+A P++KK
Sbjct: 106 TPMKRYDLMMGVNTRGTYLCSKACLPYLKKSK 137
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 70.8 bits (173), Expect = 9e-15
Identities = 61/198 (30%), Positives = 99/198 (50%), Gaps = 21/198 (10%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
DG+VA+VTGA G+GR+ A+ LA GA V ++ G++ +AAD + EI S G
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAIH--------YGRNKQAADETIREIESNG 55
Query: 67 GKAV---PNYNSVVDGDKIVQTALEN-------FGRIDIVINNAGILRDKSFARISDTDW 116
GKA + NS +DG K + L+N IDI++NNAGI + ++ +
Sbjct: 56 GKAFLIEADLNS-IDGVKKLVEQLKNELQIRVGTSEIDILVNNAGIGTQGTIENTTEEIF 114
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
+ V++ F + + P ++ + GR++ +S LG G Y +K AL ++
Sbjct: 115 DEIMAVNIKAPFFLIQQTLPLLRAE--GRVINISSAEVRLGFTGSIAYGLSKGALNTMTL 172
Query: 177 TLSIEGEKNNIHCNVIVP 194
L+ + I N I+P
Sbjct: 173 PLAKHLGERGITVNTIMP 190
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 70.4 bits (173), Expect = 1e-14
Identities = 51/191 (26%), Positives = 86/191 (45%), Gaps = 19/191 (9%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+V IVTG +G+G + +L LAE GA V+ S D E+R+ +
Sbjct: 7 DKVVIVTGGASGIGAAISLRLAEEGAIPVIFG----------RSAPDDEFAEELRALQPR 56
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH-- 123
A + D + V+ + FGRID ++NNAG+ D + V +
Sbjct: 57 AEFVQVDLTDDAQCRDAVEQTVAKFGRIDGLVNNAGV-NDG--VGLEAGREAFVASLERN 113
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
L + ++ PH+K G +V +S + L G G + Y+AAK A + L+ ++
Sbjct: 114 LIHYYVMAHYCLPHLKASR-GAIVNISSKTALTGQGGTSGYAAAKGAQLALTREWAVALA 172
Query: 184 KNNIHCNVIVP 194
K+ + N ++P
Sbjct: 173 KDGVRVNAVIP 183
>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 = 69.2 bits (170), Expect = 2e-14
Identities = 57/198 (28%), Positives = 90/198 (45%), Gaps = 28/198 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG- 67
G A+VTGA G+G++YA LA+RG +V++ + ++ D V EI K G
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVIL--ISRTQE-------KLDAVAKEIEEKYGV 51
Query: 68 --KAVPNYNSVVD---GDKIVQ---TALENFGRIDIVINNAGILRD--KSFARIS-DTDW 116
K + D GD I + LE I I++NN GI + F D
Sbjct: 52 ETKTI-----AADFSAGDDIYERIEKELEGL-DIGILVNNVGISHSIPEYFLETPEDELQ 105
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
++ +V++ +++R P M K+ G +V +S +GL+ A YSA+K L S
Sbjct: 106 DII-NVNVMATLKMTRLILPGMVKRKKGAIVNISSFAGLIPTPLLATYSASKAFLDFFSR 164
Query: 177 TLSIEGEKNNIHCNVIVP 194
L E + I ++P
Sbjct: 165 ALYEEYKSQGIDVQSLLP 182
>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 = 68.9 bits (169), Expect = 3e-14
Identities = 50/181 (27%), Positives = 79/181 (43%), Gaps = 11/181 (6%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
VA V GAG GLG + A A G SV L +R+ K +V IR GG A
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVA---LAARREA-----KLEALLVDIIRDAGGSAK 52
Query: 71 PNYNSVVDGDKIVQT---ALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
D D+++ E G +++++ NAG + ++ V ++ G
Sbjct: 53 AVPTDARDEDEVIALFDLIEEEIGPLEVLVYNAGANVWFPILETTPRVFEKVWEMAAFGG 112
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
F +R A M + G ++ T + + L G G A ++ AK AL L+ +++ E I
Sbjct: 113 FLAAREAAKRMLARGRGTIIFTGATASLRGRAGFAAFAGAKFALRALAQSMARELGPKGI 172
Query: 188 H 188
H
Sbjct: 173 H 173
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 69.1 bits (169), Expect = 3e-14
Identities = 54/196 (27%), Positives = 91/196 (46%), Gaps = 30/196 (15%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+V ++TGA G+GR+ A+L A RG SV +N + AA+ +R+ GG
Sbjct: 1 MRKVVLITGASRGIGRATAVLAAARGWSVGINYAR--------DAAAAEETADAVRAAGG 52
Query: 68 KAVPNYNSVVDGDKIV---QTALENFGRIDIVINNAGI------LRDKSFARISDTDWQL 118
+A V + ++ FGR+D ++NNAGI L D AR+ +
Sbjct: 53 RACVVAGDVANEADVIAMFDAVQSAFGRLDALVNNAGIVAPSMPLADMDAARL-----RR 107
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGR---LVMTASNSGLLGN-FGQANYSAAKMAL--- 171
+ D ++ GA+ +R A + GR +V +S + LG+ +Y+ +K A+
Sbjct: 108 MFDTNVLGAYLCAREAARRLSTDRGGRGGAIVNVSSIASRLGSPNEYVDYAGSKGAVDTL 167
Query: 172 -VGLSNTLSIEGEKNN 186
+GL+ L G + N
Sbjct: 168 TLGLAKELGPHGVRVN 183
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 68.4 bits (168), Expect = 7e-14
Identities = 62/193 (32%), Positives = 89/193 (46%), Gaps = 28/193 (14%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VA+VTGA +G+G++ A LA +G +V G R D K D +
Sbjct: 4 KVALVTGASSGIGKATARRLAAQGYTV----YGAARRVD----KMEDLASLGVH------ 49
Query: 70 VPNYNSVVDGDKI---VQTALENFGRIDIVINNAGI-----LRDKSFARISDTDWQLVQD 121
P V D I V T + GRID+++NNAG + D I + Q +
Sbjct: 50 -PLSLDVTDEASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAIEDVP---IDEARRQF--E 103
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
V+L GA R+++ PHM+ Q GR++ +S G + A Y A K AL G S+ L +E
Sbjct: 104 VNLFGAARLTQLVLPHMRAQRSGRIINISSMGGKIYTPLGAWYHATKFALEGFSDALRLE 163
Query: 182 GEKNNIHCNVIVP 194
I VI P
Sbjct: 164 VAPFGIDVVVIEP 176
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 67.0 bits (164), Expect = 2e-13
Identities = 54/195 (27%), Positives = 91/195 (46%), Gaps = 22/195 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+V I+TG +G+G++ A AE GA+VV+ G++ + + EI G+
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVIT---------GRTKEKLEEAKLEIEQFPGQ 51
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSF----ARISDTDWQLVQD 121
+ V + + + V+ E FGRID +INNA +F +S W V D
Sbjct: 52 VLTVQMDVRNPEDVQKMVEQIDEKFGRIDALINNAA----GNFICPAEDLSVNGWNSVID 107
Query: 122 VHLTGAFRVSRAAWPH-MKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSI 180
+ L G F S+A + ++K G ++ + G + +AAK ++ ++ TL++
Sbjct: 108 IVLNGTFYCSQAVGKYWIEKGIKGNIINMVATYAWDAGPGVIHSAAAKAGVLAMTRTLAV 167
Query: 181 E-GEKNNIHCNVIVP 194
E G K I N I P
Sbjct: 168 EWGRKYGIRVNAIAP 182
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 67.8 bits (166), Expect = 2e-13
Identities = 61/192 (31%), Positives = 90/192 (46%), Gaps = 22/192 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G V ++TGA +G+G++ A A RGA +V+ RD + A V E R+ G +
Sbjct: 7 GAVVVITGASSGIGQATAEAFARRGARLVL----AARDEE-----ALQAVAEECRALGAE 57
Query: 69 AVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDW----QLVQD 121
+ V D D++ A GRID+ +NN G+ + R +T Q++Q
Sbjct: 58 VLVVPTDVTDADQVKALATQAASFGGRIDVWVNNVGV---GAVGRFEETPIEAHEQVIQ- 113
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+L G R + AA P KKQ +G + S G A YSA+K L G S L E
Sbjct: 114 TNLIGYMRDAHAALPIFKKQGHGIFINMISLGGFAAQPYAAAYSASKFGLRGFSEALRGE 173
Query: 182 -GEKNNIH-CNV 191
+ +IH C+V
Sbjct: 174 LADHPDIHVCDV 185
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 66.5 bits (163), Expect = 2e-13
Identities = 47/178 (26%), Positives = 86/178 (48%), Gaps = 17/178 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
A++TGA G+G + A LA ++ G+ ++ D + AE+ A
Sbjct: 4 PTALITGASRGIGAAIARELAPTHTLLLG----------GRPAERLDELAAELPG----A 49
Query: 70 VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFR 129
P + D + I A+E GR+D++++NAG+ A + +W+ +V++
Sbjct: 50 TPFPVDLTDPEAI-AAAVEQLGRLDVLVHNAGVADLGPVAESTVDEWRATLEVNVVAPAE 108
Query: 130 VSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
++R P + + +G +V S +GL N G +Y+A+K AL L++ L E E N+
Sbjct: 109 LTRLLLPAL-RAAHGHVVFINSGAGLRANPGWGSYAASKFALRALADALREE-EPGNV 164
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 66.9 bits (164), Expect = 2e-13
Identities = 51/200 (25%), Positives = 88/200 (44%), Gaps = 19/200 (9%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
M F G+ +V G +G+ A A GA+V V +S + D VA
Sbjct: 1 MTTMFDFAGKNVVVVGGTSGINLGIAQAFARAGANVAVA---------SRSQEKVDAAVA 51
Query: 61 EIRSKGGKA------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDT 114
+++ G + V +Y +V + FG ID++++ A A +S
Sbjct: 52 QLQQAGPEGLGVSADVRDYAAVEAA---FAQIADEFGPIDVLVSGAAGNFPAPAAGMSAN 108
Query: 115 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGL 174
++ V D+ L G F V +AA+P +++ + ++A + + QA+ AAK + L
Sbjct: 109 GFKTVVDIDLLGTFNVLKAAYPLLRRPGASIIQISAPQAFVPMPM-QAHVCAAKAGVDML 167
Query: 175 SNTLSIEGEKNNIHCNVIVP 194
+ TL++E I N IVP
Sbjct: 168 TRTLALEWGPEGIRVNSIVP 187
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 66.1 bits (162), Expect = 3e-13
Identities = 48/192 (25%), Positives = 82/192 (42%), Gaps = 17/192 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+ A++TG +G+G A GA V + G+ + + AE+
Sbjct: 3 RLQGKTALITGGTSGIGLETARQFLAEGARVAIT---------GRDPASLEAARAEL--- 50
Query: 66 GGKA--VPNYNSVVDGDKIVQTAL-ENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G A + V K + AL E FGR+D V NAG+ + + + +
Sbjct: 51 GESALVIRADAGDVAAQKALAQALAEAFGRLDAVFINAGVAKFAPLEDWDEAMFDRSFNT 110
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
++ G + + +A P + +V+ S + +G + Y+A+K AL+ L+ TLS E
Sbjct: 111 NVKGPYFLIQALLPLLANP--ASIVLNGSINAHIGMPNSSVYAASKAALLSLAKTLSGEL 168
Query: 183 EKNNIHCNVIVP 194
I N + P
Sbjct: 169 LPRGIRVNAVSP 180
>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 = 66.3 bits (162), Expect = 4e-13
Identities = 50/187 (26%), Positives = 84/187 (44%), Gaps = 8/187 (4%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
V ++TG +G+G A+ LA S RD K + + G
Sbjct: 1 TVVLITGCSSGIGLHLAVRLA-SDPSKRFKVYATMRD-----LKKKGRLWEAAGALAGGT 54
Query: 70 VPNYNSVVDGDKIVQTALENF--GRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
+ V K V A+E +D+++ NAG+ +S+ V DV++ G
Sbjct: 55 LETLQLDVCDSKSVAAAVERVTERHVDVLVCNAGVGLLGPLEALSEDAMASVFDVNVFGT 114
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
R+ +A P MK++ GR+++T+S GL G Y A+K AL GL +L+++ N+
Sbjct: 115 VRMLQAFLPDMKRRGSGRILVTSSVGGLQGLPFNDVYCASKFALEGLCESLAVQLLPFNV 174
Query: 188 HCNVIVP 194
H ++I
Sbjct: 175 HLSLIEC 181
>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 = 66.0 bits (161), Expect = 5e-13
Identities = 53/193 (27%), Positives = 85/193 (44%), Gaps = 13/193 (6%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R+ +V IVTG G+GR E GA VV G +A ++ +
Sbjct: 6 RYADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAA------GQALESELNRAGPG 59
Query: 66 GGKAVP-NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD--- 121
K VP + D ++ +E FGRID ++NNAG +T Q +D
Sbjct: 60 SCKFVPCDVTKEEDIKTLISVTVERFGRIDCLVNNAGW--HPPHQTTDETSAQEFRDLLN 117
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
++L F S+ A PH++K G ++ +S G +G A Y A K A+ ++ L+++
Sbjct: 118 LNLISYFLASKYALPHLRKSQ-GNIINLSSLVGSIGQKQAAPYVATKGAITAMTKALAVD 176
Query: 182 GEKNNIHCNVIVP 194
+ + N I P
Sbjct: 177 ESRYGVRVNCISP 189
>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 = 65.6 bits (160), Expect = 6e-13
Identities = 60/187 (32%), Positives = 87/187 (46%), Gaps = 25/187 (13%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
+R G V +VTG +GLGR+ GA V V D KS+ + E+ +
Sbjct: 1 MRLKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLD---------KSAAG----LQELEA 47
Query: 65 KGGKAV----PNYNSVVDGDKIVQTALENFGRIDIVINNAGI------LRDKSFARISDT 114
G AV + S+ D + V + FG+ID +I NAGI L D RI D
Sbjct: 48 AHGDAVVGVEGDVRSLDDHKEAVARCVAAFGKIDCLIPNAGIWDYSTALVDIPDDRI-DE 106
Query: 115 DWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGL 174
+ V +++ G +AA P + + G ++ T SN+G N G Y+AAK A+VGL
Sbjct: 107 AFDEVFHINVKGYLLAVKAALPALV-ASRGSVIFTISNAGFYPNGGGPLYTAAKHAVVGL 165
Query: 175 SNTLSIE 181
L+ E
Sbjct: 166 VKELAFE 172
>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 = 64.6 bits (158), Expect = 9e-13
Identities = 48/217 (22%), Positives = 88/217 (40%), Gaps = 21/217 (9%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
++TGA G+G L RG + V+ RD + AA + + +
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVI---ATCRDPSAATELAA------LGASHSRLHI 51
Query: 72 NYNSVVD-GDKIVQ--TALENFGRIDIVINNAGILRDKSFAR-ISDTDWQLVQDVHLTGA 127
V D + + +D++INNAGIL A + D V V++ G
Sbjct: 52 LELDVTDEIAESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQVNVLGP 111
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGN---FGQANYSAAKMALVGLSNTLSIEGEK 184
+++A P + K +++ +S G +G+ G +Y A+K AL L+ +L++E ++
Sbjct: 112 LLLTQAFLPLLLKGARAKIINISSRVGSIGDNTSGGWYSYRASKAALNMLTKSLAVELKR 171
Query: 185 NNIHCNVIVP-TAASRLTEDILPPGSYPVKGFDPPVS 220
+ I + P + + P + P S
Sbjct: 172 DGITVVSLHPGWVRTDMGG----PFAKNKGPITPEES 204
>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 = 64.8 bits (158), Expect = 9e-13
Identities = 52/200 (26%), Positives = 87/200 (43%), Gaps = 21/200 (10%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R+ GRVA+VTGA G+G + A L + G VV G + + + AE +S
Sbjct: 3 RWRGRVALVTGASVGIGAAVARALVQHGMKVV---------GCARRVDKIEALAAECQSA 53
Query: 66 GGKAVPNYN-SVVDGDKIV---QTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
G + Y + + ++I+ +D+ INNAG+ R + W+ + D
Sbjct: 54 GYPTLFPYQCDLSNEEQILSMFSAIRTQHQGVDVCINNAGLARPEPLLSGKTEGWKEMFD 113
Query: 122 VHLTGAFRVSRAAWPHMKKQNY--GRLVMTASNSG---LLGNFGQANYSAAKMALVGLSN 176
V++ +R A+ MK++N G ++ S SG + Y+A K A+ L+
Sbjct: 114 VNVLALSICTREAYQSMKERNVDDGHIININSMSGHRVPPVSVFHF-YAATKHAVTALTE 172
Query: 177 TL--SIEGEKNNIHCNVIVP 194
L + K +I I P
Sbjct: 173 GLRQELREAKTHIRATSISP 192
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 65.3 bits (159), Expect = 1e-12
Identities = 53/199 (26%), Positives = 94/199 (47%), Gaps = 25/199 (12%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDL-GGQRDGDGKSSKAADTVVAEIRS 64
R GR A++TGA +G+GR+ A+ A GA + +N L ++D A VV I++
Sbjct: 52 RLQGRKALITGADSGIGRATAIAFAREGADIALNYLPEEEQD--------AAEVVQLIQA 103
Query: 65 KGGKAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGI-LRDKSFARISDTD 115
+G KAV + GD ++V+ A++ G +DI++N AG K A I+
Sbjct: 104 EGRKAV-----ALPGDLKDEAFCRQLVERAVKELGGLDILVNIAGKQTAVKDIADITTEQ 158
Query: 116 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLS 175
+ ++ F + +AA PH+ ++ T S + +Y++ K A+V +
Sbjct: 159 FDATFKTNVYAMFWLCKAAIPHLPPG--ASIINTGSIQSYQPSPTLLDYASTKAAIVAFT 216
Query: 176 NTLSIEGEKNNIHCNVIVP 194
L+ + + I N + P
Sbjct: 217 KALAKQVAEKGIRVNAVAP 235
>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 = 64.8 bits (158), Expect = 1e-12
Identities = 51/192 (26%), Positives = 84/192 (43%), Gaps = 19/192 (9%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD--TVVAEIRS 64
F G+ A+VTGAG G+GR+ LA+ GA VV S AD ++V E
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVV-----------AVSRTQADLDSLVRECPG 53
Query: 65 KGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
P + D D + AL + G +D+++NNA + + F ++ + DV++
Sbjct: 54 ----IEPVCVDLSDWDA-TEEALGSVGPVDLLVNNAAVAILQPFLEVTKEAFDRSFDVNV 108
Query: 125 TGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGE 183
VS+ M + G +V +S + Y + K AL L+ +++E
Sbjct: 109 RAVIHVSQIVARGMIARGVPGSIVNVSSQASQRALTNHTVYCSTKAALDMLTKVMALELG 168
Query: 184 KNNIHCNVIVPT 195
+ I N + PT
Sbjct: 169 PHKIRVNSVNPT 180
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 64.8 bits (158), Expect = 1e-12
Identities = 46/162 (28%), Positives = 70/162 (43%), Gaps = 13/162 (8%)
Query: 14 VTGAGAGLGRSYALLLAERGASVV--VNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
+TGA +G GR L RG V V D + + ++ AV
Sbjct: 7 ITGASSGFGRGMTERLLARGDRVAATVRRPDALDDLKARYGDRLWVLQLDVTDSA--AVR 64
Query: 72 NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVS 131
+V A GRID+V++NAG + +SD + D +L G+ +V
Sbjct: 65 ---------AVVDRAFAALGRIDVVVSNAGYGLFGAAEELSDAQIRRQIDTNLIGSIQVI 115
Query: 132 RAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVG 173
RAA PH+++Q GR+V +S G + G + Y A K + G
Sbjct: 116 RAALPHLRRQGGGRIVQVSSEGGQIAYPGFSLYHATKWGIEG 157
>gnl|CDD|187604 cd05346, SDR_c5, classical (c) SDR, subgroup 5. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 64.2 bits (157), Expect = 2e-12
Identities = 48/179 (26%), Positives = 79/179 (44%), Gaps = 22/179 (12%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
++TGA +G+G + A A+ GA ++ L G+R A+ + E+ + G P
Sbjct: 3 VLITGASSGIGEATARRFAKAGAKLI---LTGRR---------AERL-QELADELGAKFP 49
Query: 72 NYNSVVDGD----KIVQTALEN----FGRIDIVINNAGILRD-KSFARISDTDWQLVQDV 122
+ D + ++ ALEN F IDI++NNAG+ DW+ + D
Sbjct: 50 VKVLPLQLDVSDRESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLEDWETMIDT 109
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
++ G V+R P M +N G ++ S +G G Y A K A+ S L +
Sbjct: 110 NVKGLLNVTRLILPIMIARNQGHIINLGSIAGRYPYAGGNVYCATKAAVRQFSLNLRKD 168
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 63.6 bits (155), Expect = 3e-12
Identities = 34/96 (35%), Positives = 49/96 (51%), Gaps = 11/96 (11%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ A+VTG+ G+G A +LA GA VVVN + A+ VVAEI + GG
Sbjct: 5 PGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQK--------APRANKVVAEIEAAGG 56
Query: 68 KAVPNYNSVVDG---DKIVQTALENFGRIDIVINNA 100
+A + D ++ TA E FG +D ++ NA
Sbjct: 57 RASAVGADLTDEESVAALMDTAREEFGGLDALVLNA 92
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 63.0 bits (154), Expect = 5e-12
Identities = 38/132 (28%), Positives = 58/132 (43%), Gaps = 21/132 (15%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R A+VTGA +GR+ AL LA G V V+ +S A+ + AEIR+ G +A
Sbjct: 10 RAALVTGAARRIGRAIALDLAAHGFDVAVH--------YNRSRDEAEALAAEIRALGRRA 61
Query: 70 VPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
V + D +V A G I +++NNA + S A + W
Sbjct: 62 V-----ALQADLADEAEVRALVARASAALGPITLLVNNASLFEYDSAASFTRASWDRHMA 116
Query: 122 VHLTGAFRVSRA 133
+L F +++A
Sbjct: 117 TNLRAPFVLAQA 128
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 61.1 bits (149), Expect = 2e-11
Identities = 47/183 (25%), Positives = 72/183 (39%), Gaps = 21/183 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+V +VTGA G+GR++ L RGA+ V RD + G +
Sbjct: 6 GKVVLVTGANRGIGRAFVEQLLARGAAKVY---AAARD------------PESVTDLGPR 50
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ---DVHLT 125
VP V D + A E + I++NNAGI R S + + D ++ + +
Sbjct: 51 VVPLQLDVTDPASV-AAAAEAASDVTILVNNAGIFRTGSL--LLEGDEDALRAEMETNYF 107
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
G ++RA P + G +V S + YSA+K A L+ L E
Sbjct: 108 GPLAMARAFAPVLAANGGGAIVNVLSVLSWVNFPNLGTYSASKAAAWSLTQALRAELAPQ 167
Query: 186 NIH 188
Sbjct: 168 GTR 170
>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 = 60.4 bits (147), Expect = 3e-11
Identities = 47/194 (24%), Positives = 76/194 (39%), Gaps = 29/194 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
RV +V G LG + RG V DL ++ AD +
Sbjct: 1 ARVVLVYGGRGALGSAVVQAFKSRGWWVASIDL--------AENEEADASII-------- 44
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAG-----ILRDKSFARISDTDWQLVQDVH 123
+ + + ++V + G++D +I AG + KSF + +W L+ +
Sbjct: 45 VLDSDSFTEQAKQVVASVARLSGKVDALICVAGGWAGGSAKSKSFVK----NWDLMWKQN 100
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE-- 181
L +F S A H+ G LV+T + + L G Y AAK A+ L+ +L+ E
Sbjct: 101 LWTSFIASHLATKHLLS--GGLLVLTGAKAALEPTPGMIGYGAAKAAVHQLTQSLAAENS 158
Query: 182 GEKNNIHCNVIVPT 195
G N I+P
Sbjct: 159 GLPAGSTANAILPV 172
>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 = 60.6 bits (147), Expect = 4e-11
Identities = 50/205 (24%), Positives = 98/205 (47%), Gaps = 17/205 (8%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG- 67
G++ +VTG G+GR A E GA V+++ + ++A E+ + G
Sbjct: 6 GKIVLVTGGSRGIGRMIAQGFLEAGARVIIS---------ARKAEACADAAEELSAYGEC 56
Query: 68 KAVP-NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
A+P + +S + +V E R+D+++NNAG ++ W V D+++
Sbjct: 57 IAIPADLSSEEGIEALVARVAERSDRLDVLVNNAGATWGAPLEAFPESGWDKVMDINVKS 116
Query: 127 AFRVSRAAWPHMKK----QNYGRLVMTASNSGLLGNFGQA-NYSAAKMALVGLSNTLSIE 181
F +++A P ++ +N R++ S +G++ + + +Y A+K A+ L+ L+ E
Sbjct: 117 VFFLTQALLPLLRAAATAENPARVINIGSIAGIVVSGLENYSYGASKAAVHQLTRKLAKE 176
Query: 182 GEKNNIHCNVIVPTA-ASRLTEDIL 205
+I N I P S++T +L
Sbjct: 177 LAGEHITVNAIAPGRFPSKMTAFLL 201
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 60.4 bits (147), Expect = 4e-11
Identities = 52/183 (28%), Positives = 84/183 (45%), Gaps = 14/183 (7%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
Q++ +GRVA+VTG +G+G + LL E GASV + RD + +S A +R
Sbjct: 3 QIQLEGRVAVVTGGSSGIGLATVELLLEAGASVAI----CGRDEERLAS-----AEARLR 53
Query: 64 SK--GGKAVPNYNSVVDGDKIVQTA---LENFGRIDIVINNAGILRDKSFARISDTDWQL 118
K G + + V+D + A FG +D+++NNAG R +FA +D W+
Sbjct: 54 EKFPGARLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDDAWRD 113
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
++ +RA P ++ +V S L SAA+ L+ L +L
Sbjct: 114 ELELKYFSVINPTRAFLPLLRASAAASIVCVNSLLALQPEPHMVATSAARAGLLNLVKSL 173
Query: 179 SIE 181
+ E
Sbjct: 174 ATE 176
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 59.2 bits (144), Expect = 1e-10
Identities = 46/192 (23%), Positives = 79/192 (41%), Gaps = 41/192 (21%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+VA++TG +G + A L G V ++ +S+ AD + AE+ +
Sbjct: 5 SAKVALITGGARRIGAAIARTLHAAGYRVAIHY--------HRSAAEADALAAELNA--- 53
Query: 68 KAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLV 119
P + + D ++V + FGR+D ++NNA I++ W +
Sbjct: 54 -LRPGSAAALQADLLDPDALPELVAACVAAFGRLDALVNNASSFYPTPLGSITEAQWDDL 112
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNF----------GQANYSAAKM 169
+L F +S+AA P ++KQ G + N G Y AAK
Sbjct: 113 FASNLKAPFFLSQAAAPQLRKQ-----------RGAIVNITDIHAERPLKGYPVYCAAKA 161
Query: 170 ALVGLSNTLSIE 181
AL L+ +L++E
Sbjct: 162 ALEMLTRSLALE 173
>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 = 59.6 bits (145), Expect = 1e-10
Identities = 52/186 (27%), Positives = 81/186 (43%), Gaps = 28/186 (15%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+R D ++TG GLG A L ERGA +V L G+R S AA +A
Sbjct: 142 PARPLRPDATY-LITGGLGGLGLLVAEWLVERGARHLV--LTGRR----APSAAARQAIA 194
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDI-------VINNAGILRDKSFARISD 113
+ G + V V D D + +I VI+ AG+L D +++
Sbjct: 195 ALEEAGAEVVVLAADVSDRDALAAA----LAQIRASLPPLRGVIHAAGVLDDGV---LAN 247
Query: 114 TDWQLVQDV---HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMA 170
DW+ + V + GA+ + + + V+ +S + LLG+ GQANY+AA
Sbjct: 248 QDWERFRKVLAPKVQGAWNLHQLT----QDLPLDFFVLFSSVASLLGSPGQANYAAANAF 303
Query: 171 LVGLSN 176
L L++
Sbjct: 304 LDALAH 309
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 59.0 bits (143), Expect = 1e-10
Identities = 46/168 (27%), Positives = 75/168 (44%), Gaps = 20/168 (11%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV---NDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+V ++ G LG A LA +GA V N + D A+ VA +++
Sbjct: 8 GKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKAD--------AEETVAAVKAA 59
Query: 66 GGKAVP---NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDV 122
G KAV + + +K+ A FGR DI IN G + K IS+ ++ + V
Sbjct: 60 GAKAVAFQADLTTAAAVEKLFDDAKAAFGRPDIAINTVGKVLKKPIVEISEAEYDEMFAV 119
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNF--GQANYSAAK 168
+ AF + A H+ + G++V ++ LLG F + Y+ +K
Sbjct: 120 NSKSAFFFIKEAGRHL--NDNGKIVTLVTS--LLGAFTPFYSAYAGSK 163
>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 = 58.5 bits (142), Expect = 2e-10
Identities = 43/183 (23%), Positives = 73/183 (39%), Gaps = 21/183 (11%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA-------DTVVAEIR 63
V I+TGA G+GR+ A L +RG+ VV L + + + K TV A++
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLL-ARSEEPLQELKEELRPGLRVTTVKADLS 59
Query: 64 SKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRD-KSFARISDTDWQLVQDV 122
G ++++ + G D++INNAG L I + Q D+
Sbjct: 60 DAAGVE-----------QLLEAIRKLDGERDLLINNAGSLGPVSKIEFIDLDELQKYFDL 108
Query: 123 HLTGAFRVSRAAWPHMKKQNY-GRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+LT ++ KK+ +V +S + + G Y ++K A L+ E
Sbjct: 109 NLTSPVCLTSTLLRAFKKRGLKKTVVNVSSGAAVNPFKGWGLYCSSKAARDMFFRVLAAE 168
Query: 182 GEK 184
Sbjct: 169 EPD 171
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 58.6 bits (142), Expect = 3e-10
Identities = 60/213 (28%), Positives = 90/213 (42%), Gaps = 33/213 (15%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
V G+ ++TGA +G+G + A A RGA+VV + D V I
Sbjct: 36 VDLTGKRILLTGASSGIGEAAAEQFARRGATVVAV---------ARREDLLDAVADRITR 86
Query: 65 KGG--KAVPNYNSVVDG-DKIVQTALENFGRIDIVINNAG--ILR--DKSFARISDTDWQ 117
GG AVP S +D D +V + G +DI+INNAG I R +S R D +
Sbjct: 87 AGGDAMAVPCDLSDLDAVDALVADVEKRIGGVDILINNAGRSIRRPLAESLDRWHDVERT 146
Query: 118 LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS---NSGLLGNFGQANYSAAKMALVGL 174
+V ++ R+ R P M ++ G ++ A+ S F Y+A+K AL +
Sbjct: 147 MV--LNYYAPLRLIRGLAPGMLERGDGHIINVATWGVLSEASPLFSV--YNASKAALSAV 202
Query: 175 SNTLSIEGEKNNIHCN----------VIVPTAA 197
S + E +H +I PT A
Sbjct: 203 SRVIETEWGDRGVHSTTLYYPLVATPMIAPTKA 235
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 58.0 bits (141), Expect = 3e-10
Identities = 33/134 (24%), Positives = 56/134 (41%), Gaps = 13/134 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
VA+VTG G+G A LA G + +ND + E+R+ G +
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPD--------DEELAATQQELRALGVEV 54
Query: 70 VPNYNSVVDGD---KIVQTALENFGRIDIVINNAGI--LRDKSFARISDTDWQLVQDVHL 124
+ V D ++ A +GRID ++NNAG+ ++ + V ++L
Sbjct: 55 IFFPADVADLSAHEAMLDAAQAAWGRIDCLVNNAGVGVKVRGDLLDLTPESFDRVLAINL 114
Query: 125 TGAFRVSRAAWPHM 138
G F +++A M
Sbjct: 115 RGPFFLTQAVAKRM 128
>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 = 57.4 bits (139), Expect = 4e-10
Identities = 36/179 (20%), Positives = 71/179 (39%), Gaps = 18/179 (10%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRS 64
++ G ++TG +G+G + A E G +V++ G++ + AE
Sbjct: 1 MKTTGNTILITGGASGIGLALAKRFLELGNTVIIC---------GRNEERLAEAKAENPE 51
Query: 65 KGGKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQD 121
+ V D D V+ + + ++++INNAGI R++ D Q+
Sbjct: 52 IHTEVC----DVADRDSRRELVEWLKKEYPNLNVLINNAGIQRNEDLTGAEDLLDDAEQE 107
Query: 122 VH--LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
+ L R++ PH+ +Q ++ +S + Y A K A+ + L
Sbjct: 108 IATNLLAPIRLTALLLPHLLRQPEATIINVSSGLAFVPMASTPVYCATKAAIHSYTLAL 166
>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 = 56.8 bits (137), Expect = 5e-10
Identities = 56/206 (27%), Positives = 82/206 (39%), Gaps = 21/206 (10%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
A++ GA G+GR+ A LA RG + L RD + AA+ G A P
Sbjct: 1 ALILGATGGIGRALARALAGRGWRL----LLSGRDAGALAGLAAEV--------GALARP 48
Query: 72 NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVS 131
+ V + V + G +D+++ AG + K AR W+ + D +LTGA V
Sbjct: 49 ---ADVAAELEVWALAQELGPLDLLVYAAGAILGKPLARTKPAAWRRILDANLTGAALVL 105
Query: 132 RAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHCNV 191
+ A + RLV + L+ G + Y+AAK AL E + V
Sbjct: 106 KHALALLAAG--ARLVFLGAYPELVMLPGLSAYAAAKAALEAYVEVARKEVRGLRL-TLV 162
Query: 192 IVPTAASRLTEDILPPGSYPVKGFDP 217
P + L PPG P P
Sbjct: 163 RPPAVDTGLWA---PPGRLPKGALSP 185
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 56.8 bits (137), Expect = 7e-10
Identities = 54/182 (29%), Positives = 81/182 (44%), Gaps = 12/182 (6%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+GRVA+VTGA G+G A L G VV+ DL +R SK A +
Sbjct: 2 SEPNPGHNGRVALVTGAARGIGLGIAAWLIAEGWQVVLADLDRER-----GSKVAK-ALG 55
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGIL--RDKSFARISDTDWQL 118
E V + V G V L FGR+D ++ NA I + + +S W
Sbjct: 56 ENAWFIAMDVADEAQVAAG---VAEVLGQFGRLDALVCNAAIADPHNTTLESLSLAHWNR 112
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
V V+LTG +++ P+++ N G +V AS Y+A+K L+ L++ L
Sbjct: 113 VLAVNLTGPMLLAKHCAPYLRAHN-GAIVNLASTRARQSEPDTEAYAASKGGLLALTHAL 171
Query: 179 SI 180
+I
Sbjct: 172 AI 173
>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 = 56.3 bits (136), Expect = 1e-09
Identities = 49/173 (28%), Positives = 76/173 (43%), Gaps = 13/173 (7%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
+ +VTGA G+G+++ L GA V RD A +VA+ G
Sbjct: 1 IKDKTVLVTGANRGIGKAFVESLLAHGAKKV---YAAVRDPGS-----AAHLVAK---YG 49
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTD-WQLVQDVHLT 125
K VP V D + I + A +D+VINNAG+L+ + + + DV++
Sbjct: 50 DKVVPLRLDVTDPESI-KAAAAQAKDVDVVINNAGVLKPATLLEEGALEALKQEMDVNVF 108
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTL 178
G R+++A P +K G +V S + L YSA+K A L+ L
Sbjct: 109 GLLRLAQAFAPVLKANGGGAIVNLNSVASLKNFPAMGTYSASKSAAYSLTQGL 161
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 56.6 bits (137), Expect = 1e-09
Identities = 38/118 (32%), Positives = 52/118 (44%), Gaps = 37/118 (31%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+P+Q GRVA+VTGA GLG A LA +GA VV+ R+ D K AA + A
Sbjct: 11 IPDQ---SGRVAVVTGANTGLGYETAAALAAKGAHVVL----AVRNLD-KGKAAAARITA 62
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQ----TALE-----------NFGRIDIVINNAGIL 103
D +Q T+L + RID++INNAG++
Sbjct: 63 ATP--------------GADVTLQELDLTSLASVRAAADALRAAYPRIDLLINNAGVM 106
>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 = 55.5 bits (134), Expect = 4e-09
Identities = 48/167 (28%), Positives = 67/167 (40%), Gaps = 23/167 (13%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
DG ++TG GLG A LA RGA +V L +R A A +R+ G
Sbjct: 150 DGTY-LITGGLGGLGLLVARWLAARGARHLV--LLSRRGPAP----RAAARAALLRAGGA 202
Query: 68 KAVPNYNSVVDGDKIVQTALENFGR-------IDIVINNAGILRDKSFARISDTDWQLVQ 120
+ SVV D AL + VI+ AG+LRD A ++ + V
Sbjct: 203 RV-----SVVRCDVTDPAALAALLAELAAGGPLAGVIHAAGVLRDALLAELTPAAFAAVL 257
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAA 167
+ GA + V+ +S + LLG GQA Y+AA
Sbjct: 258 AAKVAGALNLHELTPDLPLD----FFVLFSSVAALLGGAGQAAYAAA 300
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 54.6 bits (131), Expect = 6e-09
Identities = 47/193 (24%), Positives = 85/193 (44%), Gaps = 13/193 (6%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R R A+VTG +G+GR+ A+ A GA V ++ L + + A V I
Sbjct: 46 RLKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVEEED-------AQDVKKIIEEC 98
Query: 66 GGKAVPNYNSVVD---GDKIVQTALENFGRIDIVINNAGI-LRDKSFARISDTDWQLVQD 121
G KAV + D +V A + G +DI+ AG + A ++ +Q
Sbjct: 99 GRKAVLLPGDLSDEKFARSLVHEAHKALGGLDIMALVAGKQVAIPDIADLTSEQFQKTFA 158
Query: 122 VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIE 181
+++ F +++ A P + K ++ T+S + +Y+A K A++ S L+ +
Sbjct: 159 INVFALFWLTQEAIPLLPKG--ASIITTSSIQAYQPSPHLLDYAATKAAILNYSRGLAKQ 216
Query: 182 GEKNNIHCNVIVP 194
+ I N++ P
Sbjct: 217 VAEKGIRVNIVAP 229
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 53.5 bits (129), Expect = 1e-08
Identities = 40/182 (21%), Positives = 73/182 (40%), Gaps = 9/182 (4%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
G+ ++TGA G+G + A A G + + RD D A + A
Sbjct: 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHL----VARDAD-ALEALAADLRAAHGVD 58
Query: 66 GGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
+ +S +++ A G IDI++NNAG + + D W+ ++ +
Sbjct: 59 VAVHALDLSSPEAREQLAAEA----GDIDILVNNAGAIPGGGLDDVDDAAWRAGWELKVF 114
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKN 185
G ++R A+P MK + G +V +G + SA AL+ + L + +
Sbjct: 115 GYIDLTRLAYPRMKARGSGVIVNVIGAAGENPDADYICGSAGNAALMAFTRALGGKSLDD 174
Query: 186 NI 187
+
Sbjct: 175 GV 176
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 53.2 bits (127), Expect = 2e-08
Identities = 54/198 (27%), Positives = 87/198 (43%), Gaps = 25/198 (12%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G+VA+VTGA G+GR+ A LA GA V ++ G + A+ V EI+S GG
Sbjct: 4 GKVALVTGASRGIGRAIAKRLANDGALVAIH--------YGNRKEEAEETVYEIQSNGGS 55
Query: 69 A------------VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDW 116
A V S +D + +T F DI+INNAGI ++ +
Sbjct: 56 AFSIGANLESLHGVEALYSSLDNELQNRTGSTKF---DILINNAGIGPGAFIEETTEQFF 112
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
+ V+ F + + A ++ + + +A+ L +F YS K A+ ++
Sbjct: 113 DRMVSVNAKAPFFIIQQALSRLRDNSRIINISSAATRISLPDF--IAYSMTKGAINTMTF 170
Query: 177 TLSIEGEKNNIHCNVIVP 194
TL+ + I N I+P
Sbjct: 171 TLAKQLGARGITVNAILP 188
>gnl|CDD|187619 cd05361, haloalcohol_DH_SDR_c-like, haloalcohol dehalogenase,
classical (c) SDRs. Dehalogenases cleave carbon-halogen
bonds. Haloalcohol dehalogenase show low sequence
similarity to short-chain dehydrogenases/reductases
(SDRs). Like the SDRs, haloalcohol dehalogenases have a
conserved catalytic triad (Ser-Tyr-Lys/Arg), and form a
Rossmann fold. However, the normal classical SDR
NAD(P)-binding motif (TGXXGXG) and NAD-binding function
is replaced with a halide binding site, allowing the
enzyme to catalyze a dehalogenation reaction. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 52.6 bits (126), Expect = 2e-08
Identities = 49/187 (26%), Positives = 79/187 (42%), Gaps = 15/187 (8%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA-EIRSKGGK 68
+A+VT A G + A L E G +VV +D S A A E + G K
Sbjct: 2 SIALVTHARHFAGPASAEALTEDGYTVVCHD---------ASFADAAERQAFESENPGTK 52
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKS-FARISDTDWQLVQDVHLTGA 127
A+ S +++V L+ G ID++++N I R + S+ D + +
Sbjct: 53 AL----SEQKPEELVDAVLQAGGAIDVLVSNDYIPRPMNPIDGTSEADIRQAFEALSIFP 108
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
F + +AA MKK G ++ S + Y A+ A V L+ +L+ E ++NI
Sbjct: 109 FALLQAAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAAVALAESLAKELSRDNI 168
Query: 188 HCNVIVP 194
I P
Sbjct: 169 LVYAIGP 175
>gnl|CDD|212495 cd09807, retinol-DH_like_SDR_c, retinol dehydrogenases
(retinol-DHs), classical (c) SDRs. Classical SDR-like
subgroup containing retinol-DHs and related proteins.
Retinol is processed by a medium chain alcohol
dehydrogenase followed by retinol-DHs. Proteins in this
subfamily share the glycine-rich NAD-binding motif of
the classical SDRs, have a partial match to the
canonical active site tetrad, but lack the typical
active site Ser. This subgroup includes the human
proteins: retinol dehydrogenase -12, -13 ,and -14. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 274
Score = 51.7 bits (124), Expect = 4e-08
Identities = 33/101 (32%), Positives = 50/101 (49%), Gaps = 14/101 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR--SKG 66
G+ I+TGA G+G+ A LA RGA V++ RD K +AA AEIR +
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIM----ACRD-MAKCEEAA----AEIRRDTLN 51
Query: 67 GKAVPNYNSVVDGDKI---VQTALENFGRIDIVINNAGILR 104
+ + + + I L R+D++INNAG++R
Sbjct: 52 HEVIVRHLDLASLKSIRAFAAEFLAEEDRLDVLINNAGVMR 92
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 51.6 bits (124), Expect = 5e-08
Identities = 55/205 (26%), Positives = 89/205 (43%), Gaps = 26/205 (12%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
R ++TG +G+G A L G V K D VA + ++G +A
Sbjct: 5 RSILITGCSSGIGAYCARALQSDGWRVFAT-----------CRKEED--VAALEAEGLEA 51
Query: 70 VP-NYNSVVDGDKIVQTALE-NFGRIDIVINN-----AGILRDKSFARISDTDWQLVQDV 122
+Y +V LE + GR+D + NN G + D + Q +
Sbjct: 52 FQLDYAEPESIAALVAQVLELSGGRLDALFNNGAYGQPGAVEDLPTEALRA---QF--EA 106
Query: 123 HLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEG 182
+ G ++R P M+KQ GR+V +S GL+ + Y+A+K A+ GLS TL +E
Sbjct: 107 NFFGWHDLTRRVIPVMRKQGQGRIVQCSSILGLVPMKYRGAYNASKFAIEGLSLTLRMEL 166
Query: 183 EKNNIHCNVIVP-TAASRLTEDILP 206
+ + IH ++I P +R + L
Sbjct: 167 QGSGIHVSLIEPGPIETRFRANALA 191
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 50.4 bits (121), Expect = 1e-07
Identities = 49/209 (23%), Positives = 88/209 (42%), Gaps = 35/209 (16%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ ++TGAG +G + + E G V+ D+ +A + ++ + +
Sbjct: 3 KGKTILITGAGGLIGSALVKAILEAGGIVIAADI---------DKEALNELLESLGKEFK 53
Query: 68 KAVPNYNSVVDGDKIVQTALENF--------GRIDIVINNAGILRDKSFAR----ISDTD 115
S+V+ D Q +LE F G+ID +N A R+K + + +S D
Sbjct: 54 SKK---LSLVELDITDQESLEEFLSKSAEKYGKIDGAVNCA-YPRNKDYGKKFFDVSLDD 109
Query: 116 WQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLG-NFGQAN---------YS 165
+ +HL +F S+ + KKQ G LV +S G++ F Y+
Sbjct: 110 FNENLSLHLGSSFLFSQQFAKYFKKQGGGNLVNISSIYGVVAPKFEIYEGTSMTSPVEYA 169
Query: 166 AAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
A K ++ L+ L+ + +NI N + P
Sbjct: 170 AIKAGIIHLTKYLAKYFKDSNIRVNCVSP 198
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 49.5 bits (119), Expect = 2e-07
Identities = 48/202 (23%), Positives = 75/202 (37%), Gaps = 48/202 (23%)
Query: 14 VTGAGAGLGRSYALLLAERGASV--------VVNDLGGQRDGDGKSS-KAADTVVAEIRS 64
+TGA +G+G++ A A +GA++ + + + S AAD
Sbjct: 7 ITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLPKAARVSVYAAD-------- 58
Query: 65 KGGKAVPNYNSVVDGDKIVQTA---LENFGRIDIVINNAGILRD---------KSFARIS 112
V D D + A + G D+VI NAGI F +
Sbjct: 59 -----------VRDADALAAAAADFIAAHGLPDVVIANAGISVGTLTEEREDLAVFREVM 107
Query: 113 DTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALV 172
DT++ + F+ A M+ G LV AS +G+ G G YSA+K A +
Sbjct: 108 DTNY-----FGMVATFQPFIAP---MRAARRGTLVGIASVAGVRGLPGAGAYSASKAAAI 159
Query: 173 GLSNTLSIEGEKNNIHCNVIVP 194
+L +E + I P
Sbjct: 160 KYLESLRVELRPAGVRVVTIAP 181
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 49.5 bits (118), Expect = 3e-07
Identities = 51/199 (25%), Positives = 92/199 (46%), Gaps = 26/199 (13%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G A+VTG G+G+ +A LA +G ++V+ ++ V I+SK K
Sbjct: 53 GSWALVTGPTDGIGKGFAFQLARKGLNLVLV---------ARNPDKLKDVSDSIQSKYSK 103
Query: 69 AVPNYNSVVD-------GDKIVQTALENFGRIDIVINNAGILRDKSFAR-ISDTDWQLVQ 120
VVD G K ++ +E + ++INN G+ +AR + D +L++
Sbjct: 104 -TQIKTVVVDFSGDIDEGVKRIKETIEGLD-VGVLINNVGV--SYPYARFFHEVDEELLK 159
Query: 121 D---VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL--GNFGQANYSAAKMALVGLS 175
+ V++ G +V++A P M K+ G ++ S + ++ + A Y+A K + S
Sbjct: 160 NLIKVNVEGTTKVTQAVLPGMLKRKKGAIINIGSGAAIVIPSDPLYAVYAATKAYIDQFS 219
Query: 176 NTLSIEGEKNNIHCNVIVP 194
L +E +K+ I VP
Sbjct: 220 RCLYVEYKKSGIDVQCQVP 238
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 47.4 bits (113), Expect = 1e-06
Identities = 55/199 (27%), Positives = 88/199 (44%), Gaps = 24/199 (12%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
++TG +G+G AL L RG V L R K D VA + S G +
Sbjct: 6 LITGCSSGIGLEAALELKRRGYRV----LAACR-------KPDD--VARMNSLGFTGI-- 50
Query: 73 YNSVVDGDKIVQTALENF----GRIDIVINNAGILRDKSFARISDTDWQLVQD--VHLTG 126
+ D + + + A E R+ + NNAG + IS Q+ Q + G
Sbjct: 51 LLDLDDPESVERAADEVIALTDNRLYGLFNNAGFGVYGPLSTISRQ--QMEQQFSTNFFG 108
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
+++ P M GR+VMT+S GL+ G+ Y+A+K AL S+ L +E +
Sbjct: 109 THQLTMLLLPAMLPHGEGRIVMTSSVMGLISTPGRGAYAASKYALEAWSDALRMELRHSG 168
Query: 187 IHCNVIVPTA-ASRLTEDI 204
I ++I P +R T+++
Sbjct: 169 IKVSLIEPGPIRTRFTDNV 187
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 47.2 bits (112), Expect = 1e-06
Identities = 48/188 (25%), Positives = 88/188 (46%), Gaps = 10/188 (5%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G++A T + G+G A +LA GA V++ R+ + KA + + +E
Sbjct: 8 GKLAFTTASSKGIGFGVARVLARAGADVILL----SRNEENLK-KAREKIKSESNVDVSY 62
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAF 128
V + D ++ V+ L+N G DI + G + F +S DW+ + L A
Sbjct: 63 IVADLTKREDLERTVKE-LKNIGEPDIFFFSTGGPKPGYFMEMSMEDWEGAVKLLLYPAV 121
Query: 129 RVSRAAWPHMKKQNYGRLVMTASNS--GLLGNFGQANYSAAKMALVGLSNTLSIEGEKNN 186
++RA P M+++ +GR++ + S + + N +N ++++ GL TL+ E
Sbjct: 122 YLTRALVPAMERKGFGRIIYSTSVAIKEPIPNIALSN--VVRISMAGLVRTLAKELGPKG 179
Query: 187 IHCNVIVP 194
I N I+P
Sbjct: 180 ITVNGIMP 187
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 47.2 bits (112), Expect = 2e-06
Identities = 45/201 (22%), Positives = 81/201 (40%), Gaps = 30/201 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
+ +VTGA GLG A A GA+V++ + K + V I G
Sbjct: 6 DKTILVTGASQGLGEQVAKAYAAAGATVILV---------ARHQKKLEKVYDAIVEAGHP 56
Query: 69 ---AVPNYNSVVDGDK-----IVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
A+ ++ + +K A G++D +++ AG F +S D+Q V
Sbjct: 57 EPFAIR-FDLMSAEEKEFEQFAATIAEATQGKLDGIVHCAG-----YFYALSPLDFQTVA 110
Query: 121 D------VHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGL 174
+ ++ ++RA +P +K+ ++ + G + A+K AL L
Sbjct: 111 EWVNQYRINTVAPMGLTRALFPLLKQSPDASVIFVGESHGETPKAYWGGFGASKAALNYL 170
Query: 175 SNTLSIEGEK-NNIHCNVIVP 194
+ E E+ N+ NV+VP
Sbjct: 171 CKVAADEWERFGNLRANVLVP 191
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 47.0 bits (112), Expect = 2e-06
Identities = 45/152 (29%), Positives = 62/152 (40%), Gaps = 28/152 (18%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
G+ AIVTG +GLG LA+ GA V+V R D A +A I
Sbjct: 25 SGKTAIVTGGYSGLGLETTRALAQAGAHVIV----PARRPD-----VAREALAGIDGV-- 73
Query: 68 KAVPNYNSVVDGD----KIVQTALENFG----RIDIVINNAGILRDKSFARISDTDWQLV 119
VV D + V+ E F RIDI+INNAG++ R+ D W+
Sbjct: 74 -------EVVMLDLADLESVRAFAERFLDSGRRIDILINNAGVMACPE-TRVGD-GWEAQ 124
Query: 120 QDVHLTGAFRVSRAAWPHMKKQNYGRLVMTAS 151
+ G F + WP + R+V +S
Sbjct: 125 FATNHLGHFALVNLLWPALAAGAGARVVALSS 156
>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 = 45.7 bits (109), Expect = 5e-06
Identities = 30/117 (25%), Positives = 53/117 (45%), Gaps = 16/117 (13%)
Query: 96 VINNAGILRDKSFARISDTDWQLVQD------VHLTGAFRVSRAAWPHMKKQNYGRLVMT 149
++NNAGIL D + + D V+L G V++A P + ++ GR+V
Sbjct: 82 LVNNAGIL-----GFGGDEELLPMDDYRKCMEVNLFGTVEVTKAFLP-LLRRAKGRVVNV 135
Query: 150 ASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHCNVIVP----TAASRLTE 202
+S G + Y A+K A+ S++L E + + ++I P T + +E
Sbjct: 136 SSMGGRVPFPAGGAYCASKAAVEAFSDSLRRELQPWGVKVSIIEPGNFKTGITGNSE 192
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 44.2 bits (105), Expect = 2e-05
Identities = 44/187 (23%), Positives = 78/187 (41%), Gaps = 18/187 (9%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
++TGAG+G GR AL LA +G +V+ G + + R V
Sbjct: 6 LITGAGSGFGREVALRLARKGHNVIA--------GVQIAPQVTALRAEAARRGLALRVEK 57
Query: 73 YNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ---DVHLTGAFR 129
+ D A E +D+++NNAGI + I +LV+ + ++ G
Sbjct: 58 LDLTDAID--RAQAAEW--DVDVLLNNAGIGEAGAVVDIP---VELVRELFETNVFGPLE 110
Query: 130 VSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNIHC 189
+++ M + G++V T+S +GL+ Y A+K AL ++ + E + I
Sbjct: 111 LTQGFVRKMVARGKGKVVFTSSMAGLITGPFTGAYCASKHALEAIAEAMHAELKPFGIQV 170
Query: 190 NVIVPTA 196
+ P
Sbjct: 171 ATVNPGP 177
>gnl|CDD|187657 cd08954, KR_1_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 1, complex (x) SDRs.
NADP-dependent KR domain of the multidomain type I FAS,
a complex SDR family. This subfamily also includes
proteins identified as polyketide synthase (PKS), a
protein with related modular protein architecture and
similar function. It includes the KR domains of
mammalian and chicken FAS, and Dictyostelium discoideum
putative polyketide synthases (PKSs). These KR domains
contain two subdomains, each of which is related to SDR
Rossmann fold domains. However, while the C-terminal
subdomain has an active site similar to the other SDRs
and a NADP-binding capability, the N-terminal SDR-like
subdomain is truncated and lacks these functions,
serving a supportive structural role. In some instances,
such as porcine FAS, an enoyl reductase (a Rossman fold
NAD-binding domain of the medium-chain
dehydrogenase/reductase, MDR family) module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER);
this KR and ER are members of the SDR family. This KR
subfamily has an active site tetrad with a similar 3D
orientation compared to archetypical SDRs, but the
active site Lys and Asn residue positions are swapped.
The characteristic NADP-binding is typical of the
multidomain complex SDRs, with a GGXGXXG NADP binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 452
Score = 44.4 bits (105), Expect = 2e-05
Identities = 38/171 (22%), Positives = 66/171 (38%), Gaps = 16/171 (9%)
Query: 13 IVTGAGAGLGRSYALLLAERGA--SVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
++TG GLG L +RGA ++++ G + + E +S+ K
Sbjct: 222 LITGGSGGLGLEILKWLVKRGAVENIIILSRSGMKWELELL-------IREWKSQNIKFH 274
Query: 71 PNYNSVVDGDKIVQT-----ALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLT 125
V D + + G I + + A +L DK +++ + V +
Sbjct: 275 FVSVDVSDVSSLEKAINLILNAPKIGPIGGIFHLAFVLIDKVLEIDTESLFISVNKAKVM 334
Query: 126 GAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSN 176
GA + + K +Y V+ +S S + G+ GQ NY A L LS
Sbjct: 335 GAINLHNQSIKRCWKLDY--FVLFSSVSSIRGSAGQCNYVCANSVLDSLSR 383
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 43.6 bits (103), Expect = 3e-05
Identities = 57/213 (26%), Positives = 90/213 (42%), Gaps = 33/213 (15%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
V ++TG +G+GR+ A G V + KA D V + + G AV
Sbjct: 3 VVLITGCSSGIGRALADAFKAAGYEVWAT-----------ARKAED--VEALAAAGFTAV 49
Query: 71 PNYNSVVDGDKIVQTALE---NFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGA 127
V DG + + A E G +D++INNAG + + D + ++ T
Sbjct: 50 QL--DVNDGAALARLAEELEAEHGGLDVLINNAGY---GAMGPLLDGGVEAMRRQFETNV 104
Query: 128 FR---VSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEK 184
F V+RA +P +++ + G +V S SG+L Y A+K A+ LS+ L +E
Sbjct: 105 FAVVGVTRALFPLLRR-SRGLVVNIGSVSGVLVTPFAGAYCASKAAVHALSDALRLELAP 163
Query: 185 NNIHCNVIVPTA--------ASRLTEDILPPGS 209
+ + P A ASR E +L S
Sbjct: 164 FGVQVMEVQPGAIASQFASNASREAEQLLAEQS 196
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 43.2 bits (102), Expect = 3e-05
Identities = 47/189 (24%), Positives = 77/189 (40%), Gaps = 17/189 (8%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
F G+ +V G G+G + GA+V G S AA+ + E G
Sbjct: 4 FTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAG--------SKDAAERLAQE---TG 52
Query: 67 GKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTG 126
AV D D ++ + G +DI++ NAGI + D + +++
Sbjct: 53 ATAV--QTDSADRDAVIDV-VRKSGALDILVVNAGIAVFGDALELDADDIDRLFKINIHA 109
Query: 127 AFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNF-GQANYSAAKMALVGLSNTLSIEGEKN 185
+ S A M GR+++ S +G G A Y+A+K AL G++ L+ +
Sbjct: 110 PYHASVEAARQMP--EGGRIIIIGSVNGDRMPVAGMAAYAASKSALQGMARGLARDFGPR 167
Query: 186 NIHCNVIVP 194
I NV+ P
Sbjct: 168 GITINVVQP 176
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 42.8 bits (101), Expect = 5e-05
Identities = 44/214 (20%), Positives = 79/214 (36%), Gaps = 27/214 (12%)
Query: 9 GRVAIVTGA--GAGLGRSYALLLAERGASVVVN--DLGGQRDGDGKSSKAADTVVAEIRS 64
++A+VTGA G+G + LA +G + + G K + EI S
Sbjct: 5 KKIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEIES 64
Query: 65 KGGK--------AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARIS---- 112
G + + P +++ E G I+INNA ++
Sbjct: 65 YGVRCEHMEIDLSQPY-----APNRVFYAVSERLGDPSILINNAAYSTHTRLEELTAEQL 119
Query: 113 DTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALV 172
D + V++ +S A + GR++ S L + Y+A K A+
Sbjct: 120 DKHYA----VNVRATMLLSSAFAKQYDGKAGGRIINLTSGQSLGPMPDELAYAATKGAIE 175
Query: 173 GLSNTLSIEGEKNNIHCNVIV--PTAASRLTEDI 204
+ +L+ E + I N + PT +TE++
Sbjct: 176 AFTKSLAPELAEKGITVNAVNPGPTDTGWITEEL 209
>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 = 42.2 bits (99), Expect = 8e-05
Identities = 52/213 (24%), Positives = 83/213 (38%), Gaps = 41/213 (19%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEI-RSKGGKA 69
A+VTGA +G S A+ L + G VV++ +S+ AA T+ AE+ + A
Sbjct: 3 AAVVTGAAKRIGSSIAVALHQEGYRVVLH--------YHRSAAAASTLAAELNARRPNSA 54
Query: 70 V------PNYNSVVDG-DKIVQTALENFGRIDIVINNAG------ILRDKSFARISDTDW 116
V N ++ + I+ FGR D+++NNA +LR + + D
Sbjct: 55 VTCQADLSNSATLFSRCEAIIDACFRAFGRCDVLVNNASAFYPTPLLRGDAGEGVGDKKS 114
Query: 117 QLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQAN------------- 163
VQ L G S A P+ + + + N N
Sbjct: 115 LEVQVAELFG----SNAIAPYFLIKAFAQRQAGTRAEQRSTNLSIVNLCDAMTDQPLLGF 170
Query: 164 --YSAAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
Y+ AK AL GL+ + ++E I N + P
Sbjct: 171 TMYTMAKHALEGLTRSAALELAPLQIRVNGVAP 203
>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 = 41.4 bits (98), Expect = 9e-05
Identities = 44/209 (21%), Positives = 77/209 (36%), Gaps = 40/209 (19%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
IV GA +G + A LL+ G V+ + +++ +I +
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEVIT------------AGRSSGDYQVDITDEAS---- 44
Query: 72 NYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVS 131
++ E G D +++ AG A ++D D+Q + L G +
Sbjct: 45 -----------IKALFEKVGHFDAIVSTAGDAEFAPLAELTDADFQRGLNSKLLGQINLV 93
Query: 132 RAAWPHMKKQNYGRLVMTASNSGLLG---NFGQANYSAAKMALVGLSNTLSIEGEKNNIH 188
R P++ G + +T SG+L G A + AL G +IE + I
Sbjct: 94 RHGLPYLNDG--GSITLT---SGILAQRPIPGGAAAATVNGALEGFVRAAAIELPR-GIR 147
Query: 189 CNVIVPTAASRLTEDILPPGSYPVKGFDP 217
N + P + E + G + GF+P
Sbjct: 148 INAVSPGV---VEESLEAYGDF-FPGFEP 172
>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 = 41.8 bits (98), Expect = 1e-04
Identities = 54/190 (28%), Positives = 80/190 (42%), Gaps = 22/190 (11%)
Query: 11 VAIVTGAGAGLGRSYALLLAER---GASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
V +VTGA G GR+ A LA+ SV+V L + D + KA + AE
Sbjct: 2 VCLVTGASRGFGRTIAQELAKCLKSPGSVLV--LSARNDEALRQLKA--EIGAERSGLRV 57
Query: 68 KAVP----NYNSVVDGDKIVQTAL--ENFGRIDIVINNAGILRD--KSFARISDTDWQLV 119
V + K ++ + R+ ++INNAG L D K F +SD+ Q+
Sbjct: 58 VRVSLDLGAEAGLEQLLKALRELPRPKGLQRL-LLINNAGTLGDVSKGFVDLSDST-QVQ 115
Query: 120 QDVHL-TGAFRVSRAAWPHMKKQNYG--RLVMTASNSGLLGNF-GQANYSAAKMALVGLS 175
L + ++ K + G R V+ S+ + F G A Y A K A L
Sbjct: 116 NYWALNLTSMLCLTSSVLKAFKDSPGLNRTVVNISSLCAIQPFKGWALYCAGKAARDMLF 175
Query: 176 NTLSIEGEKN 185
L++E EKN
Sbjct: 176 QVLALE-EKN 184
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 40.5 bits (95), Expect = 2e-04
Identities = 37/159 (23%), Positives = 73/159 (45%), Gaps = 10/159 (6%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
+ +VTGA AG G ++G V+ +R + K + +A++ + A+
Sbjct: 2 IVLVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELGDNLYIAQLDVRNRAAI 61
Query: 71 PNYNSVVDGDKIVQTALENFGRIDIVINNAGI-LRDKSFARISDTDWQLVQDVHLTGAFR 129
++++ + + ID+++NNAG+ L + + S DW+ + D + G
Sbjct: 62 ---------EEMLASLPAEWRNIDVLVNNAGLALGLEPAHKASVEDWETMIDTNNKGLVY 112
Query: 130 VSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAK 168
++RA P M ++N+G ++ S +G G Y A K
Sbjct: 113 MTRAVLPGMVERNHGHIINIGSTAGSWPYAGGNVYGATK 151
>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 = 40.2 bits (94), Expect = 3e-04
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 25/118 (21%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPNY 73
+TG+ GLG + A L +G VV++ +R D K A P
Sbjct: 12 ITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAK-----------------AACPGA 54
Query: 74 NSVVDGD--KIVQT-----ALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
V+ GD + +T + GR D VI+NAGIL + DT + V++
Sbjct: 55 AGVLIGDLSSLAETRKLADQVNAIGRFDAVIHNAGILSGP-NRKTPDTGIPAMVAVNV 111
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 39.1 bits (92), Expect = 7e-04
Identities = 42/190 (22%), Positives = 72/190 (37%), Gaps = 21/190 (11%)
Query: 20 GLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP-NYNSVVD 78
+ + A AE GA VV+ G + A + A++ +P + S D
Sbjct: 7 SIAWAIAKAAAEEGAEVVLTTWPPAL-RMGAVDELAKELPADV-------IPLDVTSDED 58
Query: 79 GDKIVQTALENFGRIDIVINNAGI-LRDKSFARISDTDWQLVQDVHLTGAFR---VSRAA 134
D++ + E+ G+ID ++++ + + DT + A+ +++AA
Sbjct: 59 IDELFEKVKEDGGKIDFLVHSIAMSPEIRKGKPYLDTSREGFLKALDISAYSFISLAKAA 118
Query: 135 WPHMKKQNYGRLVMTASNSGLLGNF-GQANYSAAKMALVGLSNTLSIEGEKNNIHCNVI- 192
P M + G +V S F G AK AL L+ L+ E + I N I
Sbjct: 119 KPLMNE--GGSIVAL-SYIAAERVFPGYGGMGVAKAALESLARYLAYELGRKGIRVNTIS 175
Query: 193 ---VPTAASR 199
T A
Sbjct: 176 AGPTKTTAGS 185
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 38.4 bits (90), Expect = 0.002
Identities = 31/109 (28%), Positives = 50/109 (45%), Gaps = 32/109 (29%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA-------DTV--V 59
G+VA+V GA G GR A+ L GA+V V G+S++A +T+
Sbjct: 8 GKVALVAGATRGAGRGIAVELGAAGATVYVT---------GRSTRARRSEYDRPETIEET 58
Query: 60 AE-IRSKGGKAVPNYNSVVDGDKIVQTALENF--------GRIDIVINN 99
AE + + GG+ + V D +V + GR+DI++N+
Sbjct: 59 AELVTAAGGRGIA-----VQVDHLVPEQVRALVERIDREQGRLDILVND 102
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 37.4 bits (87), Expect = 0.003
Identities = 43/200 (21%), Positives = 79/200 (39%), Gaps = 36/200 (18%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVV---------VNDLGGQRDGDGKSSKAADTVVA 60
R I+TG GLG + A L E+G V+ + L Q + + V
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQYNSNLTFHSLDLQDVH 61
Query: 61 EIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQ 120
E+ + N+N + + +N I + INNAG++ ++++ +L+
Sbjct: 62 ELET-------NFNEI-----LSSIQEDNVSSIHL-INNAGMVAPIKPIEKAESE-ELIT 107
Query: 121 DVH--------LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALV 172
+VH LT F W K R++ +S + FG + Y ++K L
Sbjct: 108 NVHLNLLAPMILTSTFMKHTKDWKVDK-----RVINISSGAAKNPYFGWSAYCSSKAGLD 162
Query: 173 GLSNTLSIEGEKNNIHCNVI 192
+ T++ E E+ ++
Sbjct: 163 MFTQTVATEQEEEEYPVKIV 182
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 36.7 bits (85), Expect = 0.005
Identities = 44/219 (20%), Positives = 83/219 (37%), Gaps = 23/219 (10%)
Query: 6 RFDGRVAIVTGAG--AGLGRSYALLLAERGASVVVNDLGGQRD----GDGKSSKAADTVV 59
+ +VA+VTG G+G + LAE GA + G + + +
Sbjct: 3 QLKNKVAVVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQI--QLQ 60
Query: 60 AEIRSKGGKAVPNYNSVVD------GDKIVQTALENFGRIDIVINNAGILRDKSFARISD 113
E+ G V + +D +++ E G I++NNA + F+ ++
Sbjct: 61 EELLKNG---VKVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSNLTA 117
Query: 114 TDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVG 173
+ V++ +S K++ GR++ S G+ Y+A K A+
Sbjct: 118 EELDKHYMVNVRATTLLSSQFARGFDKKSGGRIINMTSGQFQGPMVGELAYAATKGAIDA 177
Query: 174 LSNTLSIEGEKNNIHCNVIVPTAA------SRLTEDILP 206
L+++L+ E I N I P + + +LP
Sbjct: 178 LTSSLAAEVAHLGITVNAINPGPTDTGWMTEEIKQGLLP 216
>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 = 36.5 bits (85), Expect = 0.006
Identities = 35/130 (26%), Positives = 51/130 (39%), Gaps = 35/130 (26%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVV---NDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
V V GA +GR LA+RG+ V+V + +R V ++R
Sbjct: 2 VVTVFGATGFIGRYVVNRLAKRGSQVIVPYRCEAYARRLLVMGDLGQVLFVEFDLR---- 57
Query: 68 KAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDK---SFARISDTDWQLVQDVHL 124
D + I + ALE D+VIN G L + SF DVH+
Sbjct: 58 ----------DDESIRK-ALEG---SDVVINLVGRLYETKNFSFE-----------DVHV 92
Query: 125 TGAFRVSRAA 134
G R+++AA
Sbjct: 93 EGPERLAKAA 102
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 36.6 bits (85), Expect = 0.006
Identities = 37/111 (33%), Positives = 52/111 (46%), Gaps = 36/111 (32%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVV--VNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
G+ A+VTGA GLG A LA GA V+ V + + G+ AA VA IR+
Sbjct: 14 GKRAVVTGASDGLGLGLARRLAAAGAEVILPVRN---RAKGE-----AA---VAAIRT-- 60
Query: 67 GKAVPNYN------------SVVD-GDKIVQTALENFGR-IDIVINNAGIL 103
AVP+ SV G+++ GR I ++INNAG++
Sbjct: 61 --AVPDAKLSLRALDLSSLASVAALGEQLRAE-----GRPIHLLINNAGVM 104
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 36.1 bits (84), Expect = 0.009
Identities = 32/110 (29%), Positives = 48/110 (43%), Gaps = 9/110 (8%)
Query: 90 FGRIDIVINNAGILRDKSFARI----SDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGR 145
G +D VI NAGI + AR+ + + + A AA ++Q G
Sbjct: 79 LGGLDRVIVNAGIGKG---ARLGTGKFWANKATAE-TNFVAALAQCEAAMEIFREQGSGH 134
Query: 146 LVMTASNSGLLGNFG-QANYSAAKMALVGLSNTLSIEGEKNNIHCNVIVP 194
LV+ +S S + G G +A Y+A+K + L L E K I + I P
Sbjct: 135 LVLISSVSAVRGLPGVKAAYAASKAGVASLGEGLRAELAKTPIKVSTIEP 184
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 35.5 bits (82), Expect = 0.013
Identities = 39/193 (20%), Positives = 71/193 (36%), Gaps = 16/193 (8%)
Query: 6 RFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
R G+ + G GLG + A + GA V +N ++ + +
Sbjct: 2 RLKGKKVAIIGVSEGLGYAVAYFALKEGAQVCIN---------SRNENKLKRMKKTLSKY 52
Query: 66 GG-KAVPNYNSVVDGDK-IVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVH 123
G V S + + +++ A + ID ++ G + + S + L H
Sbjct: 53 GNIHYVVGDVSSTESARNVIEKAAKVLNAIDGLVVTVGGYVEDTVEEFSGLEEMLTN--H 110
Query: 124 LTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNF-GQANYSAAKMALVGLSNTLSIEG 182
+ A+ +K+ + +V+ +S SG+ Q +Y+ AK L L+ E
Sbjct: 111 IKIPLYAVNASLRFLKEGS--SIVLVSSMSGIYKASPDQLSYAVAKAGLAKAVEILASEL 168
Query: 183 EKNNIHCNVIVPT 195
I N I PT
Sbjct: 169 LGRGIRVNGIAPT 181
>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 = 35.3 bits (81), Expect = 0.017
Identities = 37/156 (23%), Positives = 75/156 (48%), Gaps = 23/156 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASV--VVNDLGGQRDGDGKSSKAADTVVAEIRSKG 66
GR ++TGA +G+G++ AL +A+RG +V V + ++A + G
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTVHMVCRN----------QTRAEEARKEIETESG 50
Query: 67 GKAVPNYNSVVD--GDKIVQTALENFG----RIDIVINNAGILRDKSFARISDTDWQLVQ 120
+ + + +VD K V +E F ++ ++INNAG + +K +++ +
Sbjct: 51 NQNI--FLHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNAGCMVNKR--ELTEDGLEKNF 106
Query: 121 DVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLL 156
+ G + ++ P ++K+ R V+T S+ G+L
Sbjct: 107 ATNTLGTYILTTHLIPVLEKEEDPR-VITVSSGGML 141
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 34.8 bits (80), Expect = 0.025
Identities = 33/103 (32%), Positives = 50/103 (48%), Gaps = 14/103 (13%)
Query: 4 QVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
Q+ F R +VTG G+G+G+ A L GA+V++ R+ D K + AA+ EI
Sbjct: 2 QLSFQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMI----VGRNPD-KLAAAAE----EIE 52
Query: 64 SKGGKAVPNYNS--VVDGDKI---VQTALENFGRIDIVINNAG 101
+ G Y V D D++ V A GR+ V++ AG
Sbjct: 53 ALKGAGAVRYEPADVTDEDQVARAVDAATAWHGRLHGVVHCAG 95
>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 = 33.5 bits (77), Expect = 0.070
Identities = 27/148 (18%), Positives = 55/148 (37%), Gaps = 29/148 (19%)
Query: 11 VAIVTGAGAGLG-----RSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSK 65
V +VTGA +GLG R A ++++ ++ + A+ + +
Sbjct: 3 VVLVTGANSGLGLAICERLLAEDDENPELTLILA---------CRNLQRAEAACRALLAS 53
Query: 66 GGKAVPNY-------NSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL 118
A + +++V + + + R+D + NAGI+ + I ++
Sbjct: 54 HPDARVVFDYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNPGIDWIG-AIKEV 112
Query: 119 VQDVHLTGAFRVSRAAWPHMKKQNYGRL 146
+ + F V+ P K Q G L
Sbjct: 113 LTN----PLFAVT---NPTYKIQAEGLL 133
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are encoded
near genes for homologs of PfaB, PfaC, and/or PfaD.
Length = 2582
Score = 33.8 bits (77), Expect = 0.081
Identities = 26/119 (21%), Positives = 49/119 (41%), Gaps = 6/119 (5%)
Query: 51 SSKAADTVVAEIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDI--VINNAGILRDKSF 108
SS +A ++ G A V + + T + I +I+ AG+L DK
Sbjct: 2078 SSLEIAQALAAFKAAGASAEYASADVTNSVSVAATVQPLNKTLQITGIIHGAGVLADKHI 2137
Query: 109 ARISDTDWQLVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAA 167
+ ++ V + G + A + +N L + +S +G GN GQ++Y+ +
Sbjct: 2138 QDKTLEEFNAVYGTKVDGLLSLLAA----LNAENIKLLALFSSAAGFYGNTGQSDYAMS 2192
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 32.7 bits (75), Expect = 0.10
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
GR +VTGA G+GR +A+ LA + VV +G +G A VV
Sbjct: 133 GRRVLVTGASGGVGR-FAVQLAALAGAHVVAVVGSPARAEGLRELGAAEVV---VGGSEL 188
Query: 69 AVPNYNSVVDG 79
+ + VVD
Sbjct: 189 SGAPVDLVVDS 199
>gnl|CDD|133451 cd05212, NAD_bind_m-THF_DH_Cyclohyd_like, NAD(P) binding domain
of methylene-tetrahydrofolate dehydrogenase and
methylene-tetrahydrofolate
dehydrogenase/cyclohydrolase. NAD(P) binding domains
of methylene-tetrahydrofolate dehydrogenase (m-THF DH)
and m-THF DH/cyclohydrolase bifunctional enzymes
(m-THF DH/cyclohydrolase). M-THF is a versatile carrier
of activated one-carbon units. The major one-carbon
folate donors are N-5 methyltetrahydrofolate,
N5,N10-m-THF, and N10-formayltetrahydrofolate. The
oxidation of metabolic intermediate m-THF to m-THF
requires the enzyme m-THF DH. In addition, most DHs
also have an associated cyclohydrolase activity which
catalyzes its hydrolysis to N10-formyltetrahydrofolate.
m-THF DH is typically found as part of a
multifunctional protein in eukaryotes. NADP-dependent
m-THF DH in mammals, birds and yeast are components of
a trifunctional enzyme with DH, cyclohydrolase, and
synthetase activities. Certain eukaryotic cells also
contain homodimeric bifunctional DH/cyclodrolase form.
In bacteria, mono-functional DH, as well as
bifunctional DH/cyclodrolase are found. In addition,
yeast (S. cerevisiae) also express a monofunctional DH.
M-THF DH, like other amino acid DH-like NAD(P)-binding
domains, is a member of the Rossmann fold superfamily
which includes glutamate, leucine, and phenylalanine
DHs, m-THF DH, methylene-tetrahydromethanopterin DH,
m-THF DH/cyclohydrolase, Shikimate DH-like proteins,
malate oxidoreductases, and glutamyl tRNA reductase.
Amino acid DHs catalyze the deamination of amino acids
to keto acids with NAD(P)+ as a cofactor. The
NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der
Waals contacts.
Length = 140
Score = 32.1 bits (73), Expect = 0.11
Identities = 14/38 (36%), Positives = 18/38 (47%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVND 40
E VR DG+ +V G +G LL GA+V D
Sbjct: 22 EGVRLDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCD 59
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 32.5 bits (74), Expect = 0.11
Identities = 25/96 (26%), Positives = 47/96 (48%), Gaps = 15/96 (15%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG----K 68
+VT + G+G + A L ++GA VV++ ++ + + + E++ G K
Sbjct: 4 LVTASSRGIGFNVARELLKKGARVVISS---------RNEENLEKALKELKEYGEVYAVK 54
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAGILR 104
A + + D +V+ A E G ID ++ NAG +R
Sbjct: 55 A--DLSDKDDLKNLVKEAWELLGGIDALVWNAGNVR 88
>gnl|CDD|232919 TIGR00322, diphth2_R, diphthamide biosynthesis enzyme Dph1/Dph2
domain. Archaea and Eukaryotes, but not Eubacteria,
share the property of having a covalently modified
residue,
2'-[3-carboxamido-3-(trimethylammonio)propyl]histidine,
as a part of a cytosolic protein. The modified His,
termed diphthamide, is part of translation elongation
factor EF-2 and is the site for ADP-ribosylation by
diphtheria toxin. This model includes both Dph1 and Dph2
from Saccharomyces cerevisiae, although only Dph2 is
found in the Archaea (see TIGR03682). Dph2 has been
shown to act analogously to the radical SAM (rSAM)
family (pfam04055), with 4Fe-4S-assisted cleavage of
S-adenosylmethionine to create a free radical, but a
different organic radical than in rSAM.
Length = 319
Score = 32.6 bits (75), Expect = 0.12
Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 36 VVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPNYNSVVDGDKIVQTALENFGRIDI 95
++V LGGQ + A+ + ++ G KA ++ +I L NF ID
Sbjct: 239 IIVGTLGGQG-----RLELAERLKELLKKAGKKAY-----LISVGEINPAKLANFPEIDA 288
Query: 96 VINNA 100
+ A
Sbjct: 289 FVQTA 293
>gnl|CDD|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 = 32.1 bits (73), Expect = 0.18
Identities = 35/147 (23%), Positives = 61/147 (41%), Gaps = 30/147 (20%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
++TGA +G+G + A LL + G +V+ DL R+ D V+A++ + G+A
Sbjct: 3 VITGAASGIGAATAELLEDAGHTVIGIDL---READ---------VIADLSTPEGRA--- 47
Query: 73 YNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRVSR 132
I G +D ++N AG+ T LV V+ G +
Sbjct: 48 -------AAIADVLARCSGVLDGLVNCAGV--------GGTTVAGLVLKVNYFGLRALME 92
Query: 133 AAWPHMKKQNYGRLVMTASNSGLLGNF 159
A P ++K + V+ +S +G
Sbjct: 93 ALLPRLRKGHGPAAVVVSSIAGAGWAQ 119
>gnl|CDD|187653 cd08950, KR_fFAS_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS), classical
(c)-like SDRs. KR domain of fungal-type fatty acid
synthase (FAS), type I. Fungal-type FAS is a
heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member, is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the Classical SDR and has partial
identity of the active site tetrad, but the upstream
Asn is replaced in KR by Met. As in other SDRs, there
is a glycine rich NAD-binding motif, but the pattern
found in KR does not match the classical SDRs, and is
not strictly conserved within this group. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 259
Score = 31.4 bits (72), Expect = 0.25
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 5 VRFDGRVAIVTGAGAG-LGRSYALLLAERGASVVV 38
+ F G+VA+VTGAG G +G L GA+V+V
Sbjct: 3 LSFAGKVALVTGAGPGSIGAEVVAGLLAGGATVIV 37
>gnl|CDD|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 = 26/99 (26%), Positives = 39/99 (39%), Gaps = 21/99 (21%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVP 71
++TGA +GLG + A LA RG VV RD K+ +AA V
Sbjct: 4 VVITGASSGLGLAAAKALARRGEWHVVMAC---RDFL-KAEQAAQEVGMP---------K 50
Query: 72 NYNSVVDGD--------KIVQTALENFGRIDIVINNAGI 102
+ SV+ D + V +D ++ NA +
Sbjct: 51 DSYSVLHCDLASLDSVRQFVDNFRRTGRPLDALVCNAAV 89
>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 = 31.4 bits (71), Expect = 0.32
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVV 37
G+V I+TGA +G+G A A GA V+
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVI 29
>gnl|CDD|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 = 31.1 bits (71), Expect = 0.34
Identities = 27/142 (19%), Positives = 47/142 (33%), Gaps = 33/142 (23%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASV--VVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKA 69
+VTGA LG + L +G V +V D + V ++
Sbjct: 1 ILVTGATGFLGSNLVRALLAQGYRVRALVRS---GSDAVLLDGLPVEVVEGDLT------ 51
Query: 70 VPNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFR 129
+ S+ A++ D V + A F + D + + ++ G
Sbjct: 52 --DAASLAA-------AMKG---CDRVFHLAA------FTSLWAKDRKELYRTNVEGTRN 93
Query: 130 VSRAAWPHMKKQNYGRLVMTAS 151
V AA + R+V T+S
Sbjct: 94 VLDAAL----EAGVRRVVHTSS 111
>gnl|CDD|223737 COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino
acid transport and metabolism].
Length = 387
Score = 31.4 bits (71), Expect = 0.36
Identities = 24/62 (38%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 10 RVAIVTGAG-AGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
V I+ G G GL S A LAERGA V V L G G + + A ++A S GG+
Sbjct: 6 DVVII-GGGIVGL--SAAYYLAERGADVTV--LEAGEAGGGAAGRNAGGILAPWASPGGE 60
Query: 69 AV 70
Sbjct: 61 LE 62
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family
includes various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 30.7 bits (70), Expect = 0.47
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 6/47 (12%)
Query: 10 RVAIVTGAG-AGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAA 55
V ++ G G GL S A LA RG SV + L G S + A
Sbjct: 1 DVVVI-GGGIVGL--STAYELARRGLSVTL--LERGDLASGASGRNA 42
>gnl|CDD|100091 cd03089, PMM_PGM, The phosphomannomutase/phosphoglucomutase
(PMM/PGM) bifunctional enzyme catalyzes the reversible
conversion of 1-phospho to 6-phospho-sugars (e.g.
between mannose-1-phosphate and mannose-6-phosphate or
glucose-1-phosphate and glucose-6-phosphate) via a
bisphosphorylated sugar intermediate. The reaction
involves two phosphoryl transfers, with an intervening
180 degree reorientation of the reaction intermediate
during catalysis. Reorientation of the intermediate
occurs without dissociation from the active site of the
enzyme and is thus, a simple example of processivity, as
defined by multiple rounds of catalysis without release
of substrate. Glucose-6-phosphate and
glucose-1-phosphate are known to be utilized for energy
metabolism and cell surface construction, respectively.
PMM/PGM belongs to the alpha-D-phosphohexomutase
superfamily which includes several related enzymes that
catalyze a reversible intramolecular phosphoryl transfer
on their sugar substrates. Other members of this
superfamily include phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the
phosphoglucomutases (PGM1 and PGM2). Each of these
enzymes has four domains with a centrally located active
site formed by four loops, one from each domain. All
four domains are included in this alignment model.
Length = 443
Score = 30.9 bits (71), Expect = 0.50
Identities = 16/74 (21%), Positives = 25/74 (33%), Gaps = 22/74 (29%)
Query: 7 FDG---RVAIVTGAGAGLGRSY-ALLLAER------GASVVVNDLGGQRDGDGKSSKAAD 56
FDG R+ +V G + L A GA++V + K +
Sbjct: 232 FDGDGDRLGVVDEKGEIIWGDRLLALFARDILKRNPGATIVYD------------VKCSR 279
Query: 57 TVVAEIRSKGGKAV 70
+ I GGK +
Sbjct: 280 NLYDFIEEAGGKPI 293
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 30.8 bits (70), Expect = 0.52
Identities = 26/93 (27%), Positives = 36/93 (38%), Gaps = 17/93 (18%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGK 68
G +V GAG G+G A L GA V+V D D K A + G
Sbjct: 135 GDTVLVLGAG-GVGLLAAQLAKAAGARVIVTDR-----SDEKLELA--------KELGAD 180
Query: 69 AVPNYNSVVDGDKIVQTALENFGRIDIVINNAG 101
V +Y +++ T G D+VI+ G
Sbjct: 181 HVIDYKEEDLEEELRLT---GGGGADVVIDAVG 210
>gnl|CDD|235041 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 447
Score = 31.0 bits (71), Expect = 0.53
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 20 GLGRS---YALLLAERGASVVVNDLG 42
GL +S A LL + GA+V VND
Sbjct: 12 GLAKSGYAAAKLLHKLGANVTVNDGK 37
>gnl|CDD|236073 PRK07659, PRK07659, enoyl-CoA hydratase; Provisional.
Length = 260
Score = 30.4 bits (69), Expect = 0.56
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 11 VAIVTGAGAGLGRSYAL----LLAERGASVVVNDLG 42
++ + G AGLG S AL ++A+ A + +N +G
Sbjct: 102 ISAIHGPAAGLGLSIALTADYVIADISAKLAMNFIG 137
>gnl|CDD|181162 PRK07904, PRK07904, short chain dehydrogenase; Provisional.
Length = 253
Score = 30.4 bits (69), Expect = 0.57
Identities = 26/119 (21%), Positives = 50/119 (42%), Gaps = 25/119 (21%)
Query: 50 KSSKAADTVVAEIRSKGGKAVPNYNSVVDGD--------KIVQTALENFGRIDIVINNAG 101
D VA++++ G +V V+D D K++ A G +D+ I G
Sbjct: 42 PDDPRRDAAVAQMKAAGASSV----EVIDFDALDTDSHPKVIDAAFAG-GDVDVAIVAFG 96
Query: 102 ILRDKSFARISDTDWQ------LVQDVHLTGAFRVSRAAWPHMKKQNYGRLVMTASNSG 154
+L D ++ WQ + +++ T A V M+ Q +G+++ +S +G
Sbjct: 97 LLGD------AEELWQNQRKAVQIAEINYTAAVSVGVLLGEKMRAQGFGQIIAMSSVAG 149
>gnl|CDD|133419 cd00650, LDH_MDH_like, NAD-dependent, lactate dehydrogenase-like,
2-hydroxycarboxylate dehydrogenase family. Members of
this family include ubiquitous enzymes like L-lactate
dehydrogenases (LDH), L-2-hydroxyisocaproate
dehydrogenases, and some malate dehydrogenases (MDH).
LDH catalyzes the last step of glycolysis in which
pyruvate is converted to L-lactate. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. The LDH/MDH-like proteins are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 263
Score = 30.4 bits (69), Expect = 0.61
Identities = 24/101 (23%), Positives = 45/101 (44%), Gaps = 11/101 (10%)
Query: 14 VTGAGAGLGRSYALLLAERGA----SVVVNDLGGQR-DGDGKSSKAADTVVAEIRSKGGK 68
V GAG +G + A LA+ +V+ D+ ++ G + A +A+I+
Sbjct: 3 VIGAGGNVGPALAFGLADGSVLLAIELVLYDIDEEKLKGVAMDLQDAVEPLADIKVSITD 62
Query: 69 AVPNYNSVVDGDKIVQTA----LENFGRIDIVINNAGILRD 105
Y + D D ++ TA GR+D++ N I+++
Sbjct: 63 DP--YEAFKDADVVIITAGVGRKPGMGRLDLLKRNVPIVKE 101
>gnl|CDD|235706 PRK06129, PRK06129, 3-hydroxyacyl-CoA dehydrogenase; Validated.
Length = 308
Score = 30.4 bits (69), Expect = 0.66
Identities = 26/96 (27%), Positives = 36/96 (37%), Gaps = 31/96 (32%)
Query: 9 GRVAIVTGAGAGL-GRSYALLLAERGASV-------------------VVNDLGGQRDGD 48
G VAI+ GAGL GR++A++ A G V + DL D
Sbjct: 3 GSVAII---GAGLIGRAWAIVFARAGHEVRLWDADPAAAAAAPAYIAGRLEDLAAFDLLD 59
Query: 49 GKSSKAADTVVAEIRSKGGKAVPNYNSVVDGDKIVQ 84
G++ D V+A IR + V VQ
Sbjct: 60 GEA---PDAVLARIR-----VTDSLADAVADADYVQ 87
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 30.6 bits (69), Expect = 0.68
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 2 PEQVRFDGRVAIVTGAGAG-LGRSYALLLAERGASVVV 38
P + +VA+VTGA G + + L GA+V+
Sbjct: 389 PNGGTYGDKVALVTGASKGSIAAAVVARLLAGGATVIA 426
>gnl|CDD|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 = 30.3 bits (69), Expect = 0.74
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 147 VMTASNSGLLGNFGQANYSAAKMALVGL 174
V+ +S +G+LG+ GQANY+AA L L
Sbjct: 325 VLFSSAAGVLGSPGQANYAAANAFLDAL 352
>gnl|CDD|224650 COG1736, DPH2, Diphthamide synthase subunit DPH2 [Translation,
ribosomal structure and biogenesis].
Length = 347
Score = 30.4 bits (69), Expect = 0.74
Identities = 18/76 (23%), Positives = 30/76 (39%), Gaps = 10/76 (13%)
Query: 25 YALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPNYNSVVDGDKIVQ 84
+ L + ++V+ GGQR + A +V ++ G + + DK
Sbjct: 231 ISKALDAKSFGIIVSTKGGQR-----RLEVARELVKLLKEAGKEVYLIVVDEISPDK--- 282
Query: 85 TALENFGRIDIVINNA 100
L NF ID +N A
Sbjct: 283 --LANFDDIDAFVNTA 296
>gnl|CDD|225885 COG3349, COG3349, Uncharacterized conserved protein [Function
unknown].
Length = 485
Score = 30.1 bits (68), Expect = 0.96
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVV---ND-LGGQ----RDGDGKS 51
RVAI AGL +Y LA+ G V + D LGG+ RD DG
Sbjct: 2 RVAIAGAGLAGLAAAYE--LADAGYDVTLYEARDRLGGKVASWRDSDGNH 49
>gnl|CDD|223268 COG0190, FolD, 5,10-methylene-tetrahydrofolate
dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase
[Coenzyme metabolism].
Length = 283
Score = 29.8 bits (68), Expect = 1.1
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+ G+ +V G +G+ ALLL A+V V + +K AD VV
Sbjct: 152 IDLRGKNVVVVGRSNIVGKPLALLLLNANATVTVCHSRTK--DLASITKNADIVVV 205
>gnl|CDD|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 = 29.4 bits (67), Expect = 1.7
Identities = 44/167 (26%), Positives = 67/167 (40%), Gaps = 33/167 (19%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPNY 73
VTG LG A LA RGA +V L +R D + A +VAE+ + G +
Sbjct: 235 VTGGTGALGAHVARWLARRGAEHLV--LTSRRGPD---APGAAELVAELTALGARV---- 285
Query: 74 NSVVDGDKIVQ---------TALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHL 124
+V D V AL + V++ AG+L D + D L
Sbjct: 286 -TVAACD--VADRDALAALLAALPAGHPLTAVVHAAGVLDD---GPLDDLT-----PERL 334
Query: 125 TGAFR--VSRAAWPH--MKKQNYGRLVMTASNSGLLGNFGQANYSAA 167
R V+ A + ++ V+ +S +G+ G+ GQ Y+AA
Sbjct: 335 AEVLRAKVAGARHLDELTRDRDLDAFVLFSSIAGVWGSGGQGAYAAA 381
>gnl|CDD|145711 pfam02702, KdpD, Osmosensitive K+ channel His kinase sensor
domain. This is a family of KdpD sensor kinase
proteins that regulate the kdpFABC operon responsible
for potassium transport. The aligned region corresponds
to the N-terminal cytoplasmic part of the protein which
may be the sensor domain responsible for sensing turgor
pressure.
Length = 211
Score = 28.8 bits (65), Expect = 1.7
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 5/35 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALL-----LAERGASVVV 38
G++ I GA G+G++YA+L L ERG VV+
Sbjct: 4 GKLKIFLGAAPGVGKTYAMLSEAHELLERGVDVVI 38
>gnl|CDD|176192 cd08230, glucose_DH, Glucose dehydrogenase. Glucose dehydrogenase
(GlcDH), a member of the medium chain
dehydrogenase/zinc-dependent alcohol dehydrogenase-like
family, catalyzes the NADP(+)-dependent oxidation of
glucose to gluconate, the first step in the
Entner-Doudoroff pathway, an alternative to or
substitute for glycolysis or the pentose phosphate
pathway. The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossman fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
Length = 355
Score = 29.1 bits (66), Expect = 1.9
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVV 38
++ R A+V GAG +G ALLL RG V V
Sbjct: 171 WNPRRALVLGAGP-IGLLAALLLRLRGFEVYV 201
>gnl|CDD|236158 PRK08132, PRK08132, FAD-dependent oxidoreductase; Provisional.
Length = 547
Score = 29.1 bits (66), Expect = 2.1
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 19/70 (27%)
Query: 2 PEQVRFDGRVAIVTGAGAG-LGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVA 60
+Q D V GAG +G + A+ LA++G VV+ D DT+
Sbjct: 14 ADQDADDPARHPVVVVGAGPVGLALAIDLAQQGVPVVLLD-------------DDDTL-- 58
Query: 61 EIRSKGGKAV 70
S G +A+
Sbjct: 59 ---STGSRAI 65
>gnl|CDD|180961 PRK07402, PRK07402, precorrin-6B methylase; Provisional.
Length = 196
Score = 28.4 bits (64), Expect = 2.1
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 132 RAAWPHMKKQNYGRLVMTASN 152
+A W ++K GRLV TAS+
Sbjct: 126 QAVWQYLKPG--GRLVATASS 144
>gnl|CDD|235630 PRK05865, PRK05865, hypothetical protein; Provisional.
Length = 854
Score = 29.2 bits (65), Expect = 2.3
Identities = 20/54 (37%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIR 63
R+A VTGA LGR L +G VV G R +AD + A+IR
Sbjct: 2 RIA-VTGASGVLGRGLTARLLSQGHEVV----GIARHRPDSWPSSADFIAADIR 50
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 28.7 bits (64), Expect = 2.3
Identities = 39/187 (20%), Positives = 70/187 (37%), Gaps = 21/187 (11%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAV 70
++TGA +G+G+ AL A++G V+ G + V+ E+ ++
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVIA--CGRNQS-----------VLDELHTQSANIF 49
Query: 71 PNYNSVVDGDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQL---VQDVHLTGA 127
V D + ++ I NAG D + D L V +V++ G
Sbjct: 50 TLAFDVTDHPGTKAALSQLPFIPELWIFNAG---DCEYMDDGKVDATLMARVFNVNVLGV 106
Query: 128 FRVSRAAWPHMKKQNYGRLVMTASNSGLLGNFGQANYSAAKMALVGLSNTLSIEGEKNNI 187
PH+ + R+V+ S + L Y A+K A+ + TL ++ I
Sbjct: 107 ANCIEGIQPHLSCGH--RVVIVGSIASELALPRAEAYGASKAAVAYFARTLQLDLRPKGI 164
Query: 188 HCNVIVP 194
+ P
Sbjct: 165 EVVTVFP 171
>gnl|CDD|223717 COG0644, FixC, Dehydrogenases (flavoproteins) [Energy production
and conversion].
Length = 396
Score = 29.0 bits (65), Expect = 2.4
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 10 RVAIVTGAG-AGLGRSYALLLAERGASVVV 38
V IV GAG AG S A LA+ G V+V
Sbjct: 5 DVVIV-GAGPAGS--SAARRLAKAGLDVLV 31
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 28.5 bits (64), Expect = 2.7
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVN 39
I+TGA +GLG + A LAE G VV
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVM 27
>gnl|CDD|237117 PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.
Length = 1310
Score = 28.7 bits (65), Expect = 2.8
Identities = 11/21 (52%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Query: 87 LENFGR--IDIVINNAGILRD 105
LE GR ID+V+ +GI RD
Sbjct: 1002 LEELGRPRIDVVVTCSGIFRD 1022
>gnl|CDD|216530 pfam01494, FAD_binding_3, FAD binding domain. This domain is
involved in FAD binding in a number of enzymes.
Length = 349
Score = 28.4 bits (64), Expect = 2.8
Identities = 15/28 (53%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 11 VAIVTGAGAGLGRSYALLLAERGASVVV 38
V IV G AGL ALLLA G VV+
Sbjct: 4 VLIVGGGPAGL--MLALLLARAGVRVVL 29
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 28.4 bits (64), Expect = 3.0
Identities = 10/37 (27%), Positives = 17/37 (45%)
Query: 1 MPEQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVV 37
Q + G+ +TGA LG++ +GA V+
Sbjct: 6 PMAQSTWQGKRIGITGASGALGKALTKAFRAKGAKVI 42
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 27.9 bits (63), Expect = 3.2
Identities = 19/105 (18%), Positives = 36/105 (34%), Gaps = 24/105 (22%)
Query: 10 RVAIVTGAGAGL-GRSYALLLAERGASVVVND------------LGGQRDGDGKSSKAAD 56
+VA++ GAG G A + A G VV+ D + + + +
Sbjct: 1 KVAVI---GAGTMGAGIAQVFARAGLEVVLVDISEEALEKARARIEKSLARLVEKGRITE 57
Query: 57 TVVAEIRSKGGKAVPNYNSVVDGDKIVQTALEN-------FGRID 94
+ ++ + VD D +++ EN F +D
Sbjct: 58 EDADAVLAR-ISFTTDLADAVDADLVIEAVPENLDLKRELFAELD 101
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 28.2 bits (63), Expect = 3.6
Identities = 16/36 (44%), Positives = 18/36 (50%), Gaps = 6/36 (16%)
Query: 12 AIVTGAG-AGLGRSYALLLAERGASVVV---NDLGG 43
+V GAG GL + A LLA G V V ND G
Sbjct: 6 VVVIGAGLNGL--AAAALLARAGLKVTVLEKNDRVG 39
>gnl|CDD|183740 PRK12779, PRK12779, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase;
Provisional.
Length = 944
Score = 28.3 bits (63), Expect = 3.8
Identities = 29/87 (33%), Positives = 41/87 (47%), Gaps = 21/87 (24%)
Query: 6 RFDGR-----------VAIVTGAGAGLGRSYALLLAERGASVVV----NDLGG-QRDGDG 49
RF GR +A+V +GL +Y LLA G V V +DLGG R G
Sbjct: 293 RFAGRISPWAAAVKPPIAVVGSGPSGLINAY--LLAVEGFPVTVFEAFHDLGGVLRYGIP 350
Query: 50 K---SSKAADTVVAEIRSKGGKAVPNY 73
+ ++ D VV +I+ GG+ V N+
Sbjct: 351 EFRLPNQLIDDVVEKIKLLGGRFVKNF 377
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 27.7 bits (62), Expect = 4.1
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVV 37
AIVTG GLG + A L + G +V+
Sbjct: 4 AIVTGHSRGLGAALAEQLLQPGIAVL 29
>gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 480
Score = 28.1 bits (63), Expect = 4.4
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 19 AGLGRS---YALLLAERGASVVVNDLGGQRDGDGKSSKAAD--TVVAEIRSKGGKAVP 71
AGLG S A L E GA V V D D + + AA + A +R G +P
Sbjct: 22 AGLGVSGFAAADALLELGARVTVVD---DGDDERHRALAAILEALGATVRLGPGPTLP 76
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 28.2 bits (63), Expect = 4.4
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV 38
G++ +V GAG G G++ A E+GA VV+
Sbjct: 379 GKLFVVIGAG-GAGKALAYGAKEKGARVVI 407
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 27.7 bits (62), Expect = 4.5
Identities = 27/98 (27%), Positives = 39/98 (39%), Gaps = 29/98 (29%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAER-GASVVVNDLGGQRDGDGKS---SKAADTVVAEIRS 64
G +VTGAG G+G +A+ +A+ GA V+ + K+ SK AD
Sbjct: 163 GETVLVTGAGGGVG-IHAIQVAKALGAKVI-----AVTSSESKAKIVSKYAD-------- 208
Query: 65 KGGKAVPNYNSVVDGDKIVQTALENFGRIDIVINNAGI 102
V+ G K + + G DIVI G
Sbjct: 209 ----------YVIVGSKFSEEV-KKIGGADIVIETVGT 235
>gnl|CDD|235753 PRK06252, PRK06252, methylcobalamin:coenzyme M methyltransferase;
Validated.
Length = 339
Score = 27.9 bits (63), Expect = 4.8
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 73 YNSVVDGDKIVQTALENFGRIDIVINNAGILRDK 106
V+ K+ LE GRI V+ IL++K
Sbjct: 101 IKKDVEYRKLPDDLLEE-GRIPTVLEAIKILKEK 133
>gnl|CDD|223364 COG0287, TyrA, Prephenate dehydrogenase [Amino acid transport and
metabolism].
Length = 279
Score = 27.7 bits (62), Expect = 4.8
Identities = 18/48 (37%), Positives = 21/48 (43%), Gaps = 8/48 (16%)
Query: 10 RVAIVTGAGAGL-GRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD 56
+V IV G GL G S A L E G V + RD + KAA
Sbjct: 5 KVGIV---GLGLMGGSLARALKEAGLVVRIIG----RDRSAATLKAAL 45
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 27.7 bits (62), Expect = 4.9
Identities = 25/124 (20%), Positives = 39/124 (31%), Gaps = 15/124 (12%)
Query: 13 IVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTVVAEIRSKGGKAVPN 72
+V G +G+G + A A GA V + +S +
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIA---------SRSRDRLAAAARALGGGAPVRT-- 49
Query: 73 YNSVVD--GDKIVQTALENFGRIDIVINNAGILRDKSFARISDTDWQLVQDVHLTGAFRV 130
+ +D + V G D V+ A + Q D GA+RV
Sbjct: 50 --AALDITDEAAVDAFFAEAGPFDHVVITAADTPGGPVRALPLAAAQAAMDSKFWGAYRV 107
Query: 131 SRAA 134
+RAA
Sbjct: 108 ARAA 111
>gnl|CDD|133418 cd00300, LDH_like, L-lactate dehydrogenase-like enzymes. Members
of this subfamily are tetrameric NAD-dependent
2-hydroxycarboxylate dehydrogenases including LDHs,
L-2-hydroxyisocaproate dehydrogenases (L-HicDH), and
LDH-like malate dehydrogenases (MDH). Dehydrogenases
catalyze the conversion of carbonyl compounds to
alcohols or amino acids. LDHs catalyze the last step of
glycolysis in which pyruvate is converted to L-lactate.
Vertebrate LDHs are non-allosteric, but some bacterial
LDHs are activated by an allosteric effector such as
fructose-1,6-bisphosphate. L-HicDH catalyzes the
conversion of a variety of 2-oxo carboxylic acids with
medium-sized aliphatic or aromatic side chains. MDH is
one of the key enzymes in the citric acid cycle,
facilitating both the conversion of malate to
oxaloacetate and replenishing levels of oxalacetate by
reductive carboxylation of pyruvate. The LDH-like
subfamily is part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 300
Score = 27.6 bits (62), Expect = 5.4
Identities = 30/102 (29%), Positives = 44/102 (43%), Gaps = 12/102 (11%)
Query: 11 VAIVTGAGAGLGRSYALLLAERG-AS--VVVNDLGGQRDGDGKSSKAADTVVAEIRSKGG 67
+ I+ GAG +G + A L +G AS V+V+ + GD A +A G
Sbjct: 1 ITII-GAGN-VGAAVAFALIAKGLASELVLVDVNEEKAKGDALDLSHASAFLATGTIVRG 58
Query: 68 KAVPNYNSVVDGDKIVQTALENF----GRIDIVINNAGILRD 105
+Y D D +V TA R+D++ NA ILR
Sbjct: 59 G---DYADAADADIVVITAGAPRKPGETRLDLINRNAPILRS 97
>gnl|CDD|240644 cd12167, 2-Hacid_dh_8, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 330
Score = 27.5 bits (62), Expect = 5.7
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 7 FDGRVAIVTGAGAGLGRSYALLLAERGASVVVND 40
+ V IV G G +GR+ LL G V+V D
Sbjct: 149 YGRTVGIV-GFGR-IGRAVVELLRPFGLRVLVYD 180
>gnl|CDD|235729 PRK06185, PRK06185, hypothetical protein; Provisional.
Length = 407
Score = 27.5 bits (62), Expect = 6.0
Identities = 14/31 (45%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 10 RVAIVTG--AGAGLGRSYALLLAERGASVVV 38
IV G AG LG LLLA G V V
Sbjct: 8 DCCIVGGGPAGMMLG----LLLARAGVDVTV 34
>gnl|CDD|238728 cd01451, vWA_Magnesium_chelatase, Magnesium chelatase: Mg-chelatase
catalyses the insertion of Mg into protoporphyrin IX
(Proto). In chlorophyll biosynthesis, insertion of Mg2+
into protoporphyrin IX is catalysed by magnesium
chelatase in an ATP-dependent reaction. Magnesium
chelatase is a three sub-unit (BchI, BchD and BchH)
enzyme with a novel arrangement of domains: the
C-terminal helical domain is located behind the
nucleotide binding site. The BchD domain contains a AAA
domain at its N-terminus and a VWA domain at its
C-terminus. The VWA domain has been speculated to be
involved in mediating protein-protein interactions.
Length = 178
Score = 26.9 bits (60), Expect = 6.1
Identities = 14/49 (28%), Positives = 19/49 (38%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAAD 56
DGR + A + A L RG S +V D G+ G + A
Sbjct: 107 DGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLAR 155
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 27.5 bits (61), Expect = 6.2
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 12 AIVTGAGAGLGRSYALLLAERGASVVVNDLGGQRDGDGKSSKAADTV 58
I+TGA +GLG A LA G V+ RD K+ +AA ++
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIM---ACRDFL-KAEQAAKSL 48
>gnl|CDD|176252 cd08292, ETR_like_2, 2-enoyl thioester reductase (ETR) like
proteins, child 2. 2-enoyl thioester reductase (ETR)
like proteins. ETR catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity has
been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the 2-enoyl
thioester reductase (ETR) like proteins. ETR catalyzes
the NADPH-dependent dependent conversion of
trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA)
to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and have 2 tightly bound
zinc atoms per subunit, a catalytic zinc at the active
site, and a structural zinc in a lobe of the catalytic
domain. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains, at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 27.3 bits (61), Expect = 6.2
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 8 DGRVAIVTGAGAGLGRSYALLLAERGASVV 37
G+ I AG +G+ A+L A RG +V+
Sbjct: 139 PGQWLIQNAAGGAVGKLVAMLAAARGINVI 168
>gnl|CDD|235977 PRK07233, PRK07233, hypothetical protein; Provisional.
Length = 434
Score = 27.5 bits (62), Expect = 6.9
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERGASVVV----NDLGG 43
++AIV G AGL + A LA+RG V V + LGG
Sbjct: 1 KIAIVGGGIAGL--AAAYRLAKRGHEVTVFEADDQLGG 36
>gnl|CDD|236550 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase
complex subunit alpha/beta; Reviewed.
Length = 711
Score = 27.6 bits (62), Expect = 7.0
Identities = 12/34 (35%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 55 ADTVVAEIRSKGGKAVPNYNSVVDGDKIVQTALE 88
D V E + D DKIVQ ALE
Sbjct: 261 TDQDVPEGICVPEWVLSE----PDYDKIVQKALE 290
>gnl|CDD|184559 PRK14189, PRK14189, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 285
Score = 27.0 bits (60), Expect = 7.3
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 12/59 (20%)
Query: 9 GRVAIVTGAGAGLGRSYALLLAERGASVVV-----NDLGGQRDGDGKSSKAADTVVAEI 62
G A+V G +G+ A+LL + GA+V + DL ++ AD VVA +
Sbjct: 158 GAHAVVIGRSNIVGKPMAMLLLQAGATVTICHSKTRDLAAH-------TRQADIVVAAV 209
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like
proteins, NMRa-like, atypical (a) SDRs. TMR is an
atypical NADP-binding protein of the SDR family. It
lacks the active site residues of the SDRs but has a
glycine rich NAD(P)-binding motif that matches the
extended SDRs. Proteins in this subgroup however, are
more similar in length to the classical SDRs. TMR was
identified as a reducer of triphenylmethane dyes,
important environmental pollutants. This subgroup also
includes Escherichia coli NADPH-dependent quinine
oxidoreductase (QOR2), which catalyzes two-electron
reduction of quinone; but is unlikely to play a major
role in protecting against quinone cytotoxicity.
Atypical SDRs are distinct from classical SDRs.
Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane
reductase, isoflavone reductases, and others. SDRs are
a functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. In addition to the Rossmann fold
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids, and typically have a TGXXGXXG cofactor
binding motif. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 26.8 bits (60), Expect = 7.9
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 14 VTGAGAGLGRSYALLLAERGASVVV 38
VTGA LG + LL + ASVV
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVA 27
>gnl|CDD|235776 PRK06300, PRK06300, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 299
Score = 27.1 bits (60), Expect = 7.9
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 4 QVRFDGRVAIVTGAG--AGLGRSYALLLAERGASVVV 38
++ G++A + G G G G A LAE GA+++V
Sbjct: 3 KIDLTGKIAFIAGIGDDQGYGWGIAKALAEAGATILV 39
>gnl|CDD|200963 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyze the conversion of L-lactate to pyruvate,
the last step in anaerobic glycolysis.
L-2-hydroxyisocaproate dehydrogenases are also members
of the family. Malate dehydrogenases catalyze the
interconversion of malate to oxaloacetate. The enzyme
participates in the citric acid cycle. L-lactate
dehydrogenase is also found as a lens crystallin in
bird and crocodile eyes. N-terminus (this family) is a
Rossmann NAD-binding fold. C-terminus is an unusual
alpha+beta fold.
Length = 142
Score = 26.4 bits (59), Expect = 8.0
Identities = 13/24 (54%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 10 RVAIVTGAGAGLGRSYALLLAERG 33
+VA+V GAG G+G S A LA +G
Sbjct: 2 KVAVV-GAGGGVGSSLAFALALQG 24
>gnl|CDD|233690 TIGR02025, BchH, magnesium chelatase, H subunit. This model
represents the H subunit of the magnesium chelatase
complex responsible for magnesium insertion into the
protoporphyrin IX ring in the biosynthesis of both
chlorophyll and bacteriochlorophyll. In
chlorophyll-utilizing species, this gene is known as
ChlH, while in bacteriochlorophyll-utilizing spoecies it
is called BchH. Subunit H is the largest (~140kDa) of
the three subunits (the others being BchD/ChlD and
BchI/ChlI), and is known to bind protoporphyrin IX.
Subunit H is homologous to the CobN subunit of
cobaltochelatase and by anology with that enzyme,
subunit H is believed to also bind the magnesium ion
which is inserted into the ring. In conjunction with the
hydrolysis of ATP by subunits I and D, a conformation
change is believed to happen in subunit H causing the
magnesium ion insertion into the distorted
protoporphyrin ring [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 1224
Score = 27.4 bits (61), Expect = 8.1
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 2/23 (8%)
Query: 85 TALENFG--RIDIVINNAGILRD 105
LE G RID+V+ +GI RD
Sbjct: 916 IPLEKLGRPRIDVVVTLSGIFRD 938
>gnl|CDD|236059 PRK07580, PRK07580, Mg-protoporphyrin IX methyl transferase;
Validated.
Length = 230
Score = 26.7 bits (60), Expect = 8.1
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 17 AGAGLGRSYALLLAERGASVVVNDL 41
AG G+G S ++ LA RGA VV +D+
Sbjct: 70 AGCGVG-SLSIPLARRGAKVVASDI 93
>gnl|CDD|235981 PRK07239, PRK07239, bifunctional uroporphyrinogen-III
synthetase/response regulator domain protein; Validated.
Length = 381
Score = 27.3 bits (61), Expect = 8.2
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 5 VRFDGRVAIVTGAGAGLGRSYALLLAERGASVVV-NDLGGQRDGDGKSSKAADTVVAEIR 63
V DG V ++ A L R+ LA R VV DL G G A +T VA +R
Sbjct: 298 VVVDGEVKPLSPAPMALLRA----LAARPGRVVSREDLLAALPGGGTDEHAVETAVARLR 353
Query: 64 S 64
+
Sbjct: 354 T 354
>gnl|CDD|225115 COG2205, KdpD, Osmosensitive K+ channel histidine kinase [Signal
transduction mechanisms].
Length = 890
Score = 27.3 bits (61), Expect = 8.2
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 5/35 (14%)
Query: 9 GRVAIVTGAGAGLGRSYALL-----LAERGASVVV 38
G++ I GA G+G++YA+L L G VV+
Sbjct: 21 GKLKIFLGAAPGVGKTYAMLSEAQRLLAEGVDVVI 55
>gnl|CDD|239786 cd04253, AAK_UMPK-PyrH-Pf, AAK_UMPK-PyrH-Pf: UMP kinase
(UMPK)-Pf, the mostly archaeal uridine monophosphate
kinase (uridylate kinase) enzymes that catalyze UMP
phosphorylation and play a key role in pyrimidine
nucleotide biosynthesis; regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinase of
Pyrococcus furiosus (Pf) is known to function as a
homohexamer, with GTP and UTP being allosteric
effectors. Like other related enzymes (carbamate
kinase, aspartokinase, and N-acetylglutamate kinase)
the E. coli and most bacterial UMPKs have a conserved,
N-terminal, lysine residue proposed to function in the
catalysis of the phosphoryl group transfer, whereas
most archaeal UMPKs (this CD) appear to lack this
residue and the Pyrococcus furiosus structure has an
additional Mg ion bound to the ATP molecule which is
proposed to function as the catalysis instead. Members
of this CD belong to the Amino Acid Kinase Superfamily
(AAK).
Length = 221
Score = 26.8 bits (60), Expect = 8.9
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGG 43
++ +VA+V G G L R Y + + GAS D G
Sbjct: 28 RKISDGHKVAVVVG-GGRLAREYISVARKLGASEAFLDEIG 67
>gnl|CDD|133430 cd05294, LDH-like_MDH_nadp, A lactate dehydrogenases-like structure
with malate dehydrogenase enzymatic activity. The
LDH-like MDH proteins have a lactate
dehyhydrogenase-like (LDH-like) structure and malate
dehydrogenase (MDH) enzymatic activity. This subgroup is
composed of some archaeal LDH-like MDHs that prefer
NADP(H) rather than NAD(H) as a cofactor. One member,
MJ0490 from Methanococcus jannaschii, has been observed
to form dimers and tetramers during crystalization,
although it is believed to exist primarilly as a
tetramer in solution. In addition to its MDH activity,
MJ0490 also possesses
fructose-1,6-bisphosphate-activated LDH activity.
Members of this subgroup have a higher sequence
similarity to LDHs than to other MDHs. LDH catalyzes the
last step of glycolysis in which pyruvate is converted
to L-lactate. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate. The
LDH-like MDHs are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)- binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenase,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 309
Score = 27.0 bits (60), Expect = 9.4
Identities = 32/111 (28%), Positives = 49/111 (44%), Gaps = 24/111 (21%)
Query: 10 RVAIVTGAGAGLGRSYALLLAE-----------RGASVVVNDLGGQRDGDGKSSKAADTV 58
+V+I+ GA +G + ALLLA+ R S + L G R D + AA +
Sbjct: 2 KVSII-GASGRVGSATALLLAKEDVVKEINLISRPKS--LEKLKGLRL-DIYDALAAAGI 57
Query: 59 VAEIRSKGGKAVPNYNSVVDGDKIVQTA----LENFGRIDIVINNAGILRD 105
AEI K + + V D ++ TA E R+D+ NA I++
Sbjct: 58 DAEI-----KISSDLSDVAGSDIVIITAGVPRKEGMSRLDLAKKNAKIVKK 103
>gnl|CDD|233711 TIGR02076, pyrH_arch, uridylate kinase, putative. This family
consists of the archaeal and spirochete proteins most
closely related to bacterial uridylate kinases
(TIGR02075), an enzyme involved in pyrimidine
biosynthesis. Members are likely, but not known, to be
functionally equivalent to their bacterial
counterparts. However, substantial sequence differences
suggest that regulatory mechanisms may be different;
the bacterial form is allosterically regulated by GTP
[Purines, pyrimidines, nucleosides, and nucleotides,
Nucleotide and nucleoside interconversions].
Length = 221
Score = 26.5 bits (59), Expect = 9.7
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 3 EQVRFDGRVAIVTGAGAGLGRSYALLLAERGASVVVNDLGG 43
++ + +V +V G G R Y + E GAS D G
Sbjct: 27 RKLSDEHKVGVVVG-GGKTARRYIGVARELGASETFLDEIG 66
>gnl|CDD|223842 COG0771, MurD, UDP-N-acetylmuramoylalanine-D-glutamate ligase
[Cell envelope biogenesis, outer membrane].
Length = 448
Score = 26.9 bits (60), Expect = 9.8
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 14 VTGAGAGL-GRSYALLLAERGASVVVND 40
V G G G + A L + GA V V+D
Sbjct: 10 VLVLGLGKSGLAAARFLLKLGAEVTVSD 37
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
0.316 0.134 0.386
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: 11,437,691
Number of extensions: 1076562
Number of successful extensions: 1979
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1491
Number of HSP's successfully gapped: 384
Length of query: 223
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 130
Effective length of database: 6,812,680
Effective search space: 885648400
Effective search space used: 885648400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (25.5 bits)