RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15125
(296 letters)
>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 = 280 bits (717), Expect = 8e-95
Identities = 137/293 (46%), Positives = 176/293 (60%), Gaps = 42/293 (14%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQ--SVSKNKPLVI 60
+GKV ++TG+SSGIGA TA+ A+L A+LA+TGR+ E+L + +SC VS+ K L++
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILLV 60
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
ADLT EE RII T + + +L++LVNNA G G + + D + + R
Sbjct: 61 VADLTEEEGQDRIISTTLAKFGRLDILVNNA--GIL-AKGGGEDQDIEEYDKVMNLNLRA 117
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
V L K+ V H L+ G IVNVS
Sbjct: 118 VIYLTKL-------------------------------AVPH------LIKTKGEIVNVS 140
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
SV G RSFPGVL YC+SKAA+DQFT CTALELA KGVRVNSV+PGV +T H+ G+ ++
Sbjct: 141 SVAGGRSFPGVLYYCISKAALDQFTRCTALELAPKGVRVNSVSPGVIVTGFHRRMGMPEE 200
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
Y FL R+KETH LGR G +EVA+AIAFLASD +SF TG+ L VDGGRH M
Sbjct: 201 QYIKFLSRAKETHPLGRPGTVDEVAEAIAFLASDASSFITGQLLPVDGGRHLM 253
>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 = 187 bits (476), Expect = 1e-58
Identities = 96/280 (34%), Positives = 141/280 (50%), Gaps = 46/280 (16%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
LVTGASSGIG A A LA+ AK+ + RN E L +++ + +QAD++ E
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAI--EALGGNAVAVQADVSDE 58
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
ED + +++ ++ + +L++LVNNA G A L +L E ++V
Sbjct: 59 EDVEALVEEALEEFGRLDILVNNA--------GIARPGPLEELT---------DEDWDRV 101
Query: 128 SESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRS 187
+ +LT + + H +K G IVN+SSV GLR
Sbjct: 102 --------------LDVNLTG---VFLLTRAALPHMKK-----QGGGRIVNISSVAGLRP 139
Query: 188 FPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLE 247
PG AY SKAA++ T ALELA G+RVN+V PG+ T + G ++ +
Sbjct: 140 LPGQAAYAASKAALEGLTRSLALELAPYGIRVNAVAPGLVDTPMLAKLGPEEAE-----K 194
Query: 248 RSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVD 287
LGR+G PEEVA+A+ FLASD+AS+ TG+ + VD
Sbjct: 195 ELAAAIPLGRLGTPEEVAEAVVFLASDEASYITGQVIPVD 234
>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 = 180 bits (458), Expect = 8e-56
Identities = 96/297 (32%), Positives = 139/297 (46%), Gaps = 54/297 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQ--LNKVSESCQSVSKNKPL 58
M+ +GKV LVTGASSGIG A A LA+ A++ + R E+ ++ + + +
Sbjct: 1 MDLSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAA 60
Query: 59 VIQADLTS-EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAIT 117
+ AD++ EE + ++ + + ++++LVNNA GI A
Sbjct: 61 AVAADVSDDEESVEALVAAAEEEFGRIDILVNNA------GIAGPDAPLEE--------- 105
Query: 118 GRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHY---QKLNVLVNNAG 174
+EED R+ID + + + +
Sbjct: 106 -----------------------------LTEEDWDRVIDVNLLGAFLLTRAALPLMKKQ 136
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
IVN+SSV GL PG AY SKAA+ T ALELA +G+RVN+V PG T +
Sbjct: 137 RIVNISSVAGLGGPPGQAAYAASKAALIGLTKALALELAPRGIRVNAVAPGYIDTPMTAA 196
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDD-ASFTTGEHLTVDGGR 290
+ L+R LGR+G PEEVA A+AFLASD+ AS+ TG+ L VDGG
Sbjct: 197 LESAELEA---LKRLAARIPLGRLGTPEEVAAAVAFLASDEAASYITGQTLPVDGGL 250
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 173 bits (442), Expect = 3e-53
Identities = 96/304 (31%), Positives = 135/304 (44%), Gaps = 69/304 (22%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQL-NKVSESCQSVSKNKPLV 59
M+ GKV LVTGAS GIG A A LA A + I + E + ++ K L
Sbjct: 1 MSLEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGALGG-KALA 59
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+Q D++ E +R +D + +++LVNNA IT
Sbjct: 60 VQGDVSDAESVERAVDEAKAEFGGVDILVNNA-----------------------GIT-- 94
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNV 168
++ L+ + EED R+IDT V + K
Sbjct: 95 ----------------RDNLLM---RMK-EEDWDRVIDTNLTGVFNLTKAVARPMMK--- 131
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
+G I+N+SSV GL PG Y SKA V FT A ELAS+G+ VN+V PG
Sbjct: 132 --QRSGRIINISSVVGLMGNPGQANYAASKAGVIGFTKSLARELASRGITVNAVAPGFIE 189
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T++ + + E LGR+G PEE+A A+AFLASD+A++ TG+ L V+G
Sbjct: 190 TDM--TDALPED----VKEAILAQIPLGRLGQPEEIASAVAFLASDEAAYITGQTLHVNG 243
Query: 289 GRHA 292
G
Sbjct: 244 GMVM 247
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 173 bits (441), Expect = 4e-53
Identities = 99/294 (33%), Positives = 146/294 (49%), Gaps = 49/294 (16%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKNKPLV 59
M GKV +VTGAS GIG A A LAK AK+ I N E ++ E + + +
Sbjct: 1 MKLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKEEGGDA-IA 59
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
++AD++SEED + +++ +V+ + K+++LVNNA G S+ +T
Sbjct: 60 VKADVSSEEDVENLVEQIVEKFGKIDILVNNA--GISNFG---------------LVTDM 102
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
E+ ++V I +LT + + + K +G IVN+
Sbjct: 103 TDEEWDRV--------------IDVNLTG---VMLLTRYALPYMIK-----RKSGVIVNI 140
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN-SGID 238
SS+ GL + Y SK AV+ FT A ELA G+RVN+V PG T + + S D
Sbjct: 141 SSIWGLIGASCEVLYSASKGAVNAFTKALAKELAPSGIRVNAVAPGAIDTEMWSSFSEED 200
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHA 292
++ E LGR+G PEE+AK + FLASDDAS+ TG+ +TVDGG
Sbjct: 201 KEGL-------AEEIPLGRLGKPEEIAKVVLFLASDDASYITGQIITVDGGWTC 247
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 171 bits (436), Expect = 2e-52
Identities = 93/303 (30%), Positives = 127/303 (41%), Gaps = 68/303 (22%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GKV +VTGASSGIG A A A++ +T RN E +V+ + + + +
Sbjct: 1 MRLEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILAGGR--AIAV 58
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
AD++ E D + + ++ + +++LVNNA T RN
Sbjct: 59 AADVSDEADVEAAVAAALERFGSVDILVNNA-----------------------GTTHRN 95
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNVL 169
PL+ E + RI V +
Sbjct: 96 -----------------GPLL----DVDEAEFDRIFAVNVKSPYLWTQAAVPAMRG---- 130
Query: 170 VNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT 229
G IVNV+S GLR PG+ Y SK AV T A EL +RVN+V P V T
Sbjct: 131 -EGGGAIVNVASTAGLRPRPGLGWYNASKGAVITLTKALAAELGPDKIRVNAVAPVVVET 189
Query: 230 NLHKN--SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVD 287
L + + FL T LGR+G PE++A A FLASD+AS+ TG L VD
Sbjct: 190 GLLEAFMGEPTPENRAKFL----ATIPLGRLGTPEDIANAALFLASDEASWITGVTLVVD 245
Query: 288 GGR 290
GGR
Sbjct: 246 GGR 248
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 168 bits (427), Expect = 4e-51
Identities = 102/299 (34%), Positives = 142/299 (47%), Gaps = 62/299 (20%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M+ GK LVTGAS GIG A AL LA AK+ I N E ++ ++ V+
Sbjct: 1 MSLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGGEA-RVL 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D++ E + +I+ V+ + L++LVNNA GI L
Sbjct: 60 VFDVSDEAAVRALIEAAVEAFGALDILVNNA------GITRDALLP-------------- 99
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHYQKLNVLV-NN 172
+ SEED R+ID VV+ L ++
Sbjct: 100 ------------------------RM-SEEDWDRVIDVNLTGTFNVVRA--ALPPMIKAR 132
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
G IVN+SSV+G+ PG Y +KA V FT ALELAS+G+ VN+V PG T++
Sbjct: 133 YGRIVNISSVSGVTGNPGQTNYSAAKAGVIGFTKALALELASRGITVNAVAPGFIDTDMT 192
Query: 233 KNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+ + +A E KE LGR+G PEEVA A+AFLASD AS+ TG+ + V+GG +
Sbjct: 193 EGLPEEVKA-----EILKEI-PLGRLGQPEEVANAVAFLASDAASYITGQVIPVNGGMY 245
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 157 bits (398), Expect = 1e-46
Identities = 92/288 (31%), Positives = 132/288 (45%), Gaps = 46/288 (15%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
G+V LVTGA+ GIG A A+ LA A++ + + +E ++ + K Q
Sbjct: 4 LEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEA-AGGKARARQV 62
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ K + V+ + +L++LV NA GI T A++D E
Sbjct: 63 DVRDRAALKAAVAAGVEDFGRLDILVANA------GIFPLTPF--AEMDD---------E 105
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
Q +V I +LT T + + + G IV SSV
Sbjct: 106 QWERV--------------IDVNLTG---TFLLTQAALPALIRAG-----GGRIVLTSSV 143
Query: 183 NGLRS-FPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
G R +PG+ Y SKA + FT ALELA++ + VNSV+PG T + N G Q A
Sbjct: 144 AGPRVGYPGLAHYAASKAGLVGFTRALALELAARNITVNSVHPGGVDTPMAGNLGDAQWA 203
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
E LGR+G PE++A A+ FLASD+A + TG+ L VDGG
Sbjct: 204 -----EAIAAAIPLGRLGEPEDIAAAVLFLASDEARYITGQTLPVDGG 246
>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 = 155 bits (393), Expect = 4e-46
Identities = 98/284 (34%), Positives = 138/284 (48%), Gaps = 46/284 (16%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV LVTGAS GIG A AL LA AK+A+T R+ E + E +++ N ++AD++
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKALGGNA-AALEADVS 59
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
E + +++ V + +++LVNNA GI L E +
Sbjct: 60 DREAVEALVEKVEAEFGPVDILVNNA------GITRDNLLMRMSE-----------EDWD 102
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
V I +LT + V++ K +G I+N+SSV GL
Sbjct: 103 AV--------------INVNLTG---VFNVTQAVIRAMIK-----RRSGRIINISSVVGL 140
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNF 245
PG Y SKA V FT A ELAS+G+ VN+V PG T++ +
Sbjct: 141 IGNPGQANYAASKAGVIGFTKSLAKELASRGITVNAVAPGFIDTDMTDALPEKVK----- 195
Query: 246 LERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
E+ + LGR+G PEEVA A+AFLASDDAS+ TG+ L V+GG
Sbjct: 196 -EKILKQIPLGRLGTPEEVANAVAFLASDDASYITGQVLHVNGG 238
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 154 bits (391), Expect = 7e-46
Identities = 89/291 (30%), Positives = 123/291 (42%), Gaps = 56/291 (19%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSES--CQSVSKNKPL 58
+F+GK +LVTGASSGIG A A+ LA+ A++ RN L++++ C+
Sbjct: 5 FDFSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGETGCE-------- 56
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
++ D+ + + + + LVN A G +S A D +A+
Sbjct: 57 PLRLDVGDDAAIRAALAA----AGAFDGLVNCA--GIASLESALDMTA-EGFDRVMAVNA 109
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
R V +H + + G+IVN
Sbjct: 110 RGAAL-----------------------------------VARHVARAMIAAGRGGSIVN 134
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
VSS L P LAYC SKAA+D T +EL G+RVNSVNP VTLT + + D
Sbjct: 135 VSSQAALVGLPDHLAYCASKAALDAITRVLCVELGPHGIRVNSVNPTVTLTPMAAEAWSD 194
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
Q L LGR ++VA I FL SD AS +G L VDGG
Sbjct: 195 PQKSGPMLAA----IPLGRFAEVDDVAAPILFLLSDAASMVSGVSLPVDGG 241
>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 = 153 bits (388), Expect = 3e-45
Identities = 90/298 (30%), Positives = 133/298 (44%), Gaps = 63/298 (21%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI- 60
N GK LVTG + GIG A LA L A++ RN ++L++ C + + K +
Sbjct: 3 NLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDE----CLTEWREKGFKVE 58
Query: 61 --QADLTSEEDTKRIIDTVVKHY-QKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAIT 117
D++S + + ++DTV H+ KLN+LVNNA
Sbjct: 59 GSVCDVSSRSERQELMDTVASHFGGKLNILVNNA-------------------------- 92
Query: 118 GRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLV------N 171
G N+ + +A +EED I+ T + L+ L +
Sbjct: 93 GTNIRK-------------------EAKDYTEEDYSLIMSTNFEAAYHLSRLAHPLLKAS 133
Query: 172 NAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
GNIV +SSV G+ + P Y +K A++Q T A E A +RVN+V P V T L
Sbjct: 134 GNGNIVFISSVAGVIAVPSGAPYGATKGALNQLTRSLACEWAKDNIRVNAVAPWVIATPL 193
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ ++ +ER+ L R G PEEVA +AFL AS+ TG+ + VDGG
Sbjct: 194 VEPVIQQKENLDKVIERT----PLKRFGEPEEVAALVAFLCMPAASYITGQIIAVDGG 247
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 151 bits (383), Expect = 1e-44
Identities = 94/295 (31%), Positives = 133/295 (45%), Gaps = 54/295 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M F+GKV LVTG ++GIG ATAL A+ AK+ + R+ + + + L +
Sbjct: 3 MTFSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAG-GEALFV 61
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+T + + K +++ + Y +L+ NNA GI GR
Sbjct: 62 ACDVTRDAEVKALVEQTIAAYGRLDYAFNNA------GIEIEQ--------------GRL 101
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK------HYQKLNVLVNNAG 174
E SE + I+ VK YQ +L G
Sbjct: 102 AEG------------------------SEAEFDAIMGVNVKGVWLCMKYQIPLMLAQGGG 137
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
IVN +SV GL + P + Y SK AV T A+E A KG+RVN+V P V T++ +
Sbjct: 138 AIVNTASVAGLGAAPKMSIYAASKHAVIGLTKSAAIEYAKKGIRVNAVCPAVIDTDMFRR 197
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ +A E + H +GR+G EEVA A+ +L SD ASFTTG L VDGG
Sbjct: 198 A---YEADPRKAEFAAAMHPVGRIGKVEEVASAVLYLCSDGASFTTGHALMVDGG 249
>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 = 148 bits (377), Expect = 9e-44
Identities = 97/287 (33%), Positives = 135/287 (47%), Gaps = 57/287 (19%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK------NKPLVIQA 62
LVTGAS GIG A AL LAK AK+ IT R+ E E + V + K L +
Sbjct: 2 LVTGASRGIGRAIALKLAKEGAKVIITYRSSE------EGAEEVVEELKAYGVKALGVVC 55
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D++ ED K +++ + + +++LVNNA GI L K E
Sbjct: 56 DVSDREDVKAVVEEIEEELGPIDILVNNA------GITRDNLLMRMKE-----------E 98
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+ V I +LT + V++ K +G I+N+SSV
Sbjct: 99 DWDAV--------------IDTNLTG---VFNLTQAVLRIMIK-----QRSGRIINISSV 136
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
GL G Y SKA V FT A ELAS+ + VN+V PG T++ + ++
Sbjct: 137 VGLMGNAGQANYAASKAGVIGFTKSLAKELASRNITVNAVAPGFIDTDMTDK--LSEKVK 194
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ L + LGR G PEEVA A+AFLASD+AS+ TG+ + VDGG
Sbjct: 195 KKILSQI----PLGRFGTPEEVANAVAFLASDEASYITGQVIHVDGG 237
>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 = 148 bits (376), Expect = 2e-43
Identities = 91/291 (31%), Positives = 129/291 (44%), Gaps = 47/291 (16%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV LVT ASSGIG A A LA+ A++AI RN E L + + S L + ADL
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRENL-ERAASELRAGGAGVLAVVADL 59
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAAT-ALHLAKLDAKLAITGRNVEQ 123
T ED R+++ + ++++LVNNA T L D KL
Sbjct: 60 TDPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGPFAELTDEDWLEAFDLKL--------- 110
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
L+ + RI+ V+ ++ G IVN+SS+
Sbjct: 111 LSVI--------------------------RIVRAVLPGMKE-----RGWGRIVNISSLT 139
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT----NLHKNSG-ID 238
P ++ V++A + + ELA GV VNSV PG T L + +
Sbjct: 140 VKEPEPNLVLSNVARAGLIGLVKTLSRELAPDGVTVNSVLPGYIDTERVRRLLEARAEKE 199
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + + LGRVG PEE+A IAFLAS+ AS+ TG+ + VDGG
Sbjct: 200 GISVEEAEKEVASQIPLGRVGKPEELAALIAFLASEKASYITGQAILVDGG 250
>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 = 146 bits (371), Expect = 1e-42
Identities = 92/288 (31%), Positives = 134/288 (46%), Gaps = 46/288 (15%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN--KPLVIQ 61
GKV LVTGASSGIG A A+ LA A + + R+ + + E + + K + +Q
Sbjct: 2 KGKVALVTGASSGIGKAIAIRLATAGANVVVNYRS--KEDAAEEVVEEIKAVGGKAIAVQ 59
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
AD++ EED + + +K + L++LVNN A L + +
Sbjct: 60 ADVSKEEDVVALFQSAIKEFGTLDILVNN-----------------AGLQGDASSHEMTL 102
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E NKV V+ L + E KR + G I+N+SS
Sbjct: 103 EDWNKVI----DVNLTGQF-----LCAREAIKRFRKS------------KIKGKIINMSS 141
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
V+ +PG + Y SK V T A E A KG+RVN++ PG T ++ + D +
Sbjct: 142 VHEKIPWPGHVNYAASKGGVKMMTKTLAQEYAPKGIRVNAIAPGAINTPINAEAWDDPEQ 201
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ L +GR+G PEE+A A A+LASD+AS+ TG L VDGG
Sbjct: 202 RADLLSLI----PMGRIGEPEEIAAAAAWLASDEASYVTGTTLFVDGG 245
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 145 bits (368), Expect = 3e-42
Identities = 97/297 (32%), Positives = 142/297 (47%), Gaps = 59/297 (19%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV +VTG ++ IGAA A L A++AI + + V+ S + I D+
Sbjct: 6 GKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGE----RARFIATDI 61
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T + +R + TVV + ++++LVN A T G+ ++ A LA LD +
Sbjct: 62 TDDAAIERAVATVVARFGRVDILVNLACTYLDDGLASSRADWLAALD------------V 109
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
N VS + ++ QA H L G IVN +S++
Sbjct: 110 NLVSAA---------MLAQA--------------AHPH------LARGGGAIVNFTSISA 140
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+ G Y SKAA+ Q T A++LA G+RVNSV+PG T + + +D+ + +
Sbjct: 141 KFAQTGRWLYPASKAAIRQLTRSMAMDLAPDGIRVNSVSPGWTWSRV-----MDELSGGD 195
Query: 245 FLERSK------ETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAMCP 295
R+K H LGRVG+PEEVA+ +AFL SD ASF TG VDGG A+ P
Sbjct: 196 ---RAKADRVAAPFHLLGRVGDPEEVAQVVAFLCSDAASFVTGADYAVDGGYSALGP 249
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 142 bits (360), Expect = 4e-41
Identities = 88/295 (29%), Positives = 123/295 (41%), Gaps = 53/295 (17%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M G+V +VTGA SGIG ATA A+ A++ + R+ E +V+ + +
Sbjct: 1 MRLAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVA--AAIAAGGRAFAR 58
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
Q D+ S E + ++D V + +L+VLVNNA G G G
Sbjct: 59 QGDVGSAEAVEALVDFVAARWGRLDVLVNNA------GFG---------------CGGTV 97
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK------HYQKLNVLVNNAG 174
V T E D ++ V Y + G
Sbjct: 98 VT------------------------TDEADWDAVMRVNVGGVFLWAKYAIPIMQRQGGG 133
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
+IVN +S L G AY SK A+ T AL+ A+ G+RVN+V PG T +
Sbjct: 134 SIVNTASQLALAGGRGRAAYVASKGAIASLTRAMALDHATDGIRVNAVAPGTIDTPYFRR 193
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ E + H + R G EEVA+A FLASD++SF TG L VDGG
Sbjct: 194 IFARHADPEALREALRARHPMNRFGTAEEVAQAALFLASDESSFATGTTLVVDGG 248
>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 = 141 bits (359), Expect = 7e-41
Identities = 68/274 (24%), Positives = 110/274 (40%), Gaps = 60/274 (21%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GKV+++TGASSGIG A HLA+L A+L ++ R E+L +V C + P V+
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLELGAPSPHVVPL 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D++ ED +++++ +K + L++L+NNA +
Sbjct: 61 DMSDLEDAEQVVEEALKLFGGLDILINNAG----------------------------IS 92
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLV------NNAGNI 176
+ + TS + ++I++ L + G+I
Sbjct: 93 MRSLFHD-----------------TSIDVDRKIMEVNYFGPVALTKAALPHLIERSQGSI 135
Query: 177 VNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN-- 234
V VSS+ G P AY SK A+ F EL+ + V V PG+ TN+ N
Sbjct: 136 VVVSSIAGKIGVPFRTAYAASKHALQGFFDSLRAELSEPNISVTVVCPGLIDTNIAMNAL 195
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAI 268
SG + + + PEE A I
Sbjct: 196 SGDGSMSAKMDDTTANGMS-------PEECALEI 222
>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 = 141 bits (358), Expect = 8e-41
Identities = 89/303 (29%), Positives = 132/303 (43%), Gaps = 72/303 (23%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
GKV +VTG + G+G A A L AK+ ++ E+ + + D
Sbjct: 4 KGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAEL----GDAARFFHLD 59
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+T E+ ++DT + + +L+VLVNNA GI TG VE
Sbjct: 60 VTDEDGWTAVVDTAREAFGRLDVLVNNA------GIL----------------TGGTVET 97
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNVLVNN 172
T+ E+ +R++D V+ ++
Sbjct: 98 -----------------------TTLEEWRRLLDINLTGVFLGTRAVIPPMKE-----AG 129
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASK--GVRVNSVNPGVTLTN 230
G+I+N+SS+ GL P + AY SK AV T ALE A++ G+RVNSV+PG T
Sbjct: 130 GGSIINMSSIEGLVGDPALAAYNASKGAVRGLTKSAALECATQGYGIRVNSVHPGYIYTP 189
Query: 231 LHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+ I Q N+ +GR G P+E+A A+ +LASD++SF TG L VDGG
Sbjct: 190 MTDELLIAQGEMGNY-----PNTPMGRAGEPDEIAYAVVYLASDESSFVTGSELVVDGGY 244
Query: 291 HAM 293
A
Sbjct: 245 TAG 247
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 146 bits (370), Expect = 2e-39
Identities = 84/312 (26%), Positives = 124/312 (39%), Gaps = 68/312 (21%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GKV LVTGA+ GIG ATA LA A + + + E + ++ L +
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELG--GPDRALGVAC 477
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+T E + + + ++++V+NA GI AI+G E
Sbjct: 478 DVTDEAAVQAAFEEAALAFGGVDIVVSNA------GI---------------AISGPIEE 516
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQ-------KLNVLVNNAGN 175
TS+ED +R D + ++ G+
Sbjct: 517 ------------------------TSDEDWRRSFDVNATGHFLVAREAVRIMKAQGLGGS 552
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNP----------- 224
IV ++S N + P AY +KAA ALEL G+RVN VNP
Sbjct: 553 IVFIASKNAVNPGPNFGAYGAAKAAELHLVRQLALELGPDGIRVNGVNPDAVVRGSGIWT 612
Query: 225 GVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHL 284
G + G+ ++ + F + + L R PE+VA+A+ FLAS S TTG +
Sbjct: 613 GEWIEARAAAYGLSEEELEEF---YRARNLLKREVTPEDVAEAVVFLASGLLSKTTGAII 669
Query: 285 TVDGGRHAMCPR 296
TVDGG A R
Sbjct: 670 TVDGGNAAAFLR 681
>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 = 137 bits (347), Expect = 3e-39
Identities = 91/289 (31%), Positives = 132/289 (45%), Gaps = 51/289 (17%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
++F GK LVTGA GIG AT LAK A++ R L+ + C + +P+ +
Sbjct: 3 LDFAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVRECPGI---EPVCV 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
DL+ + T+ + +V +++LVNNA +A L L +T
Sbjct: 60 --DLSDWDATEEALGSV----GPVDLLVNNAA--------------VAILQPFLEVTKEA 99
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
++ S N VI S+ + +I V G+IVNVS
Sbjct: 100 FDR---------SFDVNVRAVIH---VSQIVARGMIARGVP------------GSIVNVS 135
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S R+ YC +KAA+D T ALEL +RVNSVNP V +T++ +++ D +
Sbjct: 136 SQASQRALTNHTVYCSTKAALDMLTKVMALELGPHKIRVNSVNPTVVMTDMGRDNWSDPE 195
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ L R LG+ E+V AI FL SD +S TTG L VDGG
Sbjct: 196 KAKKMLNR----IPLGKFAEVEDVVNAILFLLSDKSSMTTGSTLPVDGG 240
>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 = 137 bits (346), Expect = 4e-39
Identities = 83/283 (29%), Positives = 128/283 (45%), Gaps = 45/283 (15%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGR-NVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
LVTG S GIG A AL LA+ A + I R + + +V+ + K +V++AD++
Sbjct: 2 LVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEE-LGGKAVVVRADVSQP 60
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
+D + + V + + +L+VLV+NA GA + T H DAK+ L +
Sbjct: 61 QDVEEMFAAVKERFGRLDVLVSNAAAGAFRPLSELTPAHW---DAKMNT------NLKAL 111
Query: 128 SESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRS 187
Q +K G IV +SS+ +R+
Sbjct: 112 VHCAQQAAKLMR------------------------------ERGGGRIVAISSLGSIRA 141
Query: 188 FPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLE 247
P LA +KAA++ A+EL +G+RVN+V+PGV T+ + + +
Sbjct: 142 LPNYLAVGTAKAALEALVRYLAVELGPRGIRVNAVSPGVIDTDALAHFPNREDLLEAAAA 201
Query: 248 RSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+ GRVG P++VA A+ FL SD A TG+ L VDGG
Sbjct: 202 NT----PAGRVGTPQDVADAVGFLCSDAARMITGQTLVVDGGL 240
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 137 bits (346), Expect = 5e-39
Identities = 85/295 (28%), Positives = 131/295 (44%), Gaps = 56/295 (18%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLV-I 60
G+ L+TGAS GIG A A L A + I R+ + L + + + + +
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGL 65
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
AD++ +ED + I+D V H+ L++LVNNA G N
Sbjct: 66 AADVSDDEDRRAILDWVEDHWDGLHILVNNA--------------------------GGN 99
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT----VVKHYQKLNVLVNNAGN- 175
+ + A +E++ + I +T + + + L+ +
Sbjct: 100 IRK-------------------AAIDYTEDEWRGIFETNLFSAFELSRYAHPLLKQHASS 140
Query: 176 -IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
IVN+ SV+GL Y ++KAA+ Q T A+E A G+RVN+V P T L
Sbjct: 141 AIVNIGSVSGLTHVRSGAPYGMTKAALLQMTRNLAVEWAEDGIRVNAVAPWYIRTPLTSG 200
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
D Y+ +ER+ + RVG PEEVA A+AFL AS+ TG+ + VDGG
Sbjct: 201 PLSDPDYYEQVIERT----PMRRVGEPEEVAAAVAFLCMPAASYITGQCIAVDGG 251
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 134 bits (340), Expect = 4e-38
Identities = 88/303 (29%), Positives = 138/303 (45%), Gaps = 69/303 (22%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGR-NVEQLNKVSESCQSVSKNKPLV 59
+ G+V LVTGA+ G+G A AL LA+ A + + R + E ++ E+ ++ +
Sbjct: 2 GSLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEA-LGRRAQA 60
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+QAD+T + + + V+ + ++++LVNNA I
Sbjct: 61 VQADVTDKAALEAAVAAAVERFGRIDILVNNA-----------------------GIFED 97
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNV 168
KPL AD+ S+++ +ID VV +K
Sbjct: 98 ------------------KPL---ADM-SDDEWDEVIDVNLSGVFHLLRAVVPPMRK--- 132
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
G IVN+SSV GL +PG Y +KA + T A ELA G+ VN V PG
Sbjct: 133 --QRGGRIVNISSVAGLPGWPGRSNYAAAKAGLVGLTKALARELAEYGITVNMVAPGDID 190
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T++ K + I++ + ET LGR G PE++A+A+AFL SD + + TG+ + V G
Sbjct: 191 TDM-KEATIEEAR----EAKDAET-PLGRSGTPEDIARAVAFLCSDASDYITGQVIEVTG 244
Query: 289 GRH 291
G
Sbjct: 245 GVD 247
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 134 bits (340), Expect = 5e-38
Identities = 91/287 (31%), Positives = 136/287 (47%), Gaps = 46/287 (16%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGR-NVEQLNKVSESCQSVSKNKPLVIQAD 63
GKV+++TG S+G+G A A+ K AK+ I R + E+ N V+E + + + ++ D
Sbjct: 7 GKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIKKAG-GEAIAVKGD 65
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+T E D +I T VK + L+V++NNA GI A H L E
Sbjct: 66 VTVESDVVNLIQTAVKEFGTLDVMINNA------GIENAVPSHEMSL-----------ED 108
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSE-EDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
NKV I +LT ++ I V+H K GNI+N+SSV
Sbjct: 109 WNKV--------------INTNLTGAFLGSREAIKYFVEHDIK--------GNIINMSSV 146
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
+ +P + Y SK V T A+E A KG+RVN++ PG T ++ D +
Sbjct: 147 HEQIPWPLFVHYAASKGGVKLMTETLAMEYAPKGIRVNNIGPGAINTPINAEKFADPKQR 206
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + +G +G PEE+A A+LAS +AS+ TG L DGG
Sbjct: 207 AD----VESMIPMGYIGKPEEIAAVAAWLASSEASYVTGITLFADGG 249
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 134 bits (340), Expect = 5e-38
Identities = 81/304 (26%), Positives = 126/304 (41%), Gaps = 68/304 (22%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQ-SVSKNKPLVIQAD 63
GKV LVTGA+ GIGAA A A+ A +A+ + + + + V+ + L + AD
Sbjct: 7 GKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGARVLAVPAD 66
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+T + + + L+VLVNNA G NV
Sbjct: 67 VTDAASVAAAVAAAEEAFGPLDVLVNNA--------------------------GINV-- 98
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIID-----------TVVKHYQKLNVLVNN 172
++ PL ++ED +R V+ ++
Sbjct: 99 ---FAD---------PLA-----MTDEDWRRCFAVDLDGAWNGCRAVLPG-----MVERG 136
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL- 231
G+IVN++S + + PG Y V+K + T +E A++ VRVN++ PG T L
Sbjct: 137 RGSIVNIASTHAFKIIPGCFPYPVAKHGLLGLTRALGIEYAARNVRVNAIAPGYIETQLT 196
Query: 232 --HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
N+ D A + + + R+G PEEVA FLASD+A F +T+DGG
Sbjct: 197 EDWWNAQPDPAAAR---AETLALQPMKRIGRPEEVAMTAVFLASDEAPFINATCITIDGG 253
Query: 290 RHAM 293
R +
Sbjct: 254 RSVL 257
>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 = 132 bits (335), Expect = 2e-37
Identities = 82/291 (28%), Positives = 124/291 (42%), Gaps = 56/291 (19%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVIQA 62
GKV LVTGAS GIG A A LA+ A + + + +V ++ K + +QA
Sbjct: 2 AGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIEAA-GGKAIAVQA 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D++ R+ D K + +++LVNNA
Sbjct: 61 DVSDPSQVARLFDAAEKAFGGVDILVNNA------------------------------- 89
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKH----YQKLNVLVNNAGNIVN 178
V KP+ TSEE+ R+ K Q+ + + G I+N
Sbjct: 90 ----------GVMLKKPIA----ETSEEEFDRMFTVNTKGAFFVLQEAAKRLRDGGRIIN 135
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
+SS P AY SKAAV+ FT A EL +G+ VN+V PG T++ +
Sbjct: 136 ISSSLTAAYTPNYGAYAGSKAAVEAFTRVLAKELGGRGITVNAVAPGPVDTDMFYAGKTE 195
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ +E + LGR+G PE++A +AFLAS D + G+ + +GG
Sbjct: 196 EA-----VEGYAKMSPLGRLGEPEDIAPVVAFLASPDGRWVNGQVIRANGG 241
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 138 bits (349), Expect = 2e-37
Identities = 92/293 (31%), Positives = 127/293 (43%), Gaps = 63/293 (21%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+V+ +TG + GIG A A A +L I R+ E K++E ++ L +QAD+
Sbjct: 269 PRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAE----ALGDEHLSVQADI 324
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T E + + + +L+VLVNNA GI E
Sbjct: 325 TDEAAVESAFAQIQARWGRLDVLVNNA------GI---------------------AEVF 357
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKH----YQKLNVLVNNAGNIVNVS 180
E QS ED R+ D + + L++ G IVN+
Sbjct: 358 KPSLE--QSA---------------EDFTRVYDVNLSGAFACARAAARLMSQGGVIVNLG 400
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT----NLHKNSG 236
S+ L + P AYC SKAAV + A E A G+RVN+V PG T L +
Sbjct: 401 SIASLLALPPRNAYCASKAAVTMLSRSLACEWAPAGIRVNTVAPGYIETPAVLALKASGR 460
Query: 237 IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
D + + LGR+G+PEEVA+AIAFLAS AS+ G LTVDGG
Sbjct: 461 AD-------FDSIRRRIPLGRLGDPEEVAEAIAFLASPAASYVNGATLTVDGG 506
Score = 120 bits (303), Expect = 7e-31
Identities = 86/291 (29%), Positives = 131/291 (45%), Gaps = 47/291 (16%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+V+LVTGA+ GIG A A+ ++ + RNVE+ + ++S +
Sbjct: 1 SKAQSRVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGP----DHHAL 56
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D++ E + + + + + +++VLVNNA G+ T A L T
Sbjct: 57 AMDVSDEAQIREGFEQLHREFGRIDVLVNNA------GVTDPTM------TATLDTTLEE 104
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+L Q+++ V + +L + + IVNV+
Sbjct: 105 FARL-------QAINLTGAY-----------------LVAREALRLMIEQGHGAAIVNVA 140
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S GL + P AY SKAAV T A E A+KG+RVN+V PG T + + +
Sbjct: 141 SGAGLVALPKRTAYSASKAAVISLTRSLACEWAAKGIRVNAVLPGYVRTQM-----VAEL 195
Query: 241 AYQNFLERSKETHA--LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
L+ S LGR+G PEE+A+A+ FLASD AS+ TG L VDGG
Sbjct: 196 ERAGKLDPSAVRSRIPLGRLGRPEEIAEAVFFLASDQASYITGSTLVVDGG 246
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 131 bits (333), Expect = 5e-37
Identities = 86/290 (29%), Positives = 131/290 (45%), Gaps = 44/290 (15%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GKV ++TGASSGIG A A A+ AK+ + R +L+++ ++ + + +
Sbjct: 2 MRLNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRA-EGGEAVAL 60
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+ E K ++ V+ + L++ NNA G +G + L LA
Sbjct: 61 AGDVRDEAYAKALVALAVERFGGLDIAFNNA--GTLGEMGPVAEMSLEGWRETLAT---- 114
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+LTS + +Q +L G+++ S
Sbjct: 115 ------------------------NLTSAFLGAK--------HQIPAMLARGGGSLIFTS 142
Query: 181 SVNGLR-SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
+ G FPG+ AY SKA + T A E ++G+RVN++ PG T T + + G
Sbjct: 143 TFVGHTAGFPGMAAYAASKAGLIGLTQVLAAEYGAQGIRVNALLPGGTDTPMGRAMGDTP 202
Query: 240 QAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+A F+ HAL R+ PEE+A+A FLASD ASF TG L VDGG
Sbjct: 203 EA-LAFVAG---LHALKRMAQPEEIAQAALFLASDAASFVTGTALLVDGG 248
>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 = 131 bits (332), Expect = 7e-37
Identities = 69/246 (28%), Positives = 105/246 (42%), Gaps = 51/246 (20%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TG +GIG A A A+L A +AI GR E L +E S + + IQ D+ E
Sbjct: 8 ITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGRAHPIQCDVRDPEA 67
Query: 152 TKRIIDTVVKHYQKLNVLVNNA-------------------------------------- 173
+ +D +K + K+++L+NNA
Sbjct: 68 VEAAVDETLKEFGKIDILINNAAGNFLAPAESLSPNGFKTVIDIDLNGTFNTTKAVGKRL 127
Query: 174 ------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGV- 226
G+I+N+S+ P + +KA VD T A+E G+RVN++ PG
Sbjct: 128 IEAKHGGSILNISATYAYTGSPFQVHSAAAKAGVDALTRSLAVEWGPYGIRVNAIAPGPI 187
Query: 227 -TLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLT 285
T + + + + ++ E LGR+G PEE+A FL SD AS+ G L
Sbjct: 188 PTTEGMERLAPSGK-----SEKKMIERVPLGRLGTPEEIANLALFLLSDAASYINGTTLV 242
Query: 286 VDGGRH 291
VDGG+
Sbjct: 243 VDGGQW 248
Score = 76.5 bits (189), Expect = 3e-16
Identities = 32/89 (35%), Positives = 48/89 (53%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GKV +TG +GIG A A A+L A +AI GR E L +E S + + IQ
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGRAHPIQC 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D+ E + +D +K + K+++L+NNA
Sbjct: 61 DVRDPEAVEAAVDETLKEFGKIDILINNA 89
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 130 bits (329), Expect = 2e-36
Identities = 83/292 (28%), Positives = 123/292 (42%), Gaps = 53/292 (18%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GK L+TG +SGIG TA A++AITGR+ L E+ ++ LVI+A
Sbjct: 4 LQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPASL----EAARAELGESALVIRA 59
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D K + + + + +L+ + NA
Sbjct: 60 DAGDVAAQKALAQALAEAFGRLDAVFINA------------------------------- 88
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK----HYQKLNVLVNNAGNIVN 178
V+K PL + E R +T VK Q L L+ N +IV
Sbjct: 89 ----------GVAKFAPL----EDWDEAMFDRSFNTNVKGPYFLIQALLPLLANPASIVL 134
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
S+N P Y SKAA+ + EL +G+RVN+V+PG T L+ G+
Sbjct: 135 NGSINAHIGMPNSSVYAASKAALLSLAKTLSGELLPRGIRVNAVSPGPVQTPLYGKLGLP 194
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+ + + LGR G PEE+AKA+ +LASD+++F G + VDGG
Sbjct: 195 EATLDAVAAQIQALVPLGRFGTPEEIAKAVLYLASDESAFIVGSEIIVDGGM 246
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 130 bits (328), Expect = 2e-36
Identities = 85/292 (29%), Positives = 134/292 (45%), Gaps = 56/292 (19%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ +GKV +VTG +SGIG A A A A++A+ R+ + V+E + +
Sbjct: 12 DLSGKVAVVTGGASGIGHAIAELFAAKGARVALLDRSED----VAEVAAQLLGGNAKGLV 67
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGA---ATALHLAKLDAKLAITG 118
D++ + + + V+ + ++++LVN+A G+ A + D + I
Sbjct: 68 CDVSDSQSVEAAVAAVISAFGRIDILVNSA------GVALLAPAEDVSEEDWDKTIDI-- 119
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
N+ K L+ QA V +H ++ G IVN
Sbjct: 120 -NL--------------KGSFLMAQA--------------VGRH-----MIAAGGGKIVN 145
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
++S G+ + +AYC SKA V T ALE G+ VN+++P V LT L K
Sbjct: 146 LASQAGVVALERHVAYCASKAGVVGMTKVLALEWGPYGITVNAISPTVVLTELGK----- 200
Query: 239 QQAYQNFL-ERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+A+ ER+K+ GR PEE+A A FLASD A+ TGE+L +DGG
Sbjct: 201 -KAWAGEKGERAKKLIPAGRFAYPEEIAAAALFLASDAAAMITGENLVIDGG 251
>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 = 129 bits (327), Expect = 2e-36
Identities = 89/288 (30%), Positives = 125/288 (43%), Gaps = 43/288 (14%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GKV +VTGA +GIGAA A LA+ A++ + + +++ + L ++
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGG----AAQAVVAQIAGGALALRV 56
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+T E+ + + V+ + L++LVNNA GA A LA D +AI R
Sbjct: 57 DVTDEQQVAALFERAVEEFGGLDLLVNNA--GAMHLTPAIIDTDLAVWDQTMAINLRGTF 114
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
L R+I G+IVN+SS+
Sbjct: 115 -----------------------LCCRHAAPRMIAR-------------GGGSIVNLSSI 138
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID-QQA 241
G PG AY SKAA+ T A EL G+R N++ PG+ T L + A
Sbjct: 139 AGQSGDPGYGAYGASKAAIRNLTRTLAAELRHAGIRCNALAPGLIDTPLLLAKLAGFEGA 198
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
GR+G PE+VA A+ FL SDDASF TG+ L VDGG
Sbjct: 199 LGPGGFHLLIHQLQGRLGRPEDVAAAVVFLLSDDASFITGQVLCVDGG 246
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 129 bits (327), Expect = 3e-36
Identities = 81/288 (28%), Positives = 121/288 (42%), Gaps = 45/288 (15%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
N GK LVTGA+ G+GAA A LA+ A +A + +++ + ++ + + I
Sbjct: 4 NLAGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEA-AGGRAHAIA 62
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
ADL +R D L+ LVNNA + +AT L + DA + + R
Sbjct: 63 ADLADPASVQRFFDAAAAALGGLDGLVNNA---GITNSKSATELDIDTWDAVMNVNVRGT 119
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
L + D+ G IVN++S
Sbjct: 120 F-----------------------LMLRAALPHLRDS-------------GRGRIVNLAS 143
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
L P + AY SK AV T A EL +G+ VN++ PG+T T +
Sbjct: 144 DTALWGAPKLGAYVASKGAVIGMTRSLARELGGRGITVNAIAPGLTATEATAY-VPADER 202
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ +L+ AL R+ P++VA A+ FL SD A F TG+ L V+GG
Sbjct: 203 HAYYLKGR----ALERLQVPDDVAGAVLFLLSDAARFVTGQLLPVNGG 246
>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 = 129 bits (326), Expect = 6e-36
Identities = 89/291 (30%), Positives = 138/291 (47%), Gaps = 45/291 (15%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
KV ++TGA+ GIG A A LA + + N+E+ K + S + + + AD+
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISEAGYNAVAVGADV 61
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T ++D + +ID V+ + +V+VNNA GI T L L IT +++++
Sbjct: 62 TDKDDVEALIDQAVEKFGSFDVMVNNA------GIAPITPL--------LTITEEDLKKV 107
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
V+ IQA + ++KL G I+N SS+ G
Sbjct: 108 YAVN------VFGVLFGIQA--------------AARQFKKLGH----GGKIINASSIAG 143
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT-----NLHKNSGID- 238
++ FP + AY SK AV T A ELA KG+ VN+ PG+ T + I
Sbjct: 144 VQGFPNLGAYSASKFAVRGLTQTAAQELAPKGITVNAYAPGIVKTEMWDYIDEEVGEIAG 203
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + F E S LGR+ PE+VA ++FLAS+D+ + TG+ + VDGG
Sbjct: 204 KPEGEGFAEFSSSI-PLGRLSEPEDVAGLVSFLASEDSDYITGQTILVDGG 253
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 129 bits (326), Expect = 6e-36
Identities = 83/290 (28%), Positives = 126/290 (43%), Gaps = 54/290 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
++ TG+V+LVTG + GIGA A A + + GR + +V
Sbjct: 2 LDLTGRVVLVTGGTRGIGAGIARAFLAAGATVVVCGRRAPE---------TVDGRPAEFH 52
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
AD+ + ++D +V+ + +L+VLVNNA G S AA A +
Sbjct: 53 AADVRDPDQVAALVDAIVERHGRLDVLVNNA--GGSPYALAAEA------SPRFH---EK 101
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+ +LN ++ + + N + Q G+IVN+
Sbjct: 102 IVELNLLAPLLVAQAANAVMQQQPG---------------------------GGSIVNIG 134
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT-NLHKNSGIDQ 239
SV+G R PG AY +KA + T A+E A K VRVN+V G+ T + G D
Sbjct: 135 SVSGRRPSPGTAAYGAAKAGLLNLTRSLAVEWAPK-VRVNAVVVGLVRTEQSELHYG-DA 192
Query: 240 QAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + T LGR+ P ++A A FLASD AS+ +G +L V GG
Sbjct: 193 EG----IAAVAATVPLGRLATPADIAWACLFLASDLASYVSGANLEVHGG 238
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 126 bits (317), Expect = 1e-34
Identities = 87/305 (28%), Positives = 127/305 (41%), Gaps = 71/305 (23%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV-SESCQSVSKNKPLVIQ 61
KV +VTG S GIG A+ R E+ + V + + S N +
Sbjct: 4 LKDKVAIVTGGSQGIG-------------KAVVNRLKEEGSNVINFDIKEPSYNDVDYFK 50
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D++++E + ID V+ Y ++++LVNNA GI + A+H
Sbjct: 51 VDVSNKEQVIKGIDYVISKYGRIDILVNNA------GIESYGAIH--------------- 89
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLN------VLVNNAGN 175
E++ RII+ V ++ +L + G
Sbjct: 90 ------------------------AVEEDEWDRIINVNVNGIFLMSKYTIPYMLKQDKGV 125
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL---- 231
I+N++SV AY SK AV T A++ A +R +V PG T L
Sbjct: 126 IINIASVQSFAVTRNAAAYVTSKHAVLGLTRSIAVDYAPT-IRCVAVCPGSIRTPLLEWA 184
Query: 232 -HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
G D + + + E H + RVG PEEVA +AFLASD ASF TGE +TVDGG
Sbjct: 185 AELEVGKDPEHVERKIREWGEMHPMKRVGKPEEVAYVVAFLASDLASFITGECVTVDGGL 244
Query: 291 HAMCP 295
A+ P
Sbjct: 245 RALIP 249
>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 = 125 bits (316), Expect = 1e-34
Identities = 88/296 (29%), Positives = 129/296 (43%), Gaps = 56/296 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GKV +VTGA SG G A A+ A++ I N + +V+ + + I
Sbjct: 1 MRLEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVA----ADIGEAAIAI 56
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
QAD+T D + +++ + + +L++LVNNA GI
Sbjct: 57 QADVTKRADVEAMVEAALSKFGRLDILVNNA------GIT-------------------- 90
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKH-YQKLNVLV-----NNAG 174
+NKP++ EE+ R+ VK Y LV G
Sbjct: 91 --------------HRNKPML----EVDEEEFDRVFAVNVKSIYLSAQALVPHMEEQGGG 132
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
I+N++S GLR PG+ Y SK V T A+ELA + +RVN + P T L
Sbjct: 133 VIINIASTAGLRPRPGLTWYNASKGWVVTATKAMAVELAPRNIRVNCLCPVAGETPLLSM 192
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+ + + T LGR+ P+++A A +LASD+ASF TG L VDGGR
Sbjct: 193 FMGEDTPEN--RAKFRATIPLGRLSTPDDIANAALYLASDEASFITGVALEVDGGR 246
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 125 bits (315), Expect = 2e-34
Identities = 85/291 (29%), Positives = 127/291 (43%), Gaps = 48/291 (16%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQ-LNKVSESCQSVSKNKPLV 59
M + KV L+TG + IGAA A L ++AI + ++ ++
Sbjct: 2 MTDSAKVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAELNALRPGSAAA 61
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+QADL + ++ V + +L+ LVNNA + + +G+ T L
Sbjct: 62 LQADLLDPDALPELVAACVAAFGRLDALVNNASSFYPTPLGSITEAQWDDL------FAS 115
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
N+ K P + + L G IVN+
Sbjct: 116 NL----KA-----------PFFLSQAAAPQ-------------------LRKQRGAIVNI 141
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
+ ++ R G YC +KAA++ T ALELA + VRVN+V PG L NS D+
Sbjct: 142 TDIHAERPLKGYPVYCAAKAALEMLTRSLALELAPE-VRVNAVAPGAILWPEDGNS-FDE 199
Query: 240 QAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+A Q L R+ L R+G PE++A+A+ FL DASF TG+ L VDGGR
Sbjct: 200 EARQAILART----PLKRIGTPEDIAEAVRFLL-ADASFITGQILAVDGGR 245
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 124 bits (314), Expect = 2e-34
Identities = 95/287 (33%), Positives = 147/287 (51%), Gaps = 43/287 (14%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVIQADL 64
KV+++TGAS GIGAATAL A+ + + RN + V ++ + + L + AD+
Sbjct: 3 KVMIITGASRGIGAATALLAAERGYAVCLNYLRNRDAAEAVVQAIRR-QGGEALAVAADV 61
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
E D R+ + V + +L+ LVNNA GI L+A++ + + +L
Sbjct: 62 ADEADVLRLFEAVDRELGRLDALVNNA------GI----------LEAQMRLEQMDAARL 105
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
++ + N V+ + L + E KR+ +H + G IVNVSS+
Sbjct: 106 TRI------FATN---VVGSFLCAREAVKRM---STRHGGR-------GGAIVNVSSMAA 146
Query: 185 LRSFPG-VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
PG + Y SK A+D T A E+A++G+RVN+V PGV T +H + G +
Sbjct: 147 RLGSPGEYIDYAASKGAIDTMTIGLAKEVAAEGIRVNAVRPGVIYTEIHASGGEPGR--- 203
Query: 244 NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
++R K +GR G EEVA+AI +L SD+AS+TTG + V GGR
Sbjct: 204 --VDRVKAGIPMGRGGTAEEVARAILWLLSDEASYTTGTFIDVSGGR 248
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 124 bits (314), Expect = 3e-34
Identities = 79/287 (27%), Positives = 122/287 (42%), Gaps = 67/287 (23%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV+L+TG SSGIG A AL LA ++ T RN ++L ES + + V++ D+T
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATARNPDKL----ESLGELLNDNLEVLELDVT 56
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
EE K + V++ + +++VLVNNA G G +E+
Sbjct: 57 DEESIKAAVKEVIERFGRIDVLVNNA------GYGLFGP----------------LEE-- 92
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHYQKLNVLVNNA-GNIV 177
TS E+ + + + V + + L ++ G IV
Sbjct: 93 ---------------------TSIEEVRELFEVNVFGPLRVTRAF--LPLMRKQGSGRIV 129
Query: 178 NVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGI 237
NVSSV GL P + YC SKAA++ + LELA G++V + PG T N+
Sbjct: 130 NVSSVAGLVPTPFLGPYCASKAALEALSESLRLELAPFGIKVTIIEPGPVRTGFADNAAG 189
Query: 238 DQQA------YQNFLERSKET-HALGRV-GNPEEVAKAIAFLASDDA 276
Y + KE +G G+PE+VA I + ++
Sbjct: 190 SALEDPEISPYAPERKEIKENAAGVGSNPGDPEKVADVIVKALTSES 236
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 124 bits (314), Expect = 5e-34
Identities = 82/293 (27%), Positives = 137/293 (46%), Gaps = 33/293 (11%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ GKV ++TG +G A A LA+ AK+AI RN E+ V ++ + + L ++
Sbjct: 7 SLKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKA-AGGEALAVK 65
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
AD+ +E ++ +++ + ++L+N GA AT +L +
Sbjct: 66 ADVLDKESLEQARQQILEDFGPCDILIN----GAGGNHPKAT---TDNEFHELIEPTKTF 118
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVN-NAGNIVNVS 180
L++ E + V DL ++ T++ +V GNI+N+S
Sbjct: 119 FDLDE--EGFEFV---------FDLN-------LLGTLLPTQVFAKDMVGRKGGNIINIS 160
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S+N V AY +KAA+ FT A+ A G+RVN++ PG LT ++ ++
Sbjct: 161 SMNAFTPLTKVPAYSAAKAAISNFTQWLAVHFAKVGIRVNAIAPGFFLTEQNRALLFNED 220
Query: 241 AYQNFLERSKE--THA-LGRVGNPEEVAKAIAFLASDDAS-FTTGEHLTVDGG 289
+ ER+ + H +GR G PEE+ + +LA + AS F TG L VDGG
Sbjct: 221 G--SLTERANKILAHTPMGRFGKPEELLGTLLWLADEKASSFVTGVVLPVDGG 271
>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 = 124 bits (312), Expect = 5e-34
Identities = 79/291 (27%), Positives = 123/291 (42%), Gaps = 50/291 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ GKV LVTGAS GIG A LA+ A + I RN E+ + + +
Sbjct: 2 SLKGKVALVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKEGVEA-TAFT 60
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIG---AATALHLAKLDAKLAITG 118
D++ EE K ++ + + + K+++LVNNA GI A A+ + +
Sbjct: 61 CDVSDEEAIKAAVEAIEEDFGKIDILVNNA------GIIRRHPAEEFPEAEWRDVIDV-- 112
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
LN V Q+V+++ ++ G I+N
Sbjct: 113 ----NLNGVFFVSQAVARH------------------------------MIKQGHGKIIN 138
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
+ S+ P V AY SK V T A E A G++VN++ PG T + + D
Sbjct: 139 ICSLLSELGGPPVPAYAASKGGVAGLTKALATEWARHGIQVNAIAPGYFATEMTEAVVAD 198
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + L+R GR G PE++ A FLASD + + G+ + VDGG
Sbjct: 199 PEFNDDILKRI----PAGRWGQPEDLVGAAVFLASDASDYVNGQIIFVDGG 245
>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 = 122 bits (309), Expect = 1e-33
Identities = 75/279 (26%), Positives = 125/279 (44%), Gaps = 66/279 (23%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
K +L+TGASSGIG ATA AK AKL +TGR E+L ++++ + K L +Q D++
Sbjct: 1 KTVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFPVKVLPLQLDVS 60
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
E + ++ + + ++ +++LVNNA G + G L+
Sbjct: 61 DRESIEAALENLPEEFRDIDILVNNA--GLALG-------------------------LD 93
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK------HYQKLNVLVNNAGNIVNV 179
E+ ED + +IDT VK ++ N G+I+N+
Sbjct: 94 PAQEA-----------------DLEDWETMIDTNVKGLLNVTRLILPIMIARNQGHIINL 136
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGV-----TLTNLHKN 234
S+ G + G YC +KAAV QF+ +L G+RV ++ PG+ +L H +
Sbjct: 137 GSIAGRYPYAGGNVYCATKAAVRQFSLNLRKDLIGTGIRVTNIEPGLVETEFSLVRFHGD 196
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLAS 273
+ Y+ L PE++A+ I ++AS
Sbjct: 197 KEKADKVYEG-------VEPL----TPEDIAETILWVAS 224
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 122 bits (309), Expect = 2e-33
Identities = 80/294 (27%), Positives = 123/294 (41%), Gaps = 55/294 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M+F+GK + VTGA+ GIG A AL + AK+ + +
Sbjct: 4 MDFSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGFDQAFLTQEDYPFAT----------F 53
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D++ ++ ++ L+VLVN A GI L + A +
Sbjct: 54 VLDVSDAAAVAQVCQRLLAETGPLDVLVNAA------GI-----LRMG------ATDSLS 96
Query: 121 VEQLNKVSESCQSVSKNKPL-VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
E + +V+ + +A V+ +++ +G IV V
Sbjct: 97 DEDW----QQTFAVNAGGAFNLFRA--------------VMPQFRR-----QRSGAIVTV 133
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
S G+ AY SKAA+ C LELA GVR N V+PG T T++ + +D+
Sbjct: 134 GSNAAHVPRIGMAAYGASKAALTSLAKCVGLELAPYGVRCNVVSPGSTDTDMQRTLWVDE 193
Query: 240 QAYQN----FLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
Q F E+ K LG++ P+E+A A+ FLASD AS T + + VDGG
Sbjct: 194 DGEQQVIAGFPEQFKLGIPLGKIARPQEIANAVLFLASDLASHITLQDIVVDGG 247
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 121 bits (306), Expect = 4e-33
Identities = 84/287 (29%), Positives = 134/287 (46%), Gaps = 46/287 (16%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
+V +VTGA G+GAA AL A+ A + I R QL++V+E ++ + + V+ AD
Sbjct: 9 DDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAGR-RAHVVAAD 67
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
L E T + V+ + +L+++VNN G L + D A T NV
Sbjct: 68 LAHPEATAGLAGQAVEAFGRLDIVVNNV-----GGTMPNPLLSTSTKDLADAFT-FNV-- 119
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
T+ T + +++H + G+++N+SS
Sbjct: 120 ----------------------ATAHALTVAAVPLMLEH--------SGGGSVINISSTM 149
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
G + G AY +KAA+ +T AL+L + +RVN++ PG LT S ++ A
Sbjct: 150 GRLAGRGFAAYGTAKAALAHYTRLAALDLCPR-IRVNAIAPGSILT-----SALEVVAAN 203
Query: 244 NFLERSKETHA-LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ L E L R+G+PE++A A +LAS S+ TG+ L VDGG
Sbjct: 204 DELRAPMEKATPLRRLGDPEDIAAAAVYLASPAGSYLTGKTLEVDGG 250
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 121 bits (305), Expect = 6e-33
Identities = 82/292 (28%), Positives = 131/292 (44%), Gaps = 48/292 (16%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK--NKPLVIQAD 63
+V +VT + SGIG A AL LA+ + IT + E+ E+ + V + + Q D
Sbjct: 3 QVAIVTASDSGIGKACALLLAQQGFDIGITWHSDEE--GAKETAEEVRSHGVRAEIRQLD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
L+ + + +D +++ +++VLVNNA GA T +D ++
Sbjct: 61 LSDLPEGAQALDKLIQRLGRIDVLVNNA--------GAMTKAPFLDMD---------FDE 103
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
K+ +V V A L S+ + ++ G I+N++SV+
Sbjct: 104 WRKI----FTVD-----VDGAFLCSQIAARHMVKQ------------GQGGRIINITSVH 142
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
PG AY +K A+ T ALEL G+ VN+V PG T ++ D +
Sbjct: 143 EHTPLPGASAYTAAKHALGGLTKAMALELVEHGILVNAVAPGAIATPMNGMDDSDVK--- 199
Query: 244 NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAMCP 295
S+ LGR G+ E+A +A+L S+ AS+TTG+ L VDGG P
Sbjct: 200 ---PDSRPGIPLGRPGDTHEIASLVAWLCSEGASYTTGQSLIVDGGFMLANP 248
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 120 bits (303), Expect = 9e-33
Identities = 70/284 (24%), Positives = 116/284 (40%), Gaps = 45/284 (15%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
K+ LVTGA GIG+A A L ++ T + K ++++ + + D+T
Sbjct: 3 KIALVTGAKRGIGSAIARELLNDGYRVIATYFSGNDCAKDWFEEYGFTEDQVRLKELDVT 62
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
E+ + + + +++LVNNA GI + + N+ +
Sbjct: 63 DTEECAEALAEIEEEEGPVDILVNNA------GITRDSVFKRMSHQEWNDVINTNLNSVF 116
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
V++ + + G I+N+SSVNGL
Sbjct: 117 NVTQPLFAAMCEQ---------------------------------GYGRIINISSVNGL 143
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNF 245
+ G Y +KA + FT A E A G+ VN + PG T + +Q
Sbjct: 144 KGQFGQTNYSAAKAGMIGFTKALASEGARYGITVNCIAPGYIATPMV------EQMGPEV 197
Query: 246 LERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
L+ + R+G PEE+A A+AFL S+ A F TGE ++++GG
Sbjct: 198 LQSIVNQIPMKRLGTPEEIAAAVAFLVSEAAGFITGETISINGG 241
>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 = 120 bits (302), Expect = 2e-32
Identities = 87/287 (30%), Positives = 123/287 (42%), Gaps = 48/287 (16%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI-QADLTSE 67
LVTGA+ GIG A A LA+ A++A RN EQL ++ + P + D+
Sbjct: 2 LVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRR--YGYPFATYKLDVADS 59
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
++ + + Y ++VLVN A GI L L AI + E
Sbjct: 60 AAVDEVVQRLEREYGPIDVLVNVA------GI-----LRLG------AIDSLSDEDW--- 99
Query: 128 SESCQSVSKNKPL-VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLR 186
++ +V+ V QA V ++ +G IV V S
Sbjct: 100 -QATFAVNTFGVFNVSQA--------------VSPRMKR-----RRSGAIVTVGSNAANV 139
Query: 187 SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFL 246
G+ AY SKAA+ T C LELA G+R N V+PG T T + + D+ Q +
Sbjct: 140 PRMGMAAYAASKAALTMLTKCLGLELAPYGIRCNVVSPGSTDTEMQRQLWNDEYGEQQVI 199
Query: 247 ERSKETHALG----RVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
S E LG ++ P ++A A+ FLASD AS T L VDGG
Sbjct: 200 AGSPEQFRLGIPLGKIAEPSDIANAVLFLASDLASHITMHDLVVDGG 246
>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 = 119 bits (301), Expect = 2e-32
Identities = 84/289 (29%), Positives = 122/289 (42%), Gaps = 44/289 (15%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV LVTG +SGIG A A LA A + + + E KV+E+ Q + L +Q D+
Sbjct: 1 GKVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEKVAEAAQ--GGPRALGVQCDV 58
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
TSE + + V + L+++V+NA SS I + L + + I
Sbjct: 59 TSEAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAETS---LEDWNRSMDINLTGHF-- 113
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
VS + K++ + GNIV +S N
Sbjct: 114 -LVSREAFRIMKSQGI--------------------------------GGNIVFNASKNA 140
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+ P AY +KAA C ALE G+RVN+VNP G+ + A
Sbjct: 141 VAPGPNAAAYSAAKAAEAHLARCLALEGGEDGIRVNTVNPDAVFRGSKIWEGVWRAARAK 200
Query: 245 FLERSKETHA----LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+E + L R PE+VA+A+ +AS+D TTG +TVDGG
Sbjct: 201 AYGLLEEEYRTRNLLKREVLPEDVAEAVVAMASEDFGKTTGAIVTVDGG 249
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 120 bits (302), Expect = 2e-32
Identities = 87/296 (29%), Positives = 138/296 (46%), Gaps = 49/296 (16%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ +GK LVTG S G+G A L + A++ ++ R E+L + + +++ L I
Sbjct: 9 DLSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALGI-DALWIA 67
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
AD+ E D +R+ + ++ + +++LVNNA GA+ GA H V
Sbjct: 68 ADVADEADIERLAEETLERFGHVDILVNNA--GAT--WGAPAEDH-------------PV 110
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E +KV ++ N V L S+ KR + + G I+NV+S
Sbjct: 111 EAWDKV------MNLN---VRGLFLLSQAVAKRSM------------IPRGYGRIINVAS 149
Query: 182 VNGL----RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGI 237
V GL +AY SK AV FT A E G+RVN++ PG T + + G
Sbjct: 150 VAGLGGNPPEVMDTIAYNTSKGAVINFTRALAAEWGPHGIRVNAIAPGFFPTKMTR--GT 207
Query: 238 DQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
++ ++ L + LGR+G+ E++ A LASD + TG+ L VDGG A+
Sbjct: 208 LERLGEDLLAHT----PLGRLGDDEDLKGAALLLASDASKHITGQILAVDGGVSAV 259
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 119 bits (301), Expect = 3e-32
Identities = 74/245 (30%), Positives = 108/245 (44%), Gaps = 51/245 (20%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN--KPLVIQADLTSE 149
+TGAS+GIG A+A+ LA+ A + VSE+ + N K D++ E
Sbjct: 11 ITGASTGIGQASAIALAQEGAYVLAVDIA----EAVSETVDKIKSNGGKAKAYHVDISDE 66
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNA------------------------------------ 173
+ K + + + +++VL NNA
Sbjct: 67 QQVKDFASEIKEQFGRVDVLFNNAGVDNAAGRIHEYPVDVFDKIMAVDMRGTFLMTKMLL 126
Query: 174 -------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGV 226
G+I+N SS +G + Y +K AV FT A+E G+R N++ PG
Sbjct: 127 PLMMEQGGSIINTSSFSGQAADLYRSGYNAAKGAVINFTKSIAIEYGRDGIRANAIAPGT 186
Query: 227 TLTNLHKN--SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHL 284
T L + +A + F E K LGR+G PEEVAK + FLASDD+SF TGE +
Sbjct: 187 IETPLVDKLTGTSEDEAGKTFRENQKWMTPLGRLGKPEEVAKLVVFLASDDSSFITGETI 246
Query: 285 TVDGG 289
+DGG
Sbjct: 247 RIDGG 251
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 119 bits (300), Expect = 3e-32
Identities = 92/298 (30%), Positives = 123/298 (41%), Gaps = 48/298 (16%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
GKV LVTGA+SGIG AL LAK AK+ I N E +E+ Q K + +
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKAGG-KAIGVA 59
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D+T EE ID V+ + +++LVNNA GI H+A +
Sbjct: 60 MDVTDEEAINAGIDYAVETFGGVDILVNNA------GIQ-----HVA-----------PI 97
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E K K +I L T + + + G I+N++S
Sbjct: 98 EDF--------PTEKWK-KMIAIMLDGAFLTTKA---ALPIMKA-----QGGGRIINMAS 140
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
V+GL G AY +K + T ALE A+ GV VN++ PG T L + I A
Sbjct: 141 VHGLVGSAGKAAYVSAKHGLIGLTKVVALEGATHGVTVNAICPGYVDTPLVRKQ-IPDLA 199
Query: 242 YQN--FLERSKETHAL-----GRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHA 292
+ E E L R EE+A FLAS A TG+ VDGG A
Sbjct: 200 KERGISEEEVLEDVLLPLVPQKRFTTVEEIADYALFLASFAAKGVTGQAWVVDGGWTA 257
>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 = 119 bits (299), Expect = 5e-32
Identities = 64/247 (25%), Positives = 100/247 (40%), Gaps = 50/247 (20%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTGA+SGIG A A LA A + + E ++ + + + AD+T E++
Sbjct: 6 VTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVA-GDAGGSVIYLPADVTKEDE 64
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
+I + L++LVNNAG
Sbjct: 65 IADMIAAAAAEFGGLDILVNNAGIQHVAPIEEFPPEDWDRIIAVMLTSAFHTIRAALPHM 124
Query: 175 ------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
I+N++S +GL + P AY +K + T ALE+A G+ VN++ PG
Sbjct: 125 KKQGWGRIINIASAHGLVASPFKSAYVAAKHGLIGLTKVLALEVAEHGITVNAICPGYVR 184
Query: 229 TNLHKNSGIDQQAYQNFLERSK------ETHALGRVGNPEEVAKAIAFLASDDASFTTGE 282
T L + DQ + E + R +EVA+ +LASD A+ TG+
Sbjct: 185 TPLVEKQIADQAKTRGIPEEQVIREVMLKGQPTKRFVTVDEVAETALYLASDAAAQITGQ 244
Query: 283 HLTVDGG 289
+ +DGG
Sbjct: 245 AIVLDGG 251
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 119 bits (300), Expect = 5e-32
Identities = 87/300 (29%), Positives = 128/300 (42%), Gaps = 68/300 (22%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQ--LNKVSESCQSVSKNKPLVIQ 61
GK L+TG SGIG A A+ A+ A +AI E+ + + + K L+I
Sbjct: 25 KGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIEEE-GRKCLLIP 83
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
DL E + ++ VVK + KL++LVNN A ++
Sbjct: 84 GDLGDESFCRDLVKEVVKEFGKLDILVNN---------------------AAYQHPQESI 122
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSE--EDTKRI--------IDTVVKHYQKLNVLVN 171
E D+T+E E T R + H +K
Sbjct: 123 E----------------------DITTEQLEKTFRTNIFSMFYLTKAALPHLKK------ 154
Query: 172 NAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
+I+N +SV + P +L Y +K A+ FT +L+LA KG+RVN+V PG T L
Sbjct: 155 -GSSIINTTSVTAYKGSPHLLDYAATKGAIVAFTRGLSLQLAEKGIRVNAVAPGPIWTPL 213
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+S + + E + +GR G P EVA A FLAS D+S+ TG+ L V+GG
Sbjct: 214 IPSSFPE----EKVSEFGSQV-PMGRAGQPAEVAPAYVFLASQDSSYVTGQVLHVNGGEI 268
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 119 bits (299), Expect = 5e-32
Identities = 88/293 (30%), Positives = 129/293 (44%), Gaps = 48/293 (16%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
KV LVTGA GIG A A L + K+AI N E ++ K + ++AD
Sbjct: 1 MSKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSK-DGGKAIAVKAD 59
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
++ + + VV + LNV+VNNA G+ T + IT EQ
Sbjct: 60 VSDRDQVFAAVRQVVDTFGDLNVVVNNA------GVAPTTPIE--------TITE---EQ 102
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
+KV + N VI I + ++KL + G I+N +S
Sbjct: 103 FDKV------YNINVGGVIWG-----------IQAAQEAFKKLG----HGGKIINATSQA 141
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
G+ P + Y +K AV T A +LAS+G+ VN+ PG+ T + I Q +
Sbjct: 142 GVVGNPELAVYSSTKFAVRGLTQTAARDLASEGITVNAYAPGIVKTPMMF--DIAHQVGE 199
Query: 244 NF---LERSKETHA----LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
N E E A LGR+ PE+VA ++FLA D+ + TG+ + VDGG
Sbjct: 200 NAGKPDEWGMEQFAKDITLGRLSEPEDVANCVSFLAGPDSDYITGQTIIVDGG 252
>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 = 118 bits (298), Expect = 5e-32
Identities = 75/298 (25%), Positives = 131/298 (43%), Gaps = 60/298 (20%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
K+IL+TGA+ IG A L A+L + N L ++ E ++ KN+ + ++ D
Sbjct: 1 EDKIILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKNRVIALELD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+TS+E K +I++ ++ + ++++L+NNA + + L +
Sbjct: 61 ITSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYEQWNEVLNV------N 114
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
L Q +K ++K G+I+N++S+
Sbjct: 115 LGGAFLCSQ-------------------------AFIKLFKK-----QGKGSIINIASIY 144
Query: 184 GLRSFPGV-----------LAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
G+ + P + Y V KA + T A A G+RVN+++PG
Sbjct: 145 GVIA-PDFRIYENTQMYSPVEYSVIKAGIIHLTKYLAKYYADTGIRVNAISPG------- 196
Query: 233 KNSGI-DQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
GI + Q FLE+ + L R+ NPE++ AI FL SD +S+ TG++L +DGG
Sbjct: 197 ---GILNNQP-SEFLEKYTKKCPLKRMLNPEDLRGAIIFLLSDASSYVTGQNLVIDGG 250
>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 = 117 bits (295), Expect = 1e-31
Identities = 83/287 (28%), Positives = 128/287 (44%), Gaps = 47/287 (16%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
++ LVTG GIG A LAK ++A E+ + Q V++ D++
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGDVS 60
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
S E K + V ++VLVNNA GI K+ EQ +
Sbjct: 61 SFESCKAAVAKVEAELGPIDVLVNNA------GITRDATFK--KMTY---------EQWS 103
Query: 126 KVSESCQSVSKNKPLVIQADLTSEED-TKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
V I +L S + T+ +ID + + G I+N+SSVNG
Sbjct: 104 AV--------------IDTNLNSVFNVTQPVIDGMRER---------GWGRIINISSVNG 140
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+ G Y +KA + FT A E A+KGV VN+++PG T++ ++
Sbjct: 141 QKGQFGQTNYSAAKAGMIGFTKALAQEGATKGVTVNTISPGYIATDMVM------AMRED 194
Query: 245 FLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
L +GR+G PEE+A A+AFLAS++A + TG L+++GG +
Sbjct: 195 VLNSIVAQIPVGRLGRPEEIAAAVAFLASEEAGYITGATLSINGGLY 241
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 117 bits (296), Expect = 2e-31
Identities = 73/266 (27%), Positives = 115/266 (43%), Gaps = 49/266 (18%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV+++TGAS GIG A A+ LA+ A+L + RN +L +++ + LV+ D+
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADHG-GEALVVPTDV 59
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ E +R+I+ V + +++LVNNA GI ++ D + L
Sbjct: 60 SDAEACERLIEAAVARFGGIDILVNNA------GIT-----MWSRFDE--------LTDL 100
Query: 125 NKVSESCQSVSKNKPL-VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
+ V E V+ + A L L + G IV VSS+
Sbjct: 101 S-VFERVMRVNYLGAVYCTHAALPH--------------------LKASRGQIVVVSSLA 139
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS-GIDQQAY 242
GL P Y SK A+ F +ELA GV V V PG T++ K + D +
Sbjct: 140 GLTGVPTRSGYAASKHALHGFFDSLRIELADDGVAVTVVCPGFVATDIRKRALDGDGKPL 199
Query: 243 QNFLERSKETHALGRVGNPEEVAKAI 268
+E+ ++ + EE A+AI
Sbjct: 200 GK--SPMQES----KIMSAEECAEAI 219
>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 = 117 bits (295), Expect = 2e-31
Identities = 82/294 (27%), Positives = 127/294 (43%), Gaps = 50/294 (17%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKNKPLVIQAD 63
GKV LVTG++SGIG A LA A + + G + ++ V + K L AD
Sbjct: 2 GKVALVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLYHGAD 61
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
L+ + ++ + + +++LVNNA GI H+A I E+
Sbjct: 62 LSKPAAIEDMVAYAQRQFGGVDILVNNA------GIQ-----HVAP------IEDFPTEK 104
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
+ + I +L++ T R+ + H +K G I+N++SV+
Sbjct: 105 WDAI--------------IALNLSAVFHTTRL---ALPHMKK-----QGWGRIINIASVH 142
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL--------HKNS 235
GL + AY +K V T ALE A GV N++ PG LT L + +
Sbjct: 143 GLVASANKSAYVAAKHGVVGLTKVVALETAGTGVTCNAICPGWVLTPLVEKQISALAQKN 202
Query: 236 GIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
G+ Q+ L K+ + PE++ FLASD AS TG ++VDGG
Sbjct: 203 GVPQEQAARELLLEKQPS--KQFVTPEQLGDTAVFLASDAASQITGTAVSVDGG 254
>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 = 117 bits (294), Expect = 2e-31
Identities = 85/298 (28%), Positives = 133/298 (44%), Gaps = 61/298 (20%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
GKV ++TG +SGIG ATA AK A++ I + + V + +
Sbjct: 1 RLDGKVAIITGGASGIGEATARLFAKHGARVVIADIDDDAGQAV---AAELGDPDISFVH 57
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D+T E D + +DT V + +L+++ NNA G
Sbjct: 58 CDVTVEADVRAAVDTAVARFGRLDIMFNNA--------------------------GV-- 89
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVV-------KHYQKLNVLVNNAG 174
+ C S+ + TS E+ +R++D V KH ++ ++ G
Sbjct: 90 -----LGAPCYSILE----------TSLEEFERVLDVNVYGAFLGTKHAARV-MIPAKKG 133
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
+IV+V+SV G+ G AY SK AV T A EL G+RVN V+P T L
Sbjct: 134 SIVSVASVAGVVGGLGPHAYTASKHAVLGLTRSAATELGEHGIRVNCVSPYGVATPLLTA 193
Query: 235 -SGIDQQAYQNFLERSKETHA--LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
G++ +A +E + A G PE++A A+ +LASDD+ + +G++L VDGG
Sbjct: 194 GFGVEDEA----IEEAVRGAANLKGTALRPEDIAAAVLYLASDDSRYVSGQNLVVDGG 247
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 116 bits (294), Expect = 3e-31
Identities = 70/253 (27%), Positives = 106/253 (41%), Gaps = 66/253 (26%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNV-EQLNKVSESCQSVSKNKPLVIQADLTSEE 150
VTG + GIGAAT L + A++ T R+ + L + E + ADLT+ E
Sbjct: 14 VTGGTKGIGAATVARLLEAGARVVTTARSRPDDLPEGVE-----------FVAADLTTAE 62
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAGN----------------------------------- 175
+ V++ +++LV+ G
Sbjct: 63 GCAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALTDEEWQDELNLNLLAAVRLDRALL 122
Query: 176 ----------IVNVSSVNGLRSFPG-VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNP 224
I++V+S+ P AY +KAA+ ++ + E+A KGVRVN+V+P
Sbjct: 123 PGMIARGSGVIIHVTSIQRRLPLPESTTAYAAAKAALSTYSKSLSKEVAPKGVRVNTVSP 182
Query: 225 GVTLT--------NLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDA 276
G T L + +G D + + + S LGR PEEVA+ IAFLASD A
Sbjct: 183 GWIETEAAVALAERLAEAAGTDYEGAKQIIMDSLGGIPLGRPAEPEEVAELIAFLASDRA 242
Query: 277 SFTTGEHLTVDGG 289
+ TG +DGG
Sbjct: 243 ASITGTEYVIDGG 255
Score = 60.7 bits (148), Expect = 8e-11
Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 14/97 (14%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNV-EQLNKVSESCQSVSKNKPLVI 60
GK LVTG + GIGAAT L + A++ T R+ + L + E +
Sbjct: 6 ELAGKRALVTGGTKGIGAATVARLLEAGARVVTTARSRPDDLPEGVE-----------FV 54
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASS 97
ADLT+ E + V++ +++LV+ G SS
Sbjct: 55 AADLTTAEGCAAVARAVLERLGGVDILVHVL--GGSS 89
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 115 bits (291), Expect = 8e-31
Identities = 71/264 (26%), Positives = 110/264 (41%), Gaps = 49/264 (18%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GK L+TGASSGIGA A LA+ L + R ++L +++ + + + VI ADL
Sbjct: 6 GKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDKTGVEVEVIPADL 65
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ E +R+ D + + ++VLVNNA G +L E+
Sbjct: 66 SDPEALERLEDELKERGGPIDVLVNNAGFGTFGPF--------LELSLD--------EEE 109
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
+ + ++ L TK ++ +V+ AG+I+N+ S G
Sbjct: 110 EMIQLNILAL---------TRL-----TKAVLPGMVE---------RGAGHIINIGSAAG 146
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
L P + Y +KA V F+ EL GV+V +V PG T T G D Y
Sbjct: 147 LIPTPYMAVYSATKAFVLSFSEALREELKGTGVKVTAVCPGPTRTEFFDAKGSD--VYLL 204
Query: 245 FLERSKETHALGRVGNPEEVAKAI 268
V +PE+VA+A
Sbjct: 205 SPGE--------LVLSPEDVAEAA 220
>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 = 115 bits (290), Expect = 9e-31
Identities = 78/287 (27%), Positives = 125/287 (43%), Gaps = 47/287 (16%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV +VTG S GIG A A LA+ A +AI + + + +E K + D+
Sbjct: 8 GKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAKKYGVKTKAYKCDV 67
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+S+E ++ + K + K+++L+ NA G + A EQ
Sbjct: 68 SSQESVEKTFKQIQKDFGKIDILIANA--GITVHKPA---------------LDYTYEQW 110
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
NKV I +L + + K ++K G+++ +S++G
Sbjct: 111 NKV--------------IDVNLNGVFNCAQ---AAAKIFKK-----QGKGSLIITASMSG 148
Query: 185 LR-SFPGVLA-YCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
+ P A Y SKAAV A+E A +RVNS++PG T+L
Sbjct: 149 TIVNRPQPQAAYNASKAAVIHLAKSLAVEWAKYFIRVNSISPGYIDTDLTDF------VD 202
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ ++ + L R+ PEE+ A +LASD +S+TTG L +DGG
Sbjct: 203 KELRKKWESYIPLKRIALPEELVGAYLYLASDASSYTTGSDLIIDGG 249
>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 = 114 bits (288), Expect = 1e-30
Identities = 88/290 (30%), Positives = 115/290 (39%), Gaps = 56/290 (19%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV ++TG +SGIG ATA L K AK+AI RN K K +Q D+T
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAAELQAI-NPKVKATFVQCDVT 59
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
S E ++ + ++++L+NNA GI + G+
Sbjct: 60 SWEQLAAAFKKAIEKFGRVDILINNA------GILD---------EKSYLFAGKLPPPWE 104
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTV--VKHYQKLNVLVNNAGNIVNVSSVN 183
K I +LT +I+T HY N G IVN+ SV
Sbjct: 105 K--------------TIDVNLTG------VINTTYLALHYMDKN-KGGKGGVIVNIGSVA 143
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASK-GVRVNSVNPGVTLTNLHKNSGIDQQAY 242
GL P Y SK V FT A L K GVRVN++ PG T T L +
Sbjct: 144 GLYPAPQFPVYSASKHGVVGFTRSLADLLEYKTGVRVNAICPGFTNTPLLPD-------- 195
Query: 243 QNFLERSKETHALGRVG--NPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+KE L +PE VAKAI +L DD G VDGG+
Sbjct: 196 ----LVAKEAEMLPSAPTQSPEVVAKAIVYLIEDDEK--NGAIWIVDGGK 239
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 113 bits (286), Expect = 3e-30
Identities = 75/291 (25%), Positives = 118/291 (40%), Gaps = 64/291 (21%)
Query: 1 MNFT-GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLV 59
M GKV L+TGASSGIG ATA LA+ AK+ + R E+L + + L
Sbjct: 1 MTTLKGKVALITGASSGIGEATARALAEAGAKVVLAARREERLEAL---ADEIGAGAALA 57
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+ D+T + I+ + + + ++++LVNN A AL LD
Sbjct: 58 LALDVTDRAAVEAAIEALPEEFGRIDILVNN----------AGLAL-GDPLDE------- 99
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT----VVKHYQK-LNVLVN-NA 173
+D R+IDT ++ + L +V +
Sbjct: 100 ---------------------------ADLDDWDRMIDTNVKGLLNGTRAVLPGMVERKS 132
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL-- 231
G+I+N+ S+ G +PG Y +KAAV F+ ELA G+RV ++PG+ T
Sbjct: 133 GHIINLGSIAGRYPYPGGAVYGATKAAVRAFSLGLRQELAGTGIRVTVISPGLVETTEFS 192
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGE 282
D + + AL PE++A+A+ F A+ E
Sbjct: 193 TVRFEGDDERADKVYKG---GTAL----TPEDIAEAVLFAATQPQHVNINE 236
>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 = 113 bits (285), Expect = 4e-30
Identities = 80/284 (28%), Positives = 124/284 (43%), Gaps = 46/284 (16%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
V +VTG ++GIG A A LAK A + I E V+ + Q + + ++ ++TS
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAG-GQAIGLECNVTS 59
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
E+D + ++ V + + +LVNNA G G + + +LN
Sbjct: 60 EQDLEAVVKATVSQFGGITILVNNA------GGGGPKPFDMPMTEEDF----EWAFKLNL 109
Query: 127 VSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLR 186
S R+ H QK G I+N+SS++
Sbjct: 110 FS-----------------------AFRLSQLCAPHMQK-----AGGGAILNISSMSSEN 141
Query: 187 SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFL 246
+ AY SKAAV+ T A +L KG+RVN+V PG T+ + +
Sbjct: 142 KNVRIAAYGSSKAAVNHMTRNLAFDLGPKGIRVNAVAPGAVKTDALASVLTPEI------ 195
Query: 247 ERSKETHA-LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
ER+ H LGR+G PE++A A FL S +++ +G+ LTV GG
Sbjct: 196 ERAMLKHTPLGRLGEPEDIANAALFLCSPASAWVSGQVLTVSGG 239
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 113 bits (284), Expect = 4e-30
Identities = 74/289 (25%), Positives = 121/289 (41%), Gaps = 56/289 (19%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+ GKV+ +TG G+G ATA LA A++A+ GR +S++ V + +
Sbjct: 3 HSLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRG---AAPLSQTLPGVPADALRIG 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
DL + +R +D V + + +L+ LVN A GA +A DA
Sbjct: 60 GIDLVDPQAARRAVDEVNRQFGRLDALVNIA--------GAFVWGTIADGDA-------- 103
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+ +++ ++ + T + + + G IVN+
Sbjct: 104 -DTWDRM--------------YGVNVKT---TLNASKAALPA-----LTASGGGRIVNIG 140
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
+ L++ PG+ AY +KA V + T A EL +G+ VN+V P + T ++ D
Sbjct: 141 AGAALKAGPGMGAYAAAKAGVARLTEALAAELLDRGITVNAVLPSIIDTPPNRADMPDAD 200
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
R PE++A IAFL SD+A TG + VDGG
Sbjct: 201 --------------FSRWVTPEQIAAVIAFLLSDEAQAITGASIPVDGG 235
>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 = 113 bits (285), Expect = 5e-30
Identities = 84/292 (28%), Positives = 133/292 (45%), Gaps = 50/292 (17%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV LVTG + GIG A LAK +A+ N E + ++ + K + + D++
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQ-AGGKAVAYKLDVS 59
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
++ ID + + +V+VNNA G+ T + L IT ++++
Sbjct: 60 DKDQVFSAIDQAAEKFGGFDVMVNNA------GVAPITPI--------LEITEEELKKVY 105
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
V+ K IQA + ++K + G I+N +S+ G
Sbjct: 106 NVN------VKGVLFGIQA--------------AARQFKK----QGHGGKIINAASIAGH 141
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ-- 243
P + AY +K AV T A ELA KG+ VN+ PG+ T + + ID++ +
Sbjct: 142 EGNPILSAYSSTKFAVRGLTQTAAQELAPKGITVNAYCPGIVKTPMWE--EIDEETSEIA 199
Query: 244 ------NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
F E S E ALGR PE+VA ++FLAS+D+ + TG+ + VDGG
Sbjct: 200 GKPIGEGFEEFSSEI-ALGRPSEPEDVAGLVSFLASEDSDYITGQSILVDGG 250
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 113 bits (285), Expect = 5e-30
Identities = 80/289 (27%), Positives = 138/289 (47%), Gaps = 45/289 (15%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
KV+++TG SSG+G A A A+ A + ITGR E+L + + + L +Q D+
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQFP-GQVLTVQMDV 59
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ ED +++++ + + + +++ L+NNA A + I A L++ G N
Sbjct: 60 RNPEDVQKMVEQIDEKFGRIDALINNA---AGNFICPAE---------DLSVNGWNS--- 104
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
VI L T V K++ + + GNI+N+ +
Sbjct: 105 ----------------VIDIVLNG---TFYCSQAVGKYWIEKGI----KGNIINMVATYA 141
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASK-GVRVNSVNPGVTLTNLHKNSGIDQQA-Y 242
+ PGV+ +KA V T A+E K G+RVN++ PG + + G D+
Sbjct: 142 WDAGPGVIHSAAAKAGVLAMTRTLAVEWGRKYGIRVNAIAPG----PIERTGGADKLWES 197
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+ +R+ ++ LGR+G PEE+A FL SD+A++ G +T+DGG+
Sbjct: 198 EEAAKRTIQSVPLGRLGTPEEIAGLAYFLLSDEAAYINGTCITMDGGQW 246
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 113 bits (285), Expect = 5e-30
Identities = 81/287 (28%), Positives = 125/287 (43%), Gaps = 53/287 (18%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAK-LAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
GKV LVTG + G+GAA A A+ A L I GRN E+ + ++ K + +Q
Sbjct: 4 LDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEA-LGAKAVFVQ 62
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
ADL+ ED +R++ + + +L+ LVN A I + D A+ R
Sbjct: 63 ADLSDVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTILDTS---PELFDRHFAVNVR-- 117
Query: 122 EQLNKVSESCQSVSKNKP-LVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
P ++Q +K ++ G IVN+
Sbjct: 118 ----------------APFFLMQE--------------AIKLMRRRKA----EGTIVNIG 143
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID-- 238
S++ P + AYC SK A+ T A L +RVN +N G T G D
Sbjct: 144 SMSAHGGQPFLAAYCASKGALATLTRNAAYALLRNRIRVNGLNIGWMATE-----GEDRI 198
Query: 239 QQAY----QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTG 281
Q+ + ++LE++ T GR+ +P+EVA+A+AFL SD++ TG
Sbjct: 199 QREFHGAPDDWLEKAAATQPFGRLLDPDEVARAVAFLLSDESGLMTG 245
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 113 bits (284), Expect = 5e-30
Identities = 93/287 (32%), Positives = 136/287 (47%), Gaps = 43/287 (14%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+ LVTG S GIG ATAL LA+ +A+ +N+ +V + K V+QAD+
Sbjct: 2 AIALVTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQ-AGGKAFVLQADI 60
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ E + + +H + L LVNNA GI L + + E++
Sbjct: 61 SDENQVVAMFTAIDQHDEPLAALVNNA------GI----------LFTQCTVENLTAERI 104
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
N+V +S N V L E KR+ +KH G IVNVSS
Sbjct: 105 NRV------LSTN---VTGYFLCCREAVKRM---ALKHGGS-------GGAIVNVSSAAS 145
Query: 185 LRSFPG-VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
PG + Y SK A+D T+ +LE+A++G+RVN V PG T +H + G +
Sbjct: 146 RLGAPGEYVDYAASKGAIDTLTTGLSLEVAAQGIRVNCVRPGFIYTEMHASGGEPGR--- 202
Query: 244 NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
++R K + R G PEEVA+AI +L SD AS+ TG + + GG+
Sbjct: 203 --VDRVKSNIPMQRGGQPEEVAQAIVWLLSDKASYVTGSFIDLAGGK 247
>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 = 113 bits (284), Expect = 1e-29
Identities = 85/299 (28%), Positives = 139/299 (46%), Gaps = 46/299 (15%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ KV ++TG + +G A A LA+ AK+A GRN E+ +KV++ + + + +
Sbjct: 2 SLKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITA-LGGRAIALA 60
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
AD+ +R + +V + +++L+N GA AT + T +N
Sbjct: 61 ADVLDRASLERAREEIVAQFGTVDILIN----GAGGNHPDATT----DPEHYEPETEQNF 112
Query: 122 EQLNKVSESCQSV-------SKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAG 174
L++ E + V S V D+ ++ G
Sbjct: 113 FDLDE--EGWEFVFDLNLNGSFLPSQVFGKDMLEQK----------------------GG 148
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
+I+N+SS+N V AY +KAAV FT A+E A+ GVRVN++ PG +T ++
Sbjct: 149 SIINISSMNAFSPLTKVPAYSAAKAAVSNFTQWLAVEFATTGVRVNAIAPGFFVTPQNRK 208
Query: 235 SGIDQQAYQNFLERSKETHA---LGRVGNPEEVAKAIAFLASDDAS-FTTGEHLTVDGG 289
I+ ++ +RS + +GR G PEE+ A+ FLAS+ AS F TG + VDGG
Sbjct: 209 LLINPDG--SYTDRSNKILGRTPMGRFGKPEELLGALLFLASEKASSFVTGVVIPVDGG 265
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 112 bits (283), Expect = 2e-29
Identities = 79/288 (27%), Positives = 120/288 (41%), Gaps = 51/288 (17%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV L+TG SGIG A A+ AK A +AI + + ++ K L+I D+
Sbjct: 46 GKVALITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDANETKQRVEKEGVKCLLIPGDV 105
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ E K ++ V+ +L++LVNNA A L+
Sbjct: 106 SDEAFCKDAVEETVRELGRLDILVNNA----------AFQYPQQSLE------------- 142
Query: 125 NKVSESCQSVSKNKPLVIQADLTSE--EDTKRIIDTVVKHYQKLNV-LVNNAGNIVNVSS 181
D+T+E + T + H K + + I+N S
Sbjct: 143 --------------------DITAEQLDKTFKTNIYSYFHMTKAALPHLKQGSAIINTGS 182
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
+ G ++ Y +K A+ FT A L KG+RVN+V PG T L + D
Sbjct: 183 ITGYEGNETLIDYSATKGAIHAFTRSLAQSLVQKGIRVNAVAPGPIWTPLIPS---DFDE 239
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + + + R G PEE+A A FLAS D+S+ TG+ L V+GG
Sbjct: 240 EK--VSQFGSNTPMQRPGQPEELAPAYVFLASPDSSYITGQMLHVNGG 285
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 111 bits (281), Expect = 2e-29
Identities = 69/251 (27%), Positives = 110/251 (43%), Gaps = 59/251 (23%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTGA+ GIG AL A A++ + R+ E +++V+ ++ + L + ADL +
Sbjct: 13 VTGAAQGIGRGVALRAAAEGARVVLVDRS-ELVHEVAAELRAAG-GEALALTADLETYAG 70
Query: 152 TKRIIDTVVKHYQKLNVLVNN--------------------------------------- 172
+ + V+ + +++VL+NN
Sbjct: 71 AQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEYEEEQIEAEIRRSLFPTLWCCRAVLPH 130
Query: 173 -----AGNIVNVSSV--NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
G IVNVSS+ G+ P Y +K V+ T+ A E A G+RVN+V PG
Sbjct: 131 MLAQGGGAIVNVSSIATRGINRVP----YSAAKGGVNALTASLAFEYAEHGIRVNAVAPG 186
Query: 226 VTLT-------NLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASF 278
T N S ++ YQ ++++ ++ + R G +E AI FLASD+AS+
Sbjct: 187 GTEAPPRRVPRNAAPQSEQEKAWYQQIVDQTLDSSLMKRYGTIDEQVAAILFLASDEASY 246
Query: 279 TTGEHLTVDGG 289
TG L V GG
Sbjct: 247 ITGTVLPVGGG 257
Score = 61.1 bits (149), Expect = 5e-11
Identities = 29/93 (31%), Positives = 53/93 (56%), Gaps = 3/93 (3%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
F GKV++VTGA+ GIG AL A A++ + R+ E +++V+ ++ + L + A
Sbjct: 6 FAGKVVVVTGAAQGIGRGVALRAAAEGARVVLVDRS-ELVHEVAAELRAAG-GEALALTA 63
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGA 95
DL + + + V+ + +++VL+NN V G
Sbjct: 64 DLETYAGAQAAMAAAVEAFGRIDVLINN-VGGT 95
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 116 bits (292), Expect = 4e-29
Identities = 79/307 (25%), Positives = 119/307 (38%), Gaps = 55/307 (17%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESC-QSVSKNKPLVIQ 61
+V VTG + GIG TA LA A + + N+E V+ + + ++
Sbjct: 412 LARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQFGAGRAVALK 471
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D+T E+ K V Y ++++VNNA SS T L +L+ + TG +
Sbjct: 472 MDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPF-EETTLQEWQLNLDILATGYFL 530
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
V+ + + L GNIV ++S
Sbjct: 531 -----VAREAFRQMREQGL--------------------------------GGNIVFIAS 553
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
N + + AY +KAA C A E + G+RVN+VNP L + SGI
Sbjct: 554 KNAVYAGKNASAYSAAKAAEAHLARCLAAEGGTYGIRVNTVNPDAVL----QGSGIWDGE 609
Query: 242 Y------------QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ E + L R P ++A+A+ FLAS + TTG +TVDGG
Sbjct: 610 WREERAAAYGIPADELEEHYAKRTLLKRHIFPADIAEAVFFLASSKSEKTTGCIITVDGG 669
Query: 290 RHAMCPR 296
A R
Sbjct: 670 VPAAFLR 676
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 110 bits (277), Expect = 6e-29
Identities = 80/296 (27%), Positives = 122/296 (41%), Gaps = 60/296 (20%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLV 59
M + KV +VTGAS GIGAA A LA +A+ + +++ ++ + +
Sbjct: 1 MTLSNKVAIVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAADELVAEIEAAG-GRAIA 59
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+QAD+ R+ D + +++VLVNNA G+ + L +
Sbjct: 60 VQADVADAAAVTRLFDAAETAFGRIDVLVNNA------GV-----MPLGTIAD------- 101
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVL------VNNA 173
ED R I T ++ VL +
Sbjct: 102 ---------------------------FDLEDFDRTIATNLR--GAFVVLREAARHLGQG 132
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
G I+N+S+ PG Y SKAAV+ A EL +G+ VN+V PG T L
Sbjct: 133 GRIINLSTSVIALPLPGYGPYAASKAAVEGLVHVLANELRGRGITVNAVAPGPVATELFF 192
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
N +Q ++ L R+G PEE+A A+AFLA D ++ G+ L V+GG
Sbjct: 193 NGKSAEQI-----DQLAGLAPLERLGTPEEIAAAVAFLAGPDGAWVNGQVLRVNGG 243
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 109 bits (275), Expect = 1e-28
Identities = 87/287 (30%), Positives = 135/287 (47%), Gaps = 51/287 (17%)
Query: 5 GKVILVTGAS-SGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL----V 59
GKV+LVT A+ +GIG+ATA + A++ I+ + +L E+ ++ L
Sbjct: 17 GKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRL---GETADELAAELGLGRVEA 73
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+ D+TSE +ID V+ +L+VLVNNA G+G T + + +T
Sbjct: 74 VVCDVTSEAQVDALIDAAVERLGRLDVLVNNA------GLGGQTPV--------VDMTD- 118
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
++ ++V + LT T R +++ + + G IVN
Sbjct: 119 --DEWSRV--------------LDVTLTG---TFRATRAALRYMRA----RGHGGVIVNN 155
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
+SV G R+ G Y +KA V T C+ALE A GVR+N+V P + +H + +
Sbjct: 156 ASVLGWRAQHGQAHYAAAKAGVMALTRCSALEAAEYGVRINAVAPSIA---MHPF--LAK 210
Query: 240 QAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTV 286
L+ A GR P EVA IAFLASD +S+ TGE ++V
Sbjct: 211 VTSAELLDELAAREAFGRAAEPWEVANVIAFLASDYSSYLTGEVVSV 257
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 109 bits (273), Expect = 2e-28
Identities = 92/286 (32%), Positives = 130/286 (45%), Gaps = 41/286 (14%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV+L+TGAS GIG ATA+ A + I + + + + V+ D+
Sbjct: 3 KVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRAAGGRACVVAGDVA 62
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
+E D + D V + +L+ LVNNA GI A ++ LA +DA +L
Sbjct: 63 NEADVIAMFDAVQSAFGRLDALVNNA------GI-VAPSMPLADMDA---------ARLR 106
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG- 184
++ ++ V+ A L + E +R+ G IVNVSS+
Sbjct: 107 RMFDTN---------VLGAYLCAREAARRLSTDRGGR----------GGAIVNVSSIASR 147
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
L S + Y SK AVD T A EL GVRVN+V PG+ T +H + G +A
Sbjct: 148 LGSPNEYVDYAGSKGAVDTLTLGLAKELGPHGVRVNAVRPGLIETEIHASGGQPGRA--- 204
Query: 245 FLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
R LGR G +EVA+ I +L SD AS+ TG L V GGR
Sbjct: 205 --ARLGAQTPLGRAGEADEVAETIVWLLSDAASYVTGALLDVGGGR 248
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 109 bits (273), Expect = 2e-28
Identities = 84/290 (28%), Positives = 136/290 (46%), Gaps = 45/290 (15%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVI 60
F+GKV LVTG+S GIG A AL LA+ +A+ R+ + + +E +++ + K L +
Sbjct: 1 VFSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEALGR-KALAV 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
+A++ E K + + + + +L+V VNNA AS + A L + D + I N
Sbjct: 60 KANVGDVEKIKEMFAQIDEEFGRLDVFVNNA---ASGVLRPAMELEESHWDWTMNI---N 113
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+ L +A K +K G I+++S
Sbjct: 114 AKALLF-------------CAQEA---------------AKLMEK-----VGGGKIISLS 140
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S+ +R VSKAA++ T A+ELA KG+ VN+V+ G T+ K+ ++
Sbjct: 141 SLGSIRYLENYTTVGVSKAALEALTRYLAVELAPKGIAVNAVSGGAVDTDALKHFPNREE 200
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
LE ++ GR+ PE+VA A+ FL S +A G+ + VDGGR
Sbjct: 201 ----LLEDARAKTPAGRMVEPEDVANAVLFLCSPEADMIRGQTIIVDGGR 246
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 108 bits (272), Expect = 4e-28
Identities = 77/248 (31%), Positives = 114/248 (45%), Gaps = 61/248 (24%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTGAS GIG A A LA+ A + ++ R ++ V+++ + + K + + E
Sbjct: 13 VTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVA-AGGKAEALACHIGEMEQ 71
Query: 152 TKRIIDTVVKHYQKLNVLVNNA-------------------------------------- 173
+ + + + +L++LVNNA
Sbjct: 72 IDALFAHIRERHGRLDILVNNAAANPYFGHILDTDLGAFQKTVDVNIRGYFFMSVEAGKL 131
Query: 174 ------GNIVNVSSVNGLR--SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
G+IVNV+SVNG+ F G+ Y ++KAAV T A E A G+RVN++ PG
Sbjct: 132 MKEQGGGSIVNVASVNGVSPGDFQGI--YSITKAAVISMTKAFAKECAPFGIRVNALLPG 189
Query: 226 VTLTN----LHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTG 281
+T T L KN I +QA + L R P E+A A+ +LASD +S+TTG
Sbjct: 190 LTDTKFASALFKNDAILKQALAHI--------PLRRHAEPSEMAGAVLYLASDASSYTTG 241
Query: 282 EHLTVDGG 289
E L VDGG
Sbjct: 242 ECLNVDGG 249
Score = 50.8 bits (122), Expect = 2e-07
Identities = 27/92 (29%), Positives = 49/92 (53%), Gaps = 1/92 (1%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ TGK+ LVTGAS GIG A A LA+ A + ++ R ++ V+++ + + K +
Sbjct: 5 DLTGKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVA-AGGKAEALA 63
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVT 93
+ E + + + + +L++LVNNA
Sbjct: 64 CHIGEMEQIDALFAHIRERHGRLDILVNNAAA 95
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 108 bits (272), Expect = 4e-28
Identities = 76/301 (25%), Positives = 116/301 (38%), Gaps = 59/301 (19%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
G +LVTG +SGIG A A A+ A++ + + L + + K A
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATA---ARLPGAKVTATVA 65
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ +R+ DT V+ + L+VLVNNA GI A +D
Sbjct: 66 DVADPAQVERVFDTAVERFGGLDVLVNNA------GI----AGPTGGIDE---------- 105
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK-HYQKLNVLV------NNAGN 175
+ E ++ + + + V + G
Sbjct: 106 ------------------------ITPEQWEQTLAVNLNGQFYFARAAVPLLKASGHGGV 141
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN- 234
I+ +SSV G +PG Y SK AV A+EL G+RVN++ PG+ +
Sbjct: 142 IIALSSVAGRLGYPGRTPYAASKWAVVGLVKSLAIELGPLGIRVNAILPGIVRGPRMRRV 201
Query: 235 -SGIDQQAYQNFLERSKETHA---LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
QQ E +E LGR+ PE++A FLAS A + TG+ ++VDG
Sbjct: 202 IEARAQQLGIGLDEMEQEYLEKISLGRMVEPEDIAATALFLASPAARYITGQAISVDGNV 261
Query: 291 H 291
Sbjct: 262 E 262
>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 = 107 bits (268), Expect = 1e-27
Identities = 70/259 (27%), Positives = 105/259 (40%), Gaps = 73/259 (28%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK------NKPLVIQA 144
VTGA+ GIG A LA A++ + R SE V + V A
Sbjct: 8 VVTGAAQGIGRGVAERLAGEGARVLLVDR--------SELVHEVLAEILAAGDAAHVHTA 59
Query: 145 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAGN----------------------------- 175
DL + + ++ V+ + +++VL+NN G
Sbjct: 60 DLETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEEEQIEAEIRRSLFPTLWC 119
Query: 176 ---------------IVNVSSV---NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGV 217
IVNVSS+ R + Y +K V+ T+ A E A G+
Sbjct: 120 CRAVLPHMLERQQGVIVNVSSIATRGIYR-----IPYSAAKGGVNALTASLAFEHARDGI 174
Query: 218 RVNSVNPGVTLT-------NLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAF 270
RVN+V PG T N S ++ YQ ++++ ++ +GR G +E +AI F
Sbjct: 175 RVNAVAPGGTEAPPRKIPRNAAPMSEQEKVWYQRIVDQTLDSSLMGRYGTIDEQVRAILF 234
Query: 271 LASDDASFTTGEHLTVDGG 289
LASD+AS+ TG L V GG
Sbjct: 235 LASDEASYITGTVLPVGGG 253
Score = 53.3 bits (128), Expect = 2e-08
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 14/95 (14%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK------NK 56
F GKV++VTGA+ GIG A LA A++ + R SE V +
Sbjct: 2 FEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDR--------SELVHEVLAEILAAGDA 53
Query: 57 PLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
V ADL + + ++ V+ + +++VL+NN
Sbjct: 54 AHVHTADLETYAGAQGVVRAAVERFGRVDVLINNV 88
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 107 bits (268), Expect = 2e-27
Identities = 79/310 (25%), Positives = 124/310 (40%), Gaps = 78/310 (25%)
Query: 1 MNFTGKVILVTGAS--SGIGAATALHLAKL------------DAKLAITGRNVEQ----- 41
+ K+ LVTGAS +GIGAA LA D + + E
Sbjct: 1 LPLMKKIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKE 60
Query: 42 -LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIG 100
+ C+ + + DL+ R+ V + ++L+NNA + +
Sbjct: 61 EIESYGVRCEHM--------EIDLSQPYAPNRVFYAVSERLGDPSILINNAAYSTHTRLE 112
Query: 101 AATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVV 160
TA +LD A+ R ++ L+ A
Sbjct: 113 ELTA---EQLDKHYAVNVR------------ATM-----LLSSA--------------FA 138
Query: 161 KHYQKLNVLVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVN 220
K Y G I+N++S L P LAY +K A++ FT A ELA KG+ VN
Sbjct: 139 KQYDG-----KAGGRIINLTSGQSLGPMPDELAYAATKGAIEAFTKSLAPELAEKGITVN 193
Query: 221 SVNPGVTLTNLHKNSG-IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFT 279
+VNPG T ++G I ++ + + + GRVG P + A+ IAFL S++A +
Sbjct: 194 AVNPGPT------DTGWITEELKHHLVPK----FPQGRVGEPVDAARLIAFLVSEEAKWI 243
Query: 280 TGEHLTVDGG 289
TG+ + +GG
Sbjct: 244 TGQVIHSEGG 253
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 106 bits (267), Expect = 2e-27
Identities = 66/250 (26%), Positives = 103/250 (41%), Gaps = 60/250 (24%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRN--VEQLNK--VSESCQSVSKNKPLVIQADLT 147
+TGA GIG A A+ A L + + +E+L + + + AD+
Sbjct: 11 ITGALQGIGEGIARVFARHGANLILLDISPEIEKLADELCGRGHRCTA------VVADVR 64
Query: 148 SEEDTKRIIDTVVKHYQKLNVLVNNA---------------------------------- 173
I + ++++LVNNA
Sbjct: 65 DPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHIDINIKGVWNVTKAV 124
Query: 174 ---------GNIVNVSSVNG-LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVN 223
G IV +SSV G + + PG AY ++KAA+ T A+E A G+RVN++
Sbjct: 125 LPEMIARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLAVEYAQSGIRVNAIC 184
Query: 224 PGVTLTNLHKNSGIDQQAYQNFLERSKETHA----LGRVGNPEEVAKAIAFLASDDASFT 279
PG T + ++ I +Q+ E A L R+ +P EV + AFLASD++S+
Sbjct: 185 PGYVRTPMAES--IARQSNPEDPESVLTEMAKAIPLRRLADPLEVGELAAFLASDESSYL 242
Query: 280 TGEHLTVDGG 289
TG +DGG
Sbjct: 243 TGTQNVIDGG 252
Score = 52.5 bits (126), Expect = 5e-08
Identities = 24/92 (26%), Positives = 39/92 (42%), Gaps = 10/92 (10%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRN--VEQLNK--VSESCQSVSKNKPLV 59
TGK L+TGA GIG A A+ A L + + +E+L + +
Sbjct: 5 TGKTALITGALQGIGEGIARVFARHGANLILLDISPEIEKLADELCGRGHRCTA------ 58
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
+ AD+ I + ++++LVNNA
Sbjct: 59 VVADVRDPASVAAAIKRAKEKEGRIDILVNNA 90
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 106 bits (265), Expect = 4e-27
Identities = 85/295 (28%), Positives = 137/295 (46%), Gaps = 43/295 (14%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN-KPLVIQ 61
F KV+L+TG SG+G ATA+ LAK AKL++ N E L + ++ + + L+I+
Sbjct: 1 FKDKVVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAEVLLIK 60
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
AD++ E + +D V+ + +++ NNA GI L
Sbjct: 61 ADVSDEAQVEAYVDATVEQFGRIDGFFNNA------GIEGKQNL----------TEDFGA 104
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
++ +KV VS N V ++ V+K ++ +G IVN +S
Sbjct: 105 DEFDKV------VSINLRGVFYG-----------LEKVLKVMRE-----QGSGMIVNTAS 142
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
V G+R Y +K V T +A+E G+R+N++ PG LT + + S + Q
Sbjct: 143 VGGIRGVGNQSGYAAAKHGVVGLTRNSAVEYGQYGIRINAIAPGAILTPMVEGS-LKQLG 201
Query: 242 YQNFLERSKE---THALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
+N E +E + + R G PEEVA +AFL SDDA + + +DGG+
Sbjct: 202 PENPEEAGEEFVSVNPMKRFGEPEEVAAVVAFLLSDDAGYVNAAVVPIDGGQSYK 256
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 239
Score = 105 bits (264), Expect = 4e-27
Identities = 61/228 (26%), Positives = 88/228 (38%), Gaps = 42/228 (18%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQS---VSKNKPLVIQ 61
GK +L+TG SSGIG A A L K A + I R+ +L + E ++ S K I
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANASGQKVSYIS 60
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
ADL+ E+ ++ V+ +++VN A G + L A
Sbjct: 61 ADLSDYEEVEQAFAQAVEKGGPPDLVVNCA--------GISIPGLFEDLTA--------- 103
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E+ + + S N V A V+ ++ G+IV VSS
Sbjct: 104 EEFERGMDVNYFGSLN---VAHA--------------VLPLMKE-----QRPGHIVFVSS 141
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT 229
L G AYC SK A+ EL +RV+ V P T T
Sbjct: 142 QAALVGIYGYSAYCPSKFALRGLAESLRQELKPYNIRVSVVYPPDTDT 189
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 105 bits (264), Expect = 7e-27
Identities = 76/254 (29%), Positives = 108/254 (42%), Gaps = 54/254 (21%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA-DLTSEE 150
VTG SSGIG AT L + A +AI GR+ E+L + L+ D+ E
Sbjct: 13 VTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFPGARLLAARCDVLDEA 72
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAGN----------------------------------- 175
D V + +++LVNNAG
Sbjct: 73 DVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDDAWRDELELKYFSVINPTRAFLPL 132
Query: 176 --------IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
IV V+S+ L+ P ++A ++A + A ELA KGVRVNS+ G+
Sbjct: 133 LRASAAASIVCVNSLLALQPEPHMVATSAARAGLLNLVKSLATELAPKGVRVNSILLGLV 192
Query: 228 LT-------NLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTT 280
+ + G +A+ L R K LGR+G P+E A+A+ FLAS +S+TT
Sbjct: 193 ESGQWRRRYEARADPGQSWEAWTAALARKKGI-PLGRLGRPDEAARALFFLASPLSSYTT 251
Query: 281 GEHLTVDGG--RHA 292
G H+ V GG RH
Sbjct: 252 GSHIDVSGGFARHV 265
Score = 57.4 bits (139), Expect = 1e-09
Identities = 31/94 (32%), Positives = 44/94 (46%), Gaps = 3/94 (3%)
Query: 1 MNF--TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL 58
M G+V +VTG SSGIG AT L + A +AI GR+ E+L + L
Sbjct: 2 MQIQLEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFPGARL 61
Query: 59 VIQA-DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
+ D+ E D V + +++LVNNA
Sbjct: 62 LAARCDVLDEADVAAFAAAVEARFGGVDMLVNNA 95
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 104 bits (262), Expect = 9e-27
Identities = 77/296 (26%), Positives = 138/296 (46%), Gaps = 60/296 (20%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKN--KP 57
+ KV++VTG+ GIG A A+ LAK + + + + E++N E+ + V +N +
Sbjct: 2 YSLKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMN---ETLKMVKENGGEG 58
Query: 58 LVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAIT 117
+ + AD+++ E + + + Y ++LVNNA G+G + L +
Sbjct: 59 IGVLADVSTREGCETLAKATIDRYGVADILVNNA------GLGLFSPF--------LNVD 104
Query: 118 GRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIV 177
+ +++ I D S V+ Q+L + G IV
Sbjct: 105 DKLIDKH-----------------ISTDFKS----------VIYCSQELAKEMREGGAIV 137
Query: 178 NVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT----NLHK 233
N++SV G+R G+ Y KAAV T ALELA K +RVN++ PG T +L K
Sbjct: 138 NIASVAGIRPAYGLSIYGAMKAAVINLTKYLALELAPK-IRVNAIAPGFVKTKLGESLFK 196
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
G+ ++ + +++ +G++ +PEEVA+ +A + ++ TG+ +D G
Sbjct: 197 VLGMSEKEF------AEKFTLMGKILDPEEVAEFVAAILKIES--ITGQVFVLDSG 244
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 104 bits (261), Expect = 1e-26
Identities = 88/295 (29%), Positives = 141/295 (47%), Gaps = 51/295 (17%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M+ KVI++TG + G+G A A +LA+ AKLA+ N E+L + C ++ +
Sbjct: 1 MDLKDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALG-TEVRGY 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
A++T EED + + + + +LN L+NNA GI L L + ++
Sbjct: 60 AANVTDEEDVEATFAQIAEDFGQLNGLINNA------GI----------LRDGLLVKAKD 103
Query: 121 VEQLNKVS-ESCQSVSKNKPLVIQADLT-----SEEDTKRIIDTVVKHYQKLNVLVNNAG 174
+ +K+S E QS VI +LT E ++I++ + G
Sbjct: 104 GKVTSKMSLEQFQS-------VIDVNLTGVFLCGREAAAKMIES------------GSKG 144
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
I+N+SS+ + G Y SKA V T A ELA G+RV ++ PGV T +
Sbjct: 145 VIINISSIARAGNM-GQTNYSASKAGVAAMTVTWAKELARYGIRVAAIAPGVIETEMTA- 202
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ +A LER ++ +GR+G PEE+A + F+ +D + TG L +DGG
Sbjct: 203 -AMKPEA----LERLEKMIPVGRLGEPEEIAHTVRFIIEND--YVTGRVLEIDGG 250
>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 = 104 bits (261), Expect = 1e-26
Identities = 83/296 (28%), Positives = 134/296 (45%), Gaps = 53/296 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQ----SVSKNKP 57
KV LVT ++ GIG A A LA+ A + ++ R + +++ + Q SV+
Sbjct: 7 PLANKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGEGLSVTGTVC 66
Query: 58 LVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAIT 117
V +A ED +R++ T V + +++LV+NA G
Sbjct: 67 HVGKA-----EDRERLVATAVNLHGGVDILVSNAAVNPFFG------------------- 102
Query: 118 GRNVEQLNKVSESCQSV-SKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
+ +S + V K + ++A T + VV +K G++
Sbjct: 103 --------NILDSTEEVWDKILDVNVKA-------TALMTKAVVPEMEK-----RGGGSV 142
Query: 177 VNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG 236
V VSSV FPG+ Y VSK A+ T A ELA + +RVN + PG+ T+
Sbjct: 143 VIVSSVAAFHPFPGLGPYNVSKTALLGLTKNLAPELAPRNIRVNCLAPGLIKTSFSSALW 202
Query: 237 IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHA 292
+D+ ++ KET + R+G PE+ A ++FL S+DAS+ TGE + V GG +
Sbjct: 203 MDKAVEESM----KETLRIRRLGQPEDCAGIVSFLCSEDASYITGETVVVGGGTPS 254
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 104 bits (260), Expect = 2e-26
Identities = 86/295 (29%), Positives = 137/295 (46%), Gaps = 53/295 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAI-TGRNVEQLNKVSESCQSVSKNKPLVI 60
N GKV LVTGAS GIG A A+ LA A +AI GRN + ++ +S + K +I
Sbjct: 3 NLDGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIES-NGGKAFLI 61
Query: 61 QADLTSEEDTKRIIDTVVKHYQ------KLNVLVNNAVTGASSGIGAATALHLAKLDAKL 114
+ADL S + K++++ + Q ++++LVNNA G I T
Sbjct: 62 EADLNSIDGVKKLVEQLKNELQIRVGTSEIDILVNNAGIGTQGTIENTT----------- 110
Query: 115 AITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAG 174
++ + +V+ P + Q+ L+ G
Sbjct: 111 ----------EEIFDEIMAVNIKAPFFL--------------------IQQTLPLLRAEG 140
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
++N+SS F G +AY +SK A++ T A L +G+ VN++ PG T T+++
Sbjct: 141 RVINISSAEVRLGFTGSIAYGLSKGALNTMTLPLAKHLGERGITVNTIMPGYTKTDINAK 200
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+D +NF S GR+G E++A A+AFLAS D+ + TG+ + V GG
Sbjct: 201 L-LDDPEIRNFATNSS---VFGRIGQVEDIADAVAFLASSDSRWVTGQIIDVSGG 251
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 103 bits (259), Expect = 2e-26
Identities = 74/287 (25%), Positives = 111/287 (38%), Gaps = 46/287 (16%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK-VSESCQSVSKNKPLVIQA 62
G+V LVTG++ G+G A LA A + + GRN L V+ + + L
Sbjct: 10 AGQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAGGAAEALAF-- 67
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ EE + + +L++LVNN GA LA+LD +
Sbjct: 68 DIADEEAVAAAFARIDAEHGRLDILVNNV--------GARDRRPLAELDDA------AIR 113
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
L ++ DL + R+ +K G I+ ++S+
Sbjct: 114 AL-----------------LETDLVAPILLSRLAAQRMKR--------QGYGRIIAITSI 148
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
G + G Y +K + A E G+ N++ PG T + D
Sbjct: 149 AGQVARAGDAVYPAAKQGLTGLMRALAAEFGPHGITSNAIAPGYFATETNAAMAADPAVG 208
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+R+ LGR G PEE+A A FLAS AS+ G L VDGG
Sbjct: 209 PWLAQRT----PLGRWGRPEEIAGAAVFLASPAASYVNGHVLAVDGG 251
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 103 bits (258), Expect = 4e-26
Identities = 82/289 (28%), Positives = 129/289 (44%), Gaps = 51/289 (17%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITG----RNVEQLNKVSESCQSVSKNKPLVI 60
+ +L+TG S G+G A A+ LA A + + R + + V+ ++ + K L +
Sbjct: 6 SRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEA-AGGKALGL 64
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+ T+ +D V+ + +L++LVNNA G AT A+L +
Sbjct: 65 AFDVRDFAATRAALDAGVEEFGRLDILVNNA--------GIATDAAFAEL---------S 107
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+E+ + V + N V QA + + G IVN++
Sbjct: 108 IEEWDDVIDVNLDGFFN---VTQA--------------ALPPM----IRARRGGRIVNIA 146
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
SV G+R G + Y SKA + T A ELA +G+ VN+V PG N+ +
Sbjct: 147 SVAGVRGNRGQVNYAASKAGLIGLTKTLANELAPRGITVNAVAPGAI------NTPMADN 200
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
A E + R+G P+EVA +AFL SD AS+ TG+ + VDGG
Sbjct: 201 AAPT--EHLLNPVPVQRLGEPDEVAALVAFLVSDAASYVTGQVIPVDGG 247
>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 = 102 bits (257), Expect = 4e-26
Identities = 70/283 (24%), Positives = 118/283 (41%), Gaps = 51/283 (18%)
Query: 7 VILVTGASSGIGAATALHLAKLD--AKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
VI++TGAS GIG A A L K + + + R+ E L ++ E + + ++ADL
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELRPGLR--VTTVKADL 58
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ +++++ + K + ++L+NNA + L
Sbjct: 59 SDAAGVEQLLEAIRKLDGERDLLINNAGS------------------------------L 88
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
VS+ +LTS + T+++ ++K + +VNVSS
Sbjct: 89 GPVSKIEFIDLDELQKYFDLNLTS---PVCLTSTLLRAFKKRGL----KKTVVNVSSGAA 141
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK---NSGIDQQA 241
+ F G YC SKAA D F A E VRV S PGV T++ + + D +
Sbjct: 142 VNPFKGWGLYCSSKAARDMFFRVLAAEE--PDVRVLSYAPGVVDTDMQREIRETSADPET 199
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHL 284
F + G + +PE+ A+ +A L D F +G H+
Sbjct: 200 RSRF----RSLKEKGELLDPEQSAEKLANLLEKD-KFESGAHV 237
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 103 bits (258), Expect = 5e-26
Identities = 83/295 (28%), Positives = 123/295 (41%), Gaps = 54/295 (18%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI--QAD 63
V LVTG GIG A LA LAI R ++ +++ + Q + VI AD
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPDDE--ELAATQQELRALGVEVIFFPAD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAK-------LAI 116
+ + ++D + +++ LVNNA G+G L LD LAI
Sbjct: 61 VADLSAHEAMLDAAQAAWGRIDCLVNNA------GVGVKVRGDL--LDLTPESFDRVLAI 112
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
R L Q+V+K L E + +I
Sbjct: 113 NLRGPFFLT------QAVAK-------RMLAQPEPEELP-----------------HRSI 142
Query: 177 VNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG 236
V VSSVN + P YC+SKA + A LA +G+ V V PG+ T++ +
Sbjct: 143 VFVSSVNAIMVSPNRGEYCISKAGLSMAAQLFAARLAEEGIGVYEVRPGLIKTDM--TAP 200
Query: 237 IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+ + Y + K + R G PE+VA+A+A LAS D ++TG+ + VDGG
Sbjct: 201 VTAK-YDALIA--KGLVPMPRWGEPEDVARAVAALASGDLPYSTGQAIHVDGGLS 252
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 102 bits (257), Expect = 5e-26
Identities = 84/296 (28%), Positives = 129/296 (43%), Gaps = 61/296 (20%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAIT--GRNVEQLNKVSESC-QSVSKNKPL 58
+ GKV +VTG ++G+G A+ LAK A + IT G N ++ ++ E + V+
Sbjct: 12 SLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTNWDETRRLIEKEGRKVT----- 66
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLD--AKLAI 116
+Q DLT E ++++ ++ + K+++LVNNA T I A L D A + I
Sbjct: 67 FVQVDLTKPESAEKVVKEALEEFGKIDILVNNAGT-----IRRAPLLEYKDEDWNAVMDI 121
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
LN V Q+V+K + +G I
Sbjct: 122 ------NLNSVYHLSQAVAKV------------------------------MAKQGSGKI 145
Query: 177 VNVSSVNGLRSFPG---VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
+N++S + SF G V AY SK V T A ELA+ ++VN++ PG T
Sbjct: 146 INIAS---MLSFQGGKFVPAYTASKHGVAGLTKAFANELAAYNIQVNAIAPGYIKTANTA 202
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
D+ L+R GR G P+++ A FLAS + + G L VDGG
Sbjct: 203 PIRADKNRNDEILKRIPA----GRWGEPDDLMGAAVFLASRASDYVNGHILAVDGG 254
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 102 bits (257), Expect = 6e-26
Identities = 72/242 (29%), Positives = 106/242 (43%), Gaps = 48/242 (19%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTG +SGIGAA +L LA+ A I GR+ ++ +E +++ + +Q DLT +
Sbjct: 12 VTGGASGIGAAISLRLAEEGAIPVIFGRS-APDDEFAEELRALQP-RAEFVQVDLTDDAQ 69
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
+ ++ V + +++ LVNNAG
Sbjct: 70 CRDAVEQTVAKFGRIDGLVNNAGVNDGVGLEAGREAFVASLERNLIHYYVMAHYCLPHLK 129
Query: 175 ----NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTN 230
IVN+SS L G Y +K A T A+ LA GVRVN+V P +T
Sbjct: 130 ASRGAIVNISSKTALTGQGGTSGYAAAKGAQLALTREWAVALAKDGVRVNAVIPAEVMTP 189
Query: 231 LHKN--SGIDQQAYQNFLERSKETHALG-RVGNPEEVAKAIAFLASDDASFTTGEHLTVD 287
L++N + D + L LG R+ EE+A FL S+ +S TTG+ L VD
Sbjct: 190 LYENWIATFDDPEAK--LAAITAKIPLGHRMTTAEEIADTAVFLLSERSSHTTGQWLFVD 247
Query: 288 GG 289
GG
Sbjct: 248 GG 249
Score = 61.5 bits (150), Expect = 4e-11
Identities = 33/100 (33%), Positives = 58/100 (58%), Gaps = 4/100 (4%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+N KV++VTG +SGIGAA +L LA+ A I GR+ ++ +E +++ + +
Sbjct: 3 LNLKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRS-APDDEFAEELRALQP-RAEFV 60
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIG 100
Q DLT + + ++ V + +++ LVNNA G + G+G
Sbjct: 61 QVDLTDDAQCRDAVEQTVAKFGRIDGLVNNA--GVNDGVG 98
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 102 bits (256), Expect = 7e-26
Identities = 76/297 (25%), Positives = 117/297 (39%), Gaps = 60/297 (20%)
Query: 5 GKVILVTGAS--SGIGAATALHLAKLDAKLAIT-----GRNVEQLNKVSESCQSVSKNKP 57
KV +VTG S GIGAA LA+ A + T + + E Q +
Sbjct: 6 NKVAVVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQIQLQEELLK 65
Query: 58 L-----VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDA 112
++ DLT + K +++ V + ++LVNNA ++ TA +LD
Sbjct: 66 NGVKVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSNLTA---EELDK 122
Query: 113 KLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNN 172
+ R ++ + D K
Sbjct: 123 HYMVNVR------------------ATTLLSSQFARGFDKKS------------------ 146
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
G I+N++S G LAY +K A+D TS A E+A G+ VN++NPG T T
Sbjct: 147 GGRIINMTSGQFQGPMVGELAYAATKGAIDALTSSLAAEVAHLGITVNAINPGPTDTGW- 205
Query: 233 KNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
I Q F GR+G P++ A+ I FLAS++A + TG+ + +GG
Sbjct: 206 MTEEIKQGLLPMF--------PFGRIGEPKDAARLIKFLASEEAEWITGQIIHSEGG 254
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 102 bits (255), Expect = 1e-25
Identities = 80/292 (27%), Positives = 128/292 (43%), Gaps = 50/292 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK--NKPLV 59
+ G+V VTGA SGIG A+ LA+ A +A+ + + ++E+ + + + +
Sbjct: 5 DLDGQVAFVTGAGSGIGQRIAIGLAQAGADVALFDLRTD--DGLAETAEHIEAAGRRAIQ 62
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
I AD+TS+ D + + L + VN A GI A + + +
Sbjct: 63 IAADVTSKADLRAAVARTEAELGALTLAVNAA------GIANANPAEEMEEEQWQTVMDI 116
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
N L V SCQ+ +A +L N G+IVN+
Sbjct: 117 N---LTGVFLSCQA---------EARA---------------------MLENGGGSIVNI 143
Query: 180 SSVNGLRSFPGVLA--YCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGI 237
+S++G+ G+L Y SKA V + A+E +G+RVNS++PG T T ++ +
Sbjct: 144 ASMSGIIVNRGLLQAHYNASKAGVIHLSKSLAMEWVGRGIRVNSISPGYTATPMNTRPEM 203
Query: 238 DQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
Q + +E + R+ +E+ FL SD ASF TG L VDGG
Sbjct: 204 VHQT-----KLFEEQTPMQRMAKVDEMVGPAVFLLSDAASFCTGVDLLVDGG 250
>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 = 100 bits (251), Expect = 3e-25
Identities = 63/248 (25%), Positives = 102/248 (41%), Gaps = 66/248 (26%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSES--CQSVSKNKPLVIQADLTSE 149
+T A+ GIG A AL A+ A + T N E+L ++ + D+T +
Sbjct: 7 ITAAAQGIGRAIALAFAREGANVIATDINEEKLKELERGPGITTR--------VLDVTDK 58
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNAG----------------------------------- 174
E + + K +++VL N AG
Sbjct: 59 EQ----VAALAKEEGRIDVLFNCAGFVHHGSILDCEDDDWDFAMNLNVRSMYLMIKAVLP 114
Query: 175 --------NIVNVSSVNG-LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
+I+N+SSV ++ P Y +KAAV T A + A +G+R N++ PG
Sbjct: 115 KMLARKDGSIINMSSVASSIKGVPNRFVYSTTKAAVIGLTKSVAADFAQQGIRCNAICPG 174
Query: 226 V----TLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTG 281
+L + ++A + F R LGR+ PEEVA +LASD++++ TG
Sbjct: 175 TVDTPSLEERIQAQPDPEEALKAFAARQP----LGRLATPEEVAALAVYLASDESAYVTG 230
Query: 282 EHLTVDGG 289
+ +DGG
Sbjct: 231 TAVVIDGG 238
Score = 45.5 bits (108), Expect = 1e-05
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 14/90 (15%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSES--CQSVSKNKPLVIQ 61
GKV L+T A+ GIG A AL A+ A + T N E+L ++ +
Sbjct: 1 DGKVALITAAAQGIGRAIALAFAREGANVIATDINEEKLKELERGPGITTR--------V 52
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D+T +E + + K +++VL N A
Sbjct: 53 LDVTDKEQ----VAALAKEEGRIDVLFNCA 78
>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 = 100 bits (252), Expect = 4e-25
Identities = 75/272 (27%), Positives = 113/272 (41%), Gaps = 40/272 (14%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVE-QLNKVSESCQSVSKNKPLVIQAD 63
GK+ LVTGAS GIG AL L + A + ITGR + QL +E ++ K + ++ D
Sbjct: 3 GKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEA-RGGKCIPVRCD 61
Query: 64 LTSEEDTKRIIDTVVKHYQ-KLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
+ +++ + + + V + Q +L++LVNNA A I A + + NV
Sbjct: 62 HSDDDEVEALFERVAREQQGRLDILVNNA-YAAVQLILVGVAKPFWEEPPTIWDDINNVG 120
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+ S + PL+++A G IV +SS
Sbjct: 121 LRAHYACSVYAA----PLMVKA---------------------------GKGLIVIISST 149
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
GL V AY V KAA+D+ + A EL GV V S+ PG T L D +
Sbjct: 150 GGLEYLFNV-AYGVGKAAIDRMAADMAHELKPHGVAVVSLWPGFVRTELVLEMPEDDEG- 207
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASD 274
+KE A E + + LA+D
Sbjct: 208 ---SWHAKERDAFLNGETTEYSGRCVVALAAD 236
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 100 bits (250), Expect = 4e-25
Identities = 68/249 (27%), Positives = 112/249 (44%), Gaps = 56/249 (22%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M+ GKV L+TG S GIG A A L K+AIT R+ ++L + + + +K L +
Sbjct: 2 MSLKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAA--ELNNKGNVLGL 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
AD+ E D +R +D +V + L+VL+ NA G+G H A
Sbjct: 60 AADVRDEADVQRAVDAIVAAFGGLDVLIANA------GVG-----HFA-----------P 97
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHYQKLNVLVNNA 173
VE+L + E+ + +IDT +K + L
Sbjct: 98 VEEL-----------------------TPEEWRLVIDTNLTGAFYTIKA--AVPALKRGG 132
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
G I+N+SS+ G F G AY SK + F+ L+L G++V+++ PG T+ +
Sbjct: 133 GYIINISSLAGTNFFAGGAAYNASKFGLVGFSEAAMLDLRQYGIKVSTIMPGSVATHFNG 192
Query: 234 NSGIDQQAY 242
++ ++ A+
Sbjct: 193 HTPSEKDAW 201
>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 = 100 bits (251), Expect = 4e-25
Identities = 72/287 (25%), Positives = 117/287 (40%), Gaps = 41/287 (14%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
G V +VTG +SG+G AT L AK+ I V++ + + D
Sbjct: 1 KGLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGETVAK-----LGDNCRFVPVD 55
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+TSE+D K + + +L+++VN A GI A AK K ++E
Sbjct: 56 VTSEKDVKAALALAKAKFGRLDIVVNCA------GIAVA-----AKTYNKKGQQPHSLEL 104
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA-GNIVNVSSV 182
+ VI +L T +I K G I+N +SV
Sbjct: 105 FQR--------------VINVNLIG---TFNVIRLAAGAMGKNEPDQGGERGVIINTASV 147
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
G AY SK + T A +LA +G+RV ++ PG+ T L G+ ++
Sbjct: 148 AAFEGQIGQAAYSASKGGIVGMTLPIARDLAPQGIRVVTIAPGLFDTPLLA--GLPEKV- 204
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
++FL +K+ R+G+P E A + + + + GE + +DG
Sbjct: 205 RDFL--AKQVPFPSRLGDPAEYAHLVQHIIEN--PYLNGEVIRLDGA 247
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 100 bits (250), Expect = 4e-25
Identities = 80/265 (30%), Positives = 113/265 (42%), Gaps = 54/265 (20%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSV-SKNKPLVIQADLTSE 67
L+TGASSGIG ATAL AK LA+ R+ + L ++ +S K I DL++
Sbjct: 10 LITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELRSTGVKAAAYSI--DLSNP 67
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
E I +++ + +VL+NNA G A L ++ +
Sbjct: 68 EAIAPGIAELLEQFGCPDVLINNA--------GMAYTGPLLEMP---------LSDWQW- 109
Query: 128 SESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRS 187
VIQ +LTS + V+ + G I+NVSS+ +
Sbjct: 110 -------------VIQLNLTS---VFQCCSAVLPGMRA-----RGGGLIINVSSIAARNA 148
Query: 188 FPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLE 247
FP AYCVSKAA+ FT C A E S G+RV ++ G T L D + Q +
Sbjct: 149 FPQWGAYCVSKAALAAFTKCLAEEERSHGIRVCTITLGAVNTPLW-----DTETVQADFD 203
Query: 248 RSKETHALGRVGNPEEVAKAIAFLA 272
RS PE+VA+ I LA
Sbjct: 204 RSAMLS-------PEQVAQTILHLA 221
>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 = 99.7 bits (249), Expect = 5e-25
Identities = 64/249 (25%), Positives = 99/249 (39%), Gaps = 70/249 (28%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRN--------VEQLNKVSESCQSVSKNKPLVIQ 143
VTGA+ IG A A LA ++ + ++LN + S ++Q
Sbjct: 5 VTGAAKRIGRAIAEALAAEGYRVVVHYNRSEAEAQRLKDELNALRNSAV--------LVQ 56
Query: 144 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNA------------------------------ 173
ADL+ ++ + + + +VLVNNA
Sbjct: 57 ADLSDFAACADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGSEDAWAELFGINLKAPYLL 116
Query: 174 -------------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVN 220
G+I+N+ R G AYC+SKAA++ T ALELA +RVN
Sbjct: 117 IQAFARRLAGSRNGSIINIIDAMTDRPLTGYFAYCMSKAALEGLTRSAALELAPN-IRVN 175
Query: 221 SVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTT 280
+ PG+ L D + +N L + L R + EE+A A+ FL + + T
Sbjct: 176 GIAPGLILLPEDM----DAEYRENALRKV----PLKRRPSAEEIADAVIFLLDSN--YIT 225
Query: 281 GEHLTVDGG 289
G+ + VDGG
Sbjct: 226 GQIIKVDGG 234
>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 = 99.5 bits (248), Expect = 8e-25
Identities = 85/292 (29%), Positives = 126/292 (43%), Gaps = 54/292 (18%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSES------CQSVSKNKPL 58
GK++LVTG S GIG A + A++ I+ R E +E C ++
Sbjct: 6 GKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSAYGECIAIP----- 60
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
ADL+SEE + ++ V + +L+VLVNNA GA+ G A L+A
Sbjct: 61 ---ADLSSEEGIEALVARVAERSDRLDVLVNNA--GATWG---------APLEAFPESGW 106
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
V +N V PL+ A + E+ R+I N
Sbjct: 107 DKVMDIN-VKSVFFLTQALLPLLRAA--ATAENPARVI---------------------N 142
Query: 179 VSSVNGLR-SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGI 237
+ S+ G+ S +Y SKAAV Q T A ELA + + VN++ PG + +
Sbjct: 143 IGSIAGIVVSGLENYSYGASKAAVHQLTRKLAKELAGEHITVNAIAPGRFPSKMTAFLLN 202
Query: 238 DQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
D A E +++ LGR G PE++A LAS ++ TG + VDGG
Sbjct: 203 DPAAL----EAEEKSIPLGRWGRPEDMAGLAIMLASRAGAYLTGAVIPVDGG 250
>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 = 98.7 bits (246), Expect = 1e-24
Identities = 87/293 (29%), Positives = 131/293 (44%), Gaps = 55/293 (18%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK--NKPLV 59
+ GKV LVTGA++G+G A+ LA+ A + GR+ + SE+ Q V + L
Sbjct: 2 SLEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRS-----EPSETQQQVEALGRRFLS 56
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+ ADL+ E K ++D+ V+ + +++LVNNA I A A ++ D +
Sbjct: 57 LTADLSDIEAIKALVDSAVEEFGHIDILVNNAGI-----IRRADAEEFSEKDWDDVM--- 108
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
NV L V Q+ +K+ + Q G I+N+
Sbjct: 109 NV-NLKSVFFLTQAAAKH--FLKQG---------------------------RGGKIINI 138
Query: 180 SSVNGLRSFPG---VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG 236
+S + SF G V +Y SK AV T A E A+KG+ VN++ PG TN +
Sbjct: 139 AS---MLSFQGGIRVPSYTASKHAVAGLTKLLANEWAAKGINVNAIAPGYMATNNTQALR 195
Query: 237 IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
D+ LER GR G P+++ FLAS + + G L VDGG
Sbjct: 196 ADEDRNAAILERIPA----GRWGTPDDIGGPAVFLASSASDYVNGYTLAVDGG 244
>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 = 99.1 bits (247), Expect = 2e-24
Identities = 74/288 (25%), Positives = 119/288 (41%), Gaps = 42/288 (14%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
V +VTGAS GIG A A LA +AI + +Q +V + + QAD+
Sbjct: 3 VAIVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLAAGRRAIYF-QADIG 61
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
D + ++D + + +L+ LVNNA A G L D +AI R L
Sbjct: 62 ELSDHEALLDQAWEDFGRLDCLVNNAGI-AVRPRGDLLDLTEDSFDRLIAINLRGPFFLT 120
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
Q+V++ + + D +I+ V+S+N
Sbjct: 121 ------QAVARR--------MVEQPDRFDGPH----------------RSIIFVTSINAY 150
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG--IDQQAYQ 243
P YC+SKA + T A LA +G+ V+ + PG+ T++ D+
Sbjct: 151 LVSPNRGEYCISKAGLSMATRLLAYRLADEGIAVHEIRPGLIHTDMTAPVKEKYDELIAA 210
Query: 244 NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+ + R G PE++AKA+ LAS ++TG+ + +DGG
Sbjct: 211 GLV-------PIRRWGQPEDIAKAVRTLASGLLPYSTGQPINIDGGLS 251
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 98.7 bits (246), Expect = 2e-24
Identities = 82/297 (27%), Positives = 131/297 (44%), Gaps = 59/297 (19%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M F GKV L+TG + GIG A A + AK+A+ N + + + I
Sbjct: 3 MRFKGKVALITGGTRGIGRAIAEAFLREGAKVAVL------YNSAENEAKELREKGVFTI 56
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
+ D+ + + K+ + V K + +++VLVNNA GI ++L +
Sbjct: 57 KCDVGNRDQVKKSKEVVEKEFGRVDVLVNNA------GI-----MYLMPFE--------- 96
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIID-----TVVKHYQKLNVL-VNNAG 174
+ D EE ++I + Y+ L +L ++ G
Sbjct: 97 ----------------------EFD---EEKYNKMIKINLNGAIYTTYEFLPLLKLSKNG 131
Query: 175 NIVNVSSVNGL-RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
IVN++S G+ + G Y ++KA + T A EL G+RVN+V PG T++
Sbjct: 132 AIVNIASNAGIGTAAEGTTFYAITKAGIIILTRRLAFELGKYGIRVNAVAPGWVETDM-T 190
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
SG Q+ + E + L G PE++A + FLASDDA + TG+ + DGGR
Sbjct: 191 LSGKSQEEAEKLRELFRNKTVLKTTGKPEDIANIVLFLASDDARYITGQVIVADGGR 247
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 98.9 bits (247), Expect = 2e-24
Identities = 64/249 (25%), Positives = 98/249 (39%), Gaps = 57/249 (22%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGA+SGIG A A A++ I + + + + D+T ++
Sbjct: 11 LTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPAAI----AVSLDVTRQDS 66
Query: 152 TKRIIDTVVKHYQKLNVLVNNA-------------------------------------- 173
RI+ V+ + +++L NNA
Sbjct: 67 IDRIVAAAVERFGGIDILFNNAALFDMAPILDISRDSYDRLFAVNVKGLFFLMQAVARHM 126
Query: 174 ------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
G I+N++S G R V YC +KAAV +T AL L G+ VN++ PGV
Sbjct: 127 VEQGRGGKIINMASQAGRRGEALVSHYCATKAAVISYTQSAALALIRHGINVNAIAPGVV 186
Query: 228 LTNLHKNSGIDQQ--AYQNFLERSK-----ETHALGRVGNPEEVAKAIAFLASDDASFTT 280
T + +D Y+N K E LGR+G P+++ FLAS DA +
Sbjct: 187 DTPMW--DQVDALFARYENRPPGEKKRLVGEAVPLGRMGVPDDLTGMALFLASADADYIV 244
Query: 281 GEHLTVDGG 289
+ VDGG
Sbjct: 245 AQTYNVDGG 253
Score = 55.4 bits (134), Expect = 5e-09
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 4/91 (4%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GKV L+TGA+SGIG A A A++ I + + + +
Sbjct: 2 MRLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPAAI----AV 57
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D+T ++ RI+ V+ + +++L NNA
Sbjct: 58 SLDVTRQDSIDRIVAAAVERFGGIDILFNNA 88
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 98.5 bits (246), Expect = 3e-24
Identities = 77/305 (25%), Positives = 122/305 (40%), Gaps = 61/305 (20%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+N GK+I+VTG SSGIG A L A + ++ ++ +
Sbjct: 5 LNLQGKIIIVTGGSSGIGLAIVKELLANGANVVNA-----DIHGGDGQHENY-----QFV 54
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKL-DAKLAITGR 119
D++S E+ + +++ + +++ LVNNA GI L K K +
Sbjct: 55 PTDVSSAEEVNHTVAEIIEKFGRIDGLVNNA------GINIPRLLVDEKDPAGKYELNEA 108
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
+++ +++ K L+ QA V + K + G IVN+
Sbjct: 109 AFDKMFNINQ------KGVFLMSQA--------------VARQMVK-----QHDGVIVNM 143
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
SS GL G Y +KAA++ FT A EL +RV V PG+ + +G+
Sbjct: 144 SSEAGLEGSEGQSCYAATKAALNSFTRSWAKELGKHNIRVVGVAPGIL-----EATGLRT 198
Query: 240 QAYQNFLE--------------RSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLT 285
Y+ L T LGR G EVA + +L SD AS+ TG
Sbjct: 199 PEYEEALAYTRGITVEQLRAGYTKTSTIPLGRSGKLSEVADLVCYLLSDRASYITGVTTN 258
Query: 286 VDGGR 290
+ GG+
Sbjct: 259 IAGGK 263
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 97.5 bits (243), Expect = 3e-24
Identities = 81/289 (28%), Positives = 119/289 (41%), Gaps = 66/289 (22%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKP-LVIQADL 64
+ +LVTGA+ GIG A +L LA L ++ R+ + P + DL
Sbjct: 4 RTVLVTGATKGIGLALSLRLANLGHQVIGIARSA-------------IDDFPGELFACDL 50
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
E T + + + + ++ +VNN GI L L A + NV
Sbjct: 51 ADIEQTAATLAQINEIH-PVDAIVNNV------GIALPQPLGKIDLAALQDVYDLNVRAA 103
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
+V+++ K + G IVN+ S
Sbjct: 104 VQVTQAFLEGMKLRE---------------------------------QGRIVNICS--- 127
Query: 185 LRSFPGVL---AYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH-KNSGIDQQ 240
R+ G L +Y +K+A+ T ALELA G+ VN+V PG T L + + +
Sbjct: 128 -RAIFGALDRTSYSAAKSALVGCTRTWALELAEYGITVNAVAPGPIETELFRQTRPVGSE 186
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ L + + R+G PEEVA AIAFL SDDA F TG+ L VDGG
Sbjct: 187 EEKRVLA----SIPMRRLGTPEEVAAAIAFLLSDDAGFITGQVLGVDGG 231
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 98.0 bits (244), Expect = 8e-24
Identities = 70/244 (28%), Positives = 109/244 (44%), Gaps = 49/244 (20%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLN--KVSESCQSVSKNKPLVIQADLTSE 149
+TGA SGIG ATA+ A+ A +A+ E+ + +V + Q+ + K + + DL E
Sbjct: 60 ITGADSGIGRATAIAFAREGADIALNYLPEEEQDAAEVVQLIQAEGR-KAVALPGDLKDE 118
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNAG----------------------------------- 174
+++++ VK L++LVN AG
Sbjct: 119 AFCRQLVERAVKELGGLDILVNIAGKQTAVKDIADITTEQFDATFKTNVYAMFWLCKAAI 178
Query: 175 -------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
+I+N S+ + P +L Y +KAA+ FT A ++A KG+RVN+V PG
Sbjct: 179 PHLPPGASIINTGSIQSYQPSPTLLDYASTKAAIVAFTKALAKQVAEKGIRVNAVAPGPV 238
Query: 228 LTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVD 287
T L + G + +F ET + R G P E+A LAS ++S+ TGE V
Sbjct: 239 WTPLQPSGGQPPEKIPDF---GSET-PMKRPGQPVEMAPLYVLLASQESSYVTGEVFGVT 294
Query: 288 GGRH 291
GG
Sbjct: 295 GGLL 298
>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 = 96.4 bits (240), Expect = 1e-23
Identities = 73/289 (25%), Positives = 124/289 (42%), Gaps = 49/289 (16%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+V+LVTGAS G+GAA A A+ A++ + R+ E V+ + + IQAD+
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEAGE----RAIAIQADV 56
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGAS-SGIGAATALHLAKLDAKLAITGRNVEQ 123
+ + +I+ H+ ++ +VNNA+ T + D + + G
Sbjct: 57 RDRDQVQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEGAVKGA 116
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
LN ++QA V+ +++ +G ++N+ +
Sbjct: 117 LN---------------LLQA--------------VLPDFKE-----RGSGRVINIGT-- 140
Query: 184 GLRSFPGVL--AYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
L P V Y +KAA+ FT A EL G+ VN V+ G+ S +
Sbjct: 141 NLFQNPVVPYHDYTTAKAALLGFTRNMAKELGPYGITVNMVSGGLLKVTDA--SAATPKE 198
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+ + +T LG+V P+++A A+ F AS A TG++L VDGG
Sbjct: 199 VFDAIA---QTTPLGKVTTPQDIADAVLFFASPWARAVTGQNLVVDGGL 244
>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 = 96.0 bits (239), Expect = 2e-23
Identities = 70/286 (24%), Positives = 108/286 (37%), Gaps = 51/286 (17%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
++VTGA+ GIG A A HL + A + L + + + + D+
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIALDLPFVLLLEYGDPLR--------LTPLDVADA 52
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
+ + ++ + ++ LVN A L D + E
Sbjct: 53 AAVREVCSRLLAEHGPIDALVN-----------CAGVLRPGATDPL------STEDW--- 92
Query: 128 SESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRS 187
E +V+ ++ V H + G IV V+S
Sbjct: 93 -EQTFAVNVTGVF-------------NLLQAVAPHMKD-----RRTGAIVTVASNAAHVP 133
Query: 188 FPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ----QAYQ 243
+ AY SKAA+ + C LELA GVR N V+PG T T + + D+ Q
Sbjct: 134 RISMAAYGASKAALASLSKCLGLELAPYGVRCNVVSPGSTDTAMQRTLWHDEDGAAQVIA 193
Query: 244 NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
E+ + LG++ P ++A A+ FLASD A T L VDGG
Sbjct: 194 GVPEQFRLGIPLGKIAQPADIANAVLFLASDQAGHITMHDLVVDGG 239
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 95.7 bits (239), Expect = 2e-23
Identities = 77/290 (26%), Positives = 118/290 (40%), Gaps = 63/290 (21%)
Query: 12 GASSGIGAATALHLAKLDAKLAITGRNVE-QLNKVSESCQSVSKNKPL-VIQADLTSEED 69
+ I A A A+ A++ +T ++ V E ++K P VI D+TS+ED
Sbjct: 3 ADDNSIAWAIAKAAAEEGAEVVLTTWPPALRMGAVDE----LAKELPADVIPLDVTSDED 58
Query: 70 TKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSE 129
+ + V + K++ LV H + ++ ++
Sbjct: 59 IDELFEKVKEDGGKIDFLV-----------------HSIAMSPEIRKGKPYLD------- 94
Query: 130 SCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHYQKLNVLVNNAGNIVNVSSV 182
TS E + +D + K + L N G+IV +S +
Sbjct: 95 -----------------TSREGFLKALDISAYSFISLAKAAKPLM---NEGGSIVALSYI 134
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN-SGIDQQA 241
R FPG V+KAA++ A EL KG+RVN+++ G T T G D+
Sbjct: 135 AAERVFPGYGGMGVAKAALESLARYLAYELGRKGIRVNTISAGPTKTTAGSGIGGFDK-- 192
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+E ++E LGR + EEVA A AFL SD A TG+ L VDGG
Sbjct: 193 ---MVEYAEEMAPLGRNASAEEVANAAAFLLSDLARGITGQILYVDGGFS 239
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 95.5 bits (238), Expect = 2e-23
Identities = 85/298 (28%), Positives = 128/298 (42%), Gaps = 62/298 (20%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGRNVEQ-LNKVSESCQSV-SKNKPLVIQADLTS 66
+TGA+ G+G A A +A+ AK+ +T N L+ + + + D+T
Sbjct: 3 FITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEINAAHGEGVAFAAVQDVTD 62
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
E + ++ L+VLVNNA G+G+ A+ +LD R V +N
Sbjct: 63 EAQWQALLAQAADAMGGLSVLVNNA------GVGSFGAIEQIELD-----EWRRVMAIN- 110
Query: 127 VSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVV---KHYQKLNVLVNNA-GNIVNVSSV 182
++++ KH L L + +IVN+SSV
Sbjct: 111 -----------------------------VESIFLGCKH--ALPYLRASQPASIVNISSV 139
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKG--VRVNSVNPGVTLTNLHKNSGIDQQ 240
++ P AY SKAAV T AL+ A +G VR NS++P T GI
Sbjct: 140 AAFKAEPDYTAYNASKAAVASLTKSIALDCARRGLDVRCNSIHPTFIRT------GIVDP 193
Query: 241 AYQNFLERSKETH-----ALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
+Q E LGR+G P++VA A+ +LASD++ F TG L +DGG AM
Sbjct: 194 IFQRLGEEEATRKLARGVPLGRLGEPDDVAHAVLYLASDESRFVTGAELVIDGGICAM 251
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 94.3 bits (235), Expect = 5e-23
Identities = 76/297 (25%), Positives = 116/297 (39%), Gaps = 74/297 (24%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
F K +L+TGA+SGIG A A L + G + + +S + +
Sbjct: 1 QEFMTKTVLITGAASGIGLAQARAF--LAQGAQVYGVDKQDKPDLSGNFH--------FL 50
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
Q DL+ +D + + D V +++L N A GI LD
Sbjct: 51 QLDLS--DDLEPLFDWV----PSVDILCNTA------GI----------LDDY------- 81
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHY-QKLNVLVNN 172
KPL+ TS E+ + I DT + + Y ++ L
Sbjct: 82 -----------------KPLLD----TSLEEWQHIFDTNLTSTFLLTRAYLPQM--LERK 118
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
+G I+N+ S+ + G AY SK A+ FT AL+ A G++V + PG T +
Sbjct: 119 SGIIINMCSIASFVAGGGGAAYTASKHALAGFTKQLALDYAKDGIQVFGIAPGAVKTPMT 178
Query: 233 KNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
++ET R PEEVA+ FLAS A + G + +DGG
Sbjct: 179 AADFEPGGLAD---WVARETPI-KRWAEPEEVAELTLFLASGKADYMQGTIVPIDGG 231
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 94.6 bits (236), Expect = 6e-23
Identities = 73/298 (24%), Positives = 123/298 (41%), Gaps = 53/298 (17%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GKV++V+G G+G A+ A+ A + + R E+L++V+ + + + L +
Sbjct: 1 MLLKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDLGR-RALAV 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNA-VTGASSGIGAATALHLAKLDAKLAITGR 119
D+T E+ ++ ++ + +++ LVNNA + + A H R
Sbjct: 60 PTDITDEDQCANLVALALERFGRVDALVNNAFRVPSMKPLADADFAHW-----------R 108
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
V +LN + T R+ L + G+IV +
Sbjct: 109 AVIELNVLG-----------------------TLRLTQAFTPA------LAESGGSIVMI 139
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG----VTLTN----L 231
+S+ S P AY ++K A+ + A EL +G+RVNSV PG L
Sbjct: 140 NSMVLRHSQPKYGAYKMAKGALLAASQSLATELGPQGIRVNSVAPGYIWGDPLKGYFRHQ 199
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
G+ + + L R+ +EVA A+ FLASD A TG+ L V+ G
Sbjct: 200 AGKYGVTVEQ---IYAETAANSDLKRLPTDDEVASAVLFLASDLARAITGQTLDVNCG 254
>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 = 94.5 bits (235), Expect = 7e-23
Identities = 60/242 (24%), Positives = 90/242 (37%), Gaps = 44/242 (18%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTG S GIG + AK+ R + + D+T EED
Sbjct: 14 VTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGPGSCKFVPCDVTKEED 73
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
K +I V+ + +++ LVNNAG
Sbjct: 74 IKTLISVTVERFGRIDCLVNNAGWHPPHQTTDETSAQEFRDLLNLNLISYFLASKYALPH 133
Query: 175 ------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
NI+N+SS+ G Y +K A+ T A++ + GVRVN ++PG
Sbjct: 134 LRKSQGNIINLSSLVGSIGQKQAAPYVATKGAITAMTKALAVDESRYGVRVNCISPGNIW 193
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T L + ++ + LGR+G E A FLA+ +A+F TG L + G
Sbjct: 194 TPLWEELAAQTPDTLATIKEGELAQLLGRMGTEAESGLAALFLAA-EATFCTGIDLLLSG 252
Query: 289 GR 290
G
Sbjct: 253 GA 254
Score = 57.9 bits (140), Expect = 8e-10
Identities = 25/89 (28%), Positives = 39/89 (43%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
+ KV++VTG S GIG + AK+ R + +
Sbjct: 7 YADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGPGSCKFVPC 66
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D+T EED K +I V+ + +++ LVNNA
Sbjct: 67 DVTKEEDIKTLISVTVERFGRIDCLVNNA 95
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 94.1 bits (234), Expect = 9e-23
Identities = 85/291 (29%), Positives = 129/291 (44%), Gaps = 50/291 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ TG+ LVTG+S GIG A A LA+ A++ + GR+ +L +ES K + L
Sbjct: 7 DLTGRRALVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESL----KGQGLSAH 62
Query: 62 A---DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
A D+T + + ID +++LVNNA G+ T L DA +
Sbjct: 63 ALAFDVTDHDAVRAAIDAFEAEIGPIDILVNNA------GMQFRTPLEDFPADAFERLLR 116
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
N+ + V ++ +H ++ AG I+N
Sbjct: 117 TNISSVFYVGQAV----------------------------ARH-----MIARGAGKIIN 143
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
++SV + PG+ Y +K AV T A + A G++ N++ PG T L+ + +
Sbjct: 144 IASVQSALARPGIAPYTATKGAVGNLTKGMATDWAKHGLQCNAIAPGYFDTPLNA-ALVA 202
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ +LE K T A GR G EE+ A FLASD +SF G L VDGG
Sbjct: 203 DPEFSAWLE--KRTPA-GRWGKVEELVGACVFLASDASSFVNGHVLYVDGG 250
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 94.1 bits (234), Expect = 9e-23
Identities = 84/291 (28%), Positives = 127/291 (43%), Gaps = 41/291 (14%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+N GKV LVTGASSG+GA A LA+ AK+ + R VE+L ++ ++ V+
Sbjct: 5 INLEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELRAEIEA-EGGAAHVV 63
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+T + K + +++LVNN SG+ L + N
Sbjct: 64 SLDVTDYQSIKAAVAHAETEAGTIDILVNN------SGVSTTQKLVDVTPADFDFVFDTN 117
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
A ++E KR+I + N G I+N++
Sbjct: 118 TRG--------------------AFFVAQEVAKRMI---ARAKGAGNTKP--GGRIINIA 152
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL-HKNSGIDQ 239
SV GLR P + YC+SKAAV T ALE G+ VN++ PG T + H + +Q
Sbjct: 153 SVAGLRVLPQIGLYCMSKAAVVHMTRAMALEWGRHGINVNAICPGYIDTEINHHHWETEQ 212
Query: 240 -QAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
Q + L R RVG PE++ + LA+D++ F G ++ D G
Sbjct: 213 GQKLVSMLPRK-------RVGKPEDLDGLLLLLAADESQFINGAIISADDG 256
>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 = 94.5 bits (235), Expect = 1e-22
Identities = 81/314 (25%), Positives = 126/314 (40%), Gaps = 82/314 (26%)
Query: 5 GKVILVTGASSGIGAATALHLAK-----------------------LDAKLAITGRNVEQ 41
GKV +TGA+ G G A A+ LA L T R VE
Sbjct: 3 GKVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLVEA 62
Query: 42 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGA 101
L + K L +AD+ + + +++ V+ + +L+V+V NA G
Sbjct: 63 LGR-----------KVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANA---GVLSYGR 108
Query: 102 ATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK 161
+ L + D L I L V +C++V P +I+
Sbjct: 109 SWELSEEQWDTVLDI------NLTGVWRTCKAVV---PHMIER----------------- 142
Query: 162 HYQKLNVLVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNS 221
N G+I+ SSV GL++ PG+ Y +K + T A ELA G+RVNS
Sbjct: 143 ---------GNGGSIIITSSVAGLKALPGLAHYAAAKHGLVGLTKTLANELAEYGIRVNS 193
Query: 222 VNPGVTLTNLHKNSGIDQQAYQNFLERSKETHA------LGRVGNPEEVAKAIAFLASDD 275
++P T + + + FL+ + A + PE+VA A+ +LASD+
Sbjct: 194 IHPYSVDTPMIAP----EAMREAFLKYPEAARAFMPALPVSGFVPPEDVADAVLWLASDE 249
Query: 276 ASFTTGEHLTVDGG 289
+ + TG L VD G
Sbjct: 250 SRYITGHQLPVDAG 263
>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 = 93.7 bits (233), Expect = 1e-22
Identities = 70/275 (25%), Positives = 117/275 (42%), Gaps = 47/275 (17%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
+ G+V LVTGAS GIGAA A L + K+ R V+++ ++ CQS Q
Sbjct: 4 WRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGYPTLFPYQC 63
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
DL++EE + + +Q ++V +NNA G+ L K + + NV
Sbjct: 64 DLSNEEQILSMFSAIRTQHQGVDVCINNA------GLARPEPLLSGKTEGWKEMFDVNVL 117
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
L+ C T E + ++ NV + G+I+N++S+
Sbjct: 118 ALS----IC---------------TRE---------AYQSMKERNV---DDGHIININSM 146
Query: 183 NGLRSFPGVLA--YCVSKAAVDQFTSCTALEL--ASKGVRVNSVNPGVTLTNLHKNSGID 238
+G R P + Y +K AV T EL A +R S++PG+ +
Sbjct: 147 SGHRVPPVSVFHFYAATKHAVTALTEGLRQELREAKTHIRATSISPGLV------ETEFA 200
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLAS 273
+ + N E++ T+ PE+VA A+ ++ S
Sbjct: 201 FKLHDNDPEKAAATYESIPCLKPEDVANAVLYVLS 235
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 93.8 bits (233), Expect = 1e-22
Identities = 75/285 (26%), Positives = 120/285 (42%), Gaps = 46/285 (16%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GK ++TGA +GIG A+ A A + ++ N + N V + Q + + + D+
Sbjct: 11 GKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLG-GQAFACRCDI 69
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
TSE++ + D + K+++LVNNA G D +A R +L
Sbjct: 70 TSEQELSALADFALSKLGKVDILVNNAGGGGPK-----------PFDMPMA-DFRRAYEL 117
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
N S + V +K N G I+ ++S+
Sbjct: 118 NVFS-----------------------FFHLSQLVAPEMEK-----NGGGVILTITSMAA 149
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+ +Y SKAA A +L K +RVN + PG LT+ K S I + Q
Sbjct: 150 ENKNINMTSYASSKAAASHLVRNMAFDLGEKNIRVNGIAPGAILTDALK-SVITPEIEQK 208
Query: 245 FLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
L+ + + R+G P+++A A FL S AS+ +G+ LTV GG
Sbjct: 209 MLQHT----PIRRLGQPQDIANAALFLCSPAASWVSGQILTVSGG 249
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 94.1 bits (234), Expect = 1e-22
Identities = 84/295 (28%), Positives = 126/295 (42%), Gaps = 53/295 (17%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
++F + LVTG SGIG A L A + I GRN ++L +E +++ +
Sbjct: 3 LSFQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGAVRY 62
Query: 61 Q-ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
+ AD+T E+ R +D + +L+ +V+ A G S IG T + R
Sbjct: 63 EPADVTDEDQVARAVDAATAWHGRLHGVVHCA--GGSETIGPITQIDSDAW--------R 112
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT--VVKHYQKLNVLVNNAGNIV 177
LN + T V+KH + ++ G+ V
Sbjct: 113 RTVDLN-----------------------------VNGTMYVLKHAAR-ELVRGGGGSFV 142
Query: 178 NVSSV---NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
+SS+ N R F AY V+K+AVD A EL VRVNS+ PG+ T+L
Sbjct: 143 GISSIAASNTHRWFG---AYGVTKSAVDHLMKLAADELGPSWVRVNSIRPGLIRTDLVAP 199
Query: 235 SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ ++ + L RVG E+VA FL SD AS+ TG+ + VDGG
Sbjct: 200 ITESPELSADYRACT----PLPRVGEVEDVANLAMFLLSDAASWITGQVINVDGG 250
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 93.6 bits (232), Expect = 2e-22
Identities = 86/303 (28%), Positives = 136/303 (44%), Gaps = 64/303 (21%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ GK L+TGAS+GIG AL + A++AI R+++ L K+++ + K + +
Sbjct: 6 DLHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTSG-GKVVPVC 64
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D++ + ++D V +++ V NA GI T + LD L
Sbjct: 65 CDVSQHQQVTSMLDQVTAELGGIDIAVCNA------GIITVTPM----LDMPL------- 107
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E+ ++ + V LT++ K ++ G I+N +S
Sbjct: 108 EEFQRLQNTN---------VTGVFLTAQAAAKAMVKQ------------GQGGVIINTAS 146
Query: 182 VNG-LRSFPG-VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
++G + + P V YC SKAAV T A+ELA +RVNSV+PG LT L
Sbjct: 147 MSGHIINVPQQVSHYCASKAAVIHLTKAMAVELAPHKIRVNSVSPGYILTEL-------- 198
Query: 240 QAYQNFLERSKETHA-------LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHA 292
+E E LGR+G PEE+A +LAS+ +S+ TG + +DGG
Sbjct: 199 ------VEPYTEYQPLWEPKIPLGRLGRPEELAGLYLYLASEASSYMTGSDIVIDGGY-- 250
Query: 293 MCP 295
CP
Sbjct: 251 TCP 253
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase (ENR),
divergent SDR. This bacterial subgroup of ENRs includes
Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the typical
Gly-rich NAD-binding pattern. Such so-called divergent
SDRs have a GXXXXXSXA NAD-binding motif and a YXXMXXXK
(or YXXXMXXXK) active site motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 93.4 bits (233), Expect = 2e-22
Identities = 81/298 (27%), Positives = 125/298 (41%), Gaps = 58/298 (19%)
Query: 5 GKVILVTGASS--GIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GK IL+TG ++ I A L + A+LA T + +V + + + LV+
Sbjct: 1 GKRILITGIANDRSIAWGIAKALHEAGAELAFTYQPEALRKRVEKLAERL-GESALVLPC 59
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D++++E+ K + V K + KL+ LV H K+ + G ++
Sbjct: 60 DVSNDEEIKELFAEVKKDWGKLDGLV-----------------HSIAFAPKVQLKGPFLD 102
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIID-------TVVKHYQKLNVLVNNAGN 175
TS + + +D ++ K + N G+
Sbjct: 103 ------------------------TSRKGFLKALDISAYSLVSLAKAALPIM---NPGGS 135
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS 235
IV +S + R PG V+KAA++ A EL KG+RVN+++ G T S
Sbjct: 136 IVTLSYLGSERVVPGYNVMGVAKAALESSVRYLAYELGRKGIRVNAISAGPIKTL--AAS 193
Query: 236 GIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
GI + LE S++ LGR EEV AFL SD +S TGE + VDGG H M
Sbjct: 194 GITG--FDKMLEYSEQRAPLGRNVTAEEVGNTAAFLLSDLSSGITGEIIYVDGGYHIM 249
>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 = 93.0 bits (231), Expect = 2e-22
Identities = 72/285 (25%), Positives = 114/285 (40%), Gaps = 50/285 (17%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV +VTG GIG L + K+ + E+ +E+ + D+
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEA----EGPNLFFVHGDV 56
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
E K ++ +++ +++VLVNNA G+ G ++L L + D L
Sbjct: 57 ADETLVKFVVYAMLEKLGRIDVLVNNAARGS---KGILSSLLLEEWDRIL---------- 103
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
SV+ P + + +E L+ N G I+N++S
Sbjct: 104 --------SVNLTGPYEL-SRYCRDE------------------LIKNKGRIINIASTRA 136
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+S P AY SK + T A+ L +RVN ++PG T + +
Sbjct: 137 FQSEPDSEAYAASKGGLVALTHALAMSL-GPDIRVNCISPGWINTTEQQ-----EFTAAP 190
Query: 245 FLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ H GRVG P+++A + FL DA F TGE VDGG
Sbjct: 191 LTQEDHAQHPAGRVGTPKDIANLVLFLCQQDAGFITGETFIVDGG 235
>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 = 92.6 bits (230), Expect = 3e-22
Identities = 84/292 (28%), Positives = 126/292 (43%), Gaps = 67/292 (22%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
GKV LVTGASSGIG ATA LA A +AI R V++L +++ ++ K LV++ D
Sbjct: 2 QGKVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEA-EGGKALVLELD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+T E+ ++ V+ +L++LVNNA GI
Sbjct: 61 VTDEQQVDAAVERTVEALGRLDILVNNA------GIMLLGP------------------- 95
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT------VVKHYQKLNVLVNNAGNIV 177
V AD T D R+IDT H + L+ N G IV
Sbjct: 96 -----------------VEDADTT---DWTRMIDTNLLGLMYTTHAALPHHLLRNKGTIV 135
Query: 178 NVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL--HKNS 235
N+SSV G + Y +K V+ F+ E+ +GVRV + PG T L H
Sbjct: 136 NISSVAGRVAVRNSAVYNATKFGVNAFSEGLRQEVTERGVRVVVIEPGTVDTELRDHITH 195
Query: 236 GIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVD 287
I ++AY+ + ++ A E++A A+ + + T H+TV+
Sbjct: 196 TITKEAYEERISTIRKLQA-------EDIAAAVRY------AVTAPHHVTVN 234
>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 = 91.6 bits (228), Expect = 4e-22
Identities = 60/243 (24%), Positives = 88/243 (36%), Gaps = 56/243 (23%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLV- 59
M TG +L+TG +SGIG A A + + ITGR E+L K P +
Sbjct: 1 MKLTGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREERL-------AEAKKELPNIH 53
Query: 60 -IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIG-----AATALHLAKLDAK 113
I D+ E + + + ++ Y L++L+NNA GI A L K D +
Sbjct: 54 TIVLDVGDAESVEALAEALLSEYPNLDILINNA------GIQRPIDLRDPASDLDKADTE 107
Query: 114 LAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 173
+ +L R+I + H +K
Sbjct: 108 IDT----------------------------NLIG---PIRLIKAFLPHLKK-----QPE 131
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
IVNVSS YC +KAA+ +T +L GV V + P T LH+
Sbjct: 132 ATIVNVSSGLAFVPMAANPVYCATKAALHSYTLALRHQLKDTGVEVVEIVPPAVDTELHE 191
Query: 234 NSG 236
Sbjct: 192 ERR 194
>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 = 92.3 bits (230), Expect = 5e-22
Identities = 63/244 (25%), Positives = 97/244 (39%), Gaps = 70/244 (28%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQADLTSEE 150
+TGA+SGIG TA LAK A + I RN E+ + + + + N + VIQ DL+S
Sbjct: 6 ITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNAKVEVIQLDLSSLA 65
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG------------------------------------ 174
++ + + + +L++L+NNAG
Sbjct: 66 SVRQFAEEFLARFPRLDILINNAGIMAPPRRLTKDGFELQFAVNYLGHFLLTNLLLPVLK 125
Query: 175 -----NIVNVSSV--------------NGLRSFPGVLAYCVSKAAVDQFTSCTALELASK 215
IVNVSS+ + + AY SK A FT A L
Sbjct: 126 ASAPSRIVNVSSIAHRAGPIDFNDLDLENNKEYSPYKAYGQSKLANILFTRELARRLEGT 185
Query: 216 GVRVNSVNPGVTLTNLHKNSGIDQQAY---QNFLERSKETHALGRVGNPEEVAKAIAFLA 272
GV VN+++PGV T L + +G Y + FL++S PE+ A+ + A
Sbjct: 186 GVTVNALHPGVVRTELLRRNGSFFLLYKLLRPFLKKS-----------PEQGAQTALYAA 234
Query: 273 SDDA 276
+
Sbjct: 235 TSPE 238
Score = 75.0 bits (185), Expect = 1e-15
Identities = 32/88 (36%), Positives = 53/88 (60%), Gaps = 1/88 (1%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQAD 63
GKV+++TGA+SGIG TA LAK A + I RN E+ + + + + N + VIQ D
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNAKVEVIQLD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
L+S ++ + + + +L++L+NNA
Sbjct: 61 LSSLASVRQFAEEFLARFPRLDILINNA 88
>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 = 1e-21
Identities = 83/289 (28%), Positives = 120/289 (41%), Gaps = 43/289 (14%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
+V LVTGA+SGIG A A L K ++ + R E L + + D+
Sbjct: 4 EVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELREAGVEADGRT-CDVR 62
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
S + + ++ V Y ++VLVNNA SG GA A+L +L L+
Sbjct: 63 SVPEIEALVAAAVARYGPIDVLVNNA---GRSGGGA-----TAELADEL--------WLD 106
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
V + V + V++A E T RII N++S G
Sbjct: 107 VVETNLTGVFRVTKEVLKAGGMLERGTGRII---------------------NIASTGGK 145
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN-----SGIDQQ 240
+ Y SK V FT LELA G+ VN+V PG T + + + I +
Sbjct: 146 QGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAVCPGFVETPMAASVREHYADIWEV 205
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + +R LGR PEEVA +A+L D A+ T + L V GG
Sbjct: 206 STEEAFDRITARVPLGRYVTPEEVAGMVAYLIGDGAAAVTAQALNVCGG 254
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 91.0 bits (226), Expect = 1e-21
Identities = 77/298 (25%), Positives = 112/298 (37%), Gaps = 74/298 (24%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAIT----GRNVEQLNKVSESCQSVSKNK 56
FTGK +LV G S GIGAA A + T E+L + + +
Sbjct: 2 GAFTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAGSKDAAERLAQETGA-------- 53
Query: 57 PLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAI 116
A T D +ID V + L++LV NA GI
Sbjct: 54 ----TAVQTDSADRDAVIDVV-RKSGALDILVVNA------GIAVF-------------- 88
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNV----LVNN 172
L + AD D R+ + +V +
Sbjct: 89 --------------------GDALELDAD-----DIDRLFKINIHAPYHASVEAARQMPE 123
Query: 173 AGNIVNVSSVNGLR-SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
G I+ + SVNG R G+ AY SK+A+ A + +G+ +N V PG T+
Sbjct: 124 GGRIIIIGSVNGDRMPVAGMAAYAASKSALQGMARGLARDFGPRGITINVVQPGPIDTDA 183
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ +G + +F+ A+ R G PEEVA +A+LA +ASF TG T+DG
Sbjct: 184 NPANGPMKDMMHSFM-------AIKRHGRPEEVAGMVAWLAGPEASFVTGAMHTIDGA 234
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 90.5 bits (224), Expect = 2e-21
Identities = 83/290 (28%), Positives = 136/290 (46%), Gaps = 49/290 (16%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKL-AITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
+ ++ VTG GIG + L K K+ A G N + K E +++ + + +
Sbjct: 2 SQRIAYVTGGMGGIGTSICQRLHKDGFKVVAGCGPNSPRRVKWLEDQKALGFDF-IASEG 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
++ + TK D V +++VLVNNA IT R+V
Sbjct: 61 NVGDWDSTKAAFDKVKAEVGEIDVLVNNA-----------------------GIT-RDVV 96
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEED-TKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E +V I +LTS + TK++ID +V+ G I+N+SS
Sbjct: 97 FRKMTREDWTAV-------IDTNLTSLFNVTKQVIDGMVER---------GWGRIINISS 140
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
VNG + G Y +KA + FT A E+A+KGV VN+V+PG T++ K
Sbjct: 141 VNGQKGQFGQTNYSTAKAGIHGFTMSLAQEVATKGVTVNTVSPGYIGTDMVK------AI 194
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
+ LE+ T + R+G+P+E+ +A+LAS+++ F+TG +++GG H
Sbjct: 195 RPDVLEKIVATIPVRRLGSPDEIGSIVAWLASEESGFSTGADFSLNGGLH 244
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 90.2 bits (224), Expect = 3e-21
Identities = 75/289 (25%), Positives = 117/289 (40%), Gaps = 45/289 (15%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
F KV +VTGA+ GIG A A LA+ A + + N E +V++ + +
Sbjct: 2 GRFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQI-VADGGTAIAV 60
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
Q D++ + K + D V + ++ LVNNA KLD + +
Sbjct: 61 QVDVSDPDSAKAMADATVSAFGGIDYLVNNAAIYGG-----------MKLDLLITVPWDY 109
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
++ SV+ + LV V KH K G IVN S
Sbjct: 110 YKKF-------MSVNLDGALVC-------------TRAVYKHMAK-----RGGGAIVNQS 144
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S ++ Y ++K ++ T A EL +RVN++ PG T +
Sbjct: 145 STA---AWLYSNFYGLAKVGLNGLTQQLARELGGMNIRVNAIAPGPIDTEATRTV----- 196
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ F+ + L R+G PE++ FL SD+AS+ TG+ VDGG
Sbjct: 197 TPKEFVADMVKGIPLSRMGTPEDLVGMCLFLLSDEASWITGQIFNVDGG 245
>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 = 89.7 bits (223), Expect = 3e-21
Identities = 69/281 (24%), Positives = 108/281 (38%), Gaps = 77/281 (27%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
V+++TGASSGIG ATAL A+ AK+ + R+ E L++++ + + + + AD+
Sbjct: 2 VVVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRE-LGGEAIAVVADVAD 60
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
+R DT V+ + +++ VNNA + GR +
Sbjct: 61 AAQVERAADTAVERFGRIDTWVNNAGVA---------------------VFGRFED---- 95
Query: 127 VSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNVLVNNAGN 175
+ E+ +R+ D + H ++ G
Sbjct: 96 --------------------VTPEEFRRVFDVNYLGHVYGTLAALPHLRR-----RGGGA 130
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKG--VRVNSVNPGVTLT--NL 231
++NV S+ G RS P AY SK AV FT ELA G + V V P T
Sbjct: 131 LINVGSLLGYRSAPLQAAYSASKHAVRGFTESLRAELAHDGAPISVTLVQPTAMNTPFFG 190
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLA 272
H S + K+ + PE VA+AI A
Sbjct: 191 HARSYMG-----------KKPKPPPPIYQPERVAEAIVRAA 220
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 90.0 bits (224), Expect = 4e-21
Identities = 75/271 (27%), Positives = 120/271 (44%), Gaps = 57/271 (21%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M+ K +L+TGAS GIG A A LA A+L + GRN E+L ++ +++ +V
Sbjct: 1 MDLKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPYPGRHRWVV- 59
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
ADLTSE + ++ + +NVL+NNA H A L+ ++
Sbjct: 60 -ADLTSEAGREAVLA-RAREMGGINVLINNAGVN-----------HFALLED------QD 100
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSE-EDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
E + + ++ +LT+ + T+ ++ + + +VNV
Sbjct: 101 PEAIER--------------LLALNLTAPMQLTRALLPLLRA---------QPSAMVVNV 137
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
S G +PG +YC SK A+ F+ ELA GVRV + P T T + NS Q
Sbjct: 138 GSTFGSIGYPGYASYCASKFALRGFSEALRRELADTGVRVLYLAPRATRTAM--NSEAVQ 195
Query: 240 QAYQNFLERSKETHALG-RVGNPEEVAKAIA 269
+ ALG + +PE+VA A+
Sbjct: 196 ALNR----------ALGNAMDDPEDVAAAVL 216
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 88.9 bits (221), Expect = 8e-21
Identities = 68/249 (27%), Positives = 93/249 (37%), Gaps = 59/249 (23%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGAS GIGAA A A L + R+ + L ++ ++ V DL+S E
Sbjct: 12 ITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVDVAVHALDLSSPEA 71
Query: 152 TKRIIDTVVKHYQKLNVLVNNAGN------------------------------------ 175
+ + +++LVNNAG
Sbjct: 72 ----REQLAAEAGDIDILVNNAGAIPGGGLDDVDDAAWRAGWELKVFGYIDLTRLAYPRM 127
Query: 176 -------IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
IVNV G + AA+ FT + GVRV VNPG
Sbjct: 128 KARGSGVIVNVIGAAGENPDADYICGSAGNAALMAFTRALGGKSLDDGVRVVGVNPGPVA 187
Query: 229 TN----LHKNSGI----DQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTT 280
T+ L K D+ +Q L LGR PEEVA +AFLAS + +T+
Sbjct: 188 TDRMLTLLKGRARAELGDESRWQELLAG----LPLGRPATPEEVADLVAFLASPRSGYTS 243
Query: 281 GEHLTVDGG 289
G +TVDGG
Sbjct: 244 GTVVTVDGG 252
Score = 57.7 bits (140), Expect = 9e-10
Identities = 27/91 (29%), Positives = 44/91 (48%), Gaps = 4/91 (4%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
++ GK +L+TGAS GIGAA A A L + R+ + L ++ ++ V
Sbjct: 3 LHLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVDVAVH 62
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
DL+S E + + +++LVNNA
Sbjct: 63 ALDLSSPEA----REQLAAEAGDIDILVNNA 89
>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 = 88.8 bits (220), Expect = 8e-21
Identities = 66/241 (27%), Positives = 93/241 (38%), Gaps = 44/241 (18%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTG GIG AT A+ AK+A+ N E KV+ ++ D+T +
Sbjct: 8 VTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRA-KGGNAQAFACDITDRDS 66
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
+ + ++VLVNNAG
Sbjct: 67 VDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWERLIAINLTGALHMHHAVLPGM 126
Query: 175 ------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
IVN++S G Y K + F+ A E A G+ VN V PG T
Sbjct: 127 VERGAGRIVNIASDAARVGSSGEAVYAACKGGLVAFSKTMAREHARHGITVNVVCPGPTD 186
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T L + + + E LGR+G P+++ AI F +SDDASF TG+ L+V G
Sbjct: 187 TALLDDICGGAENPEKLREAFTRAIPLGRLGQPDDLPGAILFFSSDDASFITGQVLSVSG 246
Query: 289 G 289
G
Sbjct: 247 G 247
Score = 46.1 bits (109), Expect = 7e-06
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 1/87 (1%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
K +VTG GIG AT A+ AK+A+ N E KV+ ++ D+
Sbjct: 3 DKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRA-KGGNAQAFACDI 61
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNA 91
T + + + ++VLVNNA
Sbjct: 62 TDRDSVDTAVAAAEQALGPVDVLVNNA 88
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 88.7 bits (220), Expect = 1e-20
Identities = 79/297 (26%), Positives = 118/297 (39%), Gaps = 58/297 (19%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV LVTG ++GIG + K AK+ I + V +S + D+
Sbjct: 18 GKVALVTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQNVCDSLGG--EPNVCFFHCDV 75
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T E+D R +D V + L+++VNNA +TG +
Sbjct: 76 TVEDDVSRAVDFTVDKFGTLDIMVNNA-----------------------GLTGPPCPDI 112
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVV-------KHYQKLNVLVNNAGNIV 177
V S + +++ D V KH ++ ++ G+IV
Sbjct: 113 RNVELS--------------------EFEKVFDVNVKGVFLGMKHAARI-MIPLKKGSIV 151
Query: 178 NVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL---HKN 234
++ SV G AY SK AV T A EL G+RVN V+P T L H
Sbjct: 152 SLCSVASAIGGLGPHAYTGSKHAVLGLTRSVAAELGKHGIRVNCVSPYAVPTALALAHLP 211
Query: 235 SGI-DQQAYQNFLE-RSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ A F K + G ++VA A+ FLASD+A + +G +L +DGG
Sbjct: 212 EDERTEDALAGFRAFAGKNANLKGVELTVDDVANAVLFLASDEARYISGLNLMIDGG 268
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 87.1 bits (216), Expect = 4e-20
Identities = 80/289 (27%), Positives = 123/289 (42%), Gaps = 53/289 (18%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
G+V ++TG SGIG ATA LA A + + + E ++ L + D+
Sbjct: 7 GRVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEVGG------LFVPTDV 60
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T E+ + DT + Y +++ NNA GI D + TG ++
Sbjct: 61 TDEDAVNALFDTAAETYGSVDIAFNNA------GISPPE-------DDSILNTG--LDAW 105
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS-VN 183
+V + +LTS + H + G+I+N +S V
Sbjct: 106 QRVQD--------------VNLTS---VYLCCKAALPHMVR-----QGKGSIINTASFVA 143
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
+ S ++Y SK V + ++ A +G+RVN++ PG T L Q+ +
Sbjct: 144 VMGSATSQISYTASKGGVLAMSRELGVQFARQGIRVNALCPGPVNTPLL------QELFA 197
Query: 244 NFLERSKE--THA-LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
ER+ H +GR PEE+A A+AFLASDDASF T VDGG
Sbjct: 198 KDPERAARRLVHVPMGRFAEPEEIAAAVAFLASDDASFITASTFLVDGG 246
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 87.1 bits (216), Expect = 4e-20
Identities = 71/293 (24%), Positives = 108/293 (36%), Gaps = 60/293 (20%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
T + LVTGA+ GIG A A ++ + L + ++ + + + D
Sbjct: 1 TKRTALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFA---DALGDARFVPVACD 57
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
LT + ++VLV NA GAA A L A +
Sbjct: 58 LTDAASLAAALANAAAERGPVDVLVANA--------GAARAASLHDTTP--ASWRAD--- 104
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVN 183
+L + + +L + G +VN+ SVN
Sbjct: 105 ------------------NALNLEAAYLCVEAVLE--------GMLKRSRGAVVNIGSVN 138
Query: 184 GLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQ 243
G+ + G AY +KA + +T A+E G+R N+V PG T QA++
Sbjct: 139 GMAAL-GHPAYSAAKAGLIHYTKLLAVEYGRFGIRANAVAPGTVKT----------QAWE 187
Query: 244 -------NFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
E K+ + L P++VA A+ FLAS A TG L VDGG
Sbjct: 188 ARVAANPQVFEELKKWYPLQDFATPDDVANAVLFLASPAARAITGVCLPVDGG 240
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 86.6 bits (214), Expect = 5e-20
Identities = 77/297 (25%), Positives = 127/297 (42%), Gaps = 70/297 (23%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK------NKPL 58
GKV +VTG + GIG A + LA+ AK+ I N E+ +++ +
Sbjct: 6 GKVAIVTGGAKGIGKAITVALAQEGAKVVI------NYNSSKEAAENLVNELGKEGHDVY 59
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
+QAD++ ED R+++ V H+ K+++LVNNA GI
Sbjct: 60 AVQADVSKVEDANRLVEEAVNHFGKVDILVNNA------GI----------------TRD 97
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLN------VLVNN 172
R ++LN ED +R+ID + +
Sbjct: 98 RTFKKLN-----------------------REDWERVIDVNLSSVFNTTSAVLPYITEAE 134
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
G I+++SS+ G G Y +KA + FT ALELA V VN++ PG T +
Sbjct: 135 EGRIISISSIIGQAGGFGQTNYSAAKAGMLGFTKSLALELAKTNVTVNAICPGFIDTEM- 193
Query: 233 KNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + ++ Q + + + R G +E+AK + +L D A + TG+ L ++GG
Sbjct: 194 -VAEVPEEVRQKIVAKIPKK----RFGQADEIAKGVVYLCRDGA-YITGQQLNINGG 244
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 89.3 bits (222), Expect = 6e-20
Identities = 74/279 (26%), Positives = 118/279 (42%), Gaps = 63/279 (22%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
F+GK+++VTGA SGIG TAL A+ A++ + + + +E ++ + +
Sbjct: 313 FSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRA-AGAVAHAYRV 371
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D++ + + + V + +++VNNA GIG A LD
Sbjct: 372 DVSDADAMEAFAEWVRAEHGVPDIVVNNA------GIGMAGGF----LD----------- 410
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT----VV---KHYQKLNVLVNNAGN 175
TS ED R++D V+ + + + V G+
Sbjct: 411 ------------------------TSAEDWDRVLDVNLWGVIHGCRLFGRQMVERGTGGH 446
Query: 176 IVNVSSVNG---LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
IVNV+S RS P AY SKAAV + C ELA+ G+ V ++ PG TN+
Sbjct: 447 IVNVASAAAYAPSRSLP---AYATSKAAVLMLSECLRAELAAAGIGVTAICPGFVDTNIV 503
Query: 233 KN---SGIDQQAYQNFLERSKETHALGRVGNPEEVAKAI 268
+G D + R+ + + G PE+VAKAI
Sbjct: 504 ATTRFAGADAEDEARRRGRADKLYQRRGYG-PEKVAKAI 541
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 86.5 bits (215), Expect = 7e-20
Identities = 65/243 (26%), Positives = 99/243 (40%), Gaps = 52/243 (21%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI--QADLTSE 149
V G +SGI A A+ A +A+ R+ E KV + + + P + AD+
Sbjct: 14 VVGGTSGINLGIAQAFARAGANVAVASRSQE---KVDAAVAQLQQAGPEGLGVSADVRDY 70
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNA-GNI---VNVSSVNGLRSF----------------- 188
+ + + ++VLV+ A GN S NG ++
Sbjct: 71 AAVEAAFAQIADEFGPIDVLVSGAAGNFPAPAAGMSANGFKTVVDIDLLGTFNVLKAAYP 130
Query: 189 ----PG-----------VLAY------CVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
PG + C +KA VD T ALE +G+RVNS+ PG
Sbjct: 131 LLRRPGASIIQISAPQAFVPMPMQAHVCAAKAGVDMLTRTLALEWGPEGIRVNSIVPG-- 188
Query: 228 LTNLHKNSGIDQQAYQNFLERS-KETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTV 286
+ G+ + A L+ + ++ L R G +++A A FLASD AS+ TG L V
Sbjct: 189 --PIAGTEGMARLAPSPELQAAVAQSVPLKRNGTKQDIANAALFLASDMASYITGVVLPV 246
Query: 287 DGG 289
DGG
Sbjct: 247 DGG 249
Score = 48.0 bits (115), Expect = 2e-06
Identities = 23/93 (24%), Positives = 42/93 (45%), Gaps = 5/93 (5%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+F GK ++V G +SGI A A+ A +A+ R+ E KV + + + P +
Sbjct: 5 FDFAGKNVVVVGGTSGINLGIAQAFARAGANVAVASRSQE---KVDAAVAQLQQAGPEGL 61
Query: 61 --QADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
AD+ + + + ++VLV+ A
Sbjct: 62 GVSADVRDYAAVEAAFAQIADEFGPIDVLVSGA 94
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 85.9 bits (213), Expect = 7e-20
Identities = 56/243 (23%), Positives = 94/243 (38%), Gaps = 52/243 (21%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+ GK L+TGA GIG A A+ LAK + + R E L V+E ++ K ++
Sbjct: 3 QSLQGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAY-GVKVVIA 61
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
AD++ E+ I+ + +++L+NNA GI K
Sbjct: 62 TADVSDYEEVTAAIEQLKNELGSIDILINNA------GISK-----FGKFL--------- 101
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK--HYQKLNVLVN----NAG 174
+L E ++II + +Y VL + +G
Sbjct: 102 ------------------------ELDPAE-WEKIIQVNLMGVYYATRAVLPSMIERQSG 136
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
+I+N+SS G + AY SK V T E+ +RV ++ P T++ +
Sbjct: 137 DIINISSTAGQKGAAVTSAYSASKFGVLGLTESLMQEVRKHNIRVTALTPSTVATDMAVD 196
Query: 235 SGI 237
G+
Sbjct: 197 LGL 199
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 86.5 bits (215), Expect = 8e-20
Identities = 72/277 (25%), Positives = 103/277 (37%), Gaps = 75/277 (27%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+ GKV+ +TG + GIG ATA LA L A++AI + + + V PL
Sbjct: 1 DDLRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAELGLVVGG-PL-- 57
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+T +D V ++VLVNNA G+ G
Sbjct: 58 --DVTDPASFAAFLDAVEADLGPIDVLVNNA------GVMP---------------VGPF 94
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLN--------VLVNN 172
+++ + T+RI+D V Y + ++
Sbjct: 95 LDE------------------------PDAVTRRILD--VNVYGVILGSKLAAPRMVPRG 128
Query: 173 AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH 232
G++VNV+S+ G PG+ YC SK AV FT LEL GV V+ V P T L
Sbjct: 129 RGHVVNVASLAGKIPVPGMATYCASKHAVVGFTDAARLELRGTGVHVSVVLPSFVNTEL- 187
Query: 233 KNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIA 269
+G V PE+VA AI
Sbjct: 188 -IAGT------------GGAKGFKNV-EPEDVAAAIV 210
>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 = 85.7 bits (212), Expect = 1e-19
Identities = 73/290 (25%), Positives = 114/290 (39%), Gaps = 47/290 (16%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GK L+TG++ GIG A A + A++AI N+E + + I D+
Sbjct: 3 GKTALITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAA----CAISLDV 58
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T + R + +V + +++LVNNA LA + + IT + ++L
Sbjct: 59 TDQASIDRCVAALVDRWGSIDILVNNA-----------ALFDLAPI---VDITRESYDRL 104
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
++ ++QA + +I G I+N++S G
Sbjct: 105 FAIN------VSGTLFMMQAV------ARAMIAQ------------GRGGKIINMASQAG 140
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
R V YC +KAAV T L L G+ VN++ PGV Y+N
Sbjct: 141 RRGEALVGVYCATKAAVISLTQSAGLNLIRHGINVNAIAPGVVDGEHWDGVDAKFARYEN 200
Query: 245 FLERSK-----ETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
K E GR+G E++ FLAS DA + + VDGG
Sbjct: 201 RPRGEKKRLVGEAVPFGRMGRAEDLTGMAIFLASTDADYIVAQTYNVDGG 250
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 88.5 bits (220), Expect = 1e-19
Identities = 47/186 (25%), Positives = 72/186 (38%), Gaps = 55/186 (29%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGASSGIG ATA+ +A+ A + + RN E L+++ ++ DLT
Sbjct: 376 ITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRA-KGGTAHAYTCDLTDSAA 434
Query: 152 TKRIIDTVVKHYQKLNVLVNNA-------------------------------------- 173
+ ++ + ++ LVNNA
Sbjct: 435 VDHTVKDILAEHGHVDYLVNNAGRSIRRSVENSTDRFHDYERTMAVNYFGAVRLILGLLP 494
Query: 174 -------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGV 226
G++VNVSS+ + P AY SKAA+D F+ A E S G+
Sbjct: 495 HMRERRFGHVVNVSSIGVQTNAPRFSAYVASKAALDAFSDVAASETLSD---------GI 545
Query: 227 TLTNLH 232
T T +H
Sbjct: 546 TFTTIH 551
Score = 74.2 bits (183), Expect = 8e-15
Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 1/87 (1%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV+L+TGASSGIG ATA+ +A+ A + + RN E L+++ ++ DL
Sbjct: 371 GKVVLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRA-KGGTAHAYTCDL 429
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNA 91
T + ++ + ++ LVNNA
Sbjct: 430 TDSAAVDHTVKDILAEHGHVDYLVNNA 456
>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 = 85.4 bits (212), Expect = 1e-19
Identities = 55/229 (24%), Positives = 87/229 (37%), Gaps = 45/229 (19%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
++L+TG SGIG AL AK AK+ I N + + + + + K + D++
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAG-GKVHYYKCDVSK 59
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
E+ + K + +L+NNA G + L L + +E+
Sbjct: 60 REEVYEAAKKIKKEVGDVTILINNA--------GVVSGKKL------LELPDEEIEK--- 102
Query: 127 VSESCQSVSKNKPL-VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
V+ +A L +L N G+IV ++SV GL
Sbjct: 103 ----TFEVNTLAHFWTTKAFLPD-------------------MLERNHGHIVTIASVAGL 139
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELAS---KGVRVNSVNPGVTLTNL 231
S G+ YC SKAA F LEL + G++ V P T +
Sbjct: 140 ISPAGLADYCASKAAAVGFHESLRLELKAYGKPGIKTTLVCPYFINTGM 188
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 85.3 bits (211), Expect = 1e-19
Identities = 73/291 (25%), Positives = 123/291 (42%), Gaps = 51/291 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ GKV +VTG +G+G AL LA+ A I G N+ + + E ++ + + L +
Sbjct: 7 SLEGKVAVVTGCDTGLGQGMALGLAE--AGCDIVGINIVEPTETIEQVTALGR-RFLSLT 63
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
ADL + +++ V + +++LVNNA + R
Sbjct: 64 ADLRKIDGIPALLERAVAEFGHIDILVNNA-----------------------GLIRRE- 99
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
++ + K+ V+ ++ S + KH+ + N G I+N++S
Sbjct: 100 -------DAIEFSEKDWDDVMNLNIKS---VFFMSQAAAKHF----IAQGNGGKIINIAS 145
Query: 182 VNGLRSFPG---VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
+ SF G V +Y SK+ V T A E A + VN++ PG TN + D
Sbjct: 146 ---MLSFQGGIRVPSYTASKSGVMGVTRLMANEWAKHNINVNAIAPGYMATNNTQQLRAD 202
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+Q L+R GR G P ++ + FLAS + + G + VDGG
Sbjct: 203 EQRSAEILDRIPA----GRWGLPSDLMGPVVFLASSASDYINGYTIAVDGG 249
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 85.4 bits (212), Expect = 2e-19
Identities = 70/265 (26%), Positives = 111/265 (41%), Gaps = 44/265 (16%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GKV++VTGA+ GIGA A L AKLA+ +L ++ + L + AD+
Sbjct: 9 GKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAELGGDDRV--LTVVADV 66
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T + + V+ + ++V+V NA G A+ +A++D R
Sbjct: 67 TDLAAMQAAAEEAVERFGGIDVVVANA--------GIASGGSVAQVDP--DAFRR----- 111
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
VI +L T R L L+ G ++ VSS+
Sbjct: 112 ----------------VIDVNLLGVFHTVRAT---------LPALIERRGYVLQVSSLAA 146
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+ PG+ AYC SKA V+ F + LE+A GV V S T+L +++ D A++
Sbjct: 147 FAAAPGMAAYCASKAGVEAFANALRLEVAHHGVTVGSAYLSWIDTDLVRDADADLPAFRE 206
Query: 245 FLERSKETHALGRVGNPEEVAKAIA 269
R++ L R + E+ A A
Sbjct: 207 L--RARLPWPLRRTTSVEKCAAAFV 229
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 84.7 bits (210), Expect = 3e-19
Identities = 61/293 (20%), Positives = 110/293 (37%), Gaps = 45/293 (15%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQS-VSKNKPLVIQA 62
+V +V G +GA LA+ ++A+ N E+ V++ + + A
Sbjct: 1 MNQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEYGEGMAYGFGA 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D TSE+ + V + + ++++LV NA ++ I T L D
Sbjct: 61 DATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFI---TDFQLGDFD----------- 106
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+Q +L R + +L + G I+ ++S
Sbjct: 107 -----------------RSLQVNLVGYFLCAR-------EFSRLMIRDGIQGRIIQINSK 142
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
+G Y +K T AL+LA G+ V+S+ G L + S + Q A
Sbjct: 143 SGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEYGITVHSLMLGNLLKSPMFQSLLPQYAK 202
Query: 243 QNFLERSKETHA------LGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ ++ + L R + ++V + F AS AS+ TG+ + V GG
Sbjct: 203 KLGIKPDEVEQYYIDKVPLKRGCDYQDVLNMLLFYASPKASYCTGQSINVTGG 255
>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 = 84.0 bits (208), Expect = 4e-19
Identities = 59/244 (24%), Positives = 92/244 (37%), Gaps = 70/244 (28%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVS------------ESCQSVSKNKP 139
VTGAS GIG A AL LAK A + + + + + S E ++ +
Sbjct: 8 VTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEAAG-GQA 66
Query: 140 LVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA-------------------------- 173
L I D+ E+ + +++ V + +L++LVNNA
Sbjct: 67 LPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGAIWLSLVEDTPAKRFDLMQRVNLRG 126
Query: 174 -----------------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKG 216
G+I+N+S LR G +AY KA + + T A EL G
Sbjct: 127 TYLLSQAALPHMVKAGQGHILNISPPLSLRPARGDVAYAAGKAGMSRLTLGLAAELRRHG 186
Query: 217 VRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAI-AFLASDD 275
+ VNS+ P + I+ A S R +PE ++ A+ A L+
Sbjct: 187 IAVNSLWPS---------TAIETPAATELSGGSDPA----RARSPEILSDAVLAILSRPA 233
Query: 276 ASFT 279
A T
Sbjct: 234 AERT 237
Score = 66.6 bits (163), Expect = 8e-13
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 13/99 (13%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVS------------ESCQSV 52
GKV VTGAS GIG A AL LAK A + + + + + S E ++
Sbjct: 3 GKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIEAA 62
Query: 53 SKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
+ L I D+ E+ + +++ V + +L++LVNNA
Sbjct: 63 G-GQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNA 100
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 83.5 bits (207), Expect = 9e-19
Identities = 63/240 (26%), Positives = 92/240 (38%), Gaps = 64/240 (26%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQADLTSEE 150
VTGASSG G T L LAK + T RN E+ + ++ + + V Q D+T +
Sbjct: 8 VTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQNIKVQQLDVTDQN 67
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG------------------------------------ 174
V+K ++++LVNNAG
Sbjct: 68 SIHN-FQLVLKEIGRIDLLVNNAGYANGGFVEEIPVEEYRKQFETNVFGAISVTQAVLPY 126
Query: 175 -------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
I+N+SS++G FPG+ Y SK A++ F+ LEL G+ V + PG
Sbjct: 127 MRKQKSGKIINISSISGRVGFPGLSPYVSSKYALEGFSESLRLELKPFGIDVALIEPGSY 186
Query: 228 LTN-------LHKNSGIDQQAY-------QNFLERSKETHALGRVGNPEEVAKAIAFLAS 273
TN L +N Y Q + +T GNP +VA I +A
Sbjct: 187 NTNIWEVGKQLAENQSETTSPYKEYMKKIQKHINSGSDTF-----GNPIDVANLIVEIAE 241
Score = 57.7 bits (140), Expect = 9e-10
Identities = 31/92 (33%), Positives = 47/92 (51%), Gaps = 4/92 (4%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-V 59
MN K+ +VTGASSG G T L LAK + T RN E+ + ++ + + V
Sbjct: 1 MN--KKIAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQNIKV 58
Query: 60 IQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
Q D+T + V+K ++++LVNNA
Sbjct: 59 QQLDVTDQNSIHN-FQLVLKEIGRIDLLVNNA 89
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 83.1 bits (206), Expect = 1e-18
Identities = 74/297 (24%), Positives = 110/297 (37%), Gaps = 56/297 (18%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
G+V L+TG SGIG A A++A+ R+ E+L + + + LV++ D
Sbjct: 5 HGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQR----FGDHVLVVEGD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+TS D +R +D V + KL+ V NA GI D ++ E
Sbjct: 61 VTSYADNQRAVDQTVDAFGKLDCFVGNA------GI----------WDYNTSLVDIPAET 104
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHY-----QKLNVLVNNAGNIVN 178
L + I + VK Y L L + G+++
Sbjct: 105 L------------------------DTAFDEIFNVNVKGYLLGAKAALPALKASGGSMIF 140
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
S + G Y SK AV A ELA K +RVN V PG T+T+L + +
Sbjct: 141 TLSNSSFYPGGGGPLYTASKHAVVGLVRQLAYELAPK-IRVNGVAPGGTVTDLRGPASLG 199
Query: 239 QQAYQ-----NFLERSKETHALGRVGNPEEVAKAIAFLASD-DASFTTGEHLTVDGG 289
Q + L PE+ LAS ++ TG + DGG
Sbjct: 200 QGETSISDSPGLADMIAAITPLQFAPQPEDHTGPYVLLASRRNSRALTGVVINADGG 256
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 83.5 bits (206), Expect = 1e-18
Identities = 76/291 (26%), Positives = 121/291 (41%), Gaps = 59/291 (20%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAIT-----GRNVEQLNKVSESCQSVSKNKPLVIQAD 63
LVTG SGIG A A+ A+ A +AI+ + + + K+ E C K +++ D
Sbjct: 53 LVTGGDSGIGRAAAIAYAREGADVAISYLPVEEEDAQDVKKIIEEC----GRKAVLLPGD 108
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
L+ E+ + ++ K L LD + G+ V
Sbjct: 109 LSDEKFARSLVHEAHKA--------------------------LGGLDIMALVAGKQVAI 142
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHY---QKLNVLVNNAGNIVNVS 180
+ ADLTSE+ K V + Q+ L+ +I+ S
Sbjct: 143 PDI-----------------ADLTSEQFQKTFAINVFALFWLTQEAIPLLPKGASIITTS 185
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S+ + P +L Y +KAA+ ++ A ++A KG+RVN V PG T L + G Q
Sbjct: 186 SIQAYQPSPHLLDYAATKAAILNYSRGLAKQVAEKGIRVNIVAPGPIWTALQISGGQTQD 245
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
F +++ + R G P E+A +LAS ++S+ T E V GG H
Sbjct: 246 KIPQFGQQT----PMKRAGQPAELAPVYVYLASQESSYVTAEVHGVCGGEH 292
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 82.7 bits (204), Expect = 1e-18
Identities = 67/245 (27%), Positives = 103/245 (42%), Gaps = 61/245 (24%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTGAS GIG A L A + + G VE+L ++ K P A+L+ ++
Sbjct: 11 VTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAELGERVKIFP----ANLSDRDE 66
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
K + + +++LVNNAG
Sbjct: 67 VKALGQKAEADLEGVDILVNNAGITKDGLFVRMSDEDWDSVLEVNLTATFRLTRELTHPM 126
Query: 175 ------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
I+N++SV G+ PG YC SKA + F+ A E+A++ V VN V PG
Sbjct: 127 MRRRYGRIINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQEIATRNVTVNCVAPGF-- 184
Query: 229 TNLHKNSGIDQQAYQNFLERSKET----HALGRVGNPEEVAKAIAFLASDDASFTTGEHL 284
I+ ++ KE + R+G EVA A+A+LAS +A++ TG+ +
Sbjct: 185 --------IESAMTGKLNDKQKEAIMGAIPMKRMGTGAEVASAVAYLASSEAAYVTGQTI 236
Query: 285 TVDGG 289
V+GG
Sbjct: 237 HVNGG 241
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 82.6 bits (204), Expect = 2e-18
Identities = 72/296 (24%), Positives = 115/296 (38%), Gaps = 49/296 (16%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
N GK +VTGA+SGIG AL LA+ A +AI N + N V++ + K + +
Sbjct: 4 NLNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINK-AGGKAIGVA 62
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D+T+E+ ID V + + +++LV+NA + I + A AI
Sbjct: 63 MDVTNEDAVNAGIDKVAERFGSVDILVSNAGIQIVNPIENYSF---ADWKKMQAI----- 114
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
+ T + +KH K + G ++ + S
Sbjct: 115 -----------------------HVDGAFLTTK---AALKHMYK----DDRGGVVIYMGS 144
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL--------HK 233
V+ + P AY +K + A E A VR + V PG T L K
Sbjct: 145 VHSHEASPLKSAYVTAKHGLLGLARVLAKEGAKHNVRSHVVCPGFVRTPLVDKQIPEQAK 204
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
GI ++ + K G E+VA+ + FL+S ++ TG+ V G
Sbjct: 205 ELGISEEEVVKKVMLGKTVD--GVFTTVEDVAQTVLFLSSFPSAALTGQSFVVSHG 258
>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 = 81.9 bits (203), Expect = 2e-18
Identities = 66/227 (29%), Positives = 89/227 (39%), Gaps = 56/227 (24%)
Query: 6 KVILVTGASSGIGAATALHLAKL-DAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
KV LVTGA+ GIG LAK + +T R+VE+ E ++ Q D+
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAVEKLRA-EGLSVRFHQLDV 59
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T + + D V + Y L++LVNNA GI
Sbjct: 60 TDDASIEAAADFVEEKYGGLDILVNNA------GIAF----------------------- 90
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT----VVKHYQKLNVLVNN--AGNIVN 178
+ + P QA T + T V Q L L+ AG IVN
Sbjct: 91 -------KGFDDSTPTREQARET--------MKTNFFGTVDVTQALLPLLKKSPAGRIVN 135
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
VSS G + AY VSKAA++ T A EL G++VN+ PG
Sbjct: 136 VSSGLGSLT----SAYGVSKAALNALTRILAKELKETGIKVNACCPG 178
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 82.3 bits (204), Expect = 2e-18
Identities = 78/304 (25%), Positives = 123/304 (40%), Gaps = 63/304 (20%)
Query: 1 MNFTGKVILVTGASS--GIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL 58
GK IL+ G ++ I A LA+ A+LA T + +V E + L
Sbjct: 2 GLLEGKRILIMGVANNRSIAWGIAKALAEQGAELAFTYQGERLEKRVEELAEE--LGSDL 59
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
V+ D+T++E + T+ K + KL+ LV+ I A K + G
Sbjct: 60 VLPCDVTNDESIDALFATIKKKWGKLDGLVH--------SIAFAP---------KEELKG 102
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHYQKLNVLVN 171
++ TS E +D + K + L +N
Sbjct: 103 DYLD------------------------TSREGFLIAMDISAYSFTALAKAARPL---MN 135
Query: 172 NAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGV--TLT 229
N G+I+ ++ + R P V+KAA++ A +L +G+RVN+++ G TL
Sbjct: 136 NGGSILTLTYLGSERVVPNYNVMGVAKAALEASVRYLAADLGKEGIRVNAISAGPIRTLA 195
Query: 230 NLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
SGI ++ L+ ++ L R EEV AFL SD +S TGE + VD G
Sbjct: 196 A----SGI--GDFRKMLKENEANAPLRRNVTIEEVGNTAAFLLSDLSSGITGEIIYVDSG 249
Query: 290 RHAM 293
H M
Sbjct: 250 YHIM 253
>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 = 81.5 bits (202), Expect = 3e-18
Identities = 59/242 (24%), Positives = 92/242 (38%), Gaps = 60/242 (24%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
G +VTGA+ GIG A A LAK + + R E+L+ V++ + + I AD
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEEKYGVETKTIAADF 60
Query: 65 TSEEDTKRIIDTVVKHYQKLN---------VLVNNAVTGASSGIGAATALHLAKLDAKLA 115
++ +D Y+++ +LVNN GI + + +
Sbjct: 61 SAGDDI----------YERIEKELEGLDIGILVNNV------GISHSIPEYFLETPEDEL 104
Query: 116 --ITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 173
I NV K+ T+ I+ +VK
Sbjct: 105 QDIINVNVMATLKM------------------------TRLILPGMVK---------RKK 131
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
G IVN+SS GL P + Y SKA +D F+ E S+G+ V S+ P + T + K
Sbjct: 132 GAIVNISSFAGLIPTPLLATYSASKAFLDFFSRALYEEYKSQGIDVQSLLPYLVATKMSK 191
Query: 234 NS 235
Sbjct: 192 IR 193
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 81.6 bits (202), Expect = 3e-18
Identities = 59/258 (22%), Positives = 99/258 (38%), Gaps = 71/258 (27%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQADLTSE 149
+TGA IG+A + + + + E LN++ ES K+K L +++ D+T +
Sbjct: 8 LITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLVELDITDQ 67
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNA------------------------------------ 173
E + + + Y K++ VN A
Sbjct: 68 ESLEEFLSKSAEKYGKIDGAVNCAYPRNKDYGKKFFDVSLDDFNENLSLHLGSSFLFSQQ 127
Query: 174 ----------GNIVNVSSVNGL----------RSFPGVLAYCVSKAAVDQFTSCTALELA 213
GN+VN+SS+ G+ S + Y KA + T A
Sbjct: 128 FAKYFKKQGGGNLVNISSIYGVVAPKFEIYEGTSMTSPVEYAAIKAGIIHLTKYLAKYFK 187
Query: 214 SKGVRVNSVNPGVTLTNLHKNSGI-DQQAYQNFLER-SKETHALGRVGNPEEVAKAIAFL 271
+RVN V+PG GI D Q + FL K + G + +P+++ + FL
Sbjct: 188 DSNIRVNCVSPG----------GILDNQP-EAFLNAYKKCCNGKGML-DPDDICGTLVFL 235
Query: 272 ASDDASFTTGEHLTVDGG 289
SD + + TG+++ VD G
Sbjct: 236 LSDQSKYITGQNIIVDDG 253
Score = 58.8 bits (143), Expect = 4e-10
Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 1/89 (1%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQA 62
GK IL+TGA IG+A + + + + E LN++ ES K+K L +++
Sbjct: 3 KGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLVEL 62
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D+T +E + + + Y K++ VN A
Sbjct: 63 DITDQESLEEFLSKSAEKYGKIDGAVNCA 91
>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 = 80.8 bits (200), Expect = 4e-18
Identities = 58/234 (24%), Positives = 96/234 (41%), Gaps = 52/234 (22%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
+L+TGASSGIG A A AK +A+ R ++L+++ + + + + I D+T E
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNPSVEVEI-LDVTDE 59
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
E + +I + L++++ NA G+G G ++ L
Sbjct: 60 ERNQLVIAELEAELGGLDLVIINA------GVG----------------KGTSLGDL--- 94
Query: 128 SESCQSVSKNKPLVIQADLTSEEDTKRIIDT-VVKHYQKLNVLV-----NNAGNIVNVSS 181
S + + IDT ++ L + G++V +SS
Sbjct: 95 --------------------SFKAFRETIDTNLLGAAAILEAALPQFRAKGRGHLVLISS 134
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS 235
V LR PG AY SKAA+ ++ +G+RV +NPG T L N
Sbjct: 135 VAALRGLPGAAAYSASKAALSSLAESLRYDVKKRGIRVTVINPGFIDTPLTANM 188
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 81.1 bits (200), Expect = 5e-18
Identities = 80/291 (27%), Positives = 122/291 (41%), Gaps = 51/291 (17%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ GKV ++TG ++G+G A+ LAK A I G V + + +++ + K I
Sbjct: 5 DLNGKVAIITGCNTGLGQGMAIGLAKAGAD--IVGVGVAEAPETQAQVEALGR-KFHFIT 61
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
ADL ++D I+ V+ +++L+NNA I L D I N+
Sbjct: 62 ADLIQQKDIDSIVSQAVEVMGHIDILINNAGI-----IRRQDLLEFGNKDWDDVI---NI 113
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
Q K + QA V K + K N G I+N++S
Sbjct: 114 NQ------------KTVFFLSQA--------------VAKQFVKQG----NGGKIINIAS 143
Query: 182 VNGLRSFPG---VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
+ SF G V +Y SK+AV T A EL+ + VN++ PG T+ D
Sbjct: 144 ---MLSFQGGIRVPSYTASKSAVMGLTRALATELSQYNINVNAIAPGYMATDNTAALRAD 200
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ LER R G P+++A FL+S + + TG L VDGG
Sbjct: 201 TARNEAILERIPA----SRWGTPDDLAGPAIFLSSSASDYVTGYTLAVDGG 247
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 81.9 bits (203), Expect = 6e-18
Identities = 50/239 (20%), Positives = 86/239 (35%), Gaps = 64/239 (26%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
+V+++TGAS+G+G ATA A+ AK+ + R E L ++ ++ + + L +
Sbjct: 4 KPIGRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRA-AGGEALAV 62
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
AD+ E + D + ++ VNNA+ + G
Sbjct: 63 VADVADAEAVQAAADRAEEELGPIDTWVNNAMVT---------------------VFGP- 100
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNVL 169
+ + E+ +R+ + ++H +
Sbjct: 101 -----------------------FEDVTPEEFRRVTEVTYLGVVHGTLAALRHMRP---- 133
Query: 170 VNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKG--VRVNSVNPGV 226
+ G I+ V S RS P AYC +K A+ FT EL G V V V P
Sbjct: 134 -RDRGAIIQVGSALAYRSIPLQSAYCAAKHAIRGFTDSLRCELLHDGSPVSVTMVQPPA 191
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 80.9 bits (200), Expect = 7e-18
Identities = 74/298 (24%), Positives = 123/298 (41%), Gaps = 58/298 (19%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ GK+ L+TGAS GIG A A AK A + N E ++K + + + I+
Sbjct: 7 SLKGKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRELG------IE 60
Query: 62 A-----DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAI 116
A D+T E+ + ++ + K +++LVNNA GI + L+
Sbjct: 61 AHGYVCDVTDEDGVQAMVSQIEKEVGVIDILVNNA------GIIKRIPM----LEMS--- 107
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
E +V + + N P ++ +K +I +++K G I
Sbjct: 108 ----AEDFRQVID----IDLNAPFIV---------SKAVIPSMIK---------KGHGKI 141
Query: 177 VNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL----- 231
+N+ S+ V AY +K + T A E ++ N + PG T
Sbjct: 142 INICSMMSELGRETVSAYAAAKGGLKMLTKNIASEYGEANIQCNGIGPGYIATPQTAPLR 201
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + + F+ +T A R G+PE++A FLASD ++F G L VDGG
Sbjct: 202 ELQADGSRHPFDQFI--IAKTPA-ARWGDPEDLAGPAVFLASDASNFVNGHILYVDGG 256
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 78.7 bits (195), Expect = 7e-18
Identities = 39/213 (18%), Positives = 70/213 (32%), Gaps = 51/213 (23%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAK-LAITGRN--VEQLNKVSESCQSVSKNKPLVIQA 62
+L+TG + G+G A A LA A+ L + R ++ +++ + V
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEALGA-EVTVAAC 59
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ + ++ + L+ +V+NA
Sbjct: 60 DVADRDALAALLAALPAALGPLDGVVHNAG------------------------------ 89
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLV--NNAGNIVNVS 180
V + PL + + E +R++ V L+ L + G V S
Sbjct: 90 -----------VLDDGPL----EELTPERFERVLAPKVTGAWNLHELTRDLDLGAFVLFS 134
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELA 213
SV G+ PG Y + AA+D E
Sbjct: 135 SVAGVLGSPGQANYAAANAALDALAEHRRAEGL 167
>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 = 79.7 bits (197), Expect = 9e-18
Identities = 67/272 (24%), Positives = 104/272 (38%), Gaps = 68/272 (25%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV LVTGAS GIG A LA+ ++++ RN E L + S S + D
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSLGLRNPEDL-----AALSASGGDVEAVPYDAR 55
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATAL---HLAKLDAKLAITGRNVE 122
ED + ++D + + +++VLV+NA GIG T L A+L+A +I NV
Sbjct: 56 DPEDARALVDALRDRFGRIDVLVHNA------GIGRPTTLREGSDAELEAHFSI---NV- 105
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA-GNIVNVSS 181
+ A+LT L L G +V ++S
Sbjct: 106 ------------------IAPAELTR---------------ALLPALREAGSGRVVFLNS 132
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
++G R G Y SK A+ E GVRV++V PG T +
Sbjct: 133 LSGKRVLAGNAGYSASKFALRALAHALRQEGWDHGVRVSAVCPGFVDTPM---------- 182
Query: 242 YQNFLERSKETHA--LGRVGNPEEVAKAIAFL 271
+ A + P+++A + +
Sbjct: 183 ----AQGLTLVGAFPPEEMIQPKDIANLVRMV 210
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 80.3 bits (199), Expect = 1e-17
Identities = 73/281 (25%), Positives = 112/281 (39%), Gaps = 79/281 (28%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV LVTGASSGIG ATA LA+ ++ T RN + + V +++ D+T
Sbjct: 5 KVALVTGASSGIGRATAEKLARAGYRVFGTSRNPAR----AAPIPGVE-----LLELDVT 55
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
+ + +D V+ +++VLVNNA G+G A A
Sbjct: 56 DDASVQAAVDEVIARAGRIDVLVNNA------GVGLAGA--------------------- 88
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-----------VVKHYQKLNVLVNNAG 174
A+ +S + + DT V+ H + +G
Sbjct: 89 ------------------AEESSIAQAQALFDTNVFGILRMTRAVLPHMRA-----QGSG 125
Query: 175 NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN 234
I+N+SSV G P + Y SK AV+ ++ E+ G+RV+ V P T TN N
Sbjct: 126 RIINISSVLGFLPAPYMALYAASKHAVEGYSESLDHEVRQFGIRVSLVEPAYTKTNFDAN 185
Query: 235 SG-IDQ--QAYQNFLERSKETHALGRV----GNPEEVAKAI 268
+ D Y ER+ + A+ + PE VA +
Sbjct: 186 APEPDSPLAEYDR--ERAVVSKAVAKAVKKADAPEVVADTV 224
>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 = 80.4 bits (199), Expect = 1e-17
Identities = 68/263 (25%), Positives = 99/263 (37%), Gaps = 70/263 (26%)
Query: 6 KVILVTGASSGIGAATALHLAKLD-----AKLAITGRNVEQLNKV-SESCQSVSKNKPLV 59
K +L+TG SG G A L L L G ++L +V S+ +
Sbjct: 1 KAVLITGCDSGFGNLLAKKLDSLGFTVLAGCLTKNGPGAKELRRVCSDRLR--------T 52
Query: 60 IQADLTSEEDTKRIIDTVVKHYQK--LNVLVNNAVTGASSGIGAATALHLAKLDAKLAIT 117
+Q D+T E KR V +H + L LVNNA GI
Sbjct: 53 LQLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNA------GILG---------------- 90
Query: 118 GRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIID-------TVVKHYQKLNVLV 170
+L +D ++ ++ V K + L +L
Sbjct: 91 ----------------------FGGDEELLPMDDYRKCMEVNLFGTVEVTKAF--LPLLR 126
Query: 171 NNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTN 230
G +VNVSS+ G FP AYC SKAAV+ F+ EL GV+V+ + PG T
Sbjct: 127 RAKGRVVNVSSMGGRVPFPAGGAYCASKAAVEAFSDSLRRELQPWGVKVSIIEPGNFKTG 186
Query: 231 LHKNSGIDQQAYQNFLER-SKET 252
+ NS + ++ + ER E
Sbjct: 187 ITGNSELWEKQAKKLWERLPPEV 209
>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 = 79.1 bits (195), Expect = 2e-17
Identities = 60/226 (26%), Positives = 90/226 (39%), Gaps = 55/226 (24%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
K LVTGAS GIG ATA L ++ I R+ +L + Q + L D+
Sbjct: 1 KAALVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAA--QELEGVLGLA--GDVR 56
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
E D +R +D + + + L+ LVNNA G+G + VE+L
Sbjct: 57 DEADVRRAVDAMEEAFGGLDALVNNA------GVGVM----------------KPVEEL- 93
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVK------HYQKLNVLVNNAGNIVNV 179
+ E+ + ++DT + H +L G IVNV
Sbjct: 94 ----------------------TPEEWRLVLDTNLTGAFYCIHKAAPALLRRGGGTIVNV 131
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
S+ G +F G AY SK + + L+L +RV +V PG
Sbjct: 132 GSLAGKNAFKGGAAYNASKFGLLGLSEAAMLDLREANIRVVNVMPG 177
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 79.6 bits (197), Expect = 2e-17
Identities = 75/291 (25%), Positives = 122/291 (41%), Gaps = 56/291 (19%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAI-TGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+ LVTGA+ IG A AL LA +A+ R+ ++ ++ +++ + + + +QADL
Sbjct: 10 RAALVTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRALGR-RAVALQADL 68
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
E + + ++ + +LVNNA + T A D +A N+
Sbjct: 69 ADEAEVRALVARASAALGPITLLVNNASLFEYDSAASFTR---ASWDRHMAT---NLR-- 120
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV--SSV 182
P V+ + + G +VN+ V
Sbjct: 121 -------------APFVLAQAFA-----RALPADA-------------RGLVVNMIDQRV 149
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
L P L+Y +SKAA+ T A LA + +RVN++ PG TL + Q+
Sbjct: 150 WNLN--PDFLSYTLSKAALWTATRTLAQALAPR-IRVNAIGPGPTLPSGR-------QSP 199
Query: 243 QNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
++F R LGR PEE+A A+ +L DA TG+ + VDGG+H
Sbjct: 200 EDF-ARQHAATPLGRGSTPEEIAAAVRYLL--DAPSVTGQMIAVDGGQHLA 247
>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 = 78.9 bits (195), Expect = 3e-17
Identities = 71/296 (23%), Positives = 111/296 (37%), Gaps = 55/296 (18%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
G+V L+TG SG+G A AK+A+ R+ E++ ++ + + ++ D
Sbjct: 3 KGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEKVAELRAD----FGDAVVGVEGD 58
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQ 123
+ S D +R + V+ + KL+ + NA GI D ++ E+
Sbjct: 59 VRSLADNERAVARCVERFGKLDCFIGNA------GI----------WDYSTSLVDIPEEK 102
Query: 124 LNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHY-----QKLNVLVNNAGNIVN 178
L++ + + VK Y L L G+++
Sbjct: 103 LDEAFDE------------------------LFHINVKGYILGAKAALPALYATEGSVIF 138
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH--KNSG 236
S G G Y SK AV A ELA +RVN V PG +T+L + G
Sbjct: 139 TVSNAGFYPGGGGPLYTASKHAVVGLVKQLAYELAPH-IRVNGVAPGGMVTDLRGPASLG 197
Query: 237 IDQQAYQNFL--ERSKETHALGRVGNPEEVAKAIAFLAS-DDASFTTGEHLTVDGG 289
+ + + K LG PE+ A FLAS D TG + DGG
Sbjct: 198 QGETSISTPPLDDMLKSILPLGFAPEPEDYTGAYVFLASRGDNRPATGTVINYDGG 253
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 78.7 bits (194), Expect = 5e-17
Identities = 75/292 (25%), Positives = 129/292 (44%), Gaps = 44/292 (15%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAIT-GRNVEQLNKVSESCQSVSKNKPLVI 60
GK ++++G + GIG A A+ +A T NVE+ NK++E + K
Sbjct: 5 EMKGKTLVISGGTRGIGKAIVYEFAQSGVNIAFTYNSNVEEANKIAEDLEQKYGIKAKAY 64
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
++ E K + + + + +++ ++NA+ + +G T +L G
Sbjct: 65 PLNILEPETYKELFKKIDEDFDRVDFFISNAIISGRAVVGGYTKF------MRLKPKG-- 116
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
LN + + V + ++E KR+ +K+ G+I+++S
Sbjct: 117 ---LNNIYTAT---------VNAFVVGAQEAAKRM--------EKVG-----GGSIISLS 151
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S L + SKAAV+ A EL K +RVN+V+ G T+ K
Sbjct: 152 STGNLVYIENYAGHGTSKAAVETMVKYAATELGEKNIRVNAVSGGPIDTDALK------- 204
Query: 241 AYQNFLERSKET---HALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
A+ N+ E +T L R+G PE++A A FL S+ AS+ TG+ + VDGG
Sbjct: 205 AFTNYEEVKAKTEELSPLNRMGQPEDLAGACLFLCSEKASWLTGQTIVVDGG 256
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 78.2 bits (193), Expect = 7e-17
Identities = 67/281 (23%), Positives = 112/281 (39%), Gaps = 71/281 (25%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDA--KLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
KV +TGAS G G A A L+ ++ T R+ L ++E ++ L +
Sbjct: 2 MEKVWFITGASRGFGRAWTE--AALERGDRVVATARDTATLADLAEKYG----DRLLPLA 55
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D+T ++T V+H+ +L+++VNNA G G +
Sbjct: 56 LDVTDRAAVFAAVETAVEHFGRLDIVVNNAGYGLF---GM-------------------I 93
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVL--------VNNA 173
E++ +E + + IDT + L V +
Sbjct: 94 EEV-----------------------TESEARAQIDTNF--FGALWVTQAVLPYLREQRS 128
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
G+I+ +SS+ G+ +FP Y SK A++ + A E+A G++V V PG T+
Sbjct: 129 GHIIQISSIGGISAFPMSGIYHASKWALEGMSEALAQEVAEFGIKVTLVEPGGYSTDWAG 188
Query: 234 NS-----GIDQQAYQNFLERSKETHALGRV-GNPEEVAKAI 268
S +D AY E E + V G+PE A+A+
Sbjct: 189 TSAKRATPLD--AYDTLREELAEQWSERSVDGDPEAAAEAL 227
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 78.0 bits (192), Expect = 7e-17
Identities = 68/245 (27%), Positives = 98/245 (40%), Gaps = 47/245 (19%)
Query: 93 TGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDT 152
T +S GIG A LA+ A + + RN E L K E +S S I ADLT ED
Sbjct: 14 TASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESNVDVSYIVADLTKREDL 73
Query: 153 KRII--------------------------------DTVVKHYQKLNVLVNNA------- 173
+R + + VK V + A
Sbjct: 74 ERTVKELKNIGEPDIFFFSTGGPKPGYFMEMSMEDWEGAVKLLLYPAVYLTRALVPAMER 133
Query: 174 ---GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTN 230
G I+ +SV P + V + ++ A EL KG+ VN + PG+ T+
Sbjct: 134 KGFGRIIYSTSVAIKEPIPNIALSNVVRISMAGLVRTLAKELGPKGITVNGIMPGIIRTD 193
Query: 231 LHKNSGIDQQAYQN-FLERSKETHA----LGRVGNPEEVAKAIAFLASDDASFTTGEHLT 285
D+ + +E + + +A LGR+G PEE+ +AFLASD S+ G +
Sbjct: 194 RVIQLAQDRAKREGKSVEEALQEYAKPIPLGRLGEPEEIGYLVAFLASDLGSYINGAMIP 253
Query: 286 VDGGR 290
VDGGR
Sbjct: 254 VDGGR 258
Score = 51.0 bits (122), Expect = 2e-07
Identities = 27/77 (35%), Positives = 39/77 (50%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
++ +GK+ T +S GIG A LA+ A + + RN E L K E +S S I
Sbjct: 4 IDLSGKLAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESNVDVSYI 63
Query: 61 QADLTSEEDTKRIIDTV 77
ADLT ED +R + +
Sbjct: 64 VADLTKREDLERTVKEL 80
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 77.8 bits (191), Expect = 8e-17
Identities = 83/293 (28%), Positives = 124/293 (42%), Gaps = 55/293 (18%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAI-TGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
GKV LVTGAS GIG A A LA A +AI G E+ + QS + I A+
Sbjct: 4 GKVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQS-NGGSAFSIGAN 62
Query: 64 LTSEEDTKRIIDTVVKHYQ------KLNVLVNNAVTGASSGIGAATALHLAKLDAKLAIT 117
L S + + ++ Q K ++L+NNA GIG +
Sbjct: 63 LESLHGVEALYSSLDNELQNRTGSTKFDILINNA------GIGPGAFIE----------- 105
Query: 118 GRNVEQLNKVSESCQSVSKNKPL-VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
E + + SV+ P +IQ L+ D RII
Sbjct: 106 ----ETTEQFFDRMVSVNAKAPFFIIQQALSRLRDNSRII-------------------- 141
Query: 177 VNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG 236
N+SS S P +AY ++K A++ T A +L ++G+ VN++ PG T+++
Sbjct: 142 -NISSAATRISLPDFIAYSMTKGAINTMTFTLAKQLGARGITVNAILPGFIKTDMNAELL 200
Query: 237 IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
D Q + A R+G E++A AFLAS D+ + TG+ + V GG
Sbjct: 201 SDPMMKQ----YATTISAFNRLGEVEDIADTAAFLASPDSRWVTGQLIDVSGG 249
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 77.5 bits (191), Expect = 1e-16
Identities = 65/244 (26%), Positives = 101/244 (41%), Gaps = 49/244 (20%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
V+L+TG SSGIG A A ++ T R E + ++ + + +Q D+
Sbjct: 2 PVVLITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALAAAGFTA-------VQLDVN 54
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
R+ + + + L+VL+NNA G GA L LD VE +
Sbjct: 55 DGAALARLAEELEAEHGGLDVLINNA------GYGAMGPL----LDG-------GVEAMR 97
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
+ E+ N V+ + + +L + G +VN+ SV+G+
Sbjct: 98 RQFET------NVFAVVG-----------VTRALFP------LLRRSRGLVVNIGSVSGV 134
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNF 245
P AYC SKAAV + LELA GV+V V PG + N+ ++A Q
Sbjct: 135 LVTPFAGAYCASKAAVHALSDALRLELAPFGVQVMEVQPGAIASQFASNAS--REAEQLL 192
Query: 246 LERS 249
E+S
Sbjct: 193 AEQS 196
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 76.7 bits (189), Expect = 1e-16
Identities = 71/294 (24%), Positives = 117/294 (39%), Gaps = 63/294 (21%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GK + + G S G+G A A K A++ I RN +L ++ ++ +
Sbjct: 1 MRLKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSKYGNIH--YV 58
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D++S E + +I+ K ++ LV VT G T + L+ L +
Sbjct: 59 VGDVSSTESARNVIEKAAKVLNAIDGLV---VT--VGGYVEDTVEEFSGLEEMLT---NH 110
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+ K + A L + +IV VS
Sbjct: 111 I--------------KIPLYAVNASLR---------------------FLKEGSSIVLVS 135
Query: 181 SVNGL-RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQ 239
S++G+ ++ P L+Y V+KA + + A EL +G+RVN + P I
Sbjct: 136 SMSGIYKASPDQLSYAVAKAGLAKAVEILASELLGRGIRVNGIAPT----------TIS- 184
Query: 240 QAYQNFL-ERS-KETHALGRVGN-PEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
+F ER+ K+ LG PE+ AK I +L +D+A + G + VDGG
Sbjct: 185 ---GDFEPERNWKKLRKLGDDMAPPEDFAKVIIWLLTDEADWVDGVVIPVDGGA 235
>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 = 76.8 bits (189), Expect = 2e-16
Identities = 77/268 (28%), Positives = 100/268 (37%), Gaps = 95/268 (35%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEE 150
+TGA+SGIGAATA L DA + G ++ + + ADL++ E
Sbjct: 3 VITGAASGIGAATAELLE--DAGHTVIGIDL----------------READVIADLSTPE 44
Query: 151 DTKRIIDTVV-KHYQKLNVLVNNAG----------------------------------- 174
I V+ + L+ LVN AG
Sbjct: 45 GRAAAIADVLARCSGVLDGLVNCAGVGGTTVAGLVLKVNYFGLRALMEALLPRLRKGHGP 104
Query: 175 NIVNVSSVNGL---------------------------RSFPGVLAYCVSKAAVDQFTSC 207
V VSS+ G PG LAY SK A+ +T
Sbjct: 105 AAVVVSSIAGAGWAQDKLELAKALAAGTEARAVALAEHAGQPGYLAYAGSKEALTVWTRR 164
Query: 208 TALE-LASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHA-----LGRVGNP 261
A L GVRVN+V PG T I Q Q+ R E+ +GR P
Sbjct: 165 RAATWLYGAGVRVNTVAPGPVET------PILQAFLQD--PRGGESVDAFVTPMGRRAEP 216
Query: 262 EEVAKAIAFLASDDASFTTGEHLTVDGG 289
+E+A IAFLASD AS+ G +L VDGG
Sbjct: 217 DEIAPVIAFLASDAASWINGANLFVDGG 244
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 75.8 bits (187), Expect = 3e-16
Identities = 65/236 (27%), Positives = 98/236 (41%), Gaps = 49/236 (20%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA-DLTSE- 149
V G SSGIG A A A A++ I R+ ++L + + +++ P+ A D+T E
Sbjct: 2 VVGGSSGIGLALARAFAAEGARVTIASRSRDRL---AAAARALGGGAPVRTAALDITDEA 58
Query: 150 --------------------------------EDTKRIIDTVVKHYQKLNVL----VNNA 173
+ +D+ K + V +
Sbjct: 59 AVDAFFAEAGPFDHVVITAADTPGGPVRALPLAAAQAAMDS--KFWGAYRVARAARIAPG 116
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
G++ VS +R + AA++ ALELA VRVN+V+PG+ T L
Sbjct: 117 GSLTFVSGFAAVRPSASGVLQGAINAALEALARGLALELAP--VRVNTVSPGLVDTPLW- 173
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
S + A + + E RVG PE+VA AI FLA++ FTTG + VDGG
Sbjct: 174 -SKLAGDAREAMFAAAAERLPARRVGQPEDVANAILFLAAN--GFTTGSTVLVDGG 226
Score = 38.1 bits (89), Expect = 0.002
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 42
LV G SSGIG A A A A++ I R+ ++L
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIASRSRDRL 34
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 75.6 bits (186), Expect = 6e-16
Identities = 73/285 (25%), Positives = 122/285 (42%), Gaps = 44/285 (15%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
GK IL+TG++ GIG A LA+ A++ I E+ + K ++
Sbjct: 9 GKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQ-EGIKAHAAPFNV 67
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T +++ + I+ + K ++VL+NNA GI + T ++
Sbjct: 68 THKQEVEAAIEHIEKDIGPIDVLINNA------GI-----------QRRHPFTEFPEQEW 110
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
N V ++ N+ V L S+ + ++ AG I+N+ S+
Sbjct: 111 NDV------IAVNQTAVF---LVSQAVARYMVK-------------RQAGKIINICSMQS 148
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
+ Y SK AV T +ELA ++VN + PG T + K + ++ +A+
Sbjct: 149 ELGRDTITPYAASKGAVKMLTRGMCVELARHNIQVNGIAPGYFKTEMTK-ALVEDEAFTA 207
Query: 245 FLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+L K T A R G+P+E+ A FL+S + F G L VDGG
Sbjct: 208 WL--CKRTPA-ARWGDPQELIGAAVFLSSKASDFVNGHLLFVDGG 249
>gnl|CDD|237099 PRK12428, PRK12428, 3-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 241
Score = 75.0 bits (185), Expect = 6e-16
Identities = 39/150 (26%), Positives = 58/150 (38%), Gaps = 38/150 (25%)
Query: 171 NNAGNIVNVSSVNG---------------LRSFPGVLAYC------------VSKAAVDQ 203
G IVNV+S+ G SF A+ +SK A+
Sbjct: 87 APGGAIVNVASLAGAEWPQRLELHKALAATASFDEGAAWLAAHPVALATGYQLSKEALIL 146
Query: 204 FTSCTALE-LASKGVRVNSVNPGVTLTNLHKNSGIDQ--QAY-QNFLERSKETHALGRVG 259
+T A ++G+RVN V PG T + + Q ++ + +GR
Sbjct: 147 WTMRQAQPWFGARGIRVNCVAPGPVFTPI-----LGDFRSMLGQERVDS--DAKRMGRPA 199
Query: 260 NPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+E A + FL SD A + G +L VDGG
Sbjct: 200 TADEQAAVLVFLCSDAARWINGVNLPVDGG 229
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 75.3 bits (185), Expect = 7e-16
Identities = 77/290 (26%), Positives = 116/290 (40%), Gaps = 58/290 (20%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
G+V LVTGA+ GIG A L ++ + + E+ +KV++ I D+
Sbjct: 10 GRVALVTGAARGIGLGIAAWLIAEGWQVVLADLDRERGSKVAK----ALGENAWFIAMDV 65
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
E + V+ + +L+ LV NA I L L +
Sbjct: 66 ADEAQVAAGVAEVLGQFGRLDALVCNA------AIADPHNTTLESLS---------LAHW 110
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
N+V +V+ P+++ KH L + G IVN++S
Sbjct: 111 NRV----LAVNLTGPMLL-----------------AKHCAPY--LRAHNGAIVNLASTRA 147
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID-----Q 239
+S P AY SK + T A+ L + +RVN+V+PG ID Q
Sbjct: 148 RQSEPDTEAYAASKGGLLALTHALAISLGPE-IRVNAVSPG----------WIDARDPSQ 196
Query: 240 QAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ + E H GRVG E+VA +A+L S A F TG+ VDGG
Sbjct: 197 RRAEPLSEADHAQHPAGRVGTVEDVAAMVAWLLSRQAGFVTGQEFVVDGG 246
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 74.7 bits (184), Expect = 1e-15
Identities = 72/287 (25%), Positives = 119/287 (41%), Gaps = 55/287 (19%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKL-AITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+ +++TG S G+G A A L + + +I+ ++L K++E + DL
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAE----QYNSNLTFHSLDL 57
Query: 65 TSEEDTKRIIDTVVKHYQKLNV----LVNNAVTGAS-SGIGAATALHLAKLDAKLAITGR 119
+ + + ++ Q+ NV L+NNA A I A +
Sbjct: 58 QDVHELETNFNEILSSIQEDNVSSIHLINNAGMVAPIKPIEKAES--------------- 102
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
E+L +V N L+ LTS T +KH + V ++N+
Sbjct: 103 --EELIT------NVHLN--LLAPMILTS---------TFMKHTKDWKV----DKRVINI 139
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASK--GVRVNSVNPGVTLTNLHKNSGI 237
SS + G AYC SKA +D FT A E + V++ + +PGV TN+ I
Sbjct: 140 SSGAAKNPYFGWSAYCSSKAGLDMFTQTVATEQEEEEYPVKIVAFSPGVMDTNMQAQ--I 197
Query: 238 DQQAYQNF--LERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGE 282
+ ++F L+R G++ +PE VAKA+ L + F GE
Sbjct: 198 RSSSKEDFTNLDRFITLKEEGKLLSPEYVAKALRNLLETE-DFPNGE 243
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 75.0 bits (185), Expect = 1e-15
Identities = 73/276 (26%), Positives = 115/276 (41%), Gaps = 60/276 (21%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
KV LVTGASSGIG ATA LA + R V+++ ++ + D+T
Sbjct: 4 KVALVTGASSGIGKATARRLAAQGYTVYGAARRVDKMEDLASLGVH-------PLSLDVT 56
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
E K +DT++ +++VLVNNA G G+ A+ +D R ++N
Sbjct: 57 DEASIKAAVDTIIAEEGRIDVLVNNA------GYGSYGAIEDVPID-----EARRQFEVN 105
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
+ A R+ V+ H + +G I+N+SS+ G
Sbjct: 106 ---------------LFGA--------ARLTQLVLPHMRA-----QRSGRIINISSMGGK 137
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT--------NLHKNSGI 237
P Y +K A++ F+ LE+A G+ V + PG T +L K SG
Sbjct: 138 IYTPLGAWYHATKFALEGFSDALRLEVAPFGIDVVVIEPGGIKTEWGDIAADHLLKTSG- 196
Query: 238 DQQAYQNFLERS----KETHALGRVGNPEEVAKAIA 269
AY + + T+ GR+ +P +A AI+
Sbjct: 197 -NGAYAEQAQAVAASMRSTYGSGRLSDPSVIADAIS 231
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 74.7 bits (184), Expect = 2e-15
Identities = 59/226 (26%), Positives = 97/226 (42%), Gaps = 44/226 (19%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK--NKPLVIQADLT 65
+++TGA+SG+G A AL A+ +LA+ N E E+ + + + + D+
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRLALADVNEEGG---EETLKLLREAGGDGFYQRCDVR 59
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
+ + + ++V+VNNA G +SG G L L D ++AI L
Sbjct: 60 DYSQLTALAQACEEKWGGIDVIVNNA--GVASG-GFFEELSLEDWDWQIAI------NLM 110
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
V + C++ PL + QK +G IVN++S+ GL
Sbjct: 111 GVVKGCKAFL---PLFKR--------------------QK-------SGRIVNIASMAGL 140
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
P + +Y V+KA V + +ELA + V+ V P TNL
Sbjct: 141 MQGPAMSSYNVAKAGVVALSETLLVELADDEIGVHVVCPSFFQTNL 186
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 74.0 bits (182), Expect = 2e-15
Identities = 40/114 (35%), Positives = 59/114 (51%), Gaps = 3/114 (2%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRN-VEQLNKVSESCQSVSKNKPLVIQA 62
GK LVTG+S GIGA TA LA A + + R + NKV ++ + + + A
Sbjct: 5 PGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIEA-AGGRASAVGA 63
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAI 116
DLT EE ++DT + + L+ LV NA G SG+ A+ L + DA+ +
Sbjct: 64 DLTDEESVAALMDTAREEFGGLDALVLNASGGMESGMDEDYAMRLNR-DAQRNL 116
Score = 59.0 bits (143), Expect = 3e-10
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRN-VEQLNKVSESCQSVSKNKPLVIQADLTSEE 150
VTG+S GIGA TA LA A + + R + NKV ++ + + + ADLT EE
Sbjct: 11 VTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIEA-AGGRASAVGADLTDEE 69
Query: 151 DTKRIIDTVVKHYQKLNVLVNNA 173
++DT + + L+ LV NA
Sbjct: 70 SVAALMDTAREEFGGLDALVLNA 92
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 72.9 bits (179), Expect = 6e-15
Identities = 63/264 (23%), Positives = 105/264 (39%), Gaps = 65/264 (24%)
Query: 88 VNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 147
+N VT +S GIG A L K A++ I+ RN E L K + + + ++ADL+
Sbjct: 1 MNVLVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYGEVYA--VKADLS 58
Query: 148 SEEDTKRIIDTVVKHYQKLNVLVNNAGN-------------------------------- 175
++D K ++ + ++ LV NAGN
Sbjct: 59 DKDDLKNLVKEAWELLGGIDALVWNAGNVRCEPCMLHEAGYSDWLEAALLHLVAPGYLTT 118
Query: 176 --------------IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNS 221
+V +SSV+ P ++ V++A + Q + KG+R +
Sbjct: 119 LLIQAWLEKKMKGVLVYLSSVSVKEPMPPLVLADVTRAGLVQLAKGVSRTYGGKGIRAYT 178
Query: 222 V------NPGV--TLTNLHKNSGID-QQAYQN-FLERSKETHALGRVGNPEEVAKAIAFL 271
V PG L + + G+ ++ ++ LER+ L R G EE+ IAFL
Sbjct: 179 VLLGSFDTPGARENLARIAEERGVSFEETWEREVLERT----PLKRTGRWEELGSLIAFL 234
Query: 272 ASDDASFTTGEHLTVDGGRHAMCP 295
S++A + G + DG AM
Sbjct: 235 LSENAEYMLGSTIVFDG---AMTR 255
Score = 53.7 bits (129), Expect = 2e-08
Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 2/84 (2%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
+LVT +S GIG A L K A++ I+ RN E L K + + + ++ADL+ +
Sbjct: 3 VLVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYGEVYA--VKADLSDK 60
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNA 91
+D K ++ + ++ LV NA
Sbjct: 61 DDLKNLVKEAWELLGGIDALVWNA 84
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 72.6 bits (179), Expect = 6e-15
Identities = 55/204 (26%), Positives = 86/204 (42%), Gaps = 55/204 (26%)
Query: 80 HYQKLNVLVNNA---VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK 136
HYQ L+ + VTGA GIG AL A+ A + + GR E+L V + ++
Sbjct: 2 HYQPKPDLLKDRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGG 61
Query: 137 NKPLVIQADL--TSEEDTKRIIDTVVKHYQKLNVLVNNAGNI------------------ 176
+P +I DL + ++ +++ DT+ + + +L+ +++NAG +
Sbjct: 62 PQPAIIPLDLLTATPQNYQQLADTIEEQFGRLDGVLHNAGLLGELGPMEQQDPEVWQDVM 121
Query: 177 -VNV--------------------------SSV--NGLRSFPGVLAYCVSKAAVDQFTSC 207
VNV SSV G R+ G AY VSK A +
Sbjct: 122 QVNVNATFMLTQALLPLLLKSPAASLVFTSSSVGRQG-RANWG--AYAVSKFATEGMMQV 178
Query: 208 TALELASKGVRVNSVNPGVTLTNL 231
A E +RVN +NPG T T +
Sbjct: 179 LADEYQGTNLRVNCINPGGTRTAM 202
Score = 63.4 bits (155), Expect = 9e-12
Identities = 27/89 (30%), Positives = 52/89 (58%), Gaps = 2/89 (2%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
++ILVTGA GIG AL A+ A + + GR E+L V + ++ +P +I DL
Sbjct: 12 DRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAIIPLDL 71
Query: 65 --TSEEDTKRIIDTVVKHYQKLNVLVNNA 91
+ ++ +++ DT+ + + +L+ +++NA
Sbjct: 72 LTATPQNYQQLADTIEEQFGRLDGVLHNA 100
>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 = 71.8 bits (176), Expect = 8e-15
Identities = 59/227 (25%), Positives = 101/227 (44%), Gaps = 40/227 (17%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
++ILVTGAS GIG AL A+ A + + GRN E+L +V++ +P DL
Sbjct: 4 DRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFILDL 63
Query: 65 --TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
+ E+ +++ + +Y +L+ +++NA +G L E
Sbjct: 64 LTCTSENCQQLAQRIAVNYPRLDGVLHNA-----GLLGDVCPLS---------------E 103
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
Q +V + V+ N ++ T+ ++ ++K ++AG++V SS
Sbjct: 104 QNPQVWQDVXQVNVNATFML---------TQALLPLLLK---------SDAGSLVFTSSS 145
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT 229
G + AY VSK A + A E + +RVN +NPG T T
Sbjct: 146 VGRQGRANWGAYAVSKFATEGLXQVLADEYQQRNLRVNCINPGGTRT 192
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 72.6 bits (179), Expect = 2e-14
Identities = 76/290 (26%), Positives = 121/290 (41%), Gaps = 61/290 (21%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQ----LNKVSESCQSVSKNKPLVI 60
GKV LVTGA+ GIGAA A LA+ A + +V L V+ + +
Sbjct: 210 GKVALVTGAARGIGAAIAEVLARDGAH--VVCLDVPAAGEALAAVANRVGGTA------L 261
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+T+ + RI + + + + L+++V+NA GI LA +D
Sbjct: 262 ALDITAPDAPARIAEHLAERHGGLDIVVHNA------GITRDKT--LANMDE-------- 305
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+ + V+ +L + RI + ++ + + G IV VS
Sbjct: 306 -ARWD--------------SVLAVNLLAPL---RITEALLA-----AGALGDGGRIVGVS 342
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
S++G+ G Y SKA V A LA +G+ +N+V PG T
Sbjct: 343 SISGIAGNRGQTNYAASKAGVIGLVQALAPLLAERGITINAVAPGFIET--------QMT 394
Query: 241 AYQNFLER--SKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
A F R + ++L + G P +VA+ IA+LAS + TG + V G
Sbjct: 395 AAIPFATREAGRRMNSLQQGGLPVDVAETIAWLASPASGGVTGNVVRVCG 444
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 70.8 bits (174), Expect = 3e-14
Identities = 61/227 (26%), Positives = 89/227 (39%), Gaps = 48/227 (21%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQA 62
K IL+TGA SG G AL LA+ + + Q+ + + L V +
Sbjct: 1 MSKTILITGAGSGFGREVALRLARKGHNVIAGVQIAPQVTALRAEAAR--RGLALRVEKL 58
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
DLT D + + V +VL+NNA GIG A A+ +D + + E
Sbjct: 59 DLTDAIDRAQAAEWDV------DVLLNNA------GIGEAGAV----VDIPVELVRELFE 102
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+ PL E T+ + +V G +V SS+
Sbjct: 103 -----------TNVFGPL---------ELTQGFVRKMVA---------RGKGKVVFTSSM 133
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT 229
GL + P AYC SK A++ EL G++V +VNPG LT
Sbjct: 134 AGLITGPFTGAYCASKHALEAIAEAMHAELKPFGIQVATVNPGPYLT 180
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 70.3 bits (173), Expect = 3e-14
Identities = 72/280 (25%), Positives = 100/280 (35%), Gaps = 92/280 (32%)
Query: 1 MNFTGKVILVTGASSGIGAA--TALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL 58
M+ GKV+LVTGA+ GIG A L LA+ AK+ R+ E SV+ P
Sbjct: 2 MDIKGKVVLVTGANRGIGRAFVEQL-LARGAAKVYAAARDPE----------SVTDLGPR 50
Query: 59 VI--QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAI 116
V+ Q D+T + + + +LVNNA GI +L L
Sbjct: 51 VVPLQLDVTDPAS----VAAAAEAASDVTILVNNA------GIFRTGSLLLE-------- 92
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLN-------VL 169
E+ + ++T + L VL
Sbjct: 93 ------------------------------GDEDALRAEMETNY--FGPLAMARAFAPVL 120
Query: 170 VNNAGN-IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
N G IVNV SV +FP + Y SKAA T ELA +G RV V+PG
Sbjct: 121 AANGGGAIVNVLSVLSWVNFPNLGTYSASKAAAWSLTQALRAELAPQGTRVLGVHPGPID 180
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAI 268
T++ K + P +VA+ I
Sbjct: 181 TDMAAGLDAP-----------KAS--------PADVARQI 201
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 70.5 bits (173), Expect = 4e-14
Identities = 75/293 (25%), Positives = 117/293 (39%), Gaps = 48/293 (16%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M + + +LVTG S G+GAA A A+ A++ + E +E+ ++ + +
Sbjct: 1 MQISEQTVLVTGGSRGLGAAIARAFAREGARVVVNYHQSED---AAEALADELGDRAIAL 57
Query: 61 QADLTSEEDTKRIIDTVVKHY-QKLNVLVNNAVTGAS-SGIGAATALHLAKLDAKLAITG 118
QAD+T E + + T +H+ + + +VNNA+ S G A + D + + G
Sbjct: 58 QADVTDREQVQAMFATATEHFGKPITTVVNNALADFSFDGDARKKADDITWEDFQQQLEG 117
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
LN IQA L + G I+N
Sbjct: 118 SVKGALN---------------TIQAALPGMREQG-------------------FGRIIN 143
Query: 179 VSSVNGLRSFPGVL--AYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG 236
+ + L P V Y +KAA+ T A EL G+ VN V+ G L + +
Sbjct: 144 IGT--NLFQNPVVPYHDYTTAKAALLGLTRNLAAELGPYGITVNMVSGG-----LLRTTD 196
Query: 237 IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ T L +V P+E A A+ F AS A TG++L VDGG
Sbjct: 197 ASAATPDEVFDLIAATTPLRKVTTPQEFADAVLFFASPWARAVTGQNLVVDGG 249
>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 = 70.1 bits (172), Expect = 4e-14
Identities = 61/259 (23%), Positives = 97/259 (37%), Gaps = 46/259 (17%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M TG IL+TG +SGIG A A +L + I GRN E+L + +
Sbjct: 1 MKTTGNTILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKAENPEI-----HTE 55
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+ + + +++ + K Y LNVL+NNA GI L
Sbjct: 56 VCDVADRDSRRELVEWLKKEYPNLNVLINNA------GIQRNEDL-------------TG 96
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
E L +E Q ++ N + A + R+ ++ H + I+NVS
Sbjct: 97 AEDLLDDAE--QEIATN----LLAPI-------RLTALLLPHLLR-----QPEATIINVS 138
Query: 181 SVNGLRSFPGVLA--YCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
S GL P YC +KAA+ +T +L V V + P + T
Sbjct: 139 S--GLAFVPMASTPVYCATKAAIHSYTLALREQLKDTSVEVIELAPPLVDTTEGNTQARG 196
Query: 239 QQAYQNFLERSKETHALGR 257
+ F+ +++
Sbjct: 197 KMPLSAFISETEDLVQNTP 215
>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 = 69.8 bits (171), Expect = 7e-14
Identities = 59/238 (24%), Positives = 94/238 (39%), Gaps = 58/238 (24%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI-QADLTSEE 150
+TGA++GIG TA LA+ A++ + R++ + + + + + N +++ DL S +
Sbjct: 6 ITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNHEVIVRHLDLASLK 65
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG------------------------------------ 174
+ + +L+VL+NNAG
Sbjct: 66 SIRAFAAEFLAEEDRLDVLINNAGVMRCPYSKTEDGFEMQFGVNHLGHFLLTNLLLDLLK 125
Query: 175 -----NIVNVSSV------------NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGV 217
IVNVSS+ N +S+ AYC SK A FT A L GV
Sbjct: 126 KSAPSRIVNVSSLAHKAGKINFDDLNSEKSYNTGFAYCQSKLANVLFTRELARRLQGTGV 185
Query: 218 RVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDD 275
VN+++PGV T L +++GI L V P E A+ +LA +
Sbjct: 186 TVNALHPGVVRTELGRHTGIHHLFLSTLLNPL----FWPFVKTPREGAQTSIYLALAE 239
Score = 55.6 bits (134), Expect = 6e-09
Identities = 24/88 (27%), Positives = 49/88 (55%), Gaps = 1/88 (1%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI-QAD 63
GK +++TGA++GIG TA LA+ A++ + R++ + + + + + N +++ D
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNHEVIVRHLD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
L S + + + +L+VL+NNA
Sbjct: 61 LASLKSIRAFAAEFLAEEDRLDVLINNA 88
>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 = 67.5 bits (165), Expect = 4e-13
Identities = 66/292 (22%), Positives = 115/292 (39%), Gaps = 44/292 (15%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+V +V G +G LA+ +A+ N E KV++ + K AD
Sbjct: 2 NQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSENAEKVADEINAEYGEKAYGFGADA 61
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
T+E+ + V + ++++++LV +A S+ I T L D L Q+
Sbjct: 62 TNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKI---TDFELGDFDRSL--------QV 110
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
N V L + E +K +I G I+ ++S +G
Sbjct: 111 NLVGYF---------------LCAREFSKLMIRD------------GIQGRIIQINSKSG 143
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQN 244
Y +K T AL+LA G+ VNS+ G L + S + Q A +
Sbjct: 144 KVGSKHNSGYSAAKFGGVGLTQSLALDLAEHGITVNSLMLGNLLKSPMFQSLLPQYAKKL 203
Query: 245 FLERSK------ETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGR 290
++ S+ + L R + ++V + F AS AS+ TG+ + + GG+
Sbjct: 204 GIKESEVEQYYIDKVPLKRGCDYQDVLNMLLFYASPKASYCTGQSINITGGQ 255
>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 = 67.6 bits (165), Expect = 4e-13
Identities = 69/289 (23%), Positives = 123/289 (42%), Gaps = 36/289 (12%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRN-VEQLNKVSESCQSVSKNKPLVIQADLT 65
+VTGA+ IG++ A+ L + ++ + + ++ + N + QADL+
Sbjct: 3 AAVVTGAAKRIGSSIAVALHQEGYRVVLHYHRSAAAASTLAAELNARRPNSAVTCQADLS 62
Query: 66 SE----EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
+ + IID + + + +VLVNNA + + L + +++
Sbjct: 63 NSATLFSRCEAIIDACFRAFGRCDVLVNNASAFYPTPL-------LRGDAGEGVGDKKSL 115
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
E +V+E S + +I+A + T+ + N+ +IVN+
Sbjct: 116 EV--QVAELFGSNAIAPYFLIKAFAQRQAGTR-------AEQRSTNL------SIVNLCD 160
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
+ G Y ++K A++ T ALELA +RVN V PG++L L + Q
Sbjct: 161 AMTDQPLLGFTMYTMAKHALEGLTRSAALELAPLQIRVNGVAPGLSL--LPDAMPFEVQ- 217
Query: 242 YQNFLERSKETHALG-RVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
E + LG R + E++A + FL S A + TG + VDGG
Sbjct: 218 -----EDYRRKVPLGQREASAEQIADVVIFLVSPKAKYITGTCIKVDGG 261
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 66.9 bits (164), Expect = 6e-13
Identities = 53/224 (23%), Positives = 89/224 (39%), Gaps = 41/224 (18%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA- 62
T + IL+TGASSG+GA A A LA+ R ++L ++ + + + A
Sbjct: 1 TRQKILITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAELLARYPGIKVAVAAL 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ + + L+ ++ NA GIG L K A A
Sbjct: 61 DVNDHDQVFEVFAEFRDELGGLDRVIVNA------GIGKGARLGTGKFWANKA-----TA 109
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+ N V+ Q + ++ +++ +G++V +SSV
Sbjct: 110 ETNFVAALAQ-----------------------CEAAMEIFRE-----QGSGHLVLISSV 141
Query: 183 NGLRSFPGVL-AYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
+ +R PGV AY SKA V ELA ++V+++ PG
Sbjct: 142 SAVRGLPGVKAAYAASKAGVASLGEGLRAELAKTPIKVSTIEPG 185
>gnl|CDD|181020 PRK07533, PRK07533, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 258
Score = 66.5 bits (163), Expect = 1e-12
Identities = 37/96 (38%), Positives = 52/96 (54%), Gaps = 4/96 (4%)
Query: 198 KAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGR 257
KAA++ A EL KG+RV++++PG T SGID + LE + E L R
Sbjct: 166 KAALESSVRYLAAELGPKGIRVHAISPGPLKT--RAASGIDD--FDALLEDAAERAPLRR 221
Query: 258 VGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
+ + ++V AFLASD A TG L +DGG H +
Sbjct: 222 LVDIDDVGAVAAFLASDAARRLTGNTLYIDGGYHIV 257
>gnl|CDD|236308 PRK08594, PRK08594, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 257
Score = 66.3 bits (162), Expect = 1e-12
Identities = 68/295 (23%), Positives = 122/295 (41%), Gaps = 43/295 (14%)
Query: 1 MNFTGKVILVTGASS--GIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL 58
++ GK +V G ++ I A L AKL T +V E ++ + L
Sbjct: 3 LSLEGKTYVVMGVANKRSIAWGIARSLHNAGAKLVFTYAGERLEKEVRELADTLEGQESL 62
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
++ D+TS+E+ +T+ + ++ G A + A + + G
Sbjct: 63 LLPCDVTSDEEITACFETIKEEVGVIH--------------GVAHCIAFANKED---LRG 105
Query: 119 RNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVN 178
+E S++ L+ Q ++++ T V + +KL + G+IV
Sbjct: 106 EFLE-----------TSRDGFLLAQ-NISAYSLT-----AVAREAKKL---MTEGGSIVT 145
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
++ + G R V+KA+++ A +L G+RVN+++ G T K G
Sbjct: 146 LTYLGGERVVQNYNVMGVAKASLEASVKYLANDLGKDGIRVNAISAGPIRTLSAKGVG-- 203
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
+ + L+ +E L R EEV AFL SD + TGE++ VD G H +
Sbjct: 204 --GFNSILKEIEERAPLRRTTTQEEVGDTAAFLFSDLSRGVTGENIHVDSGYHII 256
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 65.3 bits (160), Expect = 2e-12
Identities = 77/281 (27%), Positives = 107/281 (38%), Gaps = 71/281 (25%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
L+TGAS GIGAA A LA L + GR E+L++++ + DLT
Sbjct: 4 PTALITGASRGIGAAIARELAP-THTLLLGGRPAERLDELAAELPGAT-----PFPVDLT 57
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLN 125
E I V+ +L+VLV+NA G A +A+ R ++N
Sbjct: 58 DPEA----IAAAVEQLGRLDVLVHNA--------GVADLGPVAESTVD---EWRATLEVN 102
Query: 126 KVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL 185
+V A+LT L L G++V ++S GL
Sbjct: 103 --------------VVAPAELTR---------------LLLPALRAAHGHVVFINSGAGL 133
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT----NLHKNSGIDQQA 241
R+ PG +Y SK A+ E VRV SV+PG T T L G +
Sbjct: 134 RANPGWGSYAASKFALRALADALREEEPGN-VRVTSVHPGRTDTDMQRGLVAQEGGEYDP 192
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAIAFL--ASDDASFTT 280
+ +L PE VAKA+ F A DA T
Sbjct: 193 -ERYLR-------------PETVAKAVRFAVDAPPDAHITE 219
>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 = 65.3 bits (159), Expect = 2e-12
Identities = 37/116 (31%), Positives = 63/116 (54%), Gaps = 7/116 (6%)
Query: 174 GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHK 233
G I+ ++SV+G+ G + Y +KA + T A+ELA + + VN + PG+ T +
Sbjct: 129 GRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVELAKRKITVNCIAPGLIDTEMLA 188
Query: 234 NSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
++ L+ + +T + R+G P EVA FL SD AS+ T + ++V+GG
Sbjct: 189 EV-------EHDLDEALKTVPMNRMGQPAEVASLAGFLMSDGASYVTRQVISVNGG 237
Score = 29.5 bits (66), Expect = 1.9
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 8 ILVTGASSGIGAATALHLA 26
+LVTGAS GIG A A LA
Sbjct: 1 VLVTGASRGIGRAIANRLA 19
>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 = 64.4 bits (157), Expect = 4e-12
Identities = 67/267 (25%), Positives = 101/267 (37%), Gaps = 66/267 (24%)
Query: 3 FTGKVILVTGASSGIGAA-TALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
K +LVTGA+ GIG A LA K+ R+ + K PL +
Sbjct: 1 IKDKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVRDPGSAAHLVAKYGD--KVVPLRL- 57
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D+T E K + ++V++NNA G AT L L+A NV
Sbjct: 58 -DVTDPESIKAAAAQA----KDVDVVINNA--GVLK---PATLLEEGALEALKQEMDVNV 107
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSS 181
L +++++ V K N G IVN++S
Sbjct: 108 FGLLRLAQAFAPVLKA---------------------------------NGGGAIVNLNS 134
Query: 182 VNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA 241
V L++FP + Y SK+A T ELA++G V SV+PG T + +G +++
Sbjct: 135 VASLKNFPAMGTYSASKSAAYSLTQGLRAELAAQGTLVLSVHPGPIDTRMAAGAGGPKES 194
Query: 242 YQNFLERSKETHALGRVGNPEEVAKAI 268
PE VA+A+
Sbjct: 195 -------------------PETVAEAV 202
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 64.2 bits (157), Expect = 8e-12
Identities = 44/179 (24%), Positives = 72/179 (40%), Gaps = 51/179 (28%)
Query: 92 VTGASSGIGAATALHLAKLDA--KLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 149
+TG SSG G A A A L A ++ T R+ +++ ++ L D+T
Sbjct: 9 ITGVSSGFGRALAQ--AALAAGHRVVGTVRSEAAR----ADFEALHPDRALARLLDVTDF 62
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNAG----------------------------------- 174
+ ++ + ++VLVNNAG
Sbjct: 63 DAIDAVVADAEATFGPIDVLVNNAGYGHEGAIEESPLAEMRRQFEVNVFGAVAMTKAVLP 122
Query: 175 --------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
+IVN++S+ GL + PG+ YC SK A++ + A E+A G+ V +V PG
Sbjct: 123 GMRARRRGHIVNITSMGGLITMPGIGYYCGSKFALEGISESLAKEVAPFGIHVTAVEPG 181
Score = 39.9 bits (94), Expect = 0.001
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 8/90 (8%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDA--KLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+ K L+TG SSG G A A A L A ++ T R+ +++ ++ L
Sbjct: 3 SMKTWLITGVSSGFGRALA--QAALAAGHRVVGTVRSEAAR----ADFEALHPDRALARL 56
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D+T + ++ + ++VLVNNA
Sbjct: 57 LDVTDFDAIDAVVADAEATFGPIDVLVNNA 86
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase
involved in isoprene metabolism, Aspergillus nidulans
StcE encoded by a gene which is part of a proposed
sterigmatocystin biosynthesis gene cluster, Bacillus
circulans SANK 72073 BtrF encoded by a gene found in the
butirosin biosynthesis gene cluster, and Aspergillus
parasiticus nor-1 involved in the biosynthesis of
aflatoxins. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 61.5 bits (150), Expect = 3e-11
Identities = 54/240 (22%), Positives = 85/240 (35%), Gaps = 68/240 (28%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAI-TGRNVE---QLNKVSESCQSVSKNKPLVIQAD 63
+L+TGAS GIG L I T R+ +L + S + +++ D
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAALGASHSRLH-----ILELD 55
Query: 64 LTSEEDTKRIIDTVVKHYQ--KLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
+T E + V + L+VL+NNA GI L G
Sbjct: 56 VTDE--IAESAEAVAERLGDAGLDVLINNA------GI--------------LHSYGPAS 93
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-------VVKHYQKLNVLVNNAG 174
E ED + + + + L +L
Sbjct: 94 E------------------------VDSEDLLEVFQVNVLGPLLLTQAFLPL-LLKGARA 128
Query: 175 NIVNVSSVNG---LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
I+N+SS G + G +Y SKAA++ T A+EL G+ V S++PG T++
Sbjct: 129 KIINISSRVGSIGDNTSGGWYSYRASKAALNMLTKSLAVELKRDGITVVSLHPGWVRTDM 188
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 61.6 bits (150), Expect = 3e-11
Identities = 35/103 (33%), Positives = 55/103 (53%), Gaps = 6/103 (5%)
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS 235
I+++SS ++ G YC +KAA+D AL+ A++ +R+ S+ PGV T +
Sbjct: 132 ILHISSGAARNAYAGWSVYCATKAALDHHARAVALD-ANRALRIVSLAPGVVDTGMQAT- 189
Query: 236 GIDQQAYQNF--LERSKETHALGRVGNPEEVA-KAIAFLASDD 275
I + F ER +E A G + PE+ A + IA+L SDD
Sbjct: 190 -IRATDEERFPMRERFRELKASGALSTPEDAARRLIAYLLSDD 231
>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
Length = 275
Score = 62.0 bits (151), Expect = 4e-11
Identities = 33/103 (32%), Positives = 47/103 (45%), Gaps = 14/103 (13%)
Query: 193 AYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQA------YQNFL 246
AY ++K A A++ +G R+NS++PG+ T L D+ Y+N
Sbjct: 168 AYQIAKRANALRVMAEAVKWGERGARINSISPGIISTPL----AQDELNGPRGDGYRNMF 223
Query: 247 ERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+S GR G P+E+A FL SF TG VDGG
Sbjct: 224 AKS----PAGRPGTPDEIAALAEFLMGPRGSFITGSDFLVDGG 262
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 62.0 bits (151), Expect = 5e-11
Identities = 78/301 (25%), Positives = 113/301 (37%), Gaps = 57/301 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
G V+++TGASSGIG ATA A+ A+L + R+ E L V+E C+++ LV+
Sbjct: 3 GPLHGAVVVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRALGAEV-LVV 61
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
D+T + K + +++V VNN G+GA ++A
Sbjct: 62 PTDVTDADQVKALATQAASFGGRIDVWVNNV------GVGAVGRFEETPIEAH------- 108
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSE-EDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
EQ VIQ +L D + K G +N+
Sbjct: 109 -EQ-----------------VIQTNLIGYMRDAHAALPIFKKQ---------GHGIFINM 141
Query: 180 SSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASK-GVRVNSVNPGVTLTNLHKNSGID 238
S+ G + P AY SK + F+ ELA + V V P T G
Sbjct: 142 ISLGGFAAQPYAAAYSASKFGLRGFSEALRGELADHPDIHVCDVYPAFMDT-----PGFR 196
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAIAFLA-SDDASFTTGEHLTVDGGR--HAMCP 295
A N+ R V +P VAKA+ LA A+ T G R H + P
Sbjct: 197 HGA--NYTGRR--LTPPPPVYDPRRVAKAVVRLADRPRATTTVG--AAARLARLAHFLAP 250
Query: 296 R 296
Sbjct: 251 G 251
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 61.3 bits (149), Expect = 6e-11
Identities = 54/228 (23%), Positives = 91/228 (39%), Gaps = 50/228 (21%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
V GASSGIGAATA+ LA +A+ R VE+ ++ + ++ + + D+T +
Sbjct: 15 VAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRA-DGGEAVAFPLDVTDPDS 73
Query: 152 TKRIIDTVVKHYQKLNVLVNNA-------------------------------------- 173
K + + ++ VLV+ A
Sbjct: 74 VKSFVAQAEEALGEIEVLVSGAGDTYFGKLHEISTEQFESQVQIHLVGANRLATAVLPGM 133
Query: 174 -----GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
G+++ V S LR P + AY +KA ++ + +EL GVR + V+PG TL
Sbjct: 134 IERRRGDLIFVGSDVALRQRPHMGAYGAAKAGLEAMVTNLQMELEGTGVRASIVHPGPTL 193
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGN---PEEVAKAIAFLAS 273
T + + + LE + R ++A+AI F+A
Sbjct: 194 TGMGWSL--PAEVIGPMLEDWAK-WGQARHDYFLRASDLARAITFVAE 238
Score = 44.0 bits (104), Expect = 4e-05
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEE 68
LV GASSGIGAATA+ LA +A+ R VE+ ++ + ++ + + D+T +
Sbjct: 14 LVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRA-DGGEAVAFPLDVTDPD 72
Query: 69 DTKRIIDTVVKHYQKLNVLVNNA 91
K + + ++ VLV+ A
Sbjct: 73 SVKSFVAQAEEALGEIEVLVSGA 95
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 61.2 bits (149), Expect = 6e-11
Identities = 56/226 (24%), Positives = 92/226 (40%), Gaps = 54/226 (23%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTGA+SGIG ATAL LA A+L +T R+ + L + +++ P D++ +
Sbjct: 5 VTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALGGTVPEHRALDISDYDA 64
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
+ + ++V++N AG
Sbjct: 65 VAAFAADIHAAHGSMDVVMNIAGISAWGTVDRLTHEQWRRMVDVNLMGPIHVIETFVPPM 124
Query: 175 -------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
++VNVSS GL + P AY SK + + +LA G+ V+ V PG
Sbjct: 125 VAAGRGGHLVNVSSAAGLVALPWHAAYSASKFGLRGLSEVLRFDLARHGIGVSVVVPGAV 184
Query: 228 LTNLHKN---SGIDQQ--AYQNFLERSKETHALGRVGNPEEVAKAI 268
T L +G+D++ Q +++R HA+ PE+ A+ I
Sbjct: 185 KTPLVNTVEIAGVDREDPRVQKWVDRF-RGHAV----TPEKAAEKI 225
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 60.7 bits (148), Expect = 7e-11
Identities = 37/100 (37%), Positives = 49/100 (49%), Gaps = 13/100 (13%)
Query: 193 AYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAY-QNFLERSKE 251
AY SKAA+D T A +LA + V+VNS+ P + L N D AY Q L +S
Sbjct: 147 AYAASKAALDNMTLSFAAKLAPE-VKVNSIAPALILFNEG-----DDAAYRQKALAKS-- 198
Query: 252 THALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRH 291
L EE+ + +L + + TG L VDGGRH
Sbjct: 199 --LLKIEPGEEEIIDLVDYLL--TSCYVTGRSLPVDGGRH 234
Score = 48.0 bits (115), Expect = 2e-06
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 14/88 (15%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGR----NVEQLNKVSESCQSVSKNKPLVIQAD 63
IL+TGA IG A A HL + ++ R ++ L + C IQAD
Sbjct: 5 ILITGAGQRIGLALAWHLLAQGQPVIVSYRTHYPAIDGLRQAGAQC----------IQAD 54
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
++ ID + +H L +++NA
Sbjct: 55 FSTNAGIMAFIDELKQHTDGLRAIIHNA 82
Score = 43.0 bits (102), Expect = 6e-05
Identities = 22/86 (25%), Positives = 36/86 (41%), Gaps = 14/86 (16%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGR----NVEQLNKVSESCQSVSKNKPLVIQADLT 147
+TGA IG A A HL + ++ R ++ L + C IQAD +
Sbjct: 7 ITGAGQRIGLALAWHLLAQGQPVIVSYRTHYPAIDGLRQAGAQC----------IQADFS 56
Query: 148 SEEDTKRIIDTVVKHYQKLNVLVNNA 173
+ ID + +H L +++NA
Sbjct: 57 TNAGIMAFIDELKQHTDGLRAIIHNA 82
>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 = 60.2 bits (146), Expect = 1e-10
Identities = 72/299 (24%), Positives = 114/299 (38%), Gaps = 55/299 (18%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M G+V+LVTG +SG+G A A++A+ ++ L + ++ + + +
Sbjct: 1 MRLKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAAGL----QELEAAHGDAVVGV 56
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
+ D+ S +D K + V + K++ L+ NA GI
Sbjct: 57 EGDVRSLDDHKEAVARCVAAFGKIDCLIPNA------GIW-------------------- 90
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHY-----QKLNVLVNNAGN 175
+ LV D +E + VK Y L LV + G+
Sbjct: 91 --------------DYSTALVDIPDDRIDEAFDEVFHINVKGYLLAVKAALPALVASRGS 136
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLH--K 233
++ S G G Y +K AV A ELA VRVN V PG ++L K
Sbjct: 137 VIFTISNAGFYPNGGGPLYTAAKHAVVGLVKELAFELAPY-VRVNGVAPGGMSSDLRGPK 195
Query: 234 NSGIDQQAYQNF--LERSKETHALGRVGNPEEVAKAIAFLAS-DDASFTTGEHLTVDGG 289
+ G+ ++ + K +GR+ + EE A F A+ D TG L DGG
Sbjct: 196 SLGMADKSISTVPLGDMLKSVLPIGRMPDAEEYTGAYVFFATRGDTVPATGAVLNYDGG 254
>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 = 59.5 bits (144), Expect = 2e-10
Identities = 75/294 (25%), Positives = 118/294 (40%), Gaps = 59/294 (20%)
Query: 7 VILVTGASSGIGAATALHLAKLD----AKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ- 61
V LVTGAS G G A LAK + L ++ RN E L ++ + +V
Sbjct: 2 VCLVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRVVRVS 61
Query: 62 ADLTSEEDTKRIIDTVV-----KHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAI 116
DL +E ++++ + K Q+L +L+NNA T ++K L+
Sbjct: 62 LDLGAEAGLEQLLKALRELPRPKGLQRL-LLINNA----------GTLGDVSKGFVDLS- 109
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
+ Q+ +LTS + K LN V
Sbjct: 110 ---DSTQVQNYWAL--------------NLTSMLCLTSSVLKAFKDSPGLNRTV------ 146
Query: 177 VNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSG 236
VN+SS+ ++ F G YC KAA D ALE + VRV + PGV T++
Sbjct: 147 VNISSLCAIQPFKGWALYCAGKAARDMLFQVLALEEKNPNVRVLNYAPGVLDTDMQ---- 202
Query: 237 IDQQAYQNFLERS-----KETHALGRVGNPEEVA-KAIAFLASDDASFTTGEHL 284
QQ + ++ +E A G++ +P+ A K ++ L D F +G H+
Sbjct: 203 --QQVREESVDPDMRKGLQELKAKGKLVDPKVSAQKLLSLLEKDK--FKSGAHV 252
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 59.1 bits (143), Expect = 4e-10
Identities = 62/227 (27%), Positives = 91/227 (40%), Gaps = 48/227 (21%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQS-VSKNKPLVIQAD 63
G LVTG + GIG A LA+ L + RN ++L VS+S QS SK + + D
Sbjct: 53 GSWALVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYSKTQIKTVVVD 112
Query: 64 LTSE--EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLA--ITGR 119
+ + E KRI +T+ + VL+NN G+ A ++D +L +
Sbjct: 113 FSGDIDEGVKRIKETIEG--LDVGVLINNV------GVSYPYARFFHEVDEELLKNLIKV 164
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNV 179
NVE KV+ QA L +L G I+N+
Sbjct: 165 NVEGTTKVT--------------QAVLP-------------------GMLKRKKGAIINI 191
Query: 180 SSVNG--LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNP 224
S + S P Y +KA +DQF+ C +E G+ V P
Sbjct: 192 GSGAAIVIPSDPLYAVYAATKAYIDQFSRCLYVEYKKSGIDVQCQVP 238
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 58.4 bits (142), Expect = 7e-10
Identities = 26/97 (26%), Positives = 48/97 (49%), Gaps = 6/97 (6%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN----- 55
M+ +GK + +TGAS GIG A AL A+ A + I + E K+ + + ++
Sbjct: 2 MSLSGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAAG 61
Query: 56 -KPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
+ L + D+ E+ + V+ + +++ VNNA
Sbjct: 62 GQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNA 98
Score = 54.1 bits (131), Expect = 1e-08
Identities = 54/243 (22%), Positives = 85/243 (34%), Gaps = 70/243 (28%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN------KPLVIQAD 145
+TGAS GIG A AL A+ A + I + E K+ + + ++ + L + D
Sbjct: 11 ITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAAGGQALPLVGD 70
Query: 146 LTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI------------------VNV-------- 179
+ E+ + V+ + +++ VNNA I +NV
Sbjct: 71 VRDEDQVAAAVAKAVERFGGIDICVNNASAINLTGTEDTPMKRFDLMQQINVRGTFLVSQ 130
Query: 180 -------SSVNG------------LRSFPGVLAYCVSKAAVDQFTSCT---ALELASKGV 217
S N + F AY ++K + + CT A E G+
Sbjct: 131 ACLPHLKKSENPHILTLSPPLNLDPKWFAPHTAYTMAKYGM---SLCTLGLAEEFRDDGI 187
Query: 218 RVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKA-IAFLASDDA 276
VN++ P T I A +N L E R PE +A A L+
Sbjct: 188 AVNALWP-RTT--------IATAAVRNLL-GGDEAMRRSR--TPEIMADAAYEILSRPAR 235
Query: 277 SFT 279
FT
Sbjct: 236 EFT 238
>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 = 56.8 bits (137), Expect = 8e-10
Identities = 45/187 (24%), Positives = 68/187 (36%), Gaps = 20/187 (10%)
Query: 92 VTGASSGIGAATALHLAK--LDAKLAITGRNV----EQLNKVSESCQSVSKNKPLVIQAD 145
VTG S GIG A A LA L ++ R+V + I+A+
Sbjct: 3 VTGGSGGIGGAIARWLASRGSPKVLVVSRRDVVVHNAAILDDGRLIDLTGSRIERAIRAN 62
Query: 146 LTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFT 205
+ T+R+++ + + G + +SSV GL PG+ Y SKAA+D
Sbjct: 63 VVG---TRRLLEAARELMKA-----KRLGRFILISSVAGLFGAPGLGGYAASKAALDGLA 114
Query: 206 SCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVA 265
A E G+ +V G + + E R PEEVA
Sbjct: 115 QQWASEGWGNGLPATAVACGTWAGSGMAKGPVAP------EEILGNRRHGVRTMPPEEVA 168
Query: 266 KAIAFLA 272
+A+
Sbjct: 169 RALLNAL 175
Score = 30.6 bits (69), Expect = 0.57
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 8 ILVTGASSGIGAATALHLAK 27
+LVTG S GIG A A LA
Sbjct: 1 VLVTGGSGGIGGAIARWLAS 20
>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 = 57.2 bits (138), Expect = 1e-09
Identities = 39/186 (20%), Positives = 66/186 (35%), Gaps = 45/186 (24%)
Query: 148 SEEDTKRIIDTVVKHYQKLNVLVNN----------------------------------- 172
SE+ + ++D V++ ++VLV+N
Sbjct: 55 SEQKPEELVDAVLQAGGAIDVLVSNDYIPRPMNPIDGTSEADIRQAFEALSIFPFALLQA 114
Query: 173 ---------AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVN 223
G+I+ ++S + Y ++AA A EL+ + V ++
Sbjct: 115 AIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAAVALAESLAKELSRDNILVYAIG 174
Query: 224 PGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEH 283
P + D + ER K LGR+G P+E+ +AFLAS A TG+
Sbjct: 175 PNF-FNSPTYFPTSDWENNPELRERVKRDVPLGRLGRPDEMGALVAFLASRRADPITGQF 233
Query: 284 LTVDGG 289
GG
Sbjct: 234 FAFAGG 239
>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 = 56.3 bits (136), Expect = 3e-09
Identities = 61/281 (21%), Positives = 109/281 (38%), Gaps = 61/281 (21%)
Query: 6 KVILVTGASSGIGAATALHLAKLDA---KLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
V+L+TG SSGIG A+ LA + K+ T R++++ ++ E+ +++ +Q
Sbjct: 1 TVVLITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGTLETLQL 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ + ++ V + + ++VLV NA G+G L DA +V
Sbjct: 61 DVCDSKSVAAAVERVTE--RHVDVLVCNA------GVGLLGPLEALSEDAM-----ASVF 107
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+N T R++ + ++ +G I+ SSV
Sbjct: 108 DVNVFG-----------------------TVRMLQAFLPDMKR-----RGSGRILVTSSV 139
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKN-------- 234
GL+ P YC SK A++ A++L V ++ + G T +
Sbjct: 140 GGLQGLPFNDVYCASKFALEGLCESLAVQLLPFNVHLSLIECGPVHTAFMEKVLGSPEEV 199
Query: 235 --SGID----QQAYQNFLERSKET-HALGRVGNPEEVAKAI 268
D + +L SK+ + NPEEVA+
Sbjct: 200 LDRTADDITTFHFFYQYLAHSKQVFREAAQ--NPEEVAEVF 238
>gnl|CDD|180949 PRK07370, PRK07370, enoyl-(acyl carrier protein) reductase;
Validated.
Length = 258
Score = 55.9 bits (135), Expect = 4e-09
Identities = 79/307 (25%), Positives = 124/307 (40%), Gaps = 66/307 (21%)
Query: 1 MNFTGKVILVTGA----SSGIGAATALHLAKLDAKLAIT------GRNVEQLNKVSESCQ 50
++ TGK LVTG S G A LH A A+L IT GR +++ +++E
Sbjct: 2 LDLTGKKALVTGIANNRSIAWGIAQQLHAA--GAELGITYLPDEKGRFEKKVRELTEPL- 58
Query: 51 SVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNN-AVTGASSGIGAATALHLAK 109
N L + D+ + + +T+ + + KL++LV+ A G IG +A
Sbjct: 59 ----NPSLFLPCDVQDDAQIEETFETIKQKWGKLDILVHCLAFAGKEELIGDFSATSREG 114
Query: 110 LDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVL 169
L I+ ++ L K + KPL+
Sbjct: 115 FARALEISAYSLAPLCKAA---------KPLM---------------------------- 137
Query: 170 VNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLT 229
+ G+IV ++ + G+R+ P V+KAA++ A EL K +RVN+++ G T
Sbjct: 138 -SEGGSIVTLTYLGGVRAIPNYNVMGVAKAALEASVRYLAAELGPKNIRVNAISAGPIRT 196
Query: 230 NLHKNSGIDQQAYQNFLE---RSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTV 286
+ A L+ +E L R EV AFL SD AS TG+ + V
Sbjct: 197 -------LASSAVGGILDMIHHVEEKAPLRRTVTQTEVGNTAAFLLSDLASGITGQTIYV 249
Query: 287 DGGRHAM 293
D G M
Sbjct: 250 DAGYCIM 256
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 56.2 bits (136), Expect = 4e-09
Identities = 26/89 (29%), Positives = 49/89 (55%), Gaps = 1/89 (1%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA- 62
+G+V +VTGA++G+G TA LA A + + RN+++ + + + + +Q
Sbjct: 15 SGRVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQEL 74
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
DLTS + D + Y ++++L+NNA
Sbjct: 75 DLTSLASVRAAADALRAAYPRIDLLINNA 103
Score = 53.1 bits (128), Expect = 4e-08
Identities = 48/202 (23%), Positives = 75/202 (37%), Gaps = 57/202 (28%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA-DLTSEE 150
VTGA++G+G TA LA A + + RN+++ + + + + +Q DLTS
Sbjct: 21 VTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQELDLTSLA 80
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG------------------------------------ 174
+ D + Y ++++L+NNAG
Sbjct: 81 SVRAAADALRAAYPRIDLLINNAGVMYTPKQTTADGFELQFGTNHLGHFALTGLLLDRLL 140
Query: 175 -----NIVNVSSV-------------NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKG 216
+V VSS R + V AY SK A FT LA+ G
Sbjct: 141 PVPGSRVVTVSSGGHRIRAAIHFDDLQWERRYNRVAAYGQSKLANLLFTYELQRRLAAAG 200
Query: 217 VRVNSV--NPGVTLTNLHKNSG 236
+V +PGV+ T L +N
Sbjct: 201 ATTIAVAAHPGVSNTELARNLP 222
>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 = 55.8 bits (135), Expect = 4e-09
Identities = 56/235 (23%), Positives = 89/235 (37%), Gaps = 56/235 (23%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAIT--GRNVEQLNKVSESCQSVS---KNK 56
F G+V+LVTGA G+G A AL A+ AK+ + G + + K S + V K
Sbjct: 2 RFDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAA 61
Query: 57 PLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAI 116
A+ S ED ++I+ T + + ++++LVNNA GI
Sbjct: 62 GGKAVANYDSVEDGEKIVKTAIDAFGRVDILVNNA------GI----------------- 98
Query: 117 TGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLV------ 170
R+ SEED ++ +K K+
Sbjct: 99 -LRDRSFAK---------------------MSEEDWDLVMRVHLKGSFKVTRAAWPYMRK 136
Query: 171 NNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
G I+N SS GL G Y +K + ++ A+E A + N++ P
Sbjct: 137 QKFGRIINTSSAAGLYGNFGQANYSAAKLGLLGLSNTLAIEGAKYNITCNTIAPA 191
>gnl|CDD|236124 PRK07889, PRK07889, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 256
Score = 55.3 bits (134), Expect = 5e-09
Identities = 82/297 (27%), Positives = 123/297 (41%), Gaps = 57/297 (19%)
Query: 5 GKVILVTG--ASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
GK ILVTG S I A + A++ +TG L + + + P V++
Sbjct: 7 GKRILVTGVITDSSIAFHVARVAQEQGAEVVLTGFG-RALRLTERIAKRLPEPAP-VLEL 64
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+T+EE + D V +H L+ +V+ S G +AL LDA +
Sbjct: 65 DVTNEEHLASLADRVREHVDGLDGVVH------SIGFAPQSALGGNFLDAPWEDVATALH 118
Query: 123 QLNKVSE-SCQSVSKN-KPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
VS S +S++K PL+ N G+IV +
Sbjct: 119 ----VSAYSLKSLAKALLPLM-----------------------------NEGGSIVGLD 145
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS--GID 238
+ ++P V+KAA++ A +L +G+RVN V G + L + G +
Sbjct: 146 -FDATVAWPAYDWMGVAKAALESTNRYLARDLGPRGIRVNLVAAG-PIRTLAAKAIPGFE 203
Query: 239 QQAYQNFLERSKETHA-LG-RVGNPEEVAKAIAFLASDDASFTTGEHLTVDGGRHAM 293
LE + A LG V +P VA+A+ L SD TTGE + VDGG HAM
Sbjct: 204 L------LEEGWDERAPLGWDVKDPTPVARAVVALLSDWFPATTGEIVHVDGGAHAM 254
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 55.1 bits (133), Expect = 7e-09
Identities = 59/256 (23%), Positives = 94/256 (36%), Gaps = 66/256 (25%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAIT--GRNVEQLNKVSESCQSV------SKNKPLVIQ 143
VTGA GIG A AL A A++ + G ++ + Q+V + + +
Sbjct: 11 VTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAAGGEAVANG 70
Query: 144 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAG----------------------------- 174
D+ + ++D V+ + L+VLVNNAG
Sbjct: 71 DDIADWDGAANLVDAAVETFGGLDVLVNNAGILRDRMIANMSEEEWDAVIAVHLKGHFAT 130
Query: 175 --------------------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELAS 214
I+N SS GL+ G Y +KA + T A EL
Sbjct: 131 LRHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNYSAAKAGIAALTLVAAAELGR 190
Query: 215 KGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASD 274
GV VN++ P T + + + A E + A PE V+ + +L S
Sbjct: 191 YGVTVNAIAP-AARTRMTETVFAEMMAKPE--EGEFDAMA------PENVSPLVVWLGSA 241
Query: 275 DASFTTGEHLTVDGGR 290
++ TG+ V+GG+
Sbjct: 242 ESRDVTGKVFEVEGGK 257
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 54.4 bits (131), Expect = 1e-08
Identities = 64/270 (23%), Positives = 119/270 (44%), Gaps = 53/270 (19%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
++LVTGA++G G + K+ TGR E+L ++ + + + Q D+ +
Sbjct: 2 IVLVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDEL----GDNLYIAQLDVRN 57
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
+ ++ ++ ++ ++VLVNNA G + G+ A H A ++ + N
Sbjct: 58 RAAIEEMLASLPAEWRNIDVLVNNA--GLALGLEPA---HKASVEDWETMIDTN------ 106
Query: 127 VSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLR 186
NK LV T+ ++ +V+ N G+I+N+ S G
Sbjct: 107 ----------NKGLVYM--------TRAVLPGMVER---------NHGHIINIGSTAGSW 139
Query: 187 SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGV---TLTNLHKNSGIDQQAYQ 243
+ G Y +KA V QF+ +L VRV + PG+ T + + G D +A +
Sbjct: 140 PYAGGNVYGATKAFVRQFSLNLRTDLHGTAVRVTDIEPGLVGGTEFSNVRFKGDDGKAEK 199
Query: 244 NFLERSKETHALGRVGNPEEVAKAIAFLAS 273
+ + T AL PE+V++A+ ++A+
Sbjct: 200 TY----QNTVAL----TPEDVSEAVWWVAT 221
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 54.1 bits (130), Expect = 1e-08
Identities = 54/227 (23%), Positives = 80/227 (35%), Gaps = 53/227 (23%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
+L+TGA+SGIG AL AK ++ GRN L+++ ++ + D+T
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVIACGRNQSVLDELHTQSANIF-----TLAFDVTD 57
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLA--ITGRNVEQL 124
TK + +L + + A G + K+DA L + NV +
Sbjct: 58 HPGTKAAL-------SQLPFIPELWIFNA----GDCEYMDDGKVDATLMARVFNVNVLGV 106
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
E Q H +V V S+
Sbjct: 107 ANCIEGIQP----------------------------HLSC-------GHRVVIVGSIAS 131
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
+ P AY SKAAV F L+L KG+ V +V PG T L
Sbjct: 132 ELALPRAEAYGASKAAVAYFARTLQLDLRPKGIEVVTVFPGFVATPL 178
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 54.7 bits (132), Expect = 1e-08
Identities = 28/88 (31%), Positives = 47/88 (53%), Gaps = 1/88 (1%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
TGK IL+TGASSGIG A A A+ A + R + L+ V++ + + + + D
Sbjct: 39 TGKRILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRI-TRAGGDAMAVPCD 97
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
L+ + ++ V K +++L+NNA
Sbjct: 98 LSDLDAVDALVADVEKRIGGVDILINNA 125
Score = 48.2 bits (115), Expect = 2e-06
Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGASSGIG A A A+ A + R + L+ V++ + + + + DL+ +
Sbjct: 45 LTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRI-TRAGGDAMAVPCDLSDLDA 103
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG 174
++ V K +++L+NNAG
Sbjct: 104 VDALVADVEKRIGGVDILINNAG 126
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 54.2 bits (131), Expect = 1e-08
Identities = 49/178 (27%), Positives = 70/178 (39%), Gaps = 46/178 (25%)
Query: 92 VTGASSGIGAATALH-----------------LAKLDAKLAITG---------RNVEQLN 125
+TGASSGIG A A L A+L R+ + L
Sbjct: 7 ITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLPKAARVSVYAADVRDADALA 66
Query: 126 KVSESCQSVSKNKPLVI------QADLTSE-EDT---KRIIDT----VVKHYQK-LNVLV 170
+ + +VI LT E ED + ++DT +V +Q + +
Sbjct: 67 AAAADFIAAHGLPDVVIANAGISVGTLTEEREDLAVFREVMDTNYFGMVATFQPFIAPMR 126
Query: 171 NN-AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTAL--ELASKGVRVNSVNPG 225
G +V ++SV G+R PG AY SKAA +L EL GVRV ++ PG
Sbjct: 127 AARRGTLVGIASVAGVRGLPGAGAYSASKAAA--IKYLESLRVELRPAGVRVVTIAPG 182
Score = 43.0 bits (102), Expect = 8e-05
Identities = 17/39 (43%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 42
KV + TGASSGIG A A A+ A L + R + L
Sbjct: 2 PLKVFI-TGASSGIGQALAREYARQGATLGLVARRTDAL 39
>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 = 54.3 bits (131), Expect = 1e-08
Identities = 57/253 (22%), Positives = 95/253 (37%), Gaps = 42/253 (16%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAK-----LAITGRNVEQLNKVSESCQSVSKNKP--- 57
KV+LVTGA+SG+G A L D + L + RN++ + +C+++ + P
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQ---RAEAACRALLASHPDAR 58
Query: 58 ---LVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKL 114
+ DL++ + K Y +L+ L NA + GI A+ +
Sbjct: 59 VVFDYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNPGIDWIGAIKEVLTNP-- 116
Query: 115 AITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDT-VVKHY------QKLN 167
+ + + Q+ L+ Q D +E+ + T V HY + L
Sbjct: 117 ------LFAVTNPTYKIQAEG----LLSQGDKATEDGLGEVFQTNVFGHYYLIRELEPLL 166
Query: 168 VLVNNAGNIVNVSSVNGLRS---------FPGVLAYCVSKAAVDQFTSCTALELASKGVR 218
+ I+ SS+N G Y SK VD + + GV
Sbjct: 167 CRSDGGSQIIWTSSLNASPKYFSLEDIQHLKGPAPYSSSKYLVDLLSLALNRKFNKLGVY 226
Query: 219 VNSVNPGVTLTNL 231
V+PG+ TNL
Sbjct: 227 SYVVHPGICTTNL 239
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 52.7 bits (126), Expect = 2e-08
Identities = 29/92 (31%), Positives = 47/92 (51%), Gaps = 1/92 (1%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
M GKV +VTG GIG TAL LAK AK+ +T + E E ++ + L +
Sbjct: 12 MKLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEITNLG-GEALFV 70
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAV 92
D+ + D +R+I + + ++++L NA
Sbjct: 71 SYDMEKQGDWQRVISITLNAFSRIDMLFQNAG 102
Score = 46.1 bits (109), Expect = 3e-06
Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 4/105 (3%)
Query: 70 TKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSE 129
T R+I+ V+K V + VTG GIG TAL LAK AK+ +T + E E
Sbjct: 2 TVRLIEGVMKMKLAGKVAI---VTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVE 58
Query: 130 SCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAG 174
++ + L + D+ + D +R+I + + ++++L NAG
Sbjct: 59 EITNLG-GEALFVSYDMEKQGDWQRVISITLNAFSRIDMLFQNAG 102
>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 = 53.8 bits (129), Expect = 2e-08
Identities = 29/96 (30%), Positives = 52/96 (54%), Gaps = 5/96 (5%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGA+SGIG A AL +AK + + RN + + + ++ S N+ + + + D
Sbjct: 6 ITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIFLH--IVDMSD 63
Query: 152 TKRIIDTV---VKHYQKLNVLVNNAGNIVNVSSVNG 184
K++ + V + +KL+VL+NNAG +VN +
Sbjct: 64 PKQVWEFVEEFKEEGKKLHVLINNAGCMVNKRELTE 99
Score = 51.4 bits (123), Expect = 1e-07
Identities = 28/90 (31%), Positives = 50/90 (55%), Gaps = 5/90 (5%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
G+ L+TGA+SGIG A AL +AK + + RN + + + ++ S N+ + + +
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIFLH--I 58
Query: 65 TSEEDTKRIIDTV---VKHYQKLNVLVNNA 91
D K++ + V + +KL+VL+NNA
Sbjct: 59 VDMSDPKQVWEFVEEFKEEGKKLHVLINNA 88
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 53.4 bits (128), Expect = 3e-08
Identities = 28/92 (30%), Positives = 48/92 (52%), Gaps = 3/92 (3%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
+ K ILVTGAS G+G A A A + + R+ ++L KV ++ +P I+
Sbjct: 4 LSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIRF 63
Query: 63 DL--TSEEDTKRIIDTVVKHYQ-KLNVLVNNA 91
DL E++ ++ T+ + Q KL+ +V+ A
Sbjct: 64 DLMSAEEKEFEQFAATIAEATQGKLDGIVHCA 95
Score = 45.7 bits (108), Expect = 9e-06
Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 3/92 (3%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL--TSE 149
VTGAS G+G A A A + + R+ ++L KV ++ +P I+ DL E
Sbjct: 11 VTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIRFDLMSAEE 70
Query: 150 EDTKRIIDTVVKHYQ-KLNVLVNNAGNIVNVS 180
++ ++ T+ + Q KL+ +V+ AG +S
Sbjct: 71 KEFEQFAATIAEATQGKLDGIVHCAGYFYALS 102
>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 = 52.8 bits (127), Expect = 3e-08
Identities = 56/270 (20%), Positives = 89/270 (32%), Gaps = 65/270 (24%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV-----SESCQSVSKNKPLVI 60
K I +TGA+SGIG TAL A+ + + + + L + +E+ +
Sbjct: 1 KAIFITGAASGIGRETALLFARNGWFVGLYDIDEDGLAALAAELGAENV--------VAG 52
Query: 61 QADLTSEEDTKRIIDTVV-KHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGR 119
D+T + +L+ L NNA G+G L A +
Sbjct: 53 ALDVTDRAAWAAALADFAAATGGRLDALFNNA------GVGRGGPFEDVPLAAHDRMVDI 106
Query: 120 NVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGN-IVN 178
NV K +++ Y L L G ++N
Sbjct: 107 NV-------------------------------KGVLNGA---YAALPYLKATPGARVIN 132
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
+S + + P + Y +K AV T +E A G+RV V P +D
Sbjct: 133 TASSSAIYGQPDLAVYSATKFAVRGLTEALDVEWARHGIRVADVWPWF----------VD 182
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAI 268
+ LGRV +VAK +
Sbjct: 183 TPILTKGETGAAPKKGLGRVLPVSDVAKVV 212
>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 = 52.2 bits (126), Expect = 3e-08
Identities = 52/221 (23%), Positives = 84/221 (38%), Gaps = 50/221 (22%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGR----------NVEQLNKVSE---------SCQ 132
V GA+ IG A A L+ ++ GR + + + E S
Sbjct: 3 VIGATGTIGLAVAQLLSAHGHEVITAGRSSGDYQVDITDEASIKALFEKVGHFDAIVSTA 62
Query: 133 SVSKNKPLVIQADLTSEEDTKRIIDTV------VKHYQKLNVLVNNAGNIVNVSSVNGLR 186
++ PL A+LT + + + + V+H +N+ G+I S + R
Sbjct: 63 GDAEFAPL---AELTDADFQRGLNSKLLGQINLVRHGLPY---LNDGGSITLTSGILAQR 116
Query: 187 SFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFL 246
PG A A++ F A+EL +G+R+N+V+PGV +L Y +F
Sbjct: 117 PIPGGAAAATVNGALEGFVRAAAIEL-PRGIRINAVSPGVVEESLEA--------YGDFF 167
Query: 247 ERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVD 287
+ E+VAKA TG+ L VD
Sbjct: 168 PGFEP-------VPAEDVAKAYVRSVE---GAFTGQVLHVD 198
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 52.2 bits (126), Expect = 7e-08
Identities = 62/270 (22%), Positives = 90/270 (33%), Gaps = 63/270 (23%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
K I +TGA+SGIG ATAL A ++ N L ++ + D+T
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALA---AELGAGNAWTGALDVT 58
Query: 66 SEEDTKRIIDTVVKHY-QKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+ +L+VL NNA GI G +
Sbjct: 59 DRAAWDAALADFAAATGGRLDVLFNNA------GIL---------------RGGPFEDI- 96
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKH-----YQKLNVLVNNAGN-IVN 178
E R+ID VK + L L G ++N
Sbjct: 97 -----------------------PLEAHDRVIDINVKGVLNGAHAALPYLKATPGARVIN 133
Query: 179 VSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
SS + + PG+ Y +K AV T LE G+RV V P T + + +
Sbjct: 134 TSSASAIYGQPGLAVYSATKFAVRGLTEALDLEWRRHGIRVADVMPLFVDTAMLDGTSNE 193
Query: 239 QQAYQNFLERSKETHALGRVGNPEEVAKAI 268
+ T LG PE+VA+A+
Sbjct: 194 --------VDAGSTKRLGVRLTPEDVAEAV 215
>gnl|CDD|181187 PRK07984, PRK07984, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 262
Score = 51.8 bits (124), Expect = 8e-08
Identities = 68/294 (23%), Positives = 127/294 (43%), Gaps = 49/294 (16%)
Query: 1 MNF-TGKVILVTGASSGI----GAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN 55
M F +GK ILVTG +S + G A A+H + A+LA T +N + +V E +
Sbjct: 1 MGFLSGKRILVTGVASKLSIAYGIAQAMH--REGAELAFTYQNDKLKGRVEEFAAQL--G 56
Query: 56 KPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLA 115
+V+ D+ + + + K + K + V++ IG A
Sbjct: 57 SDIVLPCDVAEDASIDAMFAELGKVWPKFDGFVHS--------IGFAPG----------- 97
Query: 116 ITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGN 175
+QL+ + +V++ + I D++S + V + ++N
Sbjct: 98 ------DQLD--GDYVNAVTR-EGFKIAHDISSY--------SFVAMAKACRSMLNPGSA 140
Query: 176 IVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS 235
++ +S + R+ P ++KA+++ A + +GVRVN+++ G T S
Sbjct: 141 LLTLSYLGAERAIPNYNVMGLAKASLEANVRYMANAMGPEGVRVNAISAGPIRT--LAAS 198
Query: 236 GIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
GI + ++ L + + R E+V + AFL SD ++ +GE + VDGG
Sbjct: 199 GI--KDFRKMLAHCEAVTPIRRTVTIEDVGNSAAFLCSDLSAGISGEVVHVDGG 250
>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 = 52.8 bits (127), Expect = 9e-08
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 7/107 (6%)
Query: 4 TGKVILVTGASSGIGAATALHLAKL-DAKLAITGRNVEQLNKVSESCQSVSKNK-----P 57
G V LVTG + GIG A A LA+ A+L + GR+ + ++ Q+++ +
Sbjct: 204 PGGVYLVTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKA-QTLAALEALGARV 262
Query: 58 LVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATA 104
L I AD+T +R+++ V + Y ++ +++ A + + TA
Sbjct: 263 LYISADVTDAAAVRRLLEKVRERYGAIDGVIHAAGVLRDALLAQKTA 309
Score = 50.4 bits (121), Expect = 4e-07
Identities = 25/89 (28%), Positives = 48/89 (53%), Gaps = 7/89 (7%)
Query: 92 VTGASSGIGAATALHLAKL-DAKLAITGRNVEQLNKVSESCQSVSKNK-----PLVIQAD 145
VTG + GIG A A LA+ A+L + GR+ + ++ Q+++ + L I AD
Sbjct: 210 VTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKA-QTLAALEALGARVLYISAD 268
Query: 146 LTSEEDTKRIIDTVVKHYQKLNVLVNNAG 174
+T +R+++ V + Y ++ +++ AG
Sbjct: 269 VTDAAAVRRLLEKVRERYGAIDGVIHAAG 297
>gnl|CDD|235776 PRK06300, PRK06300, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 299
Score = 51.4 bits (123), Expect = 2e-07
Identities = 46/187 (24%), Positives = 83/187 (44%), Gaps = 24/187 (12%)
Query: 127 VSESCQSVSKN---KPLVIQADLTSEEDTKRIIDTVVKHY---------------QKLNV 168
+SE + V K+ +++ + S E +K +++T K Y
Sbjct: 106 ISEVAEQVKKDFGHIDILVHSLANSPEISKPLLETSRKGYLAALSTSSYSFVSLLSHFGP 165
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVS-KAAVDQFTSCTALELASK-GVRVNSVNPGV 226
++N G+ ++++ + +R+ PG S KAA++ T A E + G+RVN+++ G
Sbjct: 166 IMNPGGSTISLTYLASMRAVPGYGGGMSSAKAALESDTKVLAWEAGRRWGIRVNTISAGP 225
Query: 227 TLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTV 286
+ K G ++ + + + + E+V A AFL S AS TGE L V
Sbjct: 226 LASRAGKAIGFIERMVDYYQDWAPLPEPM----EAEQVGAAAAFLVSPLASAITGETLYV 281
Query: 287 DGGRHAM 293
D G + M
Sbjct: 282 DHGANVM 288
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 50.9 bits (122), Expect = 2e-07
Identities = 59/230 (25%), Positives = 95/230 (41%), Gaps = 49/230 (21%)
Query: 4 TGKVILVTGASSGIG-AATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
K +TGASSG G T LA+ D ++A T R + L + ++ ++ V+Q
Sbjct: 1 MSKTWFITGASSGFGRGMTERLLARGD-RVAATVRRPDAL----DDLKARYGDRLWVLQL 55
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLA--ITGRN 120
D+T + ++D +++V+V+NA G GAA L A++ ++ + G
Sbjct: 56 DVTDSAAVRAVVDRAFAALGRIDVVVSNAGYGL---FGAAEELSDAQIRRQIDTNLIG-- 110
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
S Q VI+A + H ++ G IV VS
Sbjct: 111 ---------SIQ--------VIRA--------------ALPHLRR-----QGGGRIVQVS 134
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTN 230
S G ++PG Y +K ++ F A E+A G+ V PG TN
Sbjct: 135 SEGGQIAYPGFSLYHATKWGIEGFVEAVAQEVAPFGIEFTIVEPGPARTN 184
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 50.9 bits (122), Expect = 2e-07
Identities = 60/236 (25%), Positives = 92/236 (38%), Gaps = 47/236 (19%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
K +L+TG SSGIG AL L + ++ R + + +++ + I DL
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAACRKPDDVARMNSLGFTG-------ILLDLD 55
Query: 66 SEEDTKRIIDTVVK-HYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
E +R D V+ +L L NNA G G L I+ + +EQ
Sbjct: 56 DPESVERAADEVIALTDNRLYGLFNNA------GFGVYGPLS--------TISRQQMEQ- 100
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
S N + + T ++ ++ H G IV SSV G
Sbjct: 101 --------QFSTNF-------FGTHQLTMLLLPAMLPH---------GEGRIVMTSSVMG 136
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
L S PG AY SK A++ ++ +EL G++V+ + PG T N Q
Sbjct: 137 LISTPGRGAYAASKYALEAWSDALRMELRHSGIKVSLIEPGPIRTRFTDNVNQTQS 192
>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 = 50.1 bits (120), Expect = 3e-07
Identities = 46/213 (21%), Positives = 71/213 (33%), Gaps = 39/213 (18%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
V V GA G+GAA A A +A+ R +L + + + D
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGGSAKAVPTDARD 60
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
E++ + D + + L VLV NA I L T R E++ +
Sbjct: 61 EDEVIALFDLIEEEIGPLEVLVYNAGANVWFPI--------------LETTPRVFEKVWE 106
Query: 127 VSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLR 186
+ + L + E KR+ L G I+ + LR
Sbjct: 107 M--AAFG----------GFLAAREAAKRM-------------LARGRGTIIFTGATASLR 141
Query: 187 SFPGVLAYCVSKAAVDQFTSCTALELASKGVRV 219
G A+ +K A+ A EL KG+ V
Sbjct: 142 GRAGFAAFAGAKFALRALAQSMARELGPKGIHV 174
>gnl|CDD|235694 PRK06079, PRK06079, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 252
Score = 49.3 bits (118), Expect = 6e-07
Identities = 37/123 (30%), Positives = 61/123 (49%), Gaps = 4/123 (3%)
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
L+N +IV ++ R+ P ++KAA++ A +L KG+RVN+++ G
Sbjct: 132 LLNPGASIVTLTYFGSERAIPNYNVMGIAKAALESSVRYLARDLGKKGIRVNAISAGAVK 191
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T +GI + +++ L+ S G EEV AFL SD ++ TG+ + VD
Sbjct: 192 T--LAVTGI--KGHKDLLKESDSRTVDGVGVTIEEVGNTAAFLLSDLSTGVTGDIIYVDK 247
Query: 289 GRH 291
G H
Sbjct: 248 GVH 250
>gnl|CDD|169553 PRK08690, PRK08690, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 261
Score = 49.2 bits (117), Expect = 6e-07
Identities = 71/289 (24%), Positives = 121/289 (41%), Gaps = 47/289 (16%)
Query: 5 GKVILVTGA----SSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVI 60
GK IL+TG S G A A + A+LA T + +V + + LV
Sbjct: 6 GKKILITGMISERSIAYGIAKACR--EQGAELAFTYVVDKLEERVRKMAAELDSE--LVF 61
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRN 120
+ D+ S+++ ++ + KH+ L+ LV++ IG A K A++G
Sbjct: 62 RCDVASDDEINQVFADLGKHWDGLDGLVHS--------IGFA---------PKEALSGDF 104
Query: 121 VEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
++ +++ +A T+ E + + + K + + + IV +S
Sbjct: 105 LDSISR----------------EAFNTAHEISAYSLPALAKAARPM--MRGRNSAIVALS 146
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQ 240
+ +R+ P ++KA+++ TA L +G+R N ++ G T SGI
Sbjct: 147 YLGAVRAIPNYNVMGMAKASLEAGIRFTAACLGKEGIRCNGISAGPIKT--LAASGI--A 202
Query: 241 AYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDGG 289
+ L + L R EEV AFL SD +S TGE VDGG
Sbjct: 203 DFGKLLGHVAAHNPLRRNVTIEEVGNTAAFLLSDLSSGITGEITYVDGG 251
>gnl|CDD|181416 PRK08415, PRK08415, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 274
Score = 48.6 bits (116), Expect = 1e-06
Identities = 39/131 (29%), Positives = 67/131 (51%), Gaps = 6/131 (4%)
Query: 164 QKLNVLVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVN 223
+ L L+N+ +++ +S + G++ P V+KAA++ A++L KG+RVN+++
Sbjct: 127 RALLPLLNDGASVLTLSYLGGVKYVPHYNVMGVAKAALESSVRYLAVDLGKKGIRVNAIS 186
Query: 224 PGVTLTNLHKNSGIDQQAYQNFLERSKETHA-LGRVGNPEEVAKAIAFLASDDASFTTGE 282
G T SGI + + E +A L + + EEV + +L SD +S TGE
Sbjct: 187 AGPIKT--LAASGIGD---FRMILKWNEINAPLKKNVSIEEVGNSGMYLLSDLSSGVTGE 241
Query: 283 HLTVDGGRHAM 293
VD G + M
Sbjct: 242 IHYVDAGYNIM 252
>gnl|CDD|236342 PRK08862, PRK08862, short chain dehydrogenase; Provisional.
Length = 227
Score = 47.4 bits (113), Expect = 2e-06
Identities = 24/92 (26%), Positives = 46/92 (50%), Gaps = 4/92 (4%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN-KPLV 59
M+ +IL+T A S +G + H A+L A L + ++ L E C +++ N
Sbjct: 1 MDIKSSIILITSAGSVLGRTISCHFARLGATLILCDQDQSALKDTYEQCSALTDNVYSFQ 60
Query: 60 IQADLTSEEDTKRIIDTVVKHYQK-LNVLVNN 90
++ S+E + + D + + + + +VLVNN
Sbjct: 61 LKDF--SQESIRHLFDAIEQQFNRAPDVLVNN 90
Score = 43.9 bits (104), Expect = 3e-05
Identities = 42/186 (22%), Positives = 67/186 (36%), Gaps = 52/186 (27%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN-KPLVIQADLTSEE 150
+T A S +G + H A+L A L + ++ L E C +++ N ++ S+E
Sbjct: 10 ITSAGSVLGRTISCHFARLGATLILCDQDQSALKDTYEQCSALTDNVYSFQLKDF--SQE 67
Query: 151 DTKRIIDTVVKHYQK-LNVLVNN------------------------------------- 172
+ + D + + + + +VLVNN
Sbjct: 68 SIRHLFDAIEQQFNRAPDVLVNNWTSSPLPSLFDEQPSESFIQQLSSLASTLFTYGQVAA 127
Query: 173 --------AGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNP 224
G IVNV S + + GV + S A V FT A EL +RV V P
Sbjct: 128 ERMRKRNKKGVIVNVISHDDHQDLTGVES---SNALVSGFTHSWAKELTPFNIRVGGVVP 184
Query: 225 GVTLTN 230
+ N
Sbjct: 185 SIFSAN 190
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 47.3 bits (113), Expect = 3e-06
Identities = 50/248 (20%), Positives = 86/248 (34%), Gaps = 64/248 (25%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGA+SG G A A A L KL + + L++ ++ + L ++ D++
Sbjct: 11 ITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRA-QGAEVLGVRTDVSDAAQ 69
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
+ + D ++ + +++L NNAG
Sbjct: 70 VEALADAALERFGAVHLLFNNAGVGAGGLVWENSLADWEWVLGVNLWGVIHGVRAFTPLM 129
Query: 175 ------------NIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSC--TALELASKGVRVN 220
+IVN +S+ GL + P + Y VSK AV T L L + V +
Sbjct: 130 LAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTETLYQDLSLVTDQVGAS 189
Query: 221 SVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHAL----------GRVGNPEEVAKAIAF 270
+ P T + ++ N ++ G+V EEVA + F
Sbjct: 190 VLCPYFVPTGIWQSERNRPADLANTAPPTRSQLIAQAMSQKAVGSGKVT-AEEVA-QLVF 247
Query: 271 LASDDASF 278
A F
Sbjct: 248 DAIRAGRF 255
Score = 46.9 bits (112), Expect = 4e-06
Identities = 26/94 (27%), Positives = 49/94 (52%), Gaps = 1/94 (1%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
+F GKV ++TGA+SG G A A A L KL + + L++ ++ + L ++
Sbjct: 3 DFAGKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRA-QGAEVLGVR 61
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGA 95
D++ + + D ++ + +++L NNA GA
Sbjct: 62 TDVSDAAQVEALADAALERFGAVHLLFNNAGVGA 95
>gnl|CDD|187595 cd05334, DHPR_SDR_c_like, dihydropteridine reductase (DHPR),
classical (c) SDRs. Dihydropteridine reductase is an
NAD-binding protein related to the SDRs. It converts
dihydrobiopterin into tetrahydrobiopterin, a cofactor
necessary in catecholamines synthesis. Dihydropteridine
reductase has the YXXXK of these tyrosine-dependent
oxidoreductases, but lacks the typical upstream Asn and
Ser catalytic residues. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 221
Score = 46.5 bits (111), Expect = 4e-06
Identities = 56/282 (19%), Positives = 101/282 (35%), Gaps = 73/282 (25%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADL 64
+V+LV G +G+A + ++ + + S +V+ +D
Sbjct: 1 ARVVLVYGGRGALGSAVVQAFK--SRGWWVASIDLAENEEADASI--------IVLDSDS 50
Query: 65 TSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 124
+E+ K+++ +V + K++ L+ V G +G G+A + K N + +
Sbjct: 51 FTEQ-AKQVVASVARLSGKVDALIC--VAGGWAG-GSAKSKSFVK----------NWDLM 96
Query: 125 NKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNG 184
K Q++ I + L + KH G +V +
Sbjct: 97 WK-----QNL---WTSFIASHLAT------------KHLLS-------GGLLVLTGAKAA 129
Query: 185 LRSFPGVLAYCVSKAAVDQFTSCTALEL--ASKGVRVNSVNPGVTLTNLHKNSGIDQQAY 242
L PG++ Y +KAAV Q T A E G N++ P +D A
Sbjct: 130 LEPTPGMIGYGAAKAAVHQLTQSLAAENSGLPAGSTANAILPVT----------LDTPAN 179
Query: 243 QNFL---ERSKETHALGRVGNPEEVAKAIAFLASDDASFTTG 281
+ + + S T E +A+ I F AS A +G
Sbjct: 180 RKAMPDADFSSWT-------PLEFIAELILFWASGAARPKSG 214
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 46.7 bits (111), Expect = 5e-06
Identities = 53/248 (21%), Positives = 91/248 (36%), Gaps = 57/248 (22%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN---KPLVIQADLTS 148
+ G + +G A LA AK N +E + K K + QADLT+
Sbjct: 13 IAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADAEETVAAVKAAGAKAVAFQADLTT 72
Query: 149 EEDTKRIIDTVVKHYQKLNVLVNNAGNIV-------------NVSSVNGLRSF------- 188
+++ D + + ++ +N G ++ + +VN +F
Sbjct: 73 AAAVEKLFDDAKAAFGRPDIAINTVGKVLKKPIVEISEAEYDEMFAVNSKSAFFFIKEAG 132
Query: 189 ---------------------PGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVT 227
P AY SKA V+ FT + E ++G+ V +V PG
Sbjct: 133 RHLNDNGKIVTLVTSLLGAFTPFYSAYAGSKAPVEHFTRAASKEFGARGISVTAVGPGPM 192
Query: 228 LTN-LHKNSGIDQQAYQNFLERSKETHALG-----RVGNPEEVAKAIAFLASDDASFTTG 281
T + G + AY K AL + + E++ I FL + D + TG
Sbjct: 193 DTPFFYPQEGAEAVAYH------KTAAALSPFSKTGLTDIEDIVPFIRFLVT-DGWWITG 245
Query: 282 EHLTVDGG 289
+ + ++GG
Sbjct: 246 QTILINGG 253
Score = 36.6 bits (85), Expect = 0.009
Identities = 22/89 (24%), Positives = 38/89 (42%), Gaps = 3/89 (3%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKN---KPLVI 60
GKV+L+ G + +G A LA AK N +E + K K +
Sbjct: 7 KGKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADAEETVAAVKAAGAKAVAF 66
Query: 61 QADLTSEEDTKRIIDTVVKHYQKLNVLVN 89
QADLT+ +++ D + + ++ +N
Sbjct: 67 QADLTTAAAVEKLFDDAKAAFGRPDIAIN 95
>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 = 45.1 bits (107), Expect = 1e-05
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 6/95 (6%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK------NK 56
GK + +TGAS GIG A AL A+ A + I + E K+ + + ++ K
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGGK 60
Query: 57 PLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
L D+ E+ + ++ V+ + +++LVNNA
Sbjct: 61 ALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNA 95
Score = 40.9 bits (96), Expect = 3e-04
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 6/91 (6%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK------NKPLVIQAD 145
+TGAS GIG A AL A+ A + I + E K+ + + ++ K L D
Sbjct: 8 ITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGGKALPCIVD 67
Query: 146 LTSEEDTKRIIDTVVKHYQKLNVLVNNAGNI 176
+ E+ + ++ V+ + +++LVNNA I
Sbjct: 68 IRDEDQVRAAVEKAVEKFGGIDILVNNASAI 98
>gnl|CDD|181260 PRK08159, PRK08159, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 272
Score = 45.1 bits (107), Expect = 2e-05
Identities = 41/149 (27%), Positives = 68/149 (45%), Gaps = 8/149 (5%)
Query: 147 TSEEDTKRIIDTVVKHY----QKLNVLVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVD 202
TS ++ +D V + Q+ L+ + G+I+ ++ + P V+KAA++
Sbjct: 111 TSRDNFTMTMDISVYSFTAVAQRAEKLMTDGGSILTLTYYGAEKVMPHYNVMGVAKAALE 170
Query: 203 QFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPE 262
A++L K +RVN+++ G T SGI Y L+ ++ L R E
Sbjct: 171 ASVKYLAVDLGPKNIRVNAISAGPIKT--LAASGIGDFRY--ILKWNEYNAPLRRTVTIE 226
Query: 263 EVAKAIAFLASDDASFTTGEHLTVDGGRH 291
EV + +L SD + TGE VD G H
Sbjct: 227 EVGDSALYLLSDLSRGVTGEVHHVDSGYH 255
>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 = 44.9 bits (106), Expect = 2e-05
Identities = 31/94 (32%), Positives = 45/94 (47%), Gaps = 1/94 (1%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK-VSESCQSVSKNKPLVIQAD 63
GKVI++TGA+SGIG TA A A + + RN+ + + VS + K + + D
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVEAMTLD 60
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASS 97
L S +R + L+VLV NA A
Sbjct: 61 LASLRSVQRFAEAFKAKNSPLHVLVCNAAVFALP 94
Score = 36.4 bits (84), Expect = 0.010
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 1/84 (1%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK-VSESCQSVSKNKPLVIQADLTSEE 150
+TGA+SGIG TA A A + + RN+ + + VS + K + + DL S
Sbjct: 6 ITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVEAMTLDLASLR 65
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG 174
+R + L+VLV NA
Sbjct: 66 SVQRFAEAFKAKNSPLHVLVCNAA 89
Score = 27.6 bits (61), Expect = 8.6
Identities = 13/45 (28%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 191 VLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG-VTLTNLHKN 234
+LAY +K F++ L+ +G+ NS++PG + +++H+N
Sbjct: 167 MLAYNRAKLCNILFSNELHRRLSPRGITSNSLHPGNMMYSSIHRN 211
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 44.7 bits (106), Expect = 3e-05
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 5/88 (5%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
+GK +VTG SG+G T LA+ A + + R + + V V+ D
Sbjct: 25 SGKTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGIDGVE-----VVMLD 79
Query: 64 LTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
L E + + + +++++L+NNA
Sbjct: 80 LADLESVRAFAERFLDSGRRIDILINNA 107
Score = 42.7 bits (101), Expect = 1e-04
Identities = 45/206 (21%), Positives = 72/206 (34%), Gaps = 66/206 (32%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
VTG SG+G T LA+ A + + R + + V V+ DL E
Sbjct: 31 VTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGIDGVE-----VVMLDLADLES 85
Query: 152 TKRIIDTVVKHYQKLNVLVNNAG------------------------------------- 174
+ + + +++++L+NNAG
Sbjct: 86 VRAFAERFLDSGRRIDILINNAGVMACPETRVGDGWEAQFATNHLGHFALVNLLWPALAA 145
Query: 175 ----NIVNVSS------------VNGLRSFPGVLAYCVSKAAVDQFTSCTALEL----AS 214
+V +SS + R + LAY SK A F A+ L
Sbjct: 146 GAGARVVALSSAGHRRSPIRWDDPHFTRGYDKWLAYGQSKTANALF----AVHLDKLGKD 201
Query: 215 KGVRVNSVNPGVTLTNLHKNSGIDQQ 240
+GVR SV+PG LT L ++ ++Q
Sbjct: 202 QGVRAFSVHPGGILTPLQRHLPREEQ 227
>gnl|CDD|180789 PRK06997, PRK06997, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 260
Score = 44.4 bits (105), Expect = 3e-05
Identities = 35/121 (28%), Positives = 57/121 (47%), Gaps = 4/121 (3%)
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
++++ +++ +S + R P ++KA+++ A+ L KG+R N ++ G
Sbjct: 134 MLSDDASLLTLSYLGAERVVPNYNTMGLAKASLEASVRYLAVSLGPKGIRANGISAGPIK 193
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T SGI + + L+ + L R EEV AFL SD AS TGE VD
Sbjct: 194 T--LAASGI--KDFGKILDFVESNAPLRRNVTIEEVGNVAAFLLSDLASGVTGEITHVDS 249
Query: 289 G 289
G
Sbjct: 250 G 250
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 43.9 bits (104), Expect = 5e-05
Identities = 71/281 (25%), Positives = 99/281 (35%), Gaps = 76/281 (27%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGR---NVEQLNKVSESCQSVSKNKPLVIQA 62
+ IL+TG SSGIGA A L ++ T R +V L Q
Sbjct: 5 RSILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEA----------FQL 54
Query: 63 DLTSEEDTKRIIDTVVKHYQ-KLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNV 121
D E ++ V++ +L+ L NN GA GA L L A+
Sbjct: 55 DYAEPESIAALVAQVLELSGGRLDALFNN---GAYGQPGAVEDLPTEALRAQF------- 104
Query: 122 EQLNKVSESCQSVSKNKPLVIQADLTSEED-TKRIIDTVVKHYQKLNVLVNNAGNIVNVS 180
+A+ D T+R+I + K Q G IV S
Sbjct: 105 ---------------------EANFFGWHDLTRRVIPVMRKQGQ---------GRIVQCS 134
Query: 181 SVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS----- 235
S+ GL AY SK A++ + +EL G+ V+ + PG T N+
Sbjct: 135 SILGLVPMKYRGAYNASKFAIEGLSLTLRMELQGSGIHVSLIEPGPIETRFRANALAAFK 194
Query: 236 -GID------QQAYQNFLER-----SKETHALGRVGNPEEV 264
ID + AYQ + R SK LG PE V
Sbjct: 195 RWIDIENSVHRAAYQQQMARLEGGGSKSRFKLG----PEAV 231
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 43.4 bits (103), Expect = 5e-05
Identities = 56/227 (24%), Positives = 81/227 (35%), Gaps = 76/227 (33%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSE-----SCQSVS----------- 135
+ GA+S I A A A A+L + R+VE+L ++++ +VS
Sbjct: 6 IIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLRARGAVAVSTHELDILDTAS 65
Query: 136 --------KNKPLVI-------------QADLTSEEDTKRIIDTVVKHYQK----LNVLV 170
P ++ +AD R T +++ L +L
Sbjct: 66 HAAFLDSLPALPDIVLIAVGTLGDQAACEADP---ALALREFRT---NFEGPIALLTLLA 119
Query: 171 N-----NAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
N +G IV +SSV G R Y +KAA+ F S L GV V +V PG
Sbjct: 120 NRFEARGSGTIVGISSVAGDRGRASNYVYGSAKAALTAFLSGLRNRLFKSGVHVLTVKPG 179
Query: 226 VTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGN----PEEVAKAI 268
F+ R+ T L G PEEVAK I
Sbjct: 180 -------------------FV-RTPMTAGLKLPGPLTAQPEEVAKDI 206
Score = 38.0 bits (89), Expect = 0.003
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 42
K IL+ GA+S I A A A A+L + R+VE+L
Sbjct: 1 MKKILIIGATSDIARACARRYAAAGARLYLAARDVERL 38
>gnl|CDD|178331 PLN02730, PLN02730, enoyl-[acyl-carrier-protein] reductase.
Length = 303
Score = 43.6 bits (103), Expect = 6e-05
Identities = 42/133 (31%), Positives = 62/133 (46%), Gaps = 8/133 (6%)
Query: 164 QKLNVLVNNAGNIVNVSSVNGLRSFPGVLAYCVS-KAAVDQFTSCTALELASK-GVRVNS 221
Q ++N G ++++ + R PG S KAA++ T A E K +RVN+
Sbjct: 162 QHFGPIMNPGGASISLTYIASERIIPGYGGGMSSAKAALESDTRVLAFEAGRKYKIRVNT 221
Query: 222 VNPGVTLTNLHKNSG-IDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTT 280
++ G + K G ID + +E S L + +EV A AFLAS AS T
Sbjct: 222 ISAGPLGSRAAKAIGFID-----DMIEYSYANAPLQKELTADEVGNAAAFLASPLASAIT 276
Query: 281 GEHLTVDGGRHAM 293
G + VD G +AM
Sbjct: 277 GATIYVDNGLNAM 289
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to reduce
the keto group to a hydroxy group.
Length = 180
Score = 41.7 bits (99), Expect = 1e-04
Identities = 22/123 (17%), Positives = 44/123 (35%), Gaps = 5/123 (4%)
Query: 6 KVILVTGASSGIGAATALHLAKL-DAKLAITGRNVEQLNKVSESCQSVSKN--KPLVIQA 62
L+TG G+G A A LA+ +L + R+ + + + V+
Sbjct: 1 GTYLITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVAC 60
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAK-LDAKLAITGRNV 121
D+ + ++ + L +++ A + + T A L K A N+
Sbjct: 61 DVADRDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLASLTPERFAAVLAPKAAGA-WNL 119
Query: 122 EQL 124
+L
Sbjct: 120 HEL 122
Score = 38.2 bits (90), Expect = 0.002
Identities = 15/86 (17%), Positives = 33/86 (38%), Gaps = 3/86 (3%)
Query: 92 VTGASSGIGAATALHLAKL-DAKLAITGRNVEQLNKVSESCQSVSKN--KPLVIQADLTS 148
+TG G+G A A LA+ +L + R+ + + + V+ D+
Sbjct: 5 ITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVACDVAD 64
Query: 149 EEDTKRIIDTVVKHYQKLNVLVNNAG 174
+ ++ + L +++ AG
Sbjct: 65 RDALAAVLAAIPAVEGPLTGVIHAAG 90
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 42.8 bits (101), Expect = 1e-04
Identities = 26/84 (30%), Positives = 46/84 (54%), Gaps = 2/84 (2%)
Query: 9 LVTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
++TGASSG+G ATA LA+ + R+ + + ++S + K+ V+ DL S
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSA-GMPKDSYTVMHLDLASL 59
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNA 91
+ ++ +D + + L+VLV NA
Sbjct: 60 DSVRQFVDNFRRSGRPLDVLVCNA 83
Score = 42.4 bits (100), Expect = 1e-04
Identities = 26/83 (31%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKNKPLVIQADLTSEE 150
+TGASSG+G ATA LA+ + R+ + + ++S + K+ V+ DL S +
Sbjct: 2 ITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSA-GMPKDSYTVMHLDLASLD 60
Query: 151 DTKRIIDTVVKHYQKLNVLVNNA 173
++ +D + + L+VLV NA
Sbjct: 61 SVRQFVDNFRRSGRPLDVLVCNA 83
>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 = 41.7 bits (98), Expect = 2e-04
Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 2/84 (2%)
Query: 92 VTGASSGIGAATALHLAKLDA-KLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEE 150
+TGASSG+G A A LA+ + + R+ + + ++ + K+ V+ DL S +
Sbjct: 6 ITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEV-GMPKDSYSVLHCDLASLD 64
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG 174
++ +D + + L+ LV NA
Sbjct: 65 SVRQFVDNFRRTGRPLDALVCNAA 88
Score = 41.0 bits (96), Expect = 4e-04
Identities = 25/89 (28%), Positives = 46/89 (51%), Gaps = 3/89 (3%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDA-KLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
G V+ +TGASSG+G A A LA+ + + R+ + + ++ + K+ V+
Sbjct: 1 KGTVV-ITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEV-GMPKDSYSVLHC 58
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
DL S + ++ +D + + L+ LV NA
Sbjct: 59 DLASLDSVRQFVDNFRRTGRPLDALVCNA 87
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 40.5 bits (95), Expect = 6e-04
Identities = 55/250 (22%), Positives = 88/250 (35%), Gaps = 65/250 (26%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK--NKPLVIQADLTSE 149
VTGA++G+G A AL LA+L A + + +V S+ + K + + D++
Sbjct: 17 VTGAAAGLGRAEALGLARLGATVVVN--DVASALDASDVLDEIRAAGAKAVAVAGDISQR 74
Query: 150 EDTKRIIDTVVKHYQKLNVLVNNA------------------------------------ 173
++ T V L+++VNNA
Sbjct: 75 ATADELVATAVG-LGGLDIVVNNAGITRDRMLFNMSDEEWDAVIAVHLRGHFLLTRNAAA 133
Query: 174 --------------GNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRV 219
G IVN SS GL G Y +KA + T A L GVR
Sbjct: 134 YWRAKAKAAGGPVYGRIVNTSSEAGLVGPVGQANYGAAKAGITALTLSAARALGRYGVRA 193
Query: 220 NSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFT 279
N++ P + + + + + + + +PE V + FLAS A+
Sbjct: 194 NAICP-------RARTAMTADVFGDAPDVEAG--GIDPL-SPEHVVPLVQFLASPAAAEV 243
Query: 280 TGEHLTVDGG 289
G+ V G
Sbjct: 244 NGQVFIVYGP 253
Score = 36.3 bits (84), Expect = 0.013
Identities = 27/90 (30%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK--NKPLVIQ 61
+GKV +VTGA++G+G A AL LA+L A + + +V S+ + K + +
Sbjct: 11 SGKVAVVTGAAAGLGRAEALGLARLGATVVVN--DVASALDASDVLDEIRAAGAKAVAVA 68
Query: 62 ADLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
D++ ++ T V L+++VNNA
Sbjct: 69 GDISQRATADELVATAVG-LGGLDIVVNNA 97
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 40.4 bits (95), Expect = 7e-04
Identities = 24/99 (24%), Positives = 48/99 (48%), Gaps = 9/99 (9%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQ----LNK---VSESCQSVS 53
GKV LV GA+ G G A+ L A + +TGR+ ++ + E+ + V+
Sbjct: 4 KPLRGKVALVAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAELVT 63
Query: 54 KN--KPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNN 90
+ + +Q D E + +++ + + +L++LVN+
Sbjct: 64 AAGGRGIAVQVDHLVPEQVRALVERIDREQGRLDILVND 102
Score = 32.3 bits (74), Expect = 0.24
Identities = 20/90 (22%), Positives = 44/90 (48%), Gaps = 9/90 (10%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQ----LNK---VSESCQSVSKN--KPLVI 142
V GA+ G G A+ L A + +TGR+ ++ + E+ + V+ + + +
Sbjct: 13 VAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAELVTAAGGRGIAV 72
Query: 143 QADLTSEEDTKRIIDTVVKHYQKLNVLVNN 172
Q D E + +++ + + +L++LVN+
Sbjct: 73 QVDHLVPEQVRALVERIDREQGRLDILVND 102
>gnl|CDD|180596 PRK06505, PRK06505, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 271
Score = 39.7 bits (93), Expect = 9e-04
Identities = 34/127 (26%), Positives = 63/127 (49%), Gaps = 8/127 (6%)
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
L+ + G+++ ++ R P V+KAA++ A + +G+RVN+++ G
Sbjct: 134 LMPDGGSMLTLTYGGSTRVMPNYNVMGVAKAALEASVRYLAADYGPQGIRVNAISAGPVR 193
Query: 229 TNLHKNSGI-DQQAYQNFLERSKETHA-LGRVGNPEEVAKAIAFLASDDASFTTGEHLTV 286
T +GI D +A ++ +R ++ L R +EV + +L SD +S TGE V
Sbjct: 194 T--LAGAGIGDARAIFSYQQR----NSPLRRTVTIDEVGGSALYLLSDLSSGVTGEIHFV 247
Query: 287 DGGRHAM 293
D G + +
Sbjct: 248 DSGYNIV 254
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 39.7 bits (93), Expect = 0.001
Identities = 49/200 (24%), Positives = 74/200 (37%), Gaps = 64/200 (32%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRN-VEQLNKVSESCQSVSKNKPLVIQADLTSEE 150
VTGAS G+G A LA A++ + RN + V+ +V K + DL+S
Sbjct: 19 VTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAKLSLRALDLSSLA 78
Query: 151 DTKRIIDTVVKHYQKLNVLVNNAG------------------------------------ 174
+ + + + +++L+NNAG
Sbjct: 79 SVAALGEQLRAEGRPIHLLINNAGVMTPPERQTTADGFELQFGTNHLGHFALTAHLLPLL 138
Query: 175 -----NIVNVSSV------------NGLRSFPGVLAYCVSKAAVDQFTSCTALELASK-- 215
+ + SS+ N RS+ G+ AY SK AV F ALEL +
Sbjct: 139 RAGRARVTSQSSIAARRGAINWDDLNWERSYAGMRAYSQSKIAVGLF----ALELDRRSR 194
Query: 216 ----GVRVNSVNPGVTLTNL 231
G+ N +PGV TNL
Sbjct: 195 AAGWGITSNLAHPGVAPTNL 214
Score = 36.6 bits (85), Expect = 0.011
Identities = 25/89 (28%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAKLAITGRN-VEQLNKVSESCQSVSKNKPLVIQA 62
+GK +VTGAS G+G A LA A++ + RN + V+ +V K +
Sbjct: 13 SGKRAVVTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAKLSLRAL 72
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNA 91
DL+S + + + + +++L+NNA
Sbjct: 73 DLSSLASVAALGEQLRAEGRPIHLLINNA 101
>gnl|CDD|168626 PRK06603, PRK06603, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 260
Score = 39.2 bits (91), Expect = 0.001
Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 4/125 (3%)
Query: 169 LVNNAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTL 228
L+++ G+IV ++ + P V+KAA++ A ++ +RVN+++ G
Sbjct: 135 LMHDGGSIVTLTYYGAEKVIPNYNVMGVAKAALEASVKYLANDMGENNIRVNAISAGPIK 194
Query: 229 TNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAIAFLASDDASFTTGEHLTVDG 288
T +S I + L+ T L R E+V A +L S+ + TGE VD
Sbjct: 195 T--LASSAIGD--FSTMLKSHAATAPLKRNTTQEDVGGAAVYLFSELSKGVTGEIHYVDC 250
Query: 289 GRHAM 293
G + M
Sbjct: 251 GYNIM 255
>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 = 38.4 bits (90), Expect = 0.003
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVE 40
ILVTGA+ +G A L A + RN E
Sbjct: 1 ILVTGATGKLGTAVVELLLAKVASVVALVRNPE 33
Score = 34.6 bits (80), Expect = 0.047
Identities = 11/32 (34%), Positives = 14/32 (43%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
VTGA+ +G A L A + RN E
Sbjct: 2 LVTGATGKLGTAVVELLLAKVASVVALVRNPE 33
>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 = 37.9 bits (88), Expect = 0.004
Identities = 22/85 (25%), Positives = 42/85 (49%), Gaps = 2/85 (2%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKNKPLVIQADLTS 66
+++TGASSG+G A LA I R+ + + ++S + K+ ++ DL S
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSL-GMPKDSYTIMHLDLGS 64
Query: 67 EEDTKRIIDTVVKHYQKLNVLVNNA 91
+ ++ + + + L+ LV NA
Sbjct: 65 LDSVRQFVQQFRESGRPLDALVCNA 89
Score = 37.2 bits (86), Expect = 0.008
Identities = 22/83 (26%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITG-RNVEQLNKVSESCQSVSKNKPLVIQADLTSEE 150
+TGASSG+G A LA I R+ + + ++S + K+ ++ DL S +
Sbjct: 8 ITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSL-GMPKDSYTIMHLDLGSLD 66
Query: 151 DTKRIIDTVVKHYQKLNVLVNNA 173
++ + + + L+ LV NA
Sbjct: 67 SVRQFVQQFRESGRPLDALVCNA 89
>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 = 37.1 bits (87), Expect = 0.004
Identities = 23/118 (19%), Positives = 46/118 (38%), Gaps = 14/118 (11%)
Query: 7 VILVTGASSGIGAATALHLAKLDAK-LAITGRN-------VEQLNKVSESCQSVSKNKPL 58
LVTG G+G A LA+ A+ L + R+ L ++ V+
Sbjct: 2 TYLVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAEVT----- 56
Query: 59 VIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAK-LDAKLA 115
V+ D++ + + ++ + L +++ A + + TA A+ L K+
Sbjct: 57 VVACDVSDRDAVRALLAEIRADGPPLRGVIHAAGVLRDALLANMTAEDFARVLAPKVT 114
>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 = 36.7 bits (85), Expect = 0.008
Identities = 48/217 (22%), Positives = 79/217 (36%), Gaps = 67/217 (30%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE-- 149
+ GA+ GIG A A LA +L ++GR+ L ++ + L AD+ +E
Sbjct: 3 ILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAEVGA------LARPADVAAELE 56
Query: 150 -------------------------------EDTKRIIDT-------VVKHYQKLNVLVN 171
+RI+D V+KH L+
Sbjct: 57 VWALAQELGPLDLLVYAAGAILGKPLARTKPAAWRRILDANLTGAALVLKHAL---ALLA 113
Query: 172 NAGNIVNVSSVNGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNL 231
+V + + L PG+ AY +KAA++ + E+ +G+R+ V P T L
Sbjct: 114 AGARLVFLGAYPELVMLPGLSAYAAAKAALEAYVEVARKEV--RGLRLTLVRPPAVDTGL 171
Query: 232 HKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKAI 268
G + + L +PE+VA AI
Sbjct: 172 WAPPG---RLPKGAL-------------SPEDVAAAI 192
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase;
Validated.
Length = 322
Score = 36.5 bits (85), Expect = 0.010
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
+++TGASSG+G A LAK + + RN+++ ++ + +I DL
Sbjct: 9 VIITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGIPPDSY-TIIHIDLGDL 67
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNA 91
+ +R +D + L+ LV NA
Sbjct: 68 DSVRRFVDDFRALGKPLDALVCNA 91
Score = 35.0 bits (81), Expect = 0.038
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 1/82 (1%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
+TGASSG+G A LAK + + RN+++ ++ + +I DL +
Sbjct: 11 ITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGIPPDSY-TIIHIDLGDLDS 69
Query: 152 TKRIIDTVVKHYQKLNVLVNNA 173
+R +D + L+ LV NA
Sbjct: 70 VRRFVDDFRALGKPLDALVCNA 91
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 36.5 bits (84), Expect = 0.010
Identities = 52/233 (22%), Positives = 89/233 (38%), Gaps = 39/233 (16%)
Query: 3 FTGKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQA 62
F G+ ++TG +SGIG AT A+ A++ + + L + ++ + V+
Sbjct: 4 FPGRGAVITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGFDVHGVM-C 62
Query: 63 DLTSEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVE 122
D+ E+ + D + ++V+ +NA GI +
Sbjct: 63 DVRHREEVTHLADEAFRLLGHVDVVFSNA------GIVVGGPI----------------- 99
Query: 123 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSV 182
+ + VI DL I TV +L + G++V +S
Sbjct: 100 --------VEMTHDDWRWVIDVDLWGS------IHTVEAFLPRL-LEQGTGGHVVFTASF 144
Query: 183 NGLRSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNS 235
GL G+ AY V+K V A E+ + G+ V+ + P V TNL NS
Sbjct: 145 AGLVPNAGLGAYGVAKYGVVGLAETLAREVTADGIGVSVLCPMVVETNLVANS 197
>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 = 36.6 bits (85), Expect = 0.013
Identities = 14/75 (18%), Positives = 27/75 (36%), Gaps = 10/75 (13%)
Query: 9 LVTGASSGIGAATALHLAKLDAK-LAITGRN-----VEQLNKVSESCQSVSKNKPLVIQA 62
L+TG G+G A LA A+ L + R + + + V++
Sbjct: 154 LITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAGGAR----VSVVRC 209
Query: 63 DLTSEEDTKRIIDTV 77
D+T ++ +
Sbjct: 210 DVTDPAALAALLAEL 224
Score = 34.7 bits (80), Expect = 0.053
Identities = 13/74 (17%), Positives = 26/74 (35%), Gaps = 10/74 (13%)
Query: 92 VTGASSGIGAATALHLAKLDAK-LAITGRN-----VEQLNKVSESCQSVSKNKPLVIQAD 145
+TG G+G A LA A+ L + R + + + V++ D
Sbjct: 155 ITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAGGAR----VSVVRCD 210
Query: 146 LTSEEDTKRIIDTV 159
+T ++ +
Sbjct: 211 VTDPAALAALLAEL 224
>gnl|CDD|133446 cd01078, NAD_bind_H4MPT_DH, NADP binding domain of methylene
tetrahydromethanopterin dehydrogenase. Methylene
Tetrahydromethanopterin Dehydrogenase (H4MPT DH) NADP
binding domain. NADP-dependent H4MPT DH catalyzes the
dehydrogenation of methylene- H4MPT and
methylene-tetrahydrofolate (H4F) with NADP+ as
cofactor. H4F and H4MPT are both cofactors that carry
the one-carbon units between the formyl and methyl
oxidation level. H4F and H4MPT are structurally
analogous to each other with respect to the pterin
moiety, but each has distinct side chain. H4MPT is
present only in anaerobic methanogenic archaea and
aerobic methylotrophic proteobacteria. H4MPT seems to
have evolved independently from H4F and functions as a
distinct carrier in C1 metabolism. Amino acid DH-like
NAD(P)-binding domains are members of the Rossmann fold
superfamily and include glutamate, leucine, and
phenylalanine DHs, methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate 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 = 194
Score = 34.3 bits (79), Expect = 0.037
Identities = 14/50 (28%), Positives = 29/50 (58%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK 54
GK +V G + +G A+ LA+ A++ + GR++E+ K ++S ++
Sbjct: 28 GKTAVVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLRARFG 77
Score = 30.8 bits (70), Expect = 0.63
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSK 136
V G + +G A+ LA+ A++ + GR++E+ K ++S ++
Sbjct: 32 VVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLRARFG 77
>gnl|CDD|187538 cd05227, AR_SDR_e, aldehyde reductase, extended (e) SDRs. This
subgroup contains aldehyde reductase of the extended
SDR-type and related proteins. Aldehyde reductase I
(aka carbonyl reductase) is an NADP-binding SDR; it has
an NADP-binding motif consensus that is slightly
different from the canonical SDR form and lacks the Asn
of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 301
Score = 34.2 bits (79), Expect = 0.064
Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 7 VILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQADLT 65
++LVTGA+ I + L K K+ T R++ + K+ ++ N L + D
Sbjct: 1 LVLVTGATGFIASHIVEQLLKAGYKVRGTVRSLSKSAKLKALLKAAGYNDRLEFVIVDDL 60
Query: 66 SEED 69
+ +
Sbjct: 61 TAPN 64
Score = 30.7 bits (70), Expect = 0.93
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 1/61 (1%)
Query: 92 VTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPL-VIQADLTSEE 150
VTGA+ I + L K K+ T R++ + K+ ++ N L + D +
Sbjct: 4 VTGATGFIASHIVEQLLKAGYKVRGTVRSLSKSAKLKALLKAAGYNDRLEFVIVDDLTAP 63
Query: 151 D 151
+
Sbjct: 64 N 64
>gnl|CDD|221484 pfam12242, Eno-Rase_NADH_b, NAD(P)H binding domain of
trans-2-enoyl-CoA reductase. This family carries the
region of the enzyme trans-2-enoyl-CoA reductase,
EC:1.3.1.44, which binds NAD(P)H. The activity of the
enzyme was characterized in Euglena where an unusual
fatty acid synthesis path-way in the mitochondria
performs a malonyl-CoA independent synthesis of fatty
acids leading to accumulation of wax esters, which
serve as the sink for electrons stemming from
glycolytic ATP synthesis and pyruvate oxidation. The
full enzyme catalyzes the reduction of enoyl-CoA to
acyl-CoA. The binding site is conserved as GA/CSpGYG,
where p is any polar residue.
Length = 78
Score = 31.6 bits (72), Expect = 0.084
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 6 KVILVTGASSGIGAATALHLA 26
K +LV GASSG G A+ + LA
Sbjct: 40 KKVLVIGASSGYGLASRIALA 60
Score = 28.1 bits (63), Expect = 1.5
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 92 VTGASSGIGAATALHLA 108
V GASSG G A+ + LA
Sbjct: 44 VIGASSGYGLASRIALA 60
>gnl|CDD|236057 PRK07578, PRK07578, short chain dehydrogenase; Provisional.
Length = 199
Score = 33.2 bits (77), Expect = 0.090
Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 199 AAVDQFTSCTALELASKGVRVNSVNPGV 226
A++ F ALEL +G+R+N V+P V
Sbjct: 130 GALEGFVKAAALEL-PRGIRINVVSPTV 156
>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 = 33.5 bits (77), Expect = 0.11
Identities = 34/122 (27%), Positives = 58/122 (47%), Gaps = 21/122 (17%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLV--IQADLT 65
+ + GAS +G+ATAL LAK D V+++N +S +S+ K K L I L
Sbjct: 3 VSIIGASGRVGSATALLLAKEDV--------VKEINLISRP-KSLEKLKGLRLDIYDALA 53
Query: 66 SEEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGI---GAATALHLAKLDAKLAITGRNVE 122
+ ID +K L+ + + + ++G+ + L LAK +AK I + +
Sbjct: 54 AAG-----IDAEIKISSDLSDVAGSDIVIITAGVPRKEGMSRLDLAKKNAK--IVKKYAK 106
Query: 123 QL 124
Q+
Sbjct: 107 QI 108
Score = 28.1 bits (63), Expect = 4.9
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 9/51 (17%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLV 141
++ GAS +G+ATAL LAK D V+++N +S +S+ K K L
Sbjct: 4 SIIGASGRVGSATALLLAKEDV--------VKEINLISRP-KSLEKLKGLR 45
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 260
Score = 33.2 bits (76), Expect = 0.11
Identities = 49/222 (22%), Positives = 89/222 (40%), Gaps = 48/222 (21%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
I +TG+S G+G A A L ++ + R+ ++ +C + V+ DL+S
Sbjct: 10 IFITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAACPGAAG----VLIGDLSSL 65
Query: 68 EDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKV 127
+T+++ D V + + +++NA GI +G N + +
Sbjct: 66 AETRKLADQ-VNAIGRFDAVIHNA------GIL----------------SGPNRKTPDTG 102
Query: 128 SESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGL-- 185
+ +V+ P V+ A + KR+I Y ++ GN +S++ +
Sbjct: 103 IPAMVAVNVLAPYVLTALIRR---PKRLI------YLSSG--MHRGGN----ASLDDIDW 147
Query: 186 --RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPG 225
R AY SK V T A+ K V N+V+PG
Sbjct: 148 FNRGENDSPAYSDSKLHV--LTLAAAVARRWKDVSSNAVHPG 187
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 33.5 bits (77), Expect = 0.13
Identities = 31/134 (23%), Positives = 63/134 (47%), Gaps = 26/134 (19%)
Query: 91 AVTGASSGIGAATALHLAKLDAK-LAITGRNVEQLNKVSESCQSVSKNKPL-VIQADLTS 148
AVTGAS +G A L + AK +A+T + +K++ + ++ P+ + +
Sbjct: 182 AVTGASGTLGQALLKELHQQGAKVVALTSNS----DKITL--EINGEDLPVKTLHWQVGQ 235
Query: 149 EEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRSFPGV-LAYCVSKAAVDQFTSC 207
E + + + +K+++L+ N G +N V+G R+ + +Y V+ F++
Sbjct: 236 EAA---LAELL----EKVDILIINHG--IN---VHGERTPEAINKSY-----EVNTFSAW 278
Query: 208 TALELASKGVRVNS 221
+EL V+ N
Sbjct: 279 RLMELFFTTVKTNR 292
Score = 32.0 bits (73), Expect = 0.35
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 1 MNFTGKVILVTGASSGIGAATALHLAKLDAK-LAITGRN 38
++ GK + VTGAS +G A L + AK +A+T +
Sbjct: 174 LSLKGKTVAVTGASGTLGQALLKELHQQGAKVVALTSNS 212
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase,
extended (e) SDRs. UDP-Glcnac inverting
4,6-dehydratase was identified in Helicobacter pylori
as the hexameric flaA1 gene product (FlaA1). FlaA1 is
hexameric, possesses UDP-GlcNAc-inverting
4,6-dehydratase activity, and catalyzes the first step
in the creation of a pseudaminic acid derivative in
protein glycosylation. Although this subgroup has the
NADP-binding motif characteristic of extended SDRs, its
members tend to have a Met substituted for the active
site Tyr found in most SDR families. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 287
Score = 33.0 bits (76), Expect = 0.16
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 4 TGKVILVTGASSGIGAATALHLAKLDAK-LAITGRN 38
GK ILVTG + IG+ + K K L + R+
Sbjct: 1 KGKTILVTGGAGSIGSELVRQILKFGPKKLIVFDRD 36
>gnl|CDD|233814 TIGR02292, ygfB_yecA, yecA family protein. This family resembles
pfam03695 (version pfam03695.3), uncharacterised
protein family Upfam0149, but is broader in scope and
includes additional proteins. It includes E. coli
proteins YgfB and YecA. The function of this family of
proteins is unknown. The crystal structure is known for
the member from Haemophilus influenzae (Ygfb, HI0817)
[Unknown function, General].
Length = 150
Score = 31.2 bits (71), Expect = 0.30
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 57 PLVI----QADLTSEEDTKRIIDTVVKHYQ 82
PLV QA SEE RIID +V+HY
Sbjct: 44 PLVWGGENQAAFDSEEQATRIIDLIVQHYN 73
Score = 31.2 bits (71), Expect = 0.30
Identities = 15/30 (50%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 139 PLVI----QADLTSEEDTKRIIDTVVKHYQ 164
PLV QA SEE RIID +V+HY
Sbjct: 44 PLVWGGENQAAFDSEEQATRIIDLIVQHYN 73
>gnl|CDD|216461 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
This family of proteins utilise NAD as a cofactor. The
proteins in this family use nucleotide-sugar substrates
for a variety of chemical reactions.
Length = 233
Score = 31.5 bits (72), Expect = 0.37
Identities = 18/78 (23%), Positives = 29/78 (37%), Gaps = 17/78 (21%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLA--ITGRNVEQLNKVSESCQSVSKNKPLVIQADLT 65
ILVTG + IG+ L + ++ R E LN + DLT
Sbjct: 1 ILVTGGTGFIGSHLVRRLLQEGYEVIVLGRRRRSESLNTGR----------IRFHEGDLT 50
Query: 66 SEEDTKRII-----DTVV 78
+ +R++ D V+
Sbjct: 51 DPDALERLLAEVQPDAVI 68
>gnl|CDD|176235 cd08274, MDR9, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 350
Score = 31.9 bits (73), Expect = 0.41
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 4 TGKVILVTGASSGIGAATALHLAK-LDAK-LAITGRNVEQLNKVSESCQSVSKNKPLVIQ 61
G+ +LVTGAS G+G+A + LAK A +A+ G E+ + + + ++ PL+
Sbjct: 177 AGETVLVTGASGGVGSA-LVQLAKRRGAIVIAVAGAAKEEAVRALGADTVILRDAPLLAD 235
Query: 62 ADLTSEEDTKRIIDTV 77
A E + D V
Sbjct: 236 AKALGGEPVDVVADVV 251
Score = 28.0 bits (63), Expect = 6.2
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 3/70 (4%)
Query: 92 VTGASSGIGAATALHLAK-LDAK-LAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 149
VTGAS G+G+A + LAK A +A+ G E+ + + + ++ PL+ A
Sbjct: 183 VTGASGGVGSA-LVQLAKRRGAIVIAVAGAAKEEAVRALGADTVILRDAPLLADAKALGG 241
Query: 150 EDTKRIIDTV 159
E + D V
Sbjct: 242 EPVDVVADVV 251
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 31.9 bits (73), Expect = 0.47
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 2 NFTGKVILVTGASSGIGAATALHLAKLDAK 31
TGK +LVTG IG+ + K + K
Sbjct: 247 MLTGKTVLVTGGGGSIGSELCRQILKFNPK 276
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 31.5 bits (72), Expect = 0.51
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 5 GKVILVTGASSGIGAATALHLAKL--DAKLAITGR 37
G+ +LV GA+ G+G+A A+ LAK +A+
Sbjct: 143 GETVLVHGAAGGVGSA-AIQLAKALGATVVAVVSS 176
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 31.0 bits (70), Expect = 0.82
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 9/80 (11%)
Query: 3 FTGKVILVTGASSG-IGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSV-----SKNK 56
+ KV LVTGAS G I AA L A + T + + + +E +S+
Sbjct: 394 YGDKVALVTGASKGSIAAAVVARLLAGGATVIATTSRLSE--ERTEFYRSLYARHARYGA 451
Query: 57 PL-VIQADLTSEEDTKRIID 75
L V+ A++ S D +I+
Sbjct: 452 ALWVVPANMGSYSDVDALIE 471
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 31.0 bits (70), Expect = 0.89
Identities = 26/112 (23%), Positives = 46/112 (41%), Gaps = 6/112 (5%)
Query: 41 QLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVL-VNNAVTGASSGI 99
QL + Q+ KN L+ QA L + ED ++I+ K+N+L + + T A +
Sbjct: 129 QLEDLVGMIQNAEKNILLLNQARLQALEDLEKILTEKEALQGKINILEMRLSETDARIKL 188
Query: 100 GAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEED 151
A +H+ L+ +L + C L + D+ EE+
Sbjct: 189 AAQEKIHVEILEEQLEKLRNELLIRGATEGLCVH-----SLSKELDVLKEEN 235
>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 = 30.4 bits (69), Expect = 1.0
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 5 GKVILVTGASSGIGAATALHLAK-LDAKLAITGRNVEQLNKVSE--SCQSV-SKNKPLVI 60
G +LV GA G+G A LAK A++ +T R+ E+L E + + K + L
Sbjct: 135 GDTVLVLGAG-GVGLLAAQ-LAKAAGARVIVTDRSDEKLELAKELGADHVIDYKEEDLEE 192
Query: 61 QADLTSEEDTKRIIDTV 77
+ LT +ID V
Sbjct: 193 ELRLTGGGGADVVIDAV 209
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 30.2 bits (69), Expect = 1.2
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAIT---GRNVEQL 42
G+ +L+ GA+ G+G+ A+ LAK I N + L
Sbjct: 145 GQTVLIHGAAGGVGSF-AVQLAKARGARVIATASAANADFL 184
>gnl|CDD|222264 pfam13614, AAA_31, AAA domain. This family includes a wide
variety of AAA domains including some that have lost
essential nucleotide binding residues in the P-loop.
Length = 145
Score = 29.1 bits (66), Expect = 1.4
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 6 KVILVTGASSGIGAAT-ALHLAKLDAK 31
KVI V G G T AL+LA+ A+
Sbjct: 1 KVIGVYSPVGGEGKTTFALNLAQSLAE 27
>gnl|CDD|217050 pfam02460, Patched, Patched family. The transmembrane protein
Patched is a receptor for the morphogene Sonic Hedgehog.
This protein associates with the smoothened protein to
transduce hedgehog signals.
Length = 801
Score = 30.4 bits (69), Expect = 1.4
Identities = 5/36 (13%), Positives = 11/36 (30%)
Query: 153 KRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLRSF 188
++ V VNN ++ + + L
Sbjct: 482 SLREKHFWPEGLQVTVFVNNPPDLTIPENRDRLNEM 517
>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 = 29.9 bits (68), Expect = 1.4
Identities = 13/19 (68%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 3 FTGKVILVTGASSG-IGAA 20
F GKV LVTGA G IGA
Sbjct: 5 FAGKVALVTGAGPGSIGAE 23
>gnl|CDD|187551 cd05240, UDP_G4E_3_SDR_e, UDP-glucose 4 epimerase (G4E), subgroup
3, extended (e) SDRs. Members of this bacterial
subgroup are identified as possible sugar epimerases,
such as UDP-glucose 4 epimerase. However, while the
NAD(P)-binding motif is fairly well conserved, not all
members retain the canonical active site tetrad of the
extended SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 306
Score = 30.0 bits (68), Expect = 1.5
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 12/75 (16%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
ILVTGA+ G+G A LA + + G + + + V + D+
Sbjct: 1 ILVTGAAGGLGRLLARRLAASPRVIGVDGLDRRRPPGSPPKVEYV--------RLDIRDP 52
Query: 68 --EDTKRI--IDTVV 78
D R D VV
Sbjct: 53 AAADVFREREADAVV 67
Score = 27.3 bits (61), Expect = 9.8
Identities = 17/74 (22%), Positives = 26/74 (35%), Gaps = 12/74 (16%)
Query: 91 AVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE- 149
VTGA+ G+G A LA + + G + + + V + D+
Sbjct: 2 LVTGAAGGLGRLLARRLAASPRVIGVDGLDRRRPPGSPPKVEYV--------RLDIRDPA 53
Query: 150 -EDTKRI--IDTVV 160
D R D VV
Sbjct: 54 AADVFREREADAVV 67
>gnl|CDD|234027 TIGR02824, quinone_pig3, putative NAD(P)H quinone oxidoreductase,
PIG3 family. Members of this family are putative
quinone oxidoreductases that belong to the broader
superfamily (modeled by Pfam pfam00107) of
zinc-dependent alcohol (of medium chain length)
dehydrogenases and quinone oxiooreductases. The
alignment shows no motif of conserved Cys residues as
are found in zinc-binding members of the superfamily,
and members are likely to be quinone oxidoreductases
instead. A member of this family in Homo sapiens, PIG3,
is induced by p53 but is otherwise uncharacterized
[Unknown function, Enzymes of unknown specificity].
Length = 325
Score = 29.9 bits (68), Expect = 1.6
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 5 GKVILVTGASSGIGAATALHLAK-LDAKLAITGRNVEQL 42
G+ +L+ G +SGIG TA+ LAK A++ T + E+
Sbjct: 140 GETVLIHGGASGIG-TTAIQLAKAFGARVFTTAGSDEKC 177
>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 = 30.4 bits (68), Expect = 1.6
Identities = 36/129 (27%), Positives = 55/129 (42%), Gaps = 12/129 (9%)
Query: 7 VILVTGASSGIGAATALHLAK-LDAKLAITGRNVEQLNKVSESCQSVSKN--KPLVIQAD 63
V LVTG + G+ AL LAK A + GR+ + Q +N K IQ
Sbjct: 1999 VFLVTGGAKGVTFECALELAKQCQAHFILAGRSSFD-DNEPSWAQGKDENELKKAAIQHL 2057
Query: 64 LTS-EEDTKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAATA-LHLAKLDAKLAIT-GRN 120
S E+ T + +D +V+ VL + + A + AA A A D +++
Sbjct: 2058 QASGEKPTPKKVDALVR-----PVLSSLEIAQALAAFKAAGASAEYASADVTNSVSVAAT 2112
Query: 121 VEQLNKVSE 129
V+ LNK +
Sbjct: 2113 VQPLNKTLQ 2121
>gnl|CDD|238972 cd02014, TPP_POX, Thiamine pyrophosphate (TPP) family, Pyruvate
oxidase (POX) subfamily, TPP-binding module; composed of
proteins similar to Lactobacillus plantarum POX, which
plays a key role in controlling acetate production under
aerobic conditions. POX decarboxylates pyruvate,
producing hydrogen peroxide and the energy-storage
metabolite acetylphosphate. It requires FAD in addition
to TPP and a divalent cation as cofactors.
Length = 178
Score = 29.0 bits (66), Expect = 1.8
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 260 NPEEVAKAIAFLASDDASFT--TGEHLTVDGGRH 291
+PE VA + A DDA FT G TV RH
Sbjct: 3 HPERVAAELNKRAPDDAIFTIDVGNV-TVWAARH 35
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 29.5 bits (66), Expect = 1.9
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 42
ILVTGA+ +G A L ++ RN E
Sbjct: 3 ILVTGATGFVGGAVVRELLARGHEVRAAVRNPEAA 37
>gnl|CDD|176234 cd08273, MDR8, 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 = 331
Score = 29.5 bits (67), Expect = 2.0
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 4 TGKVILVTGASSGIGAATALHLAKL 28
TG+ +L+ GAS G+G A L LA L
Sbjct: 139 TGQRVLIHGASGGVGQAL-LELALL 162
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 29.5 bits (66), Expect = 2.3
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 6 KVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQL 42
ILVTG + IG+ L + R + L
Sbjct: 1 MRILVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGL 37
>gnl|CDD|176248 cd08288, MDR_yhdh, Yhdh putative quinone oxidoreductases. Yhdh
putative quinone oxidoreductases (QOR). QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 324
Score = 29.4 bits (67), Expect = 2.3
Identities = 17/32 (53%), Positives = 24/32 (75%), Gaps = 3/32 (9%)
Query: 8 ILVTGASSGIGA-ATALHLAKLDAKL-AITGR 37
+LVTGA+ G+G+ A AL LA+L ++ A TGR
Sbjct: 150 VLVTGAAGGVGSVAVAL-LARLGYEVVASTGR 180
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 28.8 bits (65), Expect = 2.3
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGR 37
ILVTG + IG+ L + ++ + R
Sbjct: 1 ILVTGGAGFIGSHLVRRLLERGHEVVVIDR 30
>gnl|CDD|226668 COG4213, XylF, ABC-type xylose transport system, periplasmic
component [Carbohydrate transport and metabolism].
Length = 341
Score = 28.9 bits (65), Expect = 2.9
Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 17 IGAATALHLAKLDAKLAITGRNVEQ--LNKVSESCQSVSKNKPLVIQADLTSE 67
GA AL L K+ ++G++ + L +++ Q+++ K A +E
Sbjct: 230 GGAIAALKAQGLAGKVPVSGQDADLAALKRIAAGTQTMTVYKDTRELAKEAAE 282
Score = 28.9 bits (65), Expect = 2.9
Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 99 IGAATALHLAKLDAKLAITGRNVEQ--LNKVSESCQSVSKNKPLVIQADLTSE 149
GA AL L K+ ++G++ + L +++ Q+++ K A +E
Sbjct: 230 GGAIAALKAQGLAGKVPVSGQDADLAALKRIAAGTQTMTVYKDTRELAKEAAE 282
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 328
Score = 29.1 bits (66), Expect = 2.9
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 5 GKVILVTGASSGIGAATALHLAKL 28
G +L+T ASS +G A A+ +A
Sbjct: 145 GDSVLITAASSSVGLA-AIQIANA 167
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 28.4 bits (64), Expect = 3.0
Identities = 12/64 (18%), Positives = 18/64 (28%), Gaps = 10/64 (15%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
I V GA+ G L ++ RN + + +Q DL
Sbjct: 1 IAVIGATGKTGRRLVKELLARGHQVTALSRNPSKAPAPGVT----------PVQKDLFDL 50
Query: 68 EDTK 71
D
Sbjct: 51 ADLA 54
>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 = 28.8 bits (65), Expect = 3.3
Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 12/76 (15%)
Query: 9 LVTGASSGIGAATALHLAKLDAK-LAITGRN------VEQLNKVSESCQSVSKNKPLVIQ 61
L+TG G+G A L + A+ L +TGR + + + E+ V V+
Sbjct: 153 LITGGLGGLGLLVAEWLVERGARHLVLTGRRAPSAAARQAIAALEEAGAEVV-----VLA 207
Query: 62 ADLTSEEDTKRIIDTV 77
AD++ + + +
Sbjct: 208 ADVSDRDALAAALAQI 223
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 342
Score = 28.8 bits (65), Expect = 3.6
Identities = 34/130 (26%), Positives = 52/130 (40%), Gaps = 47/130 (36%)
Query: 5 GKVILVTGASSGIGAATALHLAKL-DAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQAD 63
G+ +LV GA SG+G+A A+ +AKL A + T + ++L + E + AD
Sbjct: 167 GETVLVHGAGSGVGSA-AIQIAKLFGATVIATAGSEDKLERAKE------------LGAD 213
Query: 64 LT---SEED---------TKRIIDTVVKHYQKLNVLVNNAVTGASSGIGAAT---ALHLA 108
+ED KR +D VV+H +GAAT +L
Sbjct: 214 YVIDYRKEDFVREVRELTGKRGVDVVVEH------------------VGAATWEKSLKSL 255
Query: 109 KLDAKLAITG 118
+L G
Sbjct: 256 ARGGRLVTCG 265
>gnl|CDD|180256 PRK05784, PRK05784, phosphoribosylamine--glycine ligase;
Provisional.
Length = 486
Score = 28.9 bits (65), Expect = 4.0
Identities = 15/61 (24%), Positives = 29/61 (47%), Gaps = 12/61 (19%)
Query: 208 TALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNFLERSKETHALGRVGNPEEVAKA 267
ALE ++KG +V +++ + N GI+ + + + +G + +PEEV K
Sbjct: 17 EALEKSTKGYKVYALSS-------YLNPGINSVV-----KATGGEYFIGNINSPEEVKKV 64
Query: 268 I 268
Sbjct: 65 A 65
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site, and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 28.6 bits (65), Expect = 4.1
Identities = 16/39 (41%), Positives = 26/39 (66%), Gaps = 2/39 (5%)
Query: 5 GKVILVTGASSGIGAATALHLAK-LDAKLAITGRNVEQL 42
G+ +L+ G +SG+G A A+ LAK L A++ T + E+L
Sbjct: 140 GETVLIHGGASGVGTA-AIQLAKALGARVIATAGSEEKL 177
>gnl|CDD|239385 cd03111, CpaE_like, This protein family consists of proteins
similar to the cpaE protein of the Caulobacter pilus
assembly and the orf4 protein of Actinobacillus pilus
formation gene cluster. The function of these proteins
are unkown. The Caulobacter pilus assembly contains 7
genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF.
These genes are clustered together on chromosome.
Length = 106
Score = 27.3 bits (61), Expect = 4.4
Identities = 30/107 (28%), Positives = 45/107 (42%), Gaps = 26/107 (24%)
Query: 7 VILVTGASSGIGAAT-ALHLAKLDAKLAITGRNV-------------------EQLNKVS 46
VI GA G+GA T A +LA AK A GR V L++VS
Sbjct: 1 VIAFIGAKGGVGATTLAANLAVALAKEA--GRRVLLVDLDLQFGDDYVVVDLGRSLDEVS 58
Query: 47 ESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQ----KLNVLVN 89
+ + LV Q DL S + KR+++ + K+ +++N
Sbjct: 59 LAALDQADRVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLN 105
>gnl|CDD|187557 cd05246, dTDP_GD_SDR_e, dTDP-D-glucose 4,6-dehydratase, extended
(e) SDRs. This subgroup contains dTDP-D-glucose
4,6-dehydratase and related proteins, members of the
extended-SDR family, with the characteristic Rossmann
fold core region, active site tetrad and NAD(P)-binding
motif. dTDP-D-glucose 4,6-dehydratase is closely
related to other sugar epimerases of the SDR family.
dTDP-D-dlucose 4,6,-dehydratase catalyzes the second of
four steps in the dTDP-L-rhamnose pathway (the
dehydration of dTDP-D-glucose to
dTDP-4-keto-6-deoxy-D-glucose) in the synthesis of
L-rhamnose, a cell wall component of some pathogenic
bacteria. In many gram negative bacteria, L-rhamnose is
an important constituent of lipopoylsaccharide
O-antigen. The larger N-terminal portion of
dTDP-D-Glucose 4,6-dehydratase forms a Rossmann fold
NAD-binding domain, while the C-terminus binds the
sugar substrate. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately
100 amino acids. Extended SDRs are a diverse collection
of proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase numbering). In addition to the Tyr and
Lys, there is often an upstream Ser and/or an Asn,
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Complex (multidomain) SDRs such as
ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 315
Score = 28.3 bits (64), Expect = 4.6
Identities = 26/85 (30%), Positives = 34/85 (40%), Gaps = 22/85 (25%)
Query: 8 ILVTGASSGIGAATALHLAK---------LDAKLAITGRNVEQLNKVSESCQSVSKNKPL 58
ILVTG + IG+ +L LD KL G N+E L VS S
Sbjct: 3 ILVTGGAGFIGSNFVRYLLNKYPDYKIINLD-KLTYAG-NLENLEDVSS-----SPRYRF 55
Query: 59 VIQADLTSEEDTKRI-----IDTVV 78
V + D+ E R+ ID V+
Sbjct: 56 V-KGDICDAELVDRLFEEEKIDAVI 79
>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in
two-component regulatory system with EvgA; Provisional.
Length = 1197
Score = 28.5 bits (63), Expect = 4.7
Identities = 16/69 (23%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 186 RSFPGVLAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGIDQQAYQNF 245
++F VL+ +S A +FT+ A+++ + ++ + + +T + SG+ Q+ Q
Sbjct: 827 QAFKQVLSNLLSNAL--KFTTEGAVKITTSLGHIDDNHAVIKMTIMDSGSGLSQEEQQQL 884
Query: 246 LERSKETHA 254
+R +T A
Sbjct: 885 FKRYSQTSA 893
>gnl|CDD|191263 pfam05368, NmrA, NmrA-like family. NmrA is a negative
transcriptional regulator involved in the
post-translational modification of the transcription
factor AreA. NmrA is part of a system controlling
nitrogen metabolite repression in fungi. This family
only contains a few sequences as iteration results in
significant matches to other Rossmann fold families.
Length = 232
Score = 28.0 bits (63), Expect = 4.9
Identities = 15/70 (21%), Positives = 26/70 (37%), Gaps = 5/70 (7%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSE 67
ILV GA+ G + K + R+ + SE +S+ +++ DL
Sbjct: 1 ILVFGATGYQGGSVVRASLKAGHPVRALVRDPK-----SELAKSLKAAGVELVEGDLDDH 55
Query: 68 EDTKRIIDTV 77
E + V
Sbjct: 56 ESLVEALKGV 65
>gnl|CDD|161904 TIGR00507, aroE, shikimate 5-dehydrogenase. This model finds
proteins from prokaryotes and functionally equivalent
domains from larger, multifunctional proteins of fungi
and plants. Below the trusted cutoff of 180, but above
the noise cutoff of 20, are the putative shikimate
dehydrogenases of Thermotoga maritima and Mycobacterium
tuberculosis, and uncharacterized paralogs of shikimate
dehydrogenase from E. coli and H. influenzae. The
related enzyme quinate 5-dehydrogenase scores below the
noise cutoff. A neighbor-joining tree, constructed with
quinate 5-dehydrogenases as the outgroup, shows the
Clamydial homolog as clustering among the shikimate
dehydrogenases, although the sequence is unusual in the
degree of sequence divergence and the presence of an
additional N-terminal domain [Amino acid biosynthesis,
Aromatic amino acid family].
Length = 270
Score = 28.2 bits (63), Expect = 4.9
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 5 GKVILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNKVSESCQS 51
+ +L+ GA G A AL L K D + I R V + +++E Q
Sbjct: 117 NQNVLIIGAG-GAAKAVALELLKADCNVIIANRTVSKAEELAERFQR 162
>gnl|CDD|211364 cd09253, AP-4_Mu4_Cterm, C-terminal domain of medium Mu4 subunit in
adaptor protein (AP) complex AP-4. AP complexes
participate in the formation of intracellular coated
transport vesicles and select cargo molecules for
incorporation into the coated vesicles in the late
secretory and endocytic pathways. There are four AP
complexes, AP-1, AP-2, AP-3, and AP-4, described in
various eukaryotic organisms. Each AP complex consists
of four subunits: two large chains (one each of
gamma/alpha/delta/epsilon and beta1-4, respectively), a
medium mu chain (mu1-4), and a small sigma chain
(sigma1-4). Each of the four subunits from the different
AP complexes exhibits similarity with each other. This
family corresponds to the C-terminal domain of
heterotetrameric adaptor protein complex 4 (AP-4) medium
mu4 subunit. AP-4 plays a role in signal-mediated
trafficking of integral membrane proteins in mammalian
cells. Unlike other AP complexes, AP-4 is found only in
mammals and plants. It is believed to be part of a
nonclathrin coat, since it might function independently
of clathrin, a scaffolding protein participating in the
formation of coated vesicles. Recruitment of AP-4 to the
trans-Golgi network (TGN) membrane is regulated by a
small GTPase, ADP-ribosylation factor 1 (ARF1) or a
related protein. Membrane-anchored cargo molecules
interact with adaptors through short sorting signals in
their cytosolic segments. One of the most important
sorting signals binding to mu subunits of AP complexes
are tyrosine-based endocytotic signals, which are of the
form Y-X-X-Phi, where Y is tyrosine, X is any amino acid
and Phi is a bulky hydrophobic residue that can be Leu,
Ile, Met, Phe, or Val. However, AP-4 does not bind most
canonical tyrosine-based signals except for two
naturally occurring ones from the lysosomal membrane
proteins CD63 and LAMP-2a. It binds YX [FYL][FL]E motif,
where X can be any residue, from the cytosolic tails of
amyloid precursor protein (APP) family members in a
distinct way.
Length = 271
Score = 28.3 bits (64), Expect = 5.1
Identities = 7/29 (24%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 163 YQKLNVLVNNAGNIVNVSSVNG---LRSF 188
++L+V+ + G ++N S ++G ++S+
Sbjct: 18 LERLSVVFSANGQVLN-SEIDGSIQMKSY 45
>gnl|CDD|176215 cd08253, zeta_crystallin, Zeta-crystallin with NADP-dependent
quinone reductase activity (QOR). Zeta-crystallin is a
eye lens protein with NADP-dependent quinone reductase
activity (QOR). It has been cited as a structural
component in mammalian eyes, but also has homology to
quinone reductases in unrelated species. QOR catalyzes
the conversion of a quinone and NAD(P)H to a
hydroquinone and NAD(P+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR acts
in the respiratory chains of bacteria and mitochondria,
while soluble QOR acts to protect from toxic quinones
(e.g. DT-diaphorase) or as a soluble eye-lens protein in
some vertebrates (e.g. zeta-crystalin). QOR reduces
quinones through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 28.3 bits (64), Expect = 5.1
Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 4 TGKVILVTGASSGIGAATALHLAK 27
G+ +LV G S +G A A+ LA+
Sbjct: 144 AGETVLVHGGSGAVGHA-AVQLAR 166
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended
or atypical short-chain dehydrogenases/reductases
(SDRs, aka tyrosine-dependent oxidoreductases) are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet) core region typical of all SDRs,
extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids. Extended
SDRs are a diverse collection of proteins, and include
isomerases, epimerases, oxidoreductases, and lyases;
they typically have a TGXXGXXG cofactor binding motif.
Atypical SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Atypical
SDRs include biliverdin IX beta reductase (BVR-B,aka
flavin reductase), NMRa (a negative transcriptional
regulator of various fungi), progesterone
5-beta-reductase like proteins, phenylcoumaran benzylic
ether and pinoresinol-lariciresinol reductases,
phenylpropene synthases, eugenol synthase,
triphenylmethane reductase, isoflavone reductases, and
others. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 27.8 bits (62), Expect = 5.3
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 8 ILVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 44
IL+ GA+ IG A A L + ++ + RN ++L+K
Sbjct: 1 ILILGATGFIGRALARELLEQGHEVTLLVRNTKRLSK 37
>gnl|CDD|206766 cd11358, RNase_PH, RNase PH-like 3'-5' exoribonucleases. RNase
PH-like 3'-5' exoribonucleases are enzymes that catalyze
the 3' to 5' processing and decay of RNA substrates.
Evolutionarily related members can be fond in
prokaryotes, archaea, and eukaryotes. Bacterial
ribonuclease PH contains a single copy of this domain,
and removes nucleotide residues following the -CCA
terminus of tRNA. Polyribonucleotide
nucleotidyltransferase (PNPase) contains two tandem
copies of the domain and is involved in mRNA degradation
in a 3'-5' direction. Archaeal exosomes contain two
individually encoded RNase PH-like 3'-5'
exoribonucleases and are required for 3' processing of
the 5.8S rRNA. The eukaryotic exosome core is composed
of six individually encoded RNase PH-like subunits, but
it is not a phosphorolytic enzyme per se; it directly
associates with Rrp44 and Rrp6, which are hydrolytic
exoribonucleases related to bacterial RNase II/R and
RNase D. All members of the RNase PH-like family form
ring structures by oligomerization of six domains or
subunits, except for a total of 3 subunits with tandem
repeats in the case of PNPase, with a central channel
through which the RNA substrate must pass to gain access
to the phosphorolytic active sites.
Length = 218
Score = 27.7 bits (62), Expect = 5.6
Identities = 28/133 (21%), Positives = 44/133 (33%), Gaps = 13/133 (9%)
Query: 72 RIIDTVVKH-----YQKLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITGRNVEQLNK 126
I+D + Y + VL + + A AL A + L K
Sbjct: 87 VILDKSTRKPSWVLYVDIQVLSRDGGLLDACWNAAIAALKDAGIPRVFVDERSPPLLLMK 146
Query: 127 VSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHYQKLNVLVNNAGNIVNVSSVNGLR 186
SV V+ D T EE+ + D+ L V V+ +G + +S V G
Sbjct: 147 DLIVAVSVGGISDGVLLLDPTGEEE--ELADST------LTVAVDKSGKLCLLSKVGGGS 198
Query: 187 SFPGVLAYCVSKA 199
+ C+ A
Sbjct: 199 LDTEEIKECLELA 211
>gnl|CDD|176183 cd05280, MDR_yhdh_yhfp, Yhdh and yhfp-like putative quinone
oxidoreductases. Yhdh and yhfp-like putative quinone
oxidoreductases (QOR). QOR catalyzes the conversion of a
quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones
are cyclic diones derived from aromatic compounds.
Membrane bound QOR actin the respiratory chains of
bacteria and mitochondria, while soluble QOR acts to
protect from toxic quinones (e.g. DT-diaphorase) or as a
soluble eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 325
Score = 27.9 bits (63), Expect = 6.0
Identities = 13/23 (56%), Positives = 18/23 (78%), Gaps = 2/23 (8%)
Query: 7 VILVTGASSGIGA-ATALHLAKL 28
+LVTGA+ G+G+ A A+ LAKL
Sbjct: 149 PVLVTGATGGVGSIAVAI-LAKL 170
>gnl|CDD|236073 PRK07659, PRK07659, enoyl-CoA hydratase; Provisional.
Length = 260
Score = 27.7 bits (62), Expect = 6.2
Identities = 15/58 (25%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 65 TSEEDTKRIIDT---VVKHYQKLNVLVNNAVTGASSGIGAATALH----LAKLDAKLA 115
E +++T +V + L +A+ G ++G+G + AL +A + AKLA
Sbjct: 75 NDESKFDGVMNTISEIVVTLYTMPKLTISAIHGPAAGLGLSIALTADYVIADISAKLA 132
>gnl|CDD|187652 cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like
proteins (5beta-POR), atypical (a) SDRs. 5beta-POR
catalyzes the reduction of progesterone to
5beta-pregnane-3,20-dione in Digitalis plants. This
subgroup of atypical-extended SDRs, shares the
structure of an extended SDR, but has a different
glycine-rich nucleotide binding motif (GXXGXXG) and
lacks the YXXXK active site motif of classical and
extended SDRs. Tyr-179 and Lys 147 are present in the
active site, but not in the usual SDR configuration.
Given these differences, it has been proposed that this
subfamily represents a new SDR class. Other atypical
SDRs include biliverdin IX beta reductase (BVR-B,aka
flavin reductase), NMRa (a negative transcriptional
regulator of various fungi), 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 = 308
Score = 28.0 bits (63), Expect = 6.6
Identities = 20/68 (29%), Positives = 24/68 (35%), Gaps = 13/68 (19%)
Query: 7 VILVTGASSGI-GAATALHLAKLDAK-LAITGRNVEQLNKVSESCQSVSKNKPLV--IQA 62
V LV GA+ GI G A HL + G +S + LV I
Sbjct: 1 VALVVGAT-GISGWALVEHLLSDPGTWWKVYG--------LSRRPLPTEDDPRLVEHIGI 51
Query: 63 DLTSEEDT 70
DL DT
Sbjct: 52 DLLDPADT 59
>gnl|CDD|221257 pfam11838, DUF3358, Domain of unknown function (DUF3358). This
domain is functionally uncharacterized. This domain is
found in eukaryotes and bacteria. This domain is found
to the C-terminus of an aminopeptidase domain.
Length = 323
Score = 27.7 bits (62), Expect = 6.9
Identities = 15/57 (26%), Positives = 20/57 (35%), Gaps = 8/57 (14%)
Query: 228 LTNLHKNSGIDQQAY-QNFLERSKET-------HALGRVGNPEEVAKAIAFLASDDA 276
L N G + + AL V +PE AKA+ FL DD+
Sbjct: 175 FAALAANGGAKEYDQILAEYKNDPTADGKEAALRALAAVPDPELKAKALNFLLDDDS 231
>gnl|CDD|232933 TIGR00348, hsdR, type I site-specific deoxyribonuclease, HsdR
family. This gene is part of the type I restriction and
modification system which is composed of three
polypeptides R (restriction endonuclease), M
(modification) and S (specificity). This group of
enzymes recognize specific short DNA sequences and have
an absolute requirement for ATP (or dATP) and
S-adenosyl-L-methionine. They also catalyse the
reactions of EC 2.1.1.72 and EC 2.1.1.73, with similar
site specificity.(J. Mol. Biol. 271 (3), 342-348
(1997)). Members of this family are assumed to differ
from each other in DNA site specificity [DNA metabolism,
Restriction/modification].
Length = 667
Score = 27.8 bits (62), Expect = 8.4
Identities = 15/78 (19%), Positives = 26/78 (33%)
Query: 104 ALHLAKLDAKLAITGRNVEQLNKVSESCQSVSKNKPLVIQADLTSEEDTKRIIDTVVKHY 163
HL K ++ E + K K + L +E+ + I + +HY
Sbjct: 447 EDHLDKKKLDAFFDEIFELLPERIREITKESLKEKLQKTKKILFNEDRLESIAKDIAEHY 506
Query: 164 QKLNVLVNNAGNIVNVSS 181
K L +V +S
Sbjct: 507 AKFKELFKFKAMVVAISR 524
>gnl|CDD|233121 TIGR00768, rimK_fam, alpha-L-glutamate ligases, RimK family. This
family, related to bacterial glutathione synthetases,
contains at least two different alpha-L-glutamate
ligases. One is RimK, as in E. coli, which adds
additional Glu residues to the native Glu-Glu C-terminus
of ribosomal protein S6, but not to Lys-Glu mutants.
Most species with a member of this subfamily lack an S6
homolog ending in Glu-Glu, however. Members in
Methanococcus jannaschii act instead as a
tetrahydromethanopterin:alpha-l-glutamate ligase
(MJ0620) and a gamma-F420-2:alpha-l-glutamate ligase
(MJ1001).
Length = 277
Score = 27.3 bits (61), Expect = 8.7
Identities = 15/47 (31%), Positives = 21/47 (44%)
Query: 192 LAYCVSKAAVDQFTSCTALELASKGVRVNSVNPGVTLTNLHKNSGID 238
LA +KA LE +G+ VN VNP N K +G++
Sbjct: 222 LAIKAAKALGLDVVGIDLLESEDRGLLVNEVNPNPEFKNSVKTTGVN 268
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 27.7 bits (62), Expect = 8.8
Identities = 11/23 (47%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 5 GKVILVTGASSGIGAATALHLAK 27
G+ +LVTGA G+G A+ +AK
Sbjct: 163 GETVLVTGAGGGVG-IHAIQVAK 184
>gnl|CDD|107361 cd06366, PBP1_GABAb_receptor, Ligand-binding domain of GABAb
receptors, which are metabotropic transmembrane
receptors for gamma-aminobutyric acid (GABA).
Ligand-binding domain of GABAb receptors, which are
metabotropic transmembrane receptors for
gamma-aminobutyric acid (GABA). GABA is the major
inhibitory neurotransmitter in the mammalian CNS and,
like glutamate and other transmitters, acts via both
ligand gated ion channels (GABAa receptors) and
G-protein coupled receptors (GABAb). GABAa receptors are
members of the ionotropic receptor superfamily which
includes alpha-adrenergic and glycine receptors. The
GABAb receptor is a member of a receptor superfamily
which includes the mGlu receptors. The GABAb receptor is
coupled to G alpha_i proteins, and activation causes a
decrease in calcium, an increase in potassium membrane
conductance, and inhibition of cAMP formation. The
response is thus inhibitory and leads to
hyperpolarization and decreased neurotransmitter
release, for example.
Length = 350
Score = 27.6 bits (62), Expect = 9.0
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 83 KLNVLVNNAVTGASSGIGAATALHLAKLDAKLAITG 118
+L + V + + A+ AL L + +AI G
Sbjct: 39 RLVLHVRD--SKCDPVQAASAALDLLENKPVVAIIG 72
>gnl|CDD|213180 cd03213, ABCG_EPDR, Eye pigment and drug resistance transporter
subfamily G of the ATP-binding cassette superfamily.
ABCG transporters are involved in eye pigment (EP)
precursor transport, regulation of lipid-trafficking
mechanisms, and pleiotropic drug resistance (DR). DR is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. Compared to other members of the
ABC transporter subfamilies, the ABCG transporter family
is composed of proteins that have an ATP-binding
cassette domain at the N-terminus and a TM
(transmembrane) domain at the C-terminus.
Length = 194
Score = 27.1 bits (61), Expect = 9.9
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 15 SGIGAATALHLAKLDAKLAITGRNV 39
SG+ +++AL + L +LA TGR +
Sbjct: 140 SGLDSSSALQVMSLLRRLADTGRTI 164
Score = 27.1 bits (61), Expect = 9.9
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 97 SGIGAATALHLAKLDAKLAITGRNV 121
SG+ +++AL + L +LA TGR +
Sbjct: 140 SGLDSSSALQVMSLLRRLADTGRTI 164
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
0.313 0.127 0.346
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,959,868
Number of extensions: 1279047
Number of successful extensions: 3032
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2405
Number of HSP's successfully gapped: 861
Length of query: 296
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 200
Effective length of database: 6,679,618
Effective search space: 1335923600
Effective search space used: 1335923600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.3 bits)