RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3252
(475 letters)
>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 = 220 bits (564), Expect = 2e-69
Identities = 95/255 (37%), Positives = 140/255 (54%), Gaps = 42/255 (16%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGGSSGIGK +A E K GA+V IVAR E KL +A EEI+
Sbjct: 6 ITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANASGQK---------- 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ Y+S D+S DYE + A A+++ GP ++VNCAG+++ G E++T +
Sbjct: 56 ----------VSYISADLS-DYEEVEQAFAQAVEKGGPPDLVVNCAGISIPGLFEDLTAE 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + +D+N +G++++ A++ MK++ G IV +SQA
Sbjct: 105 EFE---------------------RGMDVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQA 143
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRET 342
A +GIYG +AY SKFAL+G AE+L E+K + +++ PPDTDTPGFE E K+KP ET
Sbjct: 144 ALVGIYGYSAYCPSKFALRGLAESLRQELKPYNIRVSVVYPPDTDTPGFEEENKTKPEET 203
Query: 343 SLISQTGGLYRPEVV 357
I + G PE
Sbjct: 204 KAIEGSSGPITPEEA 218
>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 = 148 bits (376), Expect = 7e-42
Identities = 74/256 (28%), Positives = 113/256 (44%), Gaps = 48/256 (18%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIG+ +A A+ GA V + R+E+ L I+ N
Sbjct: 3 VTGASSGIGRAIARRLAREGAKVVLADRNEEAL-AELAAIEALGGN-------------- 47
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D+S D E++ + ++ A++ G + +LVN AG+A G LEE+T +
Sbjct: 48 ----------AVAVQADVS-DEEDVEALVEEALEEFGRLDILVNNAGIARPGPLEELTDE 96
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D V+D+NL G +T+A + MK++G G IV +S A
Sbjct: 97 DWD---------------------RVLDVNLTGVFLLTRAALPHMKKQGGGRIVNISSVA 135
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENE-EKSKPRE 341
+ G AAY +SK AL+G +L +E+ G+ + P DTP + +E
Sbjct: 136 GLRPLPGQAAYAASKAALEGLTRSLALELAPYGIRVNAVAPGLVDTPMLAKLGPEEAEKE 195
Query: 342 TSLISQTGGLYRPEVV 357
+ G L PE V
Sbjct: 196 LAAAIPLGRLGTPEEV 211
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 143 bits (364), Expect = 8e-40
Identities = 65/242 (26%), Positives = 106/242 (43%), Gaps = 45/242 (18%)
Query: 93 YLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFI 152
T +TG SSGIG +A + A+RG ++ +VAR E KL +E++
Sbjct: 1 PGPMKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELED-------- 52
Query: 153 RFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMAL 212
K +E + D+S D E + +R GP+ +LVN AG
Sbjct: 53 ---------------KTGVEVEVIPADLS-DPEALERLEDELKERGGPIDVLVNNAGFGT 96
Query: 213 CGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR 272
G E+++ + + M I LN+ +TKA++ GM +RG
Sbjct: 97 FGPFLELSLDEEEEM---------------------IQLNILALTRLTKAVLPGMVERGA 135
Query: 273 GCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE 332
G I+ S A + +A Y+++K + F+EAL E+K +G+ +T P T T F+
Sbjct: 136 GHIINIGSAAGLIPTPYMAVYSATKAFVLSFSEALREELKGTGVKVTAVCPGPTRTEFFD 195
Query: 333 NE 334
+
Sbjct: 196 AK 197
>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 = 132 bits (334), Expect = 1e-35
Identities = 80/277 (28%), Positives = 116/277 (41%), Gaps = 61/277 (22%)
Query: 87 HLQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVAR--DEKKLLQAQEEIKK 144
L K L VTG SSGIG+ +A A+ GA V + AR +E+ IK+
Sbjct: 2 DLSGKVAL--------VTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKE 53
Query: 145 ACPNPKFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYML 204
A V+ D+S D E++ + + A + G + +L
Sbjct: 54 A-----------------------GGGRAAAVAADVSDDEESVEALVAAAEEEFGRIDIL 90
Query: 205 VNCAGMALC-GTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKAL 263
VN AG+A LEE+T +D W R VID+NL G +T+A
Sbjct: 91 VNNAGIAGPDAPLEELTEED--------WDR-------------VIDVNLLGAFLLTRAA 129
Query: 264 VEGMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+ MK++ IV +S A G G AAY +SK AL G +AL +E+ G+ + P
Sbjct: 130 LPLMKKQR---IVNISSVAGLGGPPGQAAYAASKAALIGLTKALALELAPRGIRVNAVAP 186
Query: 324 PDTDTPGFENEEKSKPRETSLISQT---GGLYRPEVV 357
DTP E ++ ++ G L PE V
Sbjct: 187 GYIDTPMTAALESAELEALKRLAARIPLGRLGTPEEV 223
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 132 bits (334), Expect = 1e-35
Identities = 63/243 (25%), Positives = 101/243 (41%), Gaps = 54/243 (22%)
Query: 88 LQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACP 147
LQ K L VTG S GIG+ +A+ A GA V I +E+ E++ A
Sbjct: 3 LQGKTAL--------VTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGG 54
Query: 148 NPKFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNC 207
+ + F D+S D +R+ ++ A++ G + +LVN
Sbjct: 55 EARVLVF------------------------DVS-DEAAVRALIEAAVEAFGALDILVNN 89
Query: 208 AGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM 267
AG+ L M+ +D W VID+NL GT ++ +A + M
Sbjct: 90 AGITRDALLPRMSEED-------------------WDR--VIDVNLTGTFNVVRAALPPM 128
Query: 268 KQRGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTD 327
+ G IV +S + G G Y+++K + GF +AL +E+ G+T+ P D
Sbjct: 129 IKARYGRIVNISSVSGVTGNPGQTNYSAAKAGVIGFTKALALELASRGITVNAVAPGFID 188
Query: 328 TPG 330
T
Sbjct: 189 TDM 191
>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 = 131 bits (333), Expect = 1e-35
Identities = 64/254 (25%), Positives = 114/254 (44%), Gaps = 54/254 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG +A+ A +G V AR+ KL + + N
Sbjct: 5 ITGCSSGIGLALALALAAQGYRVIATARNPDKL---ESLGELLNDN-------------- 47
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+E + LD++ D E+I++A++ ++R G + +LVN AG L G LEE +++
Sbjct: 48 ----------LEVLELDVT-DEESIKAAVKEVIERFGRIDVLVNNAGYGLFGPLEETSIE 96
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+++ + ++N++G + +T+A + M+++G G IV +S A
Sbjct: 97 EVR---------------------ELFEVNVFGPLRVTRAFLPLMRKQGSGRIVNVSSVA 135
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRET 342
+ L Y +SK AL+ +E+L +E+ G+ +T+ P T +N S
Sbjct: 136 GLVPTPFLGPYCASKAALEALSESLRLELAPFGIKVTIIEPGPVRTGFADNAAGSALE-- 193
Query: 343 SLISQTGGLYRPEV 356
Y PE
Sbjct: 194 ---DPEISPYAPER 204
>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 = 127 bits (321), Expect = 1e-33
Identities = 58/226 (25%), Positives = 107/226 (47%), Gaps = 45/226 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ +A A+ GA + + AR E++L EE+K C
Sbjct: 8 ITGASSGIGEELAYHLARLGARLVLSARREERL----EEVKSECLEL------------- 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
P V LD+S D E+ ++ A+ G + +L+N AG+++ + ++
Sbjct: 51 --GAPS----PHVVPLDMS-DLEDAEQVVEEALKLFGGLDILINNAGISMRSLFHDTSID 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ ++++N +G + +TKA + + +R +G IV+ +S A
Sbjct: 104 VDR---------------------KIMEVNYFGPVALTKAALPHLIERSQGSIVVVSSIA 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
+G+ AY +SK AL+GF ++L E+ + +++T+ P DT
Sbjct: 143 GKIGVPFRTAYAASKHALQGFFDSLRAELSEPNISVTVVCPGLIDT 188
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 125 bits (315), Expect = 3e-32
Identities = 67/267 (25%), Positives = 115/267 (43%), Gaps = 59/267 (22%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIK----KACPNPKFI 152
+ +TG S+G+G+ A A+RGA V ++AR E+ L EI+ +A
Sbjct: 7 GRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAAGGEALA----- 61
Query: 153 RFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMAL 212
V D++ D E +++A A + GP+ VN A + +
Sbjct: 62 -----------------------VVADVA-DAEAVQAAADRAEEELGPIDTWVNNAMVTV 97
Query: 213 CGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR 272
G E++T ++ + R V ++ G +H T A + M+ R R
Sbjct: 98 FGPFEDVTPEEFR------------------R---VTEVTYLGVVHGTLAALRHMRPRDR 136
Query: 273 GCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCL--PPDTDTPG 330
G I+ S A I +AY ++K A++GF ++L E+ G +++ + PP +TP
Sbjct: 137 GAIIQVGSALAYRSIPLQSAYCAAKHAIRGFTDSLRCELLHDGSPVSVTMVQPPAVNTPQ 196
Query: 331 FENEEKSKPRETSLISQTGGLYRPEVV 357
F+ P E + +Y+PEVV
Sbjct: 197 FDWARSRLPVEPQPVPP---IYQPEVV 220
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 116 bits (292), Expect = 7e-30
Identities = 58/221 (26%), Positives = 100/221 (45%), Gaps = 46/221 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG GIG+ VAI AK G +V ++AR E+ L EE++ +K
Sbjct: 12 ITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEA-------------YGVKV 58
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ D+S DYE + +A++ + G + +L+N AG++ G E+
Sbjct: 59 V-----------IATADVS-DYEEVTAAIEQLKNELGSIDILINNAGISKFGKFLELDPA 106
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ W + +I +NL G + T+A++ M +R G I+ +S A
Sbjct: 107 E--------WEK-------------IIQVNLMGVYYATRAVLPSMIERQSGDIINISSTA 145
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
G +AY++SKF + G E+L EV++ + +T P
Sbjct: 146 GQKGAAVTSAYSASKFGVLGLTESLMQEVRKHNIRVTALTP 186
>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 = 115 bits (291), Expect = 9e-30
Identities = 66/257 (25%), Positives = 112/257 (43%), Gaps = 51/257 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ A+ A+RGA V + AR + L + E++ E +
Sbjct: 5 ITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVR--------------ELGGE 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A V D++ D + A A++R G + VN AG+A+ G E++T +
Sbjct: 51 AIA----------VVADVA-DAAQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPE 99
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + V D+N G ++ T A + +++RG G ++ S
Sbjct: 100 EFR---------------------RVFDVNYLGHVYGTLAALPHLRRRGGGALINVGSLL 138
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCL--PPDTDTPGFENEEKSKPR 340
AAY++SK A++GF E+L E+ G I++ L P +TP F + +
Sbjct: 139 GYRSAPLQAAYSASKHAVRGFTESLRAELAHDGAPISVTLVQPTAMNTPFFGHARSYMGK 198
Query: 341 ETSLISQTGGLYRPEVV 357
+ +Y+PE V
Sbjct: 199 KPKPPPP---IYQPERV 212
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 109 bits (276), Expect = 2e-27
Identities = 60/228 (26%), Positives = 102/228 (44%), Gaps = 47/228 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVAR-DEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG + G+G+ +A+ A+ GA V + R DE+ + E + E +
Sbjct: 11 VTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAV-------------EALGRR 57
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
+ V D++ D + +A+ A++R G + +LVN AG+ L +M+
Sbjct: 58 -----------AQAVQADVT-DKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLADMSD 105
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ W VID+NL G H+ +A+V M+++ G IV +S
Sbjct: 106 DE-------------------WD--EVIDVNLSGVFHLLRAVVPPMRKQRGGRIVNISSV 144
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A G G + Y ++K L G +AL E+ + G+T+ + P D DT
Sbjct: 145 AGLPGWPGRSNYAAAKAGLVGLTKALARELAEYGITVNMVAPGDIDTD 192
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 109 bits (275), Expect = 2e-27
Identities = 57/221 (25%), Positives = 97/221 (43%), Gaps = 48/221 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ A A+ GA V + AR E++L E +
Sbjct: 11 ITGASSGIGEATARALAEAGAKVVLAARREERL----------------------EALAD 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ ++LD++ D + +A++ + G + +LVN AG+AL L+E +
Sbjct: 49 EIGAGAAL----ALALDVT-DRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEADLD 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D M ID N+ G ++ T+A++ GM +R G I+ S A
Sbjct: 104 DWDRM---------------------IDTNVKGLLNGTRAVLPGMVERKSGHIINLGSIA 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
G A Y ++K A++ F+ L E+ +G+ +T+ P
Sbjct: 143 GRYPYPGGAVYGATKAAVRAFSLGLRQELAGTGIRVTVISP 183
>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 = 109 bits (274), Expect = 2e-27
Identities = 73/241 (30%), Positives = 105/241 (43%), Gaps = 51/241 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG SGIG+ +A+E AKRGA V I+ +EK + ++KA + Y+
Sbjct: 4 ITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAGGKVHY-----YK---- 54
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C D+SK E + A + G V +L+N AG+ L E+ +
Sbjct: 55 -C--------------DVSK-REEVYEAAKKIKKEVGDVTILINNAGVVSGKKLLELPDE 98
Query: 223 DI-KVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+I K E LA + WT TKA + M +R G IV AS
Sbjct: 99 EIEKTFEVNT--------LAHF--WT------------TKAFLPDMLERNHGHIVTIASV 136
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLT---ITLCLPPDTDTPGFENEEKSK 338
A + GLA Y +SK A GF E+L +E+K G TL P +T F+ + +
Sbjct: 137 AGLISPAGLADYCASKAAAVGFHESLRLELKAYGKPGIKTTLVCPYFINTGMFQGVKTPR 196
Query: 339 P 339
P
Sbjct: 197 P 197
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 106 bits (266), Expect = 4e-26
Identities = 60/233 (25%), Positives = 93/233 (39%), Gaps = 47/233 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG+ +A+ A GA V +V E ++ A
Sbjct: 11 VTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAGGK-------------- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+D+ D +++A+ ++ G + +LV AG+ EM +
Sbjct: 57 ----------ARARQVDVR-DRAALKAAVAAGVEDFGRLDILVANAGIFPLTPFAEMDDE 105
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
W VID+NL GT +T+A + + + G G IV+T+S A
Sbjct: 106 Q-------------------WE--RVIDVNLTGTFLLTQAALPALIRAGGGRIVLTSSVA 144
Query: 283 A-NLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENE 334
+G GLA Y +SK L GF AL +E+ +T+ P DTP N
Sbjct: 145 GPRVGYPGLAHYAASKAGLVGFTRALALELAARNITVNSVHPGGVDTPMAGNL 197
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 104 bits (261), Expect = 3e-25
Identities = 64/236 (27%), Positives = 107/236 (45%), Gaps = 62/236 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +SGIG+ A+ A +GA + + RD L Q + +
Sbjct: 5 VTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADAR------------------- 45
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRS------ALQPAMDRCGPVYMLVNCAGMALCGTL 216
A E+ +LDIS DY+ + + A +MD +++N AG++ GT+
Sbjct: 46 ALGG----TVPEHRALDIS-DYDAVAAFAADIHAAHGSMD------VVMNIAGISAWGTV 94
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
+ +T + WR ++D+NL G IH+ + V M GRG +
Sbjct: 95 DRLTHEQ-------------------WRR--MVDVNLMGPIHVIETFVPPMVAAGRGGHL 133
Query: 277 ITASQAANLGIYGL---AAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ S AA G+ L AAY++SKF L+G +E L ++ + G+ +++ +P TP
Sbjct: 134 VNVSSAA--GLVALPWHAAYSASKFGLRGLSEVLRFDLARHGIGVSVVVPGAVKTP 187
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 103 bits (258), Expect = 4e-25
Identities = 62/227 (27%), Positives = 91/227 (40%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIGK A+ AK G + +VAR + L E++
Sbjct: 11 ITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELR------------------- 51
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
++ S+D+S + E I + +++ G +L+N AGMA G L EM +
Sbjct: 52 ----STGVK-AAAYSIDLS-NPEAIAPGIAELLEQFGCPDVLINNAGMAYTGPLLEMPLS 105
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W VI LNL A++ GM+ RG G I+ +S A
Sbjct: 106 D--------WQW-------------VIQLNLTSVFQCCSAVLPGMRARGGGLIINVSSIA 144
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A AY SK AL F + L E + G+ + +TP
Sbjct: 145 ARNAFPQWGAYCVSKAALAAFTKCLAEEERSHGIRVCTITLGAVNTP 191
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 103 bits (260), Expect = 4e-25
Identities = 59/226 (26%), Positives = 101/226 (44%), Gaps = 46/226 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S GIG+ +A+ A+ GA + + AR+E +L +E+
Sbjct: 6 ITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADH----------------- 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ V D+S D E ++ A+ R G + +LVN AG+ + +E+T
Sbjct: 49 --GGEALV-----VPTDVS-DAEACERLIEAAVARFGGIDILVNNAGITMWSRFDELT-- 98
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D+ V E+ V+ +N G ++ T A + +K RG IV+ +S A
Sbjct: 99 DLSVFER------------------VMRVNYLGAVYCTHAALPHLKAS-RGQIVVVSSLA 139
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
G+ + Y +SK AL GF ++L +E+ G+ +T+ P T
Sbjct: 140 GLTGVPTRSGYAASKHALHGFFDSLRIELADDGVAVTVVCPGFVAT 185
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR),
involved in Type II FAS, classical (c) SDRs. This
subgroup includes the Escherichai coli K12 BKR, FabG.
BKR catalyzes the NADPH-dependent reduction of ACP in
the first reductive step of de novo fatty acid synthesis
(FAS). FAS consists of four elongation steps, which are
repeated to extend the fatty acid chain through the
addition of two-carbo units from malonyl acyl-carrier
protein (ACP): condensation, reduction, dehydration, and
a final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 240
Score = 102 bits (257), Expect = 5e-25
Identities = 62/227 (27%), Positives = 97/227 (42%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG+ +A+ A GA V + R E+ + EEIK N
Sbjct: 5 VTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKALGGNAAA----------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ D+S D E + + ++ GPV +LVN AG+ L M+ +
Sbjct: 54 -------------LEADVS-DREAVEALVEKVEAEFGPVDILVNNAGITRDNLLMRMSEE 99
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W + VI++NL G ++T+A++ M +R G I+ +S
Sbjct: 100 D-------------------WDA--VINVNLTGVFNVTQAVIRAMIKRRSGRIINISSVV 138
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+G G A Y +SK + GF ++L E+ G+T+ P DT
Sbjct: 139 GLIGNPGQANYAASKAGVIGFTKSLAKELASRGITVNAVAPGFIDTD 185
>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 = 100 bits (252), Expect = 2e-24
Identities = 63/227 (27%), Positives = 100/227 (44%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ +A E AK G +V + AR +L + + E+
Sbjct: 3 ITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLN------------------ 44
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
PNP I LD++ D E + + G + +++ AG+ +L
Sbjct: 45 --PNPSVEVEI----LDVT-DEERNQLVIAELEAELGGLDLVIINAGVGKGTSLG----- 92
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
L+ ID NL G + +A + + +GRG +V+ +S A
Sbjct: 93 ----------------DLSFKAFRETIDTNLLGAAAILEAALPQFRAKGRGHLVLISSVA 136
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A G+ G AAY++SK AL AE+L +VK+ G+ +T+ P DTP
Sbjct: 137 ALRGLPGAAAYSASKAALSSLAESLRYDVKKRGIRVTVINPGFIDTP 183
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 100 bits (251), Expect = 5e-24
Identities = 62/217 (28%), Positives = 89/217 (41%), Gaps = 47/217 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTI-VARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG S GIG+ +A A +GA+V I A E EI
Sbjct: 10 VTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGAL---------------- 53
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
K + V D+S D E++ A+ A G V +LVN AG+ L M
Sbjct: 54 ----GGKAL----AVQGDVS-DAESVERAVDEAKAEFGGVDILVNNAGITRDNLLMRMKE 104
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+D W R VID NL G ++TKA+ M ++ G I+ +S
Sbjct: 105 ED--------WDR-------------VIDTNLTGVFNLTKAVARPMMKQRSGRIINISSV 143
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
+G G A Y +SK + GF ++L E+ G+T+
Sbjct: 144 VGLMGNPGQANYAASKAGVIGFTKSLARELASRGITV 180
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 100 bits (251), Expect = 8e-24
Identities = 62/244 (25%), Positives = 111/244 (45%), Gaps = 48/244 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSG G +E AK+G V R+ +K + +
Sbjct: 8 VTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQN------------ 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
I+ LD++ D +I + Q + G + +LVN AG A G +EE+ ++
Sbjct: 56 ----------IKVQQLDVT-DQNSIHNF-QLVLKEIGRIDLLVNNAGYANGGFVEEIPVE 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + + + T N++G I +T+A++ M+++ G I+ +S +
Sbjct: 104 E--------YRKQFET-------------NVFGAISVTQAVLPYMRKQKSGKIINISSIS 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE---NEEKSKP 339
+G GL+ Y SSK+AL+GF+E+L +E+K G+ + L P +T +E +++
Sbjct: 143 GRVGFPGLSPYVSSKYALEGFSESLRLELKPFGIDVALIEPGSYNTNIWEVGKQLAENQS 202
Query: 340 RETS 343
TS
Sbjct: 203 ETTS 206
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 99.2 bits (248), Expect = 2e-23
Identities = 60/230 (26%), Positives = 96/230 (41%), Gaps = 52/230 (22%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
+++TGG+ GIG A A GA V I DE + E+
Sbjct: 7 VVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAELGLV-------------- 52
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG-MALCGTLEE 218
LD++ D + + L GP+ +LVN AG M + L+E
Sbjct: 53 --------------VGGPLDVT-DPASFAAFLDAVEADLGPIDVLVNNAGVMPVGPFLDE 97
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
+ TR ++D+N+YG I +K M RGRG +V
Sbjct: 98 P--------DAV-------TRR-------ILDVNVYGVILGSKLAAPRMVPRGRGHVVNV 135
Query: 279 ASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
AS A + + G+A Y +SK A+ GF +A +E++ +G+ +++ LP +T
Sbjct: 136 ASLAGKIPVPGMATYCASKHAVVGFTDAARLELRGTGVHVSVVLPSFVNT 185
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 97.0 bits (242), Expect = 6e-23
Identities = 64/235 (27%), Positives = 98/235 (41%), Gaps = 49/235 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGGS GIG +A G V I ARD+K+L +A E+
Sbjct: 11 ITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNN---------------KGN 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+R D +++ A+ + G + +L+ AG+ +EE+T +
Sbjct: 56 VLGLAADVR-----------DEADVQRAVDAIVAAFGGLDVLIANAGVGHFAPVEELTPE 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ WR VID NL G + KA V +K RG G I+ +S A
Sbjct: 105 E-------------------WR--LVIDTNLTGAFYTIKAAVPALK-RGGGYIINISSLA 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKS 337
G AAY +SKF L GF+EA ++++Q G+ ++ +P T F S
Sbjct: 143 GTNFFAGGAAYNASKFGLVGFSEAAMLDLRQYGIKVSTIMPGSVATH-FNGHTPS 196
>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 = 94.7 bits (236), Expect = 3e-22
Identities = 55/230 (23%), Positives = 92/230 (40%), Gaps = 50/230 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG +A A+ G V++ R+ + L
Sbjct: 5 VTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALSASGGDV----------------- 47
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
E V D +D E+ R+ + DR G + +LV+ AG+ TL E +
Sbjct: 48 -----------EAVPYDA-RDPEDARALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDA 95
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+++ A + +N+ +T+AL+ +++ G G +V S +
Sbjct: 96 ELE---------------AHF------SINVIAPAELTRALLPALREAGSGRVVFLNSLS 134
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE 332
+ G A Y++SKFAL+ A AL E G+ ++ P DTP +
Sbjct: 135 GKRVLAGNAGYSASKFALRALAHALRQEGWDHGVRVSAVCPGFVDTPMAQ 184
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 92.2 bits (230), Expect = 6e-22
Identities = 42/208 (20%), Positives = 76/208 (36%), Gaps = 53/208 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQ--EEIKKACPNPKFIRFIEYEE 159
+TGG+ G+G +A A GA H+ +V+R A+ E++
Sbjct: 5 ITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEAL-------------- 50
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
+ + D++ D + + + L GP+ +V+ AG+ G LEE+
Sbjct: 51 ----------GAEVTVAACDVA-DRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEEL 99
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA 279
T + + V+ + G ++ + + G V+ +
Sbjct: 100 TPERFE---------------------RVLAPKVTGAWNLHELTRD----LDLGAFVLFS 134
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEAL 307
S A LG G A Y ++ AL AE
Sbjct: 135 SVAGVLGSPGQANYAAANAALDALAEHR 162
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 93.8 bits (234), Expect = 9e-22
Identities = 58/215 (26%), Positives = 97/215 (45%), Gaps = 47/215 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTI-VARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG S GIG+ +A AK GA V I +E+ + EEIK+ + +
Sbjct: 10 VTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKEEGGDAIAV--------- 60
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
KA D+S E++ + ++ +++ G + +LVN AG++ G + +MT
Sbjct: 61 KA---------------DVSS-EEDVENLVEQIVEKFGKIDILVNNAGISNFGLVTDMTD 104
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
++ W VID+NL G + +T+ + M +R G IV +S
Sbjct: 105 EE-------------------WDR--VIDVNLTGVMLLTRYALPYMIKRKSGVIVNISSI 143
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGL 316
+G Y++SK A+ F +AL E+ SG+
Sbjct: 144 WGLIGASCEVLYSASKGAVNAFTKALAKELAPSGI 178
>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 = 93.1 bits (232), Expect = 2e-21
Identities = 65/244 (26%), Positives = 97/244 (39%), Gaps = 48/244 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VT SSGIG +A A+ GA V I AR+ + L +A E++
Sbjct: 6 VTAASSGIGLAIARALAREGARVAICARNRENLERAASELRAGGAGVL------------ 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D++ D E+I ++ A D G V +LVN AG G E+T +
Sbjct: 54 ------------AVVADLT-DPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGPFAELTDE 100
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D WL + DL L I + +A++ GMK+RG G IV +S
Sbjct: 101 D--------WLEAF-------------DLKLLSVIRIVRAVLPGMKERGWGRIVNISSLT 139
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN--EEKSKPR 340
L ++ L G + L E+ G+T+ LP DT E +++
Sbjct: 140 VKEPEPNLVLSNVARAGLIGLVKTLSRELAPDGVTVNSVLPGYIDTERVRRLLEARAEKE 199
Query: 341 ETSL 344
S+
Sbjct: 200 GISV 203
>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 = 91.6 bits (228), Expect = 5e-21
Identities = 59/227 (25%), Positives = 99/227 (43%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG VA A+ GA V V R+ ++LL+ ++++ F Y+
Sbjct: 3 VTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRR-----YGYPFATYK---- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
LD++ D + +Q GP+ +LVN AG+ G ++ ++ +
Sbjct: 54 ---------------LDVA-DSAAVDEVVQRLEREYGPIDVLVNVAGILRLGAIDSLSDE 97
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D + +N +G ++++A+ MK+R G IV S A
Sbjct: 98 DWQAT---------------------FAVNTFGVFNVSQAVSPRMKRRRSGAIVTVGSNA 136
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
AN+ G+AAY +SK AL + L +E+ G+ + P TDT
Sbjct: 137 ANVPRMGMAAYAASKAALTMLTKCLGLELAPYGIRCNVVSPGSTDTE 183
>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 = 91.1 bits (226), Expect = 8e-21
Identities = 60/227 (26%), Positives = 96/227 (42%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIG+ A A GA V I AR +L +E++
Sbjct: 8 VTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEAEGGK-------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ LD++ D + + +A++ ++ G + +LVN AG+ L G +E+
Sbjct: 54 ----------ALVLELDVT-DEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTT 102
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W R +ID NL G ++ T A + R +G IV +S A
Sbjct: 103 D--------WTR-------------MIDTNLLGLMYTTHAALPHHLLRNKGTIVNISSVA 141
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ + A Y ++KF + F+E L EV + G+ + + P DT
Sbjct: 142 GRVAVRNSAVYNATKFGVNAFSEGLRQEVTERGVRVVVIEPGTVDTE 188
>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 = 90.1 bits (224), Expect = 2e-20
Identities = 60/261 (22%), Positives = 99/261 (37%), Gaps = 54/261 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+ G+G A GA V + +++ A E+ A
Sbjct: 10 VTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAELGDA----------------- 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ LD++ + + + + A + G + +LVN AG+ GT+E
Sbjct: 53 ----------ARFFHLDVTDE-DGWTAVVDTAREAFGRLDVLVNNAGILTGGTVE----- 96
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
T L WR ++D+NL G T+A++ MK+ G G I+ +S
Sbjct: 97 --------------TTTLEEWR--RLLDINLTGVFLGTRAVIPPMKEAGGGSIINMSSIE 140
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITL--CLPPDTDTPGFENEEKSKPR 340
+G LAAY +SK A++G ++ +E G I + P TP +
Sbjct: 141 GLVGDPALAAYNASKGAVRGLTKSAALECATQGYGIRVNSVHPGYIYTPMTDELLI-AQG 199
Query: 341 ETSLISQT--GGLYRPEVVKQ 359
E T G P+ +
Sbjct: 200 EMGNYPNTPMGRAGEPDEIAY 220
>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 = 89.1 bits (221), Expect = 5e-20
Identities = 56/227 (24%), Positives = 98/227 (43%), Gaps = 50/227 (22%)
Query: 100 TLSVTGGSSGIGKHVAIEAA---KRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+ +TG SSGIG H+A+ A + V RD KK + E
Sbjct: 2 VVLITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGT------- 54
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
+E + LD+ +++ +A++ +R V +LV AG+ L G L
Sbjct: 55 ----------------LETLQLDVCDS-KSVAAAVERVTER--HVDVLVCNAGVGLLGPL 95
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
E ++ + +V D+N++GT+ M +A + MK+RG G I+
Sbjct: 96 EALSEDAMA---------------------SVFDVNVFGTVRMLQAFLPDMKRRGSGRIL 134
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+T+S G+ Y +SKFAL+G E+L +++ + ++L
Sbjct: 135 VTSSVGGLQGLPFNDVYCASKFALEGLCESLAVQLLPFNVHLSLIEC 181
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 89.2 bits (222), Expect = 5e-20
Identities = 57/225 (25%), Positives = 95/225 (42%), Gaps = 48/225 (21%)
Query: 104 TGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKA 163
TG S GIG+ +A A GA + +V R+ +KL E +
Sbjct: 11 TGASGGIGQALAEALAAAGARLLLVGRNAEKL----------------------EALAAR 48
Query: 164 CPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQD 223
P P +V D++ E R A+ G + +L+N AG+ LE+ +
Sbjct: 49 LPYPGRH---RWVVADLTS--EAGREAVLARAREMGGINVLINNAGVNHFALLEDQDPEA 103
Query: 224 IKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAA 283
I+ + + LNL + +T+AL+ ++ + +V S
Sbjct: 104 IERL---------------------LALNLTAPMQLTRALLPLLRAQPSAMVVNVGSTFG 142
Query: 284 NLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
++G G A+Y +SKFAL+GF+EAL E+ +G+ + P T T
Sbjct: 143 SIGYPGYASYCASKFALRGFSEALRRELADTGVRVLYLAPRATRT 187
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 88.6 bits (220), Expect = 8e-20
Identities = 57/217 (26%), Positives = 91/217 (41%), Gaps = 51/217 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+SGIG +A A +GA V ++ R E E+ + K
Sbjct: 20 VTGGASGIGHAIAELFAAKGARVALLDRSE-----DVAEVAAQ---------LLGGNAKG 65
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ D+S D +++ +A+ + G + +LVN AG+AL E+++ +
Sbjct: 66 -------------LVCDVS-DSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDVSEE 111
Query: 223 DIKVMEQPLWLRGYHTRLALWRSW-TVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
D W ID+NL G+ M +A+ M G G IV ASQ
Sbjct: 112 D----------------------WDKTIDINLKGSFLMAQAVGRHMIAAGGGKIVNLASQ 149
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
A + + AY +SK + G + L +E G+T+
Sbjct: 150 AGVVALERHVAYCASKAGVVGMTKVLALEWGPYGITV 186
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup has
a canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 87.6 bits (217), Expect = 1e-19
Identities = 60/228 (26%), Positives = 95/228 (41%), Gaps = 53/228 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQA-QEEIKKACPNPKFIRFIEYEEIK 161
VTG S GIG+ A G V I ARDE +L A +E++
Sbjct: 5 VTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQELEGVLG-------------- 50
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRC-GPVYMLVNCAGMALCGTLEEMT 220
++ D+ +D ++R A+ AM+ G + LVN AG+ + +EE+T
Sbjct: 51 --------------LAGDV-RDEADVRRAVD-AMEEAFGGLDALVNNAGVGVMKPVEELT 94
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
++ W V+D NL G + + +RG G IV S
Sbjct: 95 PEE-------------------W--RLVLDTNLTGAFYCIHKAAPALLRRGGGTIVNVGS 133
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
A G AAY +SKF L G +EA ++++++ + + +P DT
Sbjct: 134 LAGKNAFKGGAAYNASKFGLLGLSEAAMLDLREANIRVVNVMPGSVDT 181
>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 = 86.5 bits (215), Expect = 3e-19
Identities = 59/226 (26%), Positives = 98/226 (43%), Gaps = 54/226 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIGK A E AKRG +V +++R ++KL +EI++
Sbjct: 6 VTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEE------------------ 47
Query: 163 ACPNPKFIRFIEYVSLDISK---DYENIRSALQPAMDRCGPVYMLVNCAGMA--LCGTLE 217
K+ + ++ D S YE I L+ + +LVN G++ +
Sbjct: 48 -----KYGVETKTIAADFSAGDDIYERIEKELEGL-----DIGILVNNVGISHSIPEYFL 97
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
E ++ +I++N+ T+ MT+ ++ GM +R +G IV
Sbjct: 98 ETPEDEL---------------------QDIINVNVMATLKMTRLILPGMVKRKKGAIVN 136
Query: 278 TASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+S A + LA Y++SK L F+ ALY E K G+ + LP
Sbjct: 137 ISSFAGLIPTPLLATYSASKAFLDFFSRALYEEYKSQGIDVQSLLP 182
>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 = 86.7 bits (215), Expect = 3e-19
Identities = 55/240 (22%), Positives = 91/240 (37%), Gaps = 48/240 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +SGIG +A A GA+V + E+ A + A +
Sbjct: 6 VTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDAGGSV------------- 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
Y+ D++ + I + A G + +LVN AG+ +EE +
Sbjct: 53 -----------IYLPADVT-KEDEIADMIAAAAAEFGGLDILVNNAGIQHVAPIEEFPPE 100
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D +I + L H +A + MK++G G I+ AS
Sbjct: 101 DWD---------------------RIIAVMLTSAFHTIRAALPHMKKQGWGRIINIASAH 139
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN--EEKSKPR 340
+ +AY ++K L G + L +EV + G+T+ P TP E +++K R
Sbjct: 140 GLVASPFKSAYVAAKHGLIGLTKVLALEVAEHGITVNAICPGYVRTPLVEKQIADQAKTR 199
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 86.9 bits (216), Expect = 4e-19
Identities = 58/228 (25%), Positives = 92/228 (40%), Gaps = 49/228 (21%)
Query: 96 PTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFI 155
+ T +TG SSG G+ +A A G V R E E +
Sbjct: 2 SSMKTWLITGVSSGFGRALAQAALAAGHRVVGTVRSEAAR-ADFEALHPDRALA------ 54
Query: 156 EYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT 215
LD++ D++ I + + A GP+ +LVN AG G
Sbjct: 55 --------------------RLLDVT-DFDAIDAVVADAEATFGPIDVLVNNAGYGHEGA 93
Query: 216 LEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCI 275
+EE + +++ ++N++G + MTKA++ GM+ R RG I
Sbjct: 94 IEESPLAEMRRQ---------------------FEVNVFGAVAMTKAVLPGMRARRRGHI 132
Query: 276 VITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
V S + + G+ Y SKFAL+G +E+L EV G+ +T P
Sbjct: 133 VNITSMGGLITMPGIGYYCGSKFALEGISESLAKEVAPFGIHVTAVEP 180
>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 = 85.4 bits (212), Expect = 6e-19
Identities = 65/261 (24%), Positives = 109/261 (41%), Gaps = 56/261 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG+SGIG A K+GA V I+ R+E A E++ P K F++
Sbjct: 5 ITGGASGIGLATAKLLLKKGAKVAILDRNENP--GAAAELQAINPKVK-ATFVQC----- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D++ +E + +A + A+++ G V +L+N AG+ L+E +
Sbjct: 57 ----------------DVTS-WEQLAAAFKKAIEKFGRVDILINNAGI-----LDEKSYL 94
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR---GCIVITA 279
+ P W + ID+NL G I+ T + M + G IV
Sbjct: 95 FAGKLPPP-WEK-------------TIDVNLTGVINTTYLALHYMDKNKGGKGGVIVNIG 140
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYMEVK-QSGLTI-TLCLPPDTDTPGFENEEKS 337
S A Y++SK + GF +L ++ ++G+ + +C P T+TP +
Sbjct: 141 SVAGLYPAPQFPVYSASKHGVVGFTRSLADLLEYKTGVRVNAIC-PGFTNTPLLPDLVAK 199
Query: 338 -KPRETSLISQTGGLYRPEVV 357
S +Q+ PEVV
Sbjct: 200 EAEMLPSAPTQS-----PEVV 215
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 84.6 bits (210), Expect = 2e-18
Identities = 53/227 (23%), Positives = 89/227 (39%), Gaps = 55/227 (24%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG VA+ + GA V + F+ E+
Sbjct: 13 VTGAAQGIGYAVALAFVEAGAKVIGFDQA----------------------FLTQEDYPF 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A LD+S D + Q + GP+ +LVN AG+ G + ++ +
Sbjct: 51 AT-----------FVLDVS-DAAAVAQVCQRLLAETGPLDVLVNAAGILRMGATDSLSDE 98
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W + +N G ++ +A++ +++ G IV S A
Sbjct: 99 D--------WQQ-------------TFAVNAGGAFNLFRAVMPQFRRQRSGAIVTVGSNA 137
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A++ G+AAY +SK AL A+ + +E+ G+ + P TDT
Sbjct: 138 AHVPRIGMAAYGASKAALTSLAKCVGLELAPYGVRCNVVSPGSTDTD 184
>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 = 84.5 bits (209), Expect = 2e-18
Identities = 62/229 (27%), Positives = 102/229 (44%), Gaps = 48/229 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +SGIG +A K G V + AR E+ L +E+++A
Sbjct: 8 VTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELREAGVE-------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ + D+ + I + + A+ R GP+ +LVN AG + G E+ +
Sbjct: 54 ----------ADGRTCDV-RSVPEIEALVAAAVARYGPIDVLVNNAGRSGGGATAELADE 102
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVE--GMKQRGRGCIVITAS 280
LWL V++ NL G +TK +++ GM +RG G I+ AS
Sbjct: 103 --------LWL-------------DVVETNLTGVFRVTKEVLKAGGMLERGTGRIINIAS 141
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G+ A Y++SK + GF +AL +E+ ++G+T+ P +TP
Sbjct: 142 TGGKQGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAVCPGFVETP 190
>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 = 82.4 bits (204), Expect = 8e-18
Identities = 58/216 (26%), Positives = 94/216 (43%), Gaps = 46/216 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG +A A+ GA++ I +R+E+K +AQ+ I+K
Sbjct: 10 VTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKEGVEATAFTC-------- 61
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D+S D E I++A++ + G + +LVN AG+ EE
Sbjct: 62 ----------------DVS-DEEAIKAAVEAIEEDFGKIDILVNNAGIIRRHPAEEFPEA 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ WR VID+NL G +++A+ M ++G G I+ S
Sbjct: 105 E-------------------WRD--VIDVNLNGVFFVSQAVARHMIKQGHGKIINICSLL 143
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
+ LG + AY +SK + G +AL E + G+ +
Sbjct: 144 SELGGPPVPAYAASKGGVAGLTKALATEWARHGIQV 179
>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 = 82.0 bits (203), Expect = 1e-17
Identities = 51/207 (24%), Positives = 83/207 (40%), Gaps = 52/207 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+SG+G +GA V I+ +
Sbjct: 7 VTGGASGLGLATVERLLAQGAKVVILDLPNSPGETVAKLGDNC----------------- 49
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMAL-CGTLEEMTM 221
+V +D++ +++++AL A + G + ++VNCAG+A+ T +
Sbjct: 50 -----------RFVPVDVT-SEKDVKAALALAKAKFGRLDIVVNCAGIAVAAKTYNKKGQ 97
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM-KQRG-----RGCI 275
Q L L++ VI++NL GT ++ + M K RG I
Sbjct: 98 Q--------------PHSLELFQR--VINVNLIGTFNVIRLAAGAMGKNEPDQGGERGVI 141
Query: 276 VITASQAANLGIYGLAAYTSSKFALKG 302
+ TAS AA G G AAY++SK + G
Sbjct: 142 INTASVAAFEGQIGQAAYSASKGGIVG 168
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 81.7 bits (202), Expect = 1e-17
Identities = 59/232 (25%), Positives = 98/232 (42%), Gaps = 43/232 (18%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGGS G+G+ +A+ A GA V ++ + + + I+
Sbjct: 11 ITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVA--------------AGIEA 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A + F D+ +D+ R+AL ++ G + +LVN AG+A E++++
Sbjct: 57 AGGKALGLAF------DV-RDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIE 109
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM-KQRGRGCIVITASQ 281
+ W VID+NL G ++T+A + M + R G IV AS
Sbjct: 110 E-------------------WDD--VIDVNLDGFFNVTQAALPPMIRARRGGRIVNIASV 148
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
A G G Y +SK L G + L E+ G+T+ P +TP +N
Sbjct: 149 AGVRGNRGQVNYAASKAGLIGLTKTLANELAPRGITVNAVAPGAINTPMADN 200
>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 = 81.4 bits (201), Expect = 2e-17
Identities = 57/210 (27%), Positives = 83/210 (39%), Gaps = 55/210 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG GIG+ AK GA V V+R + L E CP
Sbjct: 12 VTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVRE----CPG-------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
IE V +D+S D++ AL GPV +LVN A +A+ E+T +
Sbjct: 54 ----------IEPVCVDLS-DWDATEEALGSV----GPVDLLVNNAAVAILQPFLEVTKE 98
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIVITASQ 281
RS+ V N+ IH+++ + GM RG G IV +SQ
Sbjct: 99 AFD------------------RSFDV---NVRAVIHVSQIVARGMIARGVPGSIVNVSSQ 137
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEV 311
A+ + Y S+K AL + + +E+
Sbjct: 138 ASQRALTNHTVYCSTKAALDMLTKVMALEL 167
>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 = 81.9 bits (203), Expect = 2e-17
Identities = 58/248 (23%), Positives = 87/248 (35%), Gaps = 70/248 (28%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG +SGIGK A E AKRGAHV I R+E+K +A EIKK N K
Sbjct: 6 ITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNAK------------ 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE----- 217
+E + LD+S ++R + + R + +L+N AG+
Sbjct: 54 ----------VEVIQLDLS-SLASVRQFAEEFLARFPRLDILINNAGIMAPPRRLTKDGF 102
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
E+ +N G +T L+ +K IV
Sbjct: 103 ELQFA----------------------------VNYLGHFLLTNLLLPVLKASAPSRIVN 134
Query: 278 TAS---QAANLGI-----------YGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+S +A + AY SK A F L ++ +G+T+ P
Sbjct: 135 VSSIAHRAGPIDFNDLDLENNKEYSPYKAYGQSKLANILFTRELARRLEGTGVTVNALHP 194
Query: 324 PDTDTPGF 331
T
Sbjct: 195 GVVRTELL 202
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 81.4 bits (201), Expect = 2e-17
Identities = 55/228 (24%), Positives = 86/228 (37%), Gaps = 47/228 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG GIG +A E G V +A A ++ E
Sbjct: 7 VTGAKRGIGSAIARELLNDGYRV--IATYFSGNDCA----------------KDWFEEYG 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ + LD++ D E AL + GPV +LVN AG+ + M+ Q
Sbjct: 49 FTEDQ-----VRLKELDVT-DTEECAEALAEIEEEEGPVDILVNNAGITRDSVFKRMSHQ 102
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWT-VIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ W VI+ NL ++T+ L M ++G G I+ +S
Sbjct: 103 E----------------------WNDVINTNLNSVFNVTQPLFAAMCEQGYGRIINISSV 140
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G +G Y+++K + GF +AL E + G+T+ P TP
Sbjct: 141 NGLKGQFGQTNYSAAKAGMIGFTKALASEGARYGITVNCIAPGYIATP 188
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 81.0 bits (200), Expect = 2e-17
Identities = 53/227 (23%), Positives = 84/227 (37%), Gaps = 48/227 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG G+G+ A A RGA V ++ R L Q +
Sbjct: 12 ITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQT---------------------LPG 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ I I+ V D + R A+ + G + LVN AG + GT+ +
Sbjct: 51 VPADALRIGGIDLV------DPQAARRAVDEVNRQFGRLDALVNIAGAFVWGTIADGDAD 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ +N+ T++ +KA + + G G IV + A
Sbjct: 105 TWD---------------------RMYGVNVKTTLNASKAALPALTASGGGRIVNIGAGA 143
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A G+ AY ++K + EAL E+ G+T+ LP DTP
Sbjct: 144 ALKAGPGMGAYAAAKAGVARLTEALAAELLDRGITVNAVLPSIIDTP 190
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 81.5 bits (202), Expect = 2e-17
Identities = 61/237 (25%), Positives = 105/237 (44%), Gaps = 69/237 (29%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIG+ A + A+ G V +R+ +
Sbjct: 9 VTGASSGIGRATAEKLARAGYRVFGTSRN----------------------------PAR 40
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A P P E + LD++ D ++++A+ + R G + +LVN AG+ L G EE ++
Sbjct: 41 AAPIPGV----ELLELDVTDD-ASVQAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSIA 95
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + D N++G + MT+A++ M+ +G G I+
Sbjct: 96 QAQ---------------------ALFDTNVFGILRMTRAVLPHMRAQGSGRII------ 128
Query: 283 ANLG-IYGL------AAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE 332
N+ + G A Y +SK A++G++E+L EV+Q G+ ++L P T T F+
Sbjct: 129 -NISSVLGFLPAPYMALYAASKHAVEGYSESLDHEVRQFGIRVSLVEPAYTKTN-FD 183
>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 = 80.4 bits (198), Expect = 5e-17
Identities = 67/236 (28%), Positives = 102/236 (43%), Gaps = 46/236 (19%)
Query: 98 NGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEY 157
+ T VTGG GIG A+ GA V + + +A E++
Sbjct: 3 DKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLN----REAAEKVAAD------------ 46
Query: 158 EEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE 217
I+ N + + DI+ D +++ +A+ A GPV +LVN AG G
Sbjct: 47 --IRAKGGNA------QAFACDIT-DRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFT 97
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
+ E PLW R +I +NL G +HM A++ GM +RG G IV
Sbjct: 98 KT--------EPPLWER-------------LIAINLTGALHMHHAVLPGMVERGAGRIVN 136
Query: 278 TASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
AS AA +G G A Y + K L F++ + E + G+T+ + P TDT ++
Sbjct: 137 IASDAARVGSSGEAVYAACKGGLVAFSKTMAREHARHGITVNVVCPGPTDTALLDD 192
>gnl|CDD|187604 cd05346, SDR_c5, classical (c) SDR, subgroup 5. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 80.0 bits (198), Expect = 5e-17
Identities = 56/226 (24%), Positives = 98/226 (43%), Gaps = 48/226 (21%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
T+ +TG SSGIG+ A AK GA + + R ++L + +E+ P
Sbjct: 2 TVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFPVKVLP------- 54
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT--LE 217
+ LD+S D E+I +AL+ + + +LVN AG+AL G +
Sbjct: 55 ----------------LQLDVS-DRESIEAALENLPEEFRDIDILVNNAGLAL-GLDPAQ 96
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
E ++D + M ID N+ G +++T+ ++ M R +G I+
Sbjct: 97 EADLEDWETM---------------------IDTNVKGLLNVTRLILPIMIARNQGHIIN 135
Query: 278 TASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
S A G Y ++K A++ F+ L ++ +G+ +T P
Sbjct: 136 LGSIAGRYPYAGGNVYCATKAAVRQFSLNLRKDLIGTGIRVTNIEP 181
>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 = 79.2 bits (196), Expect = 1e-16
Identities = 62/231 (26%), Positives = 99/231 (42%), Gaps = 55/231 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTI-VARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG S GIG+ +A++ AK GA V I E+ + EE+K
Sbjct: 3 VTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELK--------------AYGV 48
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
KA V D+S D E++++ ++ + GP+ +LVN AG+ L M
Sbjct: 49 KALG----------VVCDVS-DREDVKAVVEEIEEELGPIDILVNNAGITRDNLLMRMKE 97
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWT-VIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
+D W VID NL G ++T+A++ M ++ G I+ +S
Sbjct: 98 ED----------------------WDAVIDTNLTGVFNLTQAVLRIMIKQRSGRIINISS 135
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGF 331
+G G A Y +SK + GF ++L E+ +T+ + PGF
Sbjct: 136 VVGLMGNAGQANYAASKAGVIGFTKSLAKELASRNITV------NAVAPGF 180
>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 = 79.1 bits (195), Expect = 1e-16
Identities = 54/227 (23%), Positives = 88/227 (38%), Gaps = 53/227 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG+ VA + GA V + LL
Sbjct: 3 VTGAAQGIGRAVARHLLQAGATVIALDLPFVLLL-------------------------- 36
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
++ + LD++ D +R + GP+ LVNCAG+ G + ++ +
Sbjct: 37 -----EYGDPLRLTPLDVA-DAAAVREVCSRLLAEHGPIDALVNCAGVLRPGATDPLSTE 90
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D + +N+ G ++ +A+ MK R G IV AS A
Sbjct: 91 DWE---------------------QTFAVNVTGVFNLLQAVAPHMKDRRTGAIVTVASNA 129
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A++ +AAY +SK AL ++ L +E+ G+ + P TDT
Sbjct: 130 AHVPRISMAAYGASKAALASLSKCLGLELAPYGVRCNVVSPGSTDTA 176
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 78.9 bits (195), Expect = 2e-16
Identities = 55/228 (24%), Positives = 97/228 (42%), Gaps = 49/228 (21%)
Query: 96 PTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFI 155
+TG S G G+ A +RG V ARD L E+
Sbjct: 1 MMEKVWFITGASRGFGRAWTEAALERGDRVVATARDTATLADLAEK-------------- 46
Query: 156 EYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT 215
Y + + P ++LD++ D + +A++ A++ G + ++VN AG L G
Sbjct: 47 -YGD--RLLP----------LALDVT-DRAAVFAAVETAVEHFGRLDIVVNNAGYGLFGM 92
Query: 216 LEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCI 275
+EE+T + + ID N +G + +T+A++ ++++ G I
Sbjct: 93 IEEVTESEARAQ---------------------IDTNFFGALWVTQAVLPYLREQRSGHI 131
Query: 276 VITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+ +S Y +SK+AL+G +EAL EV + G+ +TL P
Sbjct: 132 IQISSIGGISAFPMSGIYHASKWALEGMSEALAQEVAEFGIKVTLVEP 179
>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 = 77.6 bits (192), Expect = 3e-16
Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 49/184 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG +GIGK +A A+ GA V I R + L A EEI A
Sbjct: 8 ITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGR------------- 54
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCA-GMALCGTLEEMTM 221
+ D+ +D E + +A+ + G + +L+N A G L E ++
Sbjct: 55 ----------AHPIQCDV-RDPEAVEAAVDETLKEFGKIDILINNAAGNFLAPA-ESLS- 101
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEG-MKQRGRGCIV-ITA 279
G+ TVID++L GT + TKA+ + ++ + G I+ I+A
Sbjct: 102 -----------PNGFK---------TVIDIDLNGTFNTTKAVGKRLIEAKHGGSILNISA 141
Query: 280 SQAA 283
+ A
Sbjct: 142 TYAY 145
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 77.8 bits (192), Expect = 4e-16
Identities = 56/233 (24%), Positives = 89/233 (38%), Gaps = 50/233 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+SGIG+ +A A+ GA V + E L K
Sbjct: 16 VTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAAR---------------LPGAKV 60
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMA-LCGTLEEMTM 221
D++ D + A++R G + +LVN AG+A G ++E+T
Sbjct: 61 TA-----------TVADVA-DPAQVERVFDTAVERFGGLDVLVNNAGIAGPTGGIDEITP 108
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG-CIVITAS 280
+ W + +NL G + +A V +K G G I+ +S
Sbjct: 109 EQ-------------------WEQ--TLAVNLNGQFYFARAAVPLLKASGHGGVIIALSS 147
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
A LG G Y +SK+A+ G ++L +E+ G+ + LP P
Sbjct: 148 VAGRLGYPGRTPYAASKWAVVGLVKSLAIELGPLGIRVNAILPGIVRGPRMRR 200
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 78.1 bits (193), Expect = 4e-16
Identities = 55/227 (24%), Positives = 98/227 (43%), Gaps = 52/227 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIGK A A +G V AR K+ E++
Sbjct: 8 VTGASSGIGKATARRLAAQGYTVYGAARRVDKM----------------------EDLAS 45
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+P +SLD++ + +I++A+ + G + +LVN AG G +E++ +
Sbjct: 46 LGVHP--------LSLDVTDE-ASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAIEDVPID 96
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + Q ++NL+G +T+ ++ M+ + G I+ +S
Sbjct: 97 EAR--RQ-------------------FEVNLFGAARLTQLVLPHMRAQRSGRIINISSMG 135
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ A Y ++KFAL+GF++AL +EV G+ + + P T
Sbjct: 136 GKIYTPLGAWYHATKFALEGFSDALRLEVAPFGIDVVVIEPGGIKTE 182
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 77.7 bits (191), Expect = 5e-16
Identities = 68/248 (27%), Positives = 107/248 (43%), Gaps = 47/248 (18%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG+SGIG E A+RGA V + D+ L QA ++ +
Sbjct: 11 ITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGFD-------------- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ V D+ E A + A G V ++ + AG+ + G + EMT
Sbjct: 57 ----------VHGVMCDVRHREEVTHLADE-AFRLLGHVDVVFSNAGIVVGGPIVEMTHD 105
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC-IVITASQ 281
D WR W VID++L+G+IH +A + + ++G G +V TAS
Sbjct: 106 D-------------------WR-W-VIDVDLWGSIHTVEAFLPRLLEQGTGGHVVFTASF 144
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRE 341
A + GL AY +K+ + G AE L EV G+ +++ P +T N E+ +
Sbjct: 145 AGLVPNAGLGAYGVAKYGVVGLAETLAREVTADGIGVSVLCPMVVETNLVANSERIRGAA 204
Query: 342 TSLISQTG 349
+ S TG
Sbjct: 205 CAQSSTTG 212
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 77.4 bits (191), Expect = 6e-16
Identities = 47/221 (21%), Positives = 96/221 (43%), Gaps = 46/221 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG +SG+G+ +A+ A+ G + + +E+ + + +++A + + R
Sbjct: 5 ITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLREAGGDGFYQR--------- 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C D+ +DY + + Q ++ G + ++VN AG+A G EE++++
Sbjct: 56 -C--------------DV-RDYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLE 99
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W W I +NL G + KA + K++ G IV AS A
Sbjct: 100 D-------------------WD-W-QIAINLMGVVKGCKAFLPLFKRQKSGRIVNIASMA 138
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+ +++Y +K + +E L +E+ + + + P
Sbjct: 139 GLMQGPAMSSYNVAKAGVVALSETLLVELADDEIGVHVVCP 179
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 76.8 bits (190), Expect = 8e-16
Identities = 66/244 (27%), Positives = 102/244 (41%), Gaps = 48/244 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +SGIG +A+ AK GA V I +++ A E ++KA + I
Sbjct: 9 VTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKA----------GGKAI-- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V++D++ + E I + + A++ G V +LVN AG+ +E+ +
Sbjct: 57 ------------GVAMDVTDE-EAINAGIDYAVETFGGVDILVNNAGIQHVAPIEDFPTE 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
K M I + L G TKA + MK +G G I+ AS
Sbjct: 104 KWKKM---------------------IAIMLDGAFLTTKAALPIMKAQGGGRIINMASVH 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN--EEKSKPR 340
+G G AAY S+K L G + + +E G+T+ P DTP + +K R
Sbjct: 143 GLVGSAGKAAYVSAKHGLIGLTKVVALEGATHGVTVNAICPGYVDTPLVRKQIPDLAKER 202
Query: 341 ETSL 344
S
Sbjct: 203 GISE 206
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 228
Score = 76.2 bits (188), Expect = 9e-16
Identities = 58/237 (24%), Positives = 101/237 (42%), Gaps = 48/237 (20%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
T T+ +TGG+SGIG +A + + G V I R E++L +A++E+
Sbjct: 4 TGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKEL-------------- 49
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
PN I + LD+ D E++ + + + + +L+N AG+
Sbjct: 50 --------PN------IHTIVLDVG-DAESVEALAEALLSEYPNLDILINNAGI------ 88
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
+ I + + L T ID NL G I + KA + +K++ IV
Sbjct: 89 ----QRPIDLRDPASDLDKADTE---------IDTNLIGPIRLIKAFLPHLKKQPEATIV 135
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
+S A + + Y ++K AL + AL ++K +G+ + +PP DT E
Sbjct: 136 NVSSGLAFVPMAANPVYCATKAALHSYTLALRHQLKDTGVEVVEIVPPAVDTELHEE 192
>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 = 76.3 bits (188), Expect = 1e-15
Identities = 54/214 (25%), Positives = 91/214 (42%), Gaps = 44/214 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG AI A+ GA + + RD ++L EE +++C ++
Sbjct: 8 ITGSSSGIGAGTAILFARLGARLALTGRDAERL----EETRQSC-------------LQA 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
K I V D++++ E + + + G + +LVN AG+ G E+ ++
Sbjct: 51 GVSEKK----ILLVVADLTEE-EGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIE 105
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ Y V++LNL I++TK V + + +G IV +S A
Sbjct: 106 E------------YD---------KVMNLNLRAVIYLTKLAVPHLI-KTKGEIVNVSSVA 143
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGL 316
G+ Y SK AL F +E+ G+
Sbjct: 144 GGRSFPGVLYYCISKAALDQFTRCTALELAPKGV 177
>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 = 76.0 bits (187), Expect = 2e-15
Identities = 59/228 (25%), Positives = 100/228 (43%), Gaps = 47/228 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+ GIGK +A AK G V + +E+ + +EI +A +
Sbjct: 5 VTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQAGGKAVAYK--------- 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
LD+S D + + SA+ A ++ G ++VN AG+A + E+T +
Sbjct: 56 ---------------LDVS-DKDQVFSAIDQAAEKFGGFDVMVNNAGVAPITPILEITEE 99
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIVITASQ 281
++K V ++N+ G + +A K++G G I+ AS
Sbjct: 100 ELK---------------------KVYNVNVKGVLFGIQAAARQFKKQGHGGKIINAASI 138
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A + G L+AY+S+KFA++G + E+ G+T+ P TP
Sbjct: 139 AGHEGNPILSAYSSTKFAVRGLTQTAAQELAPKGITVNAYCPGIVKTP 186
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 75.7 bits (187), Expect = 2e-15
Identities = 56/227 (24%), Positives = 96/227 (42%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ +A E A++GA + +VAR R +
Sbjct: 7 ITGASSGIGQALAREYARQGATLGLVAR----------------------RTDALQAFAA 44
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
P R Y + D+ D + + +A + G +++ AG++ GTL E +
Sbjct: 45 RLPKA--ARVSVY-AADVR-DADALAAAAADFIAAHGLPDVVIANAGIS-VGTLTEER-E 98
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D+ V + V+D N +G + + + M+ RG +V AS A
Sbjct: 99 DLAVFRE------------------VMDTNYFGMVATFQPFIAPMRAARRGTLVGIASVA 140
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G+ G AY++SK A + E+L +E++ +G+ + P TP
Sbjct: 141 GVRGLPGAGAYSASKAAAIKYLESLRVELRPAGVRVVTIAPGYIRTP 187
>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 = 75.5 bits (186), Expect = 2e-15
Identities = 55/229 (24%), Positives = 90/229 (39%), Gaps = 49/229 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHV--TIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEI 160
VTGG GIG + AK G V +E+ QE+
Sbjct: 5 VTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQ------------------- 45
Query: 161 KKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMT 220
+ F V +E+ ++A+ GP+ +LVN AG+ T ++MT
Sbjct: 46 -------GALGFDFRVVEGDVSSFESCKAAVAKVEAELGPIDVLVNNAGITRDATFKKMT 98
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
+ W + VID NL ++T+ +++GM++RG G I+ +S
Sbjct: 99 YEQ-------------------WSA--VIDTNLNSVFNVTQPVIDGMRERGWGRIINISS 137
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G +G Y+++K + GF +AL E G+T+ P T
Sbjct: 138 VNGQKGQFGQTNYSAAKAGMIGFTKALAQEGATKGVTVNTISPGYIATD 186
>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 = 75.0 bits (185), Expect = 2e-15
Identities = 54/222 (24%), Positives = 93/222 (41%), Gaps = 50/222 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV-ARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG + GIG + + AK G I+ ARD ++ A E+++ + +F +
Sbjct: 5 VTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAVEKLRAEGLSVRFHQ-------- 56
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
LD++ D +I +A ++ G + +LVN AG+A G +
Sbjct: 57 ----------------LDVTDD-ASIEAAADFVEEKYGGLDILVNNAGIAFKGFDDSTPT 99
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
++ + + N +GT+ +T+AL+ +K+ G IV +S
Sbjct: 100 RE--QARE------------------TMKTNFFGTVDVTQALLPLLKKSPAGRIVNVSS- 138
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
LG AY SK AL L E+K++G+ + C P
Sbjct: 139 --GLGSLTS-AYGVSKAALNALTRILAKELKETGIKVNACCP 177
>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 = 75.9 bits (187), Expect = 2e-15
Identities = 53/228 (23%), Positives = 96/228 (42%), Gaps = 46/228 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG + GIG+ +A A G ++ + L +E K +EI +
Sbjct: 7 ITGAAQGIGRAIAERLAADGFNIVLAD------LNLEEAAKSTI-----------QEISE 49
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A N V D++ D +++ + + A+++ G ++VN AG+A L +T +
Sbjct: 50 AGYNAVA------VGADVT-DKDDVEALIDQAVEKFGSFDVMVNNAGIAPITPLLTITEE 102
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR-GCIVITASQ 281
D+K + + V N++G + +A K+ G G I+ +S
Sbjct: 103 DLK------------------KVYAV---NVFGVLFGIQAAARQFKKLGHGGKIINASSI 141
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A G L AY++SKFA++G + E+ G+T+ P T
Sbjct: 142 AGVQGFPNLGAYSASKFAVRGLTQTAAQELAPKGITVNAYAPGIVKTE 189
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 78.1 bits (193), Expect = 3e-15
Identities = 53/226 (23%), Positives = 87/226 (38%), Gaps = 62/226 (27%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ AI+ A+ GA V +VAR+ + L + EI+ K Y
Sbjct: 376 ITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRA-----KGGTAHAY----- 425
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE----- 217
+ D++ D + ++ + G V LVN AG ++ ++E
Sbjct: 426 --------------TCDLT-DSAAVDHTVKDILAEHGHVDYLVNNAGRSIRRSVENSTDR 470
Query: 218 ----EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG 273
E TM +N +G + + L+ M++R G
Sbjct: 471 FHDYERTMA----------------------------VNYFGAVRLILGLLPHMRERRFG 502
Query: 274 CIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTIT 319
+V +S +AY +SK AL F++ E G+T T
Sbjct: 503 HVVNVSSIGVQTNAPRFSAYVASKAALDAFSDVAASETLSDGITFT 548
>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 = 74.8 bits (184), Expect = 4e-15
Identities = 60/229 (26%), Positives = 99/229 (43%), Gaps = 50/229 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG+SGIG+ A AK GA V I D+ A + + +P
Sbjct: 9 ITGGASGIGEATARLFAKHGARVVIADIDD----DAGQAVAAELGDPD------------ 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGM--ALCGTLEEMT 220
I +V D++ + ++R+A+ A+ R G + ++ N AG+ A C ++ E +
Sbjct: 53 ----------ISFVHCDVTVE-ADVRAAVDTAVARFGRLDIMFNNAGVLGAPCYSILETS 101
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
+++ + R V+D+N+YG TK M +G IV AS
Sbjct: 102 LEE--------FER-------------VLDVNVYGAFLGTKHAARVMIPAKKGSIVSVAS 140
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A +G G AYT+SK A+ G + E+ + G+ + P TP
Sbjct: 141 VAGVVGGLGPHAYTASKHAVLGLTRSAATELGEHGIRVNCVSPYGVATP 189
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 74.2 bits (183), Expect = 6e-15
Identities = 51/231 (22%), Positives = 84/231 (36%), Gaps = 46/231 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + G+G A A+ GA V + + ++ A
Sbjct: 12 VTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEAAG---------------- 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
++ D++ D +++ A G + LVN AG+ + E+ +
Sbjct: 56 --------GRAHAIAADLA-DPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATELDID 106
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
W V+++N+ GT M +A + ++ GRG IV AS
Sbjct: 107 T--------WDA-------------VMNVNVRGTFLMLRAALPHLRDSGRGRIVNLASDT 145
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
A G L AY +SK A+ G +L E+ G+T+ P T T
Sbjct: 146 ALWGAPKLGAYVASKGAVIGMTRSLARELGGRGITVNAIAPGLTATEATAY 196
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 76.0 bits (188), Expect = 1e-14
Identities = 53/200 (26%), Positives = 79/200 (39%), Gaps = 50/200 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIGK A A GA V + DE+ A E+ +
Sbjct: 427 VTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELGGP---------------DR 471
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A V+ D++ D +++A + A G V ++V+ AG+A+ G +EE + +
Sbjct: 472 ALG----------VACDVT-DEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEETSDE 520
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG-CIVITAS- 280
D WR D+N G + + V MK +G G IV AS
Sbjct: 521 D-------------------WR--RSFDVNATGHFLVAREAVRIMKAQGLGGSIVFIASK 559
Query: 281 QAANLGIYGLAAYTSSKFAL 300
A N G AY ++K A
Sbjct: 560 NAVNPGP-NFGAYGAAKAAE 578
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 73.3 bits (181), Expect = 1e-14
Identities = 55/206 (26%), Positives = 82/206 (39%), Gaps = 48/206 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIG+ +A A GA V + R+E+ + EI +
Sbjct: 10 VTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILAG---------------GR 54
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMA-LCGTLEEMTM 221
A V+ D+S D ++ +A+ A++R G V +LVN AG G L ++
Sbjct: 55 AI----------AVAADVS-DEADVEAAVAAALERFGSVDILVNNAGTTHRNGPLLDVD- 102
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
A + + +N+ T+A V M+ G G IV AS
Sbjct: 103 ------------------EAEFD--RIFAVNVKSPYLWTQAAVPAMRGEGGGAIVNVAST 142
Query: 282 AANLGIYGLAAYTSSKFALKGFAEAL 307
A GL Y +SK A+ +AL
Sbjct: 143 AGLRPRPGLGWYNASKGAVITLTKAL 168
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 72.7 bits (179), Expect = 2e-14
Identities = 49/222 (22%), Positives = 93/222 (41%), Gaps = 52/222 (23%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+ T+ +TG SG G+ VA+ A++G +V + ++ + E + R +
Sbjct: 1 MSKTILITGAGSGFGREVALRLARKGHNVIAGVQIAPQVTALRAEAAR--------RGLA 52
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
K LD++ + A + +D +L+N AG+ G +
Sbjct: 53 LRVEK----------------LDLTDAID-RAQAAEWDVD------VLLNNAGIGEAGAV 89
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
++ ++ V E + N++G + +T+ V M RG+G +V
Sbjct: 90 VDIPVE--LVREL-------------------FETNVFGPLELTQGFVRKMVARGKGKVV 128
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
T+S A + AY +SK AL+ AEA++ E+K G+ +
Sbjct: 129 FTSSMAGLITGPFTGAYCASKHALEAIAEAMHAELKPFGIQV 170
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 72.1 bits (177), Expect = 3e-14
Identities = 56/232 (24%), Positives = 101/232 (43%), Gaps = 48/232 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG GIG+ +A A+ GA++ ++ + A E +
Sbjct: 11 ITGALQGIGEGIARVFARHGANLILLDISPEIEKLADELCGRG----------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R V+ D+ D ++ +A++ A ++ G + +LVN AG+ G+ +M+ +
Sbjct: 54 -------HRCTAVVA-DVR-DPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDE 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D R +H ID+N+ G ++TKA++ M R G IV+ +S
Sbjct: 105 D----------RDFH-----------IDINIKGVWNVTKAVLPEMIARKDGRIVMMSSVT 143
Query: 283 ANL-GIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
++ G AY +K A+ G ++L +E QSG+ + P TP E+
Sbjct: 144 GDMVADPGETAYALTKAAIVGLTKSLAVEYAQSGIRVNAICPGYVRTPMAES 195
>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 = 71.7 bits (176), Expect = 4e-14
Identities = 62/284 (21%), Positives = 107/284 (37%), Gaps = 60/284 (21%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE--Y 157
VTG S GIG+ +A+ AK GA V + A+ IE
Sbjct: 5 VAFVTGASRGIGRAIALRLAKAGATVVVAAK--------TASEGDNGSAKSLPGTIEETA 56
Query: 158 EEIK----KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALC 213
EEI+ +A P + +D+ + + +R+ ++ +D+ G + +LVN AG
Sbjct: 57 EEIEAAGGQALP----------IVVDVRDE-DQVRALVEATVDQFGRLDILVNNAGAIWL 105
Query: 214 GTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG 273
+E+ + +M +NL GT +++A + M + G+G
Sbjct: 106 SLVEDTPAKRFDLM---------------------QRVNLRGTYLLSQAALPHMVKAGQG 144
Query: 274 CIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDT--DTPGF 331
I+ + + G AY + K + L E+++ G+ + L P T +TP
Sbjct: 145 HILNISPPLSLRPARGDVAYAAGKAGMSRLTLGLAAELRRHGIAVN-SLWPSTAIETPAA 203
Query: 332 EN-EEKSKPRETSLISQTGGLYRPEVVKQSGLTITLCLPPDTDT 374
S P PE++ + L I L P T
Sbjct: 204 TELSGGSDPARAR---------SPEILSDAVLAI-LSRPAAERT 237
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 71.1 bits (175), Expect = 7e-14
Identities = 56/235 (23%), Positives = 88/235 (37%), Gaps = 59/235 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGGS G+G +A + GA V + AR ++L +A ++ I+ I
Sbjct: 17 VTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALG--------IDALWIAA 68
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ +I + ++R G V +LVN AG E+
Sbjct: 69 DVADE-----------------ADIERLAEETLERFGHVDILVNNAGATWGAPAEDH--- 108
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALV-EGMKQRGRGCIVITASQ 281
P + W V++LN+ G +++A+ M RG G I+ AS
Sbjct: 109 -------P---------VEAWDK--VMNLNVRGLFLLSQAVAKRSMIPRGYGRIINVASV 150
Query: 282 AANLG----IYGLAAYTSSKFALKGFAEALYMEVKQSGLTI-TLCLPPDTDTPGF 331
A G + AY +SK A+ F AL E G+ + + PGF
Sbjct: 151 AGLGGNPPEVMDTIAYNTSKGAVINFTRALAAEWGPHGIRVNAIA-------PGF 198
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 70.4 bits (173), Expect = 1e-13
Identities = 55/268 (20%), Positives = 99/268 (36%), Gaps = 71/268 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG +SGIG+ A+ A G V +E L E+
Sbjct: 6 ITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAEL-------------------- 45
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRC-----GPVYMLVNCAGMALCGTLE 217
LD++ R+A A+ G + +L N AG+ G E
Sbjct: 46 --GAGNAWTGA----LDVTD-----RAAWDAALADFAAATGGRLDVLFNNAGILRGGPFE 94
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
++ ++ + ID+N+ G ++ A + +K ++
Sbjct: 95 DIPLEAHDRV---------------------IDINVKGVLNGAHAALPYLKATPGARVIN 133
Query: 278 TASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKS 337
T+S +A G GLA Y+++KFA++G EAL +E ++ G+ + +P DT
Sbjct: 134 TSSASAIYGQPGLAVYSATKFAVRGLTEALDLEWRRHGIRVADVMPLFVDTA-------- 185
Query: 338 KPRETSLISQTGGLYRPEVVKQSGLTIT 365
++ T K+ G+ +T
Sbjct: 186 ------MLDGTSNEVDAGSTKRLGVRLT 207
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 70.1 bits (172), Expect = 1e-13
Identities = 62/246 (25%), Positives = 100/246 (40%), Gaps = 53/246 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG GIG +A + G V IV +E+ A +++ K K
Sbjct: 7 VTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSKDG--------------GK 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A V D+S D + + +A++ +D G + ++VN AG+A +E +T +
Sbjct: 53 AIA----------VKADVS-DRDQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPIETITEE 101
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA-SQ 281
V ++N+ G I +A E K+ G G +I A SQ
Sbjct: 102 QFD---------------------KVYNINVGGVIWGIQAAQEAFKKLGHGGKIINATSQ 140
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN------EE 335
A +G LA Y+S+KFA++G + ++ G+T+ P TP + E
Sbjct: 141 AGVVGNPELAVYSSTKFAVRGLTQTAARDLASEGITVNAYAPGIVKTPMMFDIAHQVGEN 200
Query: 336 KSKPRE 341
KP E
Sbjct: 201 AGKPDE 206
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 69.8 bits (171), Expect = 2e-13
Identities = 57/229 (24%), Positives = 84/229 (36%), Gaps = 47/229 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SGIG+ A A+ GA V + RD + + I
Sbjct: 10 VTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAAG----------------- 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D+ E + + + R G + +LVN AG GT+
Sbjct: 53 --------GRAFARQGDVG-SAEAVEALVDFVAARWGRLDVLVNNAGFGCGGTVVTTDEA 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W + V+ +N+ G K + M+++G G IV TASQ
Sbjct: 104 D-------------------WDA--VMRVNVGGVFLWAKYAIPIMQRQGGGSIVNTASQL 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGF 331
A G G AAY +SK A+ A+ ++ G+ + P DTP F
Sbjct: 143 ALAGGRGRAAYVASKGAIASLTRAMALDHATDGIRVNAVAPGTIDTPYF 191
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 70.4 bits (173), Expect = 2e-13
Identities = 59/227 (25%), Positives = 100/227 (44%), Gaps = 48/227 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG +A RGA + +V +E +L E+
Sbjct: 14 VTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAELGGDD---------------- 57
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R + V+ D++ D +++A + A++R G + ++V AG+A G++ ++
Sbjct: 58 --------RVLTVVA-DVT-DLAAMQAAAEEAVERFGGIDVVVANAGIASGGSVAQV--- 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
P +R VID+NL G H +A + + +R RG ++ +S A
Sbjct: 105 ------DP----------DAFR--RVIDVNLLGVFHTVRATLPALIER-RGYVLQVSSLA 145
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A G+AAY +SK ++ FA AL +EV G+T+ DT
Sbjct: 146 AFAAAPGMAAYCASKAGVEAFANALRLEVAHHGVTVGSAYLSWIDTD 192
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 69.0 bits (169), Expect = 3e-13
Identities = 62/228 (27%), Positives = 91/228 (39%), Gaps = 56/228 (24%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIG+ A+ A+RGA V AR+ L + E
Sbjct: 14 VTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGET-------------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C E + LD+ D +A++ A+ G LVNCAG+A + +MT +
Sbjct: 54 GC---------EPLRLDVGDD-----AAIRAALAAAGAFDGLVNCAGIASLESALDMTAE 99
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR-GCIVITASQ 281
+ V+ +N G + + + M GR G IV +SQ
Sbjct: 100 G-------------------FDR--VMAVNARGAALVARHVARAMIAAGRGGSIVNVSSQ 138
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
AA +G+ AY +SK AL L +E+ G+ + P T TP
Sbjct: 139 AALVGLPDHLAYCASKAALDAITRVLCVELGPHGIRVNSVNPTVTLTP 186
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 68.9 bits (169), Expect = 4e-13
Identities = 47/211 (22%), Positives = 71/211 (33%), Gaps = 49/211 (23%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+ +TG S GIG A A G H+ +VARD L +++ A
Sbjct: 6 AGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVD------- 58
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
+ +LD+S A + G + +LVN AG G L
Sbjct: 59 ----------------VAVHALDLSSP-----EAREQLAAEAGDIDILVNNAGAIPGGGL 97
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
+++ W G+ +L ++G I +T+ MK RG G IV
Sbjct: 98 DDVDDAA--------WRAGW-------------ELKVFGYIDLTRLAYPRMKARGSGVIV 136
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEAL 307
A ++ AL F AL
Sbjct: 137 NVIGAAGENPDADYICGSAGNAALMAFTRAL 167
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 68.7 bits (168), Expect = 4e-13
Identities = 59/233 (25%), Positives = 89/233 (38%), Gaps = 55/233 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SGIG+ +AI A+ GA V + L E
Sbjct: 13 VTGAGSGIGQRIAIGLAQAGADVALFDLRTDDGLAETAE--------------------- 51
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRC----GPVYMLVNCAGMALCGTLEE 218
I ++ I+ D + ++ L+ A+ R G + + VN AG+A EE
Sbjct: 52 ------HIEAAGRRAIQIAADVTS-KADLRAAVARTEAELGALTLAVNAAGIANANPAEE 104
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
M + W+ TV+D+NL G +A M + G G IV
Sbjct: 105 MEEEQ-------------------WQ--TVMDINLTGVFLSCQAEARAMLENGGGSIVNI 143
Query: 279 ASQAANLGIYGL--AAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
AS + + GL A Y +SK + +++L ME G+ + P T TP
Sbjct: 144 ASMSGIIVNRGLLQAHYNASKAGVIHLSKSLAMEWVGRGIRVNSISPGYTATP 196
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 68.6 bits (168), Expect = 5e-13
Identities = 47/190 (24%), Positives = 89/190 (46%), Gaps = 50/190 (26%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
+ +TGGSSG+GK +A A+ GA+V I R ++KL +A+ EI++
Sbjct: 3 VVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQ--------------- 47
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVN-CAGMALCGTLEE 218
F + V +D+ ++ E+++ ++ ++ G + L+N AG +C +
Sbjct: 48 ---------FPGQVLTVQMDV-RNPEDVQKMVEQIDEKFGRIDALINNAAGNFICPAED- 96
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIV- 276
L + G W S VID+ L GT + ++A+ + ++G +G I+
Sbjct: 97 ------------LSVNG-------WNS--VIDIVLNGTFYCSQAVGKYWIEKGIKGNIIN 135
Query: 277 ITASQAANLG 286
+ A+ A + G
Sbjct: 136 MVATYAWDAG 145
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 67.7 bits (166), Expect = 8e-13
Identities = 59/237 (24%), Positives = 86/237 (36%), Gaps = 68/237 (28%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
T+ +TG +SGIG A +GA V V + +K L
Sbjct: 4 MTKTVLITGAASGIGLAQARAFLAQGAQVYGVDKQDKPDLSGN----------------- 46
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
++ LD+S D E P D V +L N AG+
Sbjct: 47 ----------------FHFLQLDLSDDLE-------PLFDWVPSVDILCNTAGI------ 77
Query: 217 EEMTMQDIKVMEQPLWLRGYH----TRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR 272
L Y T L W+ + D NL T +T+A + M +R
Sbjct: 78 ----------------LDDYKPLLDTSLEEWQH--IFDTNLTSTFLLTRAYLPQMLERKS 119
Query: 273 GCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G I+ S A+ + G AAYT+SK AL GF + L ++ + G+ + P TP
Sbjct: 120 GIIINMCSIASFVAGGGGAAYTASKHALAGFTKQLALDYAKDGIQVFGIAPGAVKTP 176
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 68.2 bits (167), Expect = 8e-13
Identities = 55/208 (26%), Positives = 81/208 (38%), Gaps = 44/208 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG +A A+ GA V + D +A I + +
Sbjct: 12 VTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGAR------------ 59
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ V D++ D ++ +A+ A + GP+ +LVN AG
Sbjct: 60 ----------VLAVPADVT-DAASVAAAVAAAEEAFGPLDVLVNNAG------------- 95
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
I V PL WR ++L G + +A++ GM +RGRG IV AS
Sbjct: 96 -INVFADPL-----AMTDEDWRR--CFAVDLDGAWNGCRAVLPGMVERGRGSIVNIASTH 147
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYME 310
A I G Y +K L G AL +E
Sbjct: 148 AFKIIPGCFPYPVAKHGLLGLTRALGIE 175
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 66.7 bits (163), Expect = 2e-12
Identities = 57/236 (24%), Positives = 88/236 (37%), Gaps = 49/236 (20%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
T T VTG + GIG+ +A G V + D A A + +F+
Sbjct: 1 TKRTALVTGAAGGIGQALARRFLAAGDRVLALDIDA----AALAAFADALGDARFVP--- 53
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
V+ D++ D ++ +AL A GPV +LV AG A +L
Sbjct: 54 -------------------VACDLT-DAASLAAALANAAAERGPVDVLVANAGAARAASL 93
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
+ T A WR LNL +A++EGM +R RG +V
Sbjct: 94 HDTTP-------------------ASWR--ADNALNLEAAYLCVEAVLEGMLKRSRGAVV 132
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE 332
S + G AY+++K L + + L +E + G+ P T +E
Sbjct: 133 NIGS-VNGMAALGHPAYSAAKAGLIHYTKLLAVEYGRFGIRANAVAPGTVKTQAWE 187
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 66.3 bits (162), Expect = 2e-12
Identities = 54/228 (23%), Positives = 90/228 (39%), Gaps = 49/228 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG +SGIG+ A+ A+ G V + DE L E+
Sbjct: 5 ITGAASGIGRETALLFARNGWFVGLYDIDEDGLAALAAELGAEN---------------- 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSAL-QPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
+ +LD++ D +AL A G + L N AG+ G E++ +
Sbjct: 49 ----------VVAGALDVT-DRAAWAAALADFAAATGGRLDALFNNAGVGRGGPFEDVPL 97
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
M +D+N+ G ++ A + +K ++ TAS
Sbjct: 98 AAHDRM---------------------VDINVKGVLNGAYAALPYLKATPGARVINTASS 136
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+A G LA Y+++KFA++G EAL +E + G+ + P DTP
Sbjct: 137 SAIYGQPDLAVYSATKFAVRGLTEALDVEWARHGIRVADVWPWFVDTP 184
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 66.6 bits (162), Expect = 2e-12
Identities = 59/231 (25%), Positives = 98/231 (42%), Gaps = 55/231 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKAC-PN-PKFIRFIEYEEI 160
VTGG GIG + K G +VA C PN P+ ++++E +
Sbjct: 8 VTGGMGGIGTSICQRLHKDG--FKVVA---------------GCGPNSPRRVKWLEDQ-- 48
Query: 161 KKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMT 220
K + F S D+++ ++A G + +LVN AG+ +MT
Sbjct: 49 -------KALGFDFIASEGNVGDWDSTKAAFDKVKAEVGEIDVLVNNAGITRDVVFRKMT 101
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
+D W + VID NL ++TK +++GM +RG G I+ +S
Sbjct: 102 RED-------------------WTA--VIDTNLTSLFNVTKQVIDGMVERGWGRIINISS 140
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGF 331
G +G Y+++K + GF +L EV G+T+ +T +PG+
Sbjct: 141 VNGQKGQFGQTNYSTAKAGIHGFTMSLAQEVATKGVTV------NTVSPGY 185
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 66.4 bits (162), Expect = 4e-12
Identities = 66/243 (27%), Positives = 94/243 (38%), Gaps = 60/243 (24%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
T VTGG SGIGK VA GA V IV R+ KL A EEI+
Sbjct: 9 TYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGA--------- 59
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
+ Y D++ + + R A+ A G ++ +V+CAG + T+ +
Sbjct: 60 -------------VRYEPADVTDEDQVAR-AVDAATAWHGRLHGVVHCAGGSE--TIGPI 103
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTI----HMTKALVEGMKQRGRGCI 275
T D WR +DLN+ GT+ H + LV G G G
Sbjct: 104 TQIDS----------------DAWRR--TVDLNVNGTMYVLKHAARELVRG----GGGSF 141
Query: 276 VITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQS---------GLTITLCLPPDT 326
V +S AA+ AY +K A+ + E+ S GL T + P T
Sbjct: 142 VGISSIAASNTHRWFGAYGVTKSAVDHLMKLAADELGPSWVRVNSIRPGLIRTDLVAPIT 201
Query: 327 DTP 329
++P
Sbjct: 202 ESP 204
>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 = 65.9 bits (161), Expect = 4e-12
Identities = 56/258 (21%), Positives = 96/258 (37%), Gaps = 53/258 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +SGIG +A A GA++ + EI+ + + K
Sbjct: 7 VTGSTSGIGLGIARALAAAGANIVLNG------FGDAAEIEAVRAG------LAAKHGVK 54
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
Y D+SK I + A + G V +LVN AG+ +E+ +
Sbjct: 55 VL----------YHGADLSKPAA-IEDMVAYAQRQFGGVDILVNNAGIQHVAPIEDFPTE 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSW-TVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
W +I LNL H T+ + MK++G G I+ AS
Sbjct: 104 ----------------------KWDAIIALNLSAVFHTTRLALPHMKKQGWGRIINIASV 141
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRE 341
+ +AY ++K + G + + +E +G+T P TP E +
Sbjct: 142 HGLVASANKSAYVAAKHGVVGLTKVVALETAGTGVTCNAICPGWVLTPLVEK-------Q 194
Query: 342 TSLISQTGGLYRPEVVKQ 359
S ++Q G+ + + ++
Sbjct: 195 ISALAQKNGVPQEQAARE 212
>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 = 65.4 bits (160), Expect = 5e-12
Identities = 54/220 (24%), Positives = 90/220 (40%), Gaps = 48/220 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK- 161
VTG G+G+ A+ A+RGA V V D + + A +EIK
Sbjct: 10 VTGAGGGLGRAYALAFAERGAKV--VVNDLGGDRKGSGKSSSAA-------DKVVDEIKA 60
Query: 162 ---KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEE 218
KA N E+ ++ A+D G V +LVN AG+ + +
Sbjct: 61 AGGKAVAN--------------YDSVEDGEKIVKTAIDAFGRVDILVNNAGILRDRSFAK 106
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
M+ +D W V+ ++L G+ +T+A M+++ G I+ T
Sbjct: 107 MSEED-------------------WDL--VMRVHLKGSFKVTRAAWPYMRKQKFGRIINT 145
Query: 279 ASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
+S A G +G A Y+++K L G + L +E + +T
Sbjct: 146 SSAAGLYGNFGQANYSAAKLGLLGLSNTLAIEGAKYNITC 185
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 65.2 bits (159), Expect = 8e-12
Identities = 52/239 (21%), Positives = 94/239 (39%), Gaps = 47/239 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG++GIG+ A+ A+ GA V + RD + I++A F+
Sbjct: 12 VTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAGGEALFVA--------- 62
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMAL-CGTLEEMTM 221
D+++D E +++ ++ + G + N AG+ + G L E +
Sbjct: 63 ---------------CDVTRDAE-VKALVEQTIAAYGRLDYAFNNAGIEIEQGRLAEGSE 106
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ ++ +N+ G K + M +G G IV TAS
Sbjct: 107 AEFD---------------------AIMGVNVKGVWLCMKYQIPLMLAQGGGAIVNTASV 145
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPR 340
A ++ Y +SK A+ G ++ +E + G+ + P DT F ++ PR
Sbjct: 146 AGLGAAPKMSIYAASKHAVIGLTKSAAIEYAKKGIRVNAVCPAVIDTDMFRRAYEADPR 204
>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 = 64.4 bits (157), Expect = 9e-12
Identities = 47/238 (19%), Positives = 90/238 (37%), Gaps = 56/238 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+T + GIG+ +A+ A+ GA+V +E+KL + E
Sbjct: 7 ITAAAQGIGRAIALAFAREGANVIATDINEEKLKEL--------------------ERGP 46
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
LD++ + + G + +L NCAG G++ +
Sbjct: 47 GITT---------RVLDVTD-----KEQVAALAKEEGRIDVLFNCAGFVHHGSILDCEDD 92
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D + ++LN+ M KA++ M R G I+ +S A
Sbjct: 93 D----------WDFA-----------MNLNVRSMYLMIKAVLPKMLARKDGSIINMSSVA 131
Query: 283 ANL-GIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKP 339
+++ G+ Y+++K A+ G +++ + Q G+ P DTP E +++P
Sbjct: 132 SSIKGVPNRFVYSTTKAAVIGLTKSVAADFAQQGIRCNAICPGTVDTPSLEERIQAQP 189
>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 = 64.6 bits (158), Expect = 9e-12
Identities = 56/231 (24%), Positives = 87/231 (37%), Gaps = 55/231 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAH--VTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEI 160
+TG S GIG+ +A E KRG+ V ++AR E+ L + +EE+ P +
Sbjct: 4 LTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEEL---RPGLRV--------- 51
Query: 161 KKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMT 220
V D+S + L+ G +L+N AG G + ++
Sbjct: 52 -------------TTVKADLSDA-AGVEQLLEAIRKLDGERDLLINNAGSL--GPVSKIE 95
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIVITA 279
D +++ + + LNL + +T L+ K+RG + +V +
Sbjct: 96 FID---LDE--LQKYFD-------------LNLTSPVCLTSTLLRAFKKRGLKKTVVNVS 137
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPP---DTD 327
S AA G Y SSK A F L E L P DTD
Sbjct: 138 SGAAVNPFKGWGLYCSSKAARDMFFRVLAAEEPD---VRVLSYAPGVVDTD 185
>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 = 1e-11
Identities = 52/233 (22%), Positives = 87/233 (37%), Gaps = 53/233 (22%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+ T+ VTG + GIGK GA KK+ A + A
Sbjct: 2 KDKTVLVTGANRGIGKAFVESLLAHGA---------KKVYAAVRDPGSA----------- 41
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMA-LCGT 215
+ K + + LD++ D E+I++A A D V +++N AG+
Sbjct: 42 AHLVAKYGDK------VVPLRLDVT-DPESIKAAAAQAKD----VDVVINNAGVLKPATL 90
Query: 216 LEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCI 275
LEE ++ +K +D+N++G + + +A +K G G I
Sbjct: 91 LEEGALEALKQ---------------------EMDVNVFGLLRLAQAFAPVLKANGGGAI 129
Query: 276 VITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
V S A+ + Y++SK A + L E+ G + P DT
Sbjct: 130 VNLNSVASLKNFPAMGTYSASKSAAYSLTQGLRAELAAQGTLVLSVHPGPIDT 182
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 64.2 bits (157), Expect = 1e-11
Identities = 61/253 (24%), Positives = 103/253 (40%), Gaps = 67/253 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S GIG +A E A + + R ++L + E+ A P P
Sbjct: 8 ITGASRGIGAAIARELA-PTHTLLLGGRPAERLDELAAELPGATPFP------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+D++ D E I +A++ G + +LV+ AG+A G + E T+
Sbjct: 54 ---------------VDLT-DPEAIAAAVEQL----GRLDVLVHNAGVADLGPVAESTVD 93
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ WR+ +++N+ +T+ L+ + + G +V S A
Sbjct: 94 E-------------------WRA--TLEVNVVAPAELTRLLLPAL-RAAHGHVVFINSGA 131
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRET 342
G +Y +SKFAL+ A+AL E + + +T P TDT +
Sbjct: 132 GLRANPGWGSYAASKFALRALADALREE-EPGNVRVTSVHPGRTDT----------DMQR 180
Query: 343 SLISQTGGLYRPE 355
L++Q GG Y PE
Sbjct: 181 GLVAQEGGEYDPE 193
>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 = 64.6 bits (158), Expect = 1e-11
Identities = 55/240 (22%), Positives = 95/240 (39%), Gaps = 49/240 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG SGIG+ VAI A+ GA V I E++ EE KK EE +
Sbjct: 31 ITGGDSGIGRAVAIAFAREGADVAINYLPEEE--DDAEETKKLI-----------EEEGR 77
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C + + D+ + R ++ + G + +LVN A + +
Sbjct: 78 KC----LL-----IPGDLGDE-SFCRDLVKEVVKEFGKLDILVNNAA-------YQHPQE 120
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
I+ + + + T N++ ++TKA + +K+ I+ T S
Sbjct: 121 SIEDITTEQLEKTFRT-------------NIFSMFYLTKAALPHLKKGSS--IINTTSVT 165
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP----GFENEEKSK 338
A G L Y ++K A+ F L +++ + G+ + P TP F E+ S+
Sbjct: 166 AYKGSPHLLDYAATKGAIVAFTRGLSLQLAEKGIRVNAVAPGPIWTPLIPSSFPEEKVSE 225
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 64.4 bits (157), Expect = 1e-11
Identities = 58/227 (25%), Positives = 90/227 (39%), Gaps = 46/227 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG +A A+ GA V + RD KL A E +K + + F
Sbjct: 15 VTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAHALAF-------- 66
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D++ D++ +R+A+ GP+ +LVN AGM LE+
Sbjct: 67 ----------------DVT-DHDAVRAAIDAFEAEIGPIDILVNNAGMQFRTPLEDFPAD 109
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ R T N+ ++ +A+ M RG G I+ AS
Sbjct: 110 A--------FERLLRT-------------NISSVFYVGQAVARHMIARGAGKIINIASVQ 148
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ L G+A YT++K A+ + + + + GL P DTP
Sbjct: 149 SALARPGIAPYTATKGAVGNLTKGMATDWAKHGLQCNAIAPGYFDTP 195
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 64.7 bits (158), Expect = 1e-11
Identities = 50/215 (23%), Positives = 81/215 (37%), Gaps = 46/215 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + G+G +A A GAHV + R+ L A ++ A
Sbjct: 16 VTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAG--------------GA 61
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A E ++ DI+ D E + +A G + +LVN G L E+
Sbjct: 62 A----------EALAFDIA-DEEAVAAAFARIDAEHGRLDILVNNVGARDRRPLAELDDA 110
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
I+ + ++ +L I +++ + MK++G G I+ S A
Sbjct: 111 AIRAL---------------------LETDLVAPILLSRLAAQRMKRQGYGRIIAITSIA 149
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLT 317
+ G A Y ++K L G AL E G+T
Sbjct: 150 GQVARAGDAVYPAAKQGLTGLMRALAAEFGPHGIT 184
>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 = 64.2 bits (157), Expect = 1e-11
Identities = 58/255 (22%), Positives = 89/255 (34%), Gaps = 50/255 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG+ +A A+ GA V + K A EE+ IE K
Sbjct: 8 VTGASRGIGRAIAKRLARDGASVVVNYASSKA---AAEEVVAE---------IEAAGGKA 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D+S + A G V +LVN AG+ L + E + +
Sbjct: 56 IA-----------VQADVSDP-SQVARLFDAAEKAFGGVDILVNNAGVMLKKPIAETSEE 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + R + +N G + + + ++ GR I+ +S
Sbjct: 104 E--------FDR-------------MFTVNTKGAFFVLQEAAKRLRDGGR--IINISSSL 140
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRET 342
AY SK A++ F L E+ G+T+ P DT F K++
Sbjct: 141 TAAYTPNYGAYAGSKAAVEAFTRVLAKELGGRGITVNAVAPGPVDTDMFY-AGKTEEAVE 199
Query: 343 SLISQT--GGLYRPE 355
+ G L PE
Sbjct: 200 GYAKMSPLGRLGEPE 214
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 64.4 bits (157), Expect = 2e-11
Identities = 40/153 (26%), Positives = 74/153 (48%), Gaps = 22/153 (14%)
Query: 176 VSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQDIKVMEQPLWLRG 235
+ LD++ D +R+ + A G + ++V+ AG L G EE++ D ++ Q
Sbjct: 53 LQLDVT-DSAAVRAVVDRAFAALGRIDVVVSNAGYGLFGAAEELS--DAQIRRQ------ 103
Query: 236 YHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAAYTS 295
ID NL G+I + +A + ++++G G IV +S+ + G + Y +
Sbjct: 104 -------------IDTNLIGSIQVIRAALPHLRRQGGGRIVQVSSEGGQIAYPGFSLYHA 150
Query: 296 SKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
+K+ ++GF EA+ EV G+ T+ P T
Sbjct: 151 TKWGIEGFVEAVAQEVAPFGIEFTIVEPGPART 183
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins. The
porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 64.1 bits (156), Expect = 2e-11
Identities = 60/249 (24%), Positives = 99/249 (39%), Gaps = 49/249 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VT + GIG +A A+ GAHV + +R ++ + +A ++
Sbjct: 15 VTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGE----------GLSVTGT 64
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLV-NCAGMALCGTLEEMTM 221
C + ++D E + + A++ G V +LV N A G + + T
Sbjct: 65 VC------------HVGKAEDRERL---VATAVNLHGGVDILVSNAAVNPFFGNILDST- 108
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ +W + ++D+N+ T MTKA+V M++RG G +VI +S
Sbjct: 109 -------EEVWDK-------------ILDVNVKATALMTKAVVPEMEKRGGGSVVIVSSV 148
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENE-EKSKPR 340
AA GL Y SK AL G + L E+ + + CL P F + K
Sbjct: 149 AAFHPFPGLGPYNVSKTALLGLTKNLAPELAPRNIRVN-CLAPGLIKTSFSSALWMDKAV 207
Query: 341 ETSLISQTG 349
E S+
Sbjct: 208 EESMKETLR 216
>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 = 63.7 bits (155), Expect = 2e-11
Identities = 65/261 (24%), Positives = 97/261 (37%), Gaps = 57/261 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +GIG A A+ GA V + D AQ + + I +
Sbjct: 8 VTGAGAGIGAACAARLAREGARVVVADID---GGAAQAVVAQ----------IAGGAL-- 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG-MALCGTLEEMTM 221
A +D++ D + + + + A++ G + +LVN AG M L + +
Sbjct: 53 ALR------------VDVT-DEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIID--- 96
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
T LA+W + +NL GT + M RG G IV +S
Sbjct: 97 ----------------TDLAVWDQ--TMAINLRGTFLCCRHAAPRMIARGGGSIVNLSSI 138
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP-------GFENE 334
A G G AY +SK A++ L E++ +G+ P DTP GFE
Sbjct: 139 AGQSGDPGYGAYGASKAAIRNLTRTLAAELRHAGIRCNALAPGLIDTPLLLAKLAGFEGA 198
Query: 335 EKSKPRETSLISQTGGLYRPE 355
+ G L RPE
Sbjct: 199 LGPGGFHLLIHQLQGRLGRPE 219
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 63.8 bits (156), Expect = 2e-11
Identities = 51/209 (24%), Positives = 82/209 (39%), Gaps = 48/209 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
V+G G+G+ +A+ AA+ GA V + AR ++L + EI
Sbjct: 10 VSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDLG---------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCA-GMALCGTLEEMTM 221
R V DI+ D + + + A++R G V LVN A + L +
Sbjct: 54 --------RRALAVPTDIT-DEDQCANLVALALERFGRVDALVNNAFRVPSMKPLADADF 104
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
WR+ VI+LN+ GT+ +T+A + + G G IV+ S
Sbjct: 105 AH-------------------WRA--VIELNVLGTLRLTQAFTPALAESG-GSIVMINSM 142
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYME 310
AY +K AL +++L E
Sbjct: 143 VLRHSQPKYGAYKMAKGALLAASQSLATE 171
>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 = 63.5 bits (155), Expect = 3e-11
Identities = 58/244 (23%), Positives = 98/244 (40%), Gaps = 51/244 (20%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
VTGGS GIG +A A+ GA V I+ + + EE+ K +Y
Sbjct: 10 VAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAK-----------KYGV 58
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
KA D+S E++ + G + +L+ AG+ + +
Sbjct: 59 KTKAY------------KCDVS-SQESVEKTFKQIQKDFGKIDILIANAGITVHKPALDY 105
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA 279
T + VID+NL G + +A + K++G+G ++ITA
Sbjct: 106 TYEQWN---------------------KVIDVNLNGVFNCAQAAAKIFKKQGKGSLIITA 144
Query: 280 SQAANLGIYGL--AAYTSSKFALKGFAEALYMEVKQSGLTITLCLPP---DTDTPGFENE 334
S + + AAY +SK A+ A++L +E + + + + P DTD F ++
Sbjct: 145 SMSGTIVNRPQPQAAYNASKAAVIHLAKSLAVEWAKYFIRVN-SISPGYIDTDLTDFVDK 203
Query: 335 EKSK 338
E K
Sbjct: 204 ELRK 207
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 62.6 bits (153), Expect = 4e-11
Identities = 55/222 (24%), Positives = 86/222 (38%), Gaps = 48/222 (21%)
Query: 98 NGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKAC-PNPKFIRFIE 156
+ + VTG GIG+ A+ A+ GA V ++ R E+KL +EI+ A P P I
Sbjct: 12 DRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAIIPL-- 69
Query: 157 YEEIKKACPNPKFIRFIEYVSL--DISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCG 214
++ A P Y L I + + + L A L G
Sbjct: 70 --DLLTATPQ-------NYQQLADTIEEQFGRLDGVLHNA----------------GLLG 104
Query: 215 TLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
L M QD +V + V+ +N+ T +T+AL+ + +
Sbjct: 105 ELGPMEQQDPEVWQD------------------VMQVNVNATFMLTQALLPLLLKSPAAS 146
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGL 316
+V T+S G AY SKFA +G + L E + + L
Sbjct: 147 LVFTSSSVGRQGRANWGAYAVSKFATEGMMQVLADEYQGTNL 188
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 63.2 bits (154), Expect = 4e-11
Identities = 56/226 (24%), Positives = 95/226 (42%), Gaps = 46/226 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
V G SSGIG AIE A G V + AR +K +E + K IR E +
Sbjct: 15 VAGASSGIGAATAIELAAAGFPVALGARRVEKC---EELVDK-------IRADGGEAVA- 63
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
LD++ D ++++S + A + G + +LV+ AG G L E++ +
Sbjct: 64 -------------FPLDVT-DPDSVKSFVAQAEEALGEIEVLVSGAGDTYFGKLHEISTE 109
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ Q + ++L G + A++ GM +R RG ++ S
Sbjct: 110 QFE--SQ-------------------VQIHLVGANRLATAVLPGMIERRRGDLIFVGSDV 148
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
A + AY ++K L+ L ME++ +G+ ++ P T T
Sbjct: 149 ALRQRPHMGAYGAAKAGLEAMVTNLQMELEGTGVRASIVHPGPTLT 194
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 63.0 bits (153), Expect = 5e-11
Identities = 55/228 (24%), Positives = 92/228 (40%), Gaps = 47/228 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +SGIGK +A+E A+ GA V I ++ +EI KA
Sbjct: 12 VTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINKA----------------- 54
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
K I V++D++ + + + + +R G V +LV+ AG+ + +E +
Sbjct: 55 ---GGKAI----GVAMDVTNEDA-VNAGIDKVAERFGSVDILVSNAGIQIVNPIENYSFA 106
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI-TASQ 281
D K M +++ G TKA ++ M + RG +VI S
Sbjct: 107 DWKKM---------------------QAIHVDGAFLTTKAALKHMYKDDRGGVVIYMGSV 145
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
++ +AY ++K L G A L E + + + P TP
Sbjct: 146 HSHEASPLKSAYVTAKHGLLGLARVLAKEGAKHNVRSHVVCPGFVRTP 193
>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 = 62.4 bits (152), Expect = 5e-11
Identities = 64/241 (26%), Positives = 100/241 (41%), Gaps = 50/241 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSGIGK +AI A GA+V + R ++ A EE+ EEIK
Sbjct: 8 VTGASSGIGKAIAIRLATAGANVVVNYRSKE---DAAEEVV--------------EEIKA 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D+SK+ E++ + Q A+ G + +LVN AG+ + EMT++
Sbjct: 51 VGGKAIA------VQADVSKE-EDVVALFQSAIKEFGTLDILVNNAGLQGDASSHEMTLE 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTK-ALVEGMKQRGRGCIVITASQ 281
D W VID+NL G + A+ K + +G I+ +S
Sbjct: 104 D-------------------WN--KVIDVNLTGQFLCAREAIKRFRKSKIKGKIINMSSV 142
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP----GFENEEKS 337
+ G Y +SK +K + L E G+ + P +TP +++ E+
Sbjct: 143 HEKIPWPGHVNYAASKGGVKMMTKTLAQEYAPKGIRVNAIAPGAINTPINAEAWDDPEQR 202
Query: 338 K 338
Sbjct: 203 A 203
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 62.8 bits (153), Expect = 6e-11
Identities = 66/275 (24%), Positives = 100/275 (36%), Gaps = 58/275 (21%)
Query: 60 KNFKSSEPRTNLEPPC--RGVRTVASREPH-LQMKRYLAPTNGTLSVTGGSSGIGKHVAI 116
+ + PP + + R+P L KR L +TG SSGIG+ A
Sbjct: 7 RRLTDQLTLAGMRPPISPQLLINRPPRQPVDLTGKRIL--------LTGASSGIGEAAAE 58
Query: 117 EAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKACPNPKFIRFIEYV 176
+ A+RGA V VAR E L + I +A + + C
Sbjct: 59 QFARRGATVVAVARREDLLDAVADRITRAGGDAMAV----------PC------------ 96
Query: 177 SLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQDIKVMEQPLWLRGY 236
D+S D + + + + R G V +L+N AG ++ L E
Sbjct: 97 --DLS-DLDAVDALVADVEKRIGGVDILINNAGRSIRRPLAE------------------ 135
Query: 237 HTRLALWRSWT-VIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGL-AAYT 294
L W + LN Y + + + L GM +RG G I+ A+ L + Y
Sbjct: 136 --SLDRWHDVERTMVLNYYAPLRLIRGLAPGMLERGDGHIINVATWGVLSEASPLFSVYN 193
Query: 295 SSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+SK AL + + E G+ T P TP
Sbjct: 194 ASKAALSAVSRVIETEWGDRGVHSTTLYYPLVATP 228
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 62.7 bits (153), Expect = 6e-11
Identities = 51/224 (22%), Positives = 79/224 (35%), Gaps = 52/224 (23%)
Query: 98 NGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEY 157
+TG +SG G A A G + + + L +A E++
Sbjct: 6 GKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQG----------- 54
Query: 158 EEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE 217
+ V D+S D + + A++R G V++L N AG+ G +
Sbjct: 55 ------------AEVLG-VRTDVS-DAAQVEALADAALERFGAVHLLFNNAGVGAGGLVW 100
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG------ 271
E ++ D W W V+ +NL+G IH +A M
Sbjct: 101 ENSLAD-------------------WE-W-VLGVNLWGVIHGVRAFTPLMLAAAEKDPAY 139
Query: 272 RGCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSG 315
G IV TAS A L + Y SK A+ E LY ++
Sbjct: 140 EGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTETLYQDLSLVT 183
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 62.8 bits (153), Expect = 9e-11
Identities = 64/239 (26%), Positives = 98/239 (41%), Gaps = 48/239 (20%)
Query: 95 APTNGTLSV-TGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIR 153
P +G + V TG SSGIG+ A A+RGA + + ARDE +A + + + C
Sbjct: 3 GPLHGAVVVITGASSGIGQATAEAFARRGARLVLAARDE----EALQAVAEEC------- 51
Query: 154 FIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALC 213
+A + V D+ D + +++ A G + + VN G+
Sbjct: 52 --------RALGAEVLV-----VPTDV-TDADQVKALATQAASFGGRIDVWVNNVGVGAV 97
Query: 214 GTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG 273
G EE ++ EQ VI NL G + A + K++G G
Sbjct: 98 GRFEETPIE---AHEQ------------------VIQTNLIGYMRDAHAALPIFKKQGHG 136
Query: 274 CIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEV-KQSGLTITLCLPPDTDTPGF 331
+ S AAY++SKF L+GF+EAL E+ + + P DTPGF
Sbjct: 137 IFINMISLGGFAAQPYAAAYSASKFGLRGFSEALRGELADHPDIHVCDVYPAFMDTPGF 195
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 63.5 bits (155), Expect = 1e-10
Identities = 68/256 (26%), Positives = 104/256 (40%), Gaps = 57/256 (22%)
Query: 82 ASRE-PHLQMKRYLAPTNGTL-SVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQ 139
+R ++ R P +G L VTG SGIG+ A+ A+ GA V DE +
Sbjct: 297 PARALLRARVGRPRGPFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTA 356
Query: 140 EEIKKACPNPKFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCG 199
E I+ A A Y +D+S D + + + + G
Sbjct: 357 ELIRAAGA--------------VAHA---------YR-VDVS-DADAMEAFAEWVRAEHG 391
Query: 200 PVYMLVNCAGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHM 259
++VN AG+ + G + + +D W R V+D+NL+G IH
Sbjct: 392 VPDIVVNNAGIGMAGGFLDTSAED--------WDR-------------VLDVNLWGVIHG 430
Query: 260 TKALVEGMKQRGR-GCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
+ M +RG G IV AS AA L AY +SK A+ +E L E+ +G+ +
Sbjct: 431 CRLFGRQMVERGTGGHIVNVASAAAYAPSRSLPAYATSKAAVLMLSECLRAELAAAGIGV 490
Query: 319 T-LCLPPDTDTPGFEN 333
T +C PGF +
Sbjct: 491 TAIC-------PGFVD 499
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 61.5 bits (150), Expect = 1e-10
Identities = 59/230 (25%), Positives = 88/230 (38%), Gaps = 50/230 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ A A+ GA V + AR + +L Q EI+
Sbjct: 11 ITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRAEGGEAVA----------- 59
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSAL-QPAMDRCGPVYMLVNCAGM-ALCGTLEEMT 220
++ D+ E AL A++R G + + N AG G + EM+
Sbjct: 60 -------------LAGDVRD--EAYAKALVALAVERFGGLDIAFNNAGTLGEMGPVAEMS 104
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
++ WR + NL K + M RG G ++ T++
Sbjct: 105 LEG-------------------WRE--TLATNLTSAFLGAKHQIPAMLARGGGSLIFTST 143
Query: 281 QAA-NLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G G+AAY +SK L G + L E G+ + LP TDTP
Sbjct: 144 FVGHTAGFPGMAAYAASKAGLIGLTQVLAAEYGAQGIRVNALLPGGTDTP 193
>gnl|CDD|187617 cd05359, ChcA_like_SDR_c, 1-cyclohexenylcarbonyl_coenzyme
A_reductase (ChcA)_like, classical (c) SDRs. This
subgroup contains classical SDR proteins, including
members identified as 1-cyclohexenylcarbonyl coenzyme A
reductase. ChcA of Streptomyces collinus is implicated
in the final reduction step of shikimic acid to
ansatrienin. ChcA shows sequence similarity to the SDR
family of NAD-binding proteins, but it lacks the
conserved Tyr of the characteristic catalytic site. This
subgroup also contains the NADH-dependent
enoyl-[acyl-carrier-protein(ACP)] reductase FabL from
Bacillus subtilis. This enzyme participates in bacterial
fatty acid synthesis, in type II fatty-acid synthases
and catalyzes the last step in each elongation cycle.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 61.2 bits (149), Expect = 1e-10
Identities = 55/241 (22%), Positives = 87/241 (36%), Gaps = 51/241 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGGS GIGK +A+ A+RGA V I R K IE K
Sbjct: 3 VTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAE------------IEELGGK- 49
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D+S +++ +R G + +LV+ A L E+T
Sbjct: 50 ----------AVVVRADVS-QPQDVEEMFAAVKERFGRLDVLVSNAAAGAFRPLSELTPA 98
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
W + + NL +H + + M++RG G IV +S
Sbjct: 99 H-------------------WD-AKM-NTNLKALVHCAQQAAKLMRERGGGRIVAISSLG 137
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT------PGFENEEK 336
+ + A ++K AL+ L +E+ G+ + P DT P E+ +
Sbjct: 138 SIRALPNYLAVGTAKAALEALVRYLAVELGPRGIRVNAVSPGVIDTDALAHFPNREDLLE 197
Query: 337 S 337
+
Sbjct: 198 A 198
>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 = 61.5 bits (150), Expect = 1e-10
Identities = 46/188 (24%), Positives = 86/188 (45%), Gaps = 31/188 (16%)
Query: 176 VSLDISKDYENIRSALQPAMDRCGP--VYMLVNCAGMALCGTLEE-MTMQDIKVMEQPLW 232
+ LD++K E I+ A Q + G ++ LVN AG+ G EE + M D +
Sbjct: 53 LQLDVTKP-EQIKRAAQWVKEHVGEKGLWGLVNNAGILGFGGDEELLPMDDYR------- 104
Query: 233 LRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAA 292
+++NL+GT+ +TKA + + +R +G +V +S + A
Sbjct: 105 --------------KCMEVNLFGTVEVTKAFLP-LLRRAKGRVVNVSSMGGRVPFPAGGA 149
Query: 293 YTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRETSLISQTGGLY 352
Y +SK A++ F+++L E++ G+ +++ P + T N E + + L +
Sbjct: 150 YCASKAAVEAFSDSLRRELQPWGVKVSIIEPGNFKTGITGNSELWEKQAKKLWERL---- 205
Query: 353 RPEVVKQS 360
P VK+
Sbjct: 206 -PPEVKKD 212
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 60.6 bits (147), Expect = 2e-10
Identities = 46/227 (20%), Positives = 83/227 (36%), Gaps = 58/227 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGGS GIGK V + G++V E
Sbjct: 11 VTGGSQGIGKAVVNRLKEEGSNVINFDIKEP------SYND------------------- 45
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
++Y +D+S E + + + + G + +LVN AG+ G + +
Sbjct: 46 ----------VDYFKVDVSNK-EQVIKGIDYVISKYGRIDILVNNAGIESYGAIHAVEED 94
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ W +I++N+ G M+K + M ++ +G I+ AS
Sbjct: 95 E-------------------WDR--IINVNVNGIFLMSKYTIPYMLKQDKGVIINIASVQ 133
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ AAY +SK A+ G ++ ++ + + +C P TP
Sbjct: 134 SFAVTRNAAAYVTSKHAVLGLTRSIAVDYAPTIRCVAVC-PGSIRTP 179
>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 = 60.6 bits (147), Expect = 2e-10
Identities = 44/154 (28%), Positives = 72/154 (46%), Gaps = 22/154 (14%)
Query: 182 KDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLA 241
+D +R+ ++ +++ G + ++V AG+ G E++ EQ
Sbjct: 75 RDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWELSE------EQ------------ 116
Query: 242 LWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG-CIVITASQAANLGIYGLAAYTSSKFAL 300
W TV+D+NL G KA+V M +RG G I+IT+S A + GLA Y ++K L
Sbjct: 117 -WD--TVLDINLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHYAAAKHGL 173
Query: 301 KGFAEALYMEVKQSGLTITLCLPPDTDTPGFENE 334
G + L E+ + G+ + P DTP E
Sbjct: 174 VGLTKTLANELAEYGIRVNSIHPYSVDTPMIAPE 207
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 60.8 bits (148), Expect = 3e-10
Identities = 50/236 (21%), Positives = 92/236 (38%), Gaps = 65/236 (27%)
Query: 95 APTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRF 154
++ +TG SSGIG + A G V R E+ + + E
Sbjct: 1 MDMKRSILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAE------------- 47
Query: 155 IEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRC-GPVYMLVNCAGMALC 213
+E LD + + E+I + + ++ G + L N
Sbjct: 48 -----------------GLEAFQLDYA-EPESIAALVAQVLELSGGRLDALFNNGAYGQP 89
Query: 214 GTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG 273
G +E++ + ++ Q + N +G +T+ ++ M+++G+G
Sbjct: 90 GAVEDLPTEALR--AQ-------------------FEANFFGWHDLTRRVIPVMRKQGQG 128
Query: 274 CIVITASQAANLGIYGLA------AYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
IV +S I GL AY +SKFA++G + L ME++ SG+ ++L P
Sbjct: 129 RIVQCSS------ILGLVPMKYRGAYNASKFAIEGLSLTLRMELQGSGIHVSLIEP 178
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 60.1 bits (146), Expect = 3e-10
Identities = 63/273 (23%), Positives = 103/273 (37%), Gaps = 56/273 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S GIG +A E GA V IVARD L QA++E+ + P
Sbjct: 14 ITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPE-------------- 59
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R + ++ D+S D E+ R+ L D +++LVN AG + + T
Sbjct: 60 --------REVHGLAADVSDD-EDRRAILDWVEDHWDGLHILVNNAGGNIRKAAIDYTED 110
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ WR + + NL+ +++ +KQ IV S +
Sbjct: 111 E-------------------WRG--IFETNLFSAFELSRYAHPLLKQHASSAIVNIGSVS 149
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE----NEEKSK 338
+ A Y +K AL L +E + G+ + P TP + + +
Sbjct: 150 GLTHVRSGAPYGMTKAALLQMTRNLAVEWAEDGIRVNAVAPWYIRTPLTSGPLSDPDYYE 209
Query: 339 PRETSLISQT--GGLYRPEVVKQSGLTITLCLP 369
+I +T + PE V + LC+P
Sbjct: 210 Q----VIERTPMRRVGEPEEV--AAAVAFLCMP 236
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 59.7 bits (145), Expect = 4e-10
Identities = 54/216 (25%), Positives = 93/216 (43%), Gaps = 47/216 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG++G+G+ A+ AK GA + I +E + R IE E
Sbjct: 20 VTGGNTGLGQGYAVALAKAGADIIITTHGTN-----WDETR---------RLIEKEG--- 62
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R + +V +D++K E+ ++ A++ G + +LVN AG L E +
Sbjct: 63 --------RKVTFVQVDLTKP-ESAEKVVKEALEEFGKIDILVNNAGTIRRAPLLEYKDE 113
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W V+D+NL H+++A+ + M ++G G I+ AS
Sbjct: 114 D-------------------WN--AVMDINLNSVYHLSQAVAKVMAKQGSGKIINIASML 152
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
+ G + AYT+SK + G +A E+ + +
Sbjct: 153 SFQGGKFVPAYTASKHGVAGLTKAFANELAAYNIQV 188
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 59.9 bits (146), Expect = 4e-10
Identities = 55/218 (25%), Positives = 89/218 (40%), Gaps = 39/218 (17%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG +G +A E A+ GA V I+ R+++K EIK A
Sbjct: 15 ITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAAGGEALA----------- 63
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D+ D E++ A Q ++ GP +L+N AG G + T
Sbjct: 64 -------------VKADVL-DKESLEQARQQILEDFGPCDILINGAG----GNHPKATTD 105
Query: 223 DIKVMEQPLWLRGYHTRLAL----WRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
+ E + T L + V DLNL GT+ T+ + M R G I+
Sbjct: 106 N----EFHELIEPTKTFFDLDEEGFEF--VFDLNLLGTLLPTQVFAKDMVGRKGGNIINI 159
Query: 279 ASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGL 316
+S A + + AY+++K A+ F + L + + G+
Sbjct: 160 SSMNAFTPLTKVPAYSAAKAAISNFTQWLAVHFAKVGI 197
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 59.7 bits (145), Expect = 5e-10
Identities = 69/289 (23%), Positives = 110/289 (38%), Gaps = 68/289 (23%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
++ +TG SSGIG A+E +RG V R + +
Sbjct: 4 SVLITGCSSGIGLEAALELKRRGYRVLAACRKPDDVARMNS------------------- 44
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRC-GPVYMLVNCAGMALCGTLEE 218
+ LD+ D E++ A + +Y L N AG + G L
Sbjct: 45 -----------LGFTGILLDLD-DPESVERAADEVIALTDNRLYGLFNNAGFGVYGPLST 92
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
++ Q MEQ N +GT +T L+ M G G IV+T
Sbjct: 93 ISRQQ---MEQQF------------------STNFFGTHQLTMLLLPAMLPHGEGRIVMT 131
Query: 279 ASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSK 338
+S + G AY +SK+AL+ +++AL ME++ SG+ ++L P T
Sbjct: 132 SSVMGLISTPGRGAYAASKYALEAWSDALRMELRHSGIKVSLIEPGPIRT---------- 181
Query: 339 PRETSLISQTGGLYRPEVVKQSGLTITLCLPPDTDTPGFENE-EKSKPR 386
R T ++QT + V+ G+ L P+ P + E KP+
Sbjct: 182 -RFTDNVNQT---QSDKPVENPGIAARFTLGPEAVVPKLRHALESPKPK 226
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 59.1 bits (144), Expect = 5e-10
Identities = 55/244 (22%), Positives = 88/244 (36%), Gaps = 63/244 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAH-VTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG + GIG+ + RGA V ARD E + P
Sbjct: 11 VTGANRGIGRAFVEQLLARGAAKVYAAARDP-------ESVTDLGP-------------- 49
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT-LEEMT 220
+ P + LD++ D ++ +A + V +LVN AG+ G+ L E
Sbjct: 50 RVVP----------LQLDVT-DPASVAAA----AEAASDVTILVNNAGIFRTGSLLLEGD 94
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
++ E ++ N +G + M +A + G G IV S
Sbjct: 95 EDALR-AE--------------------METNYFGPLAMARAFAPVLAANGGGAIVNVLS 133
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPP--DTD-TPGFENEEKS 337
+ + L Y++SK A +AL E+ G + P DTD G + K+
Sbjct: 134 VLSWVNFPNLGTYSASKAAAWSLTQALRAELAPQGTRVLGVHPGPIDTDMAAGLD-APKA 192
Query: 338 KPRE 341
P +
Sbjct: 193 SPAD 196
>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 = 59.4 bits (144), Expect = 5e-10
Identities = 54/254 (21%), Positives = 98/254 (38%), Gaps = 52/254 (20%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
T T+ +TGG+SGIG +A + G V I R+E++L
Sbjct: 4 TGNTILITGGASGIGLALAKRFLELGNTVIICGRNEERL--------------------- 42
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
E K P I D++ D ++ R ++ + +L+N AG+
Sbjct: 43 -AEAKAENPE------IHTEVCDVA-DRDSRRELVEWLKKEYPNLNVLINNAGIQ---RN 91
Query: 217 EEMTMQDI--KVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
E++T + EQ I NL I +T L+ + ++
Sbjct: 92 EDLTGAEDLLDDAEQE------------------IATNLLAPIRLTALLLPHLLRQPEAT 133
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENE 334
I+ +S A + + Y ++K A+ + AL ++K + + + PP DT +
Sbjct: 134 IINVSSGLAFVPMASTPVYCATKAAIHSYTLALREQLKDTSVEVIELAPPLVDTTEGNTQ 193
Query: 335 EKSKPRETSLISQT 348
+ K ++ IS+T
Sbjct: 194 ARGKMPLSAFISET 207
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 59.3 bits (144), Expect = 7e-10
Identities = 57/245 (23%), Positives = 94/245 (38%), Gaps = 53/245 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV-ARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VT SGIGK A+ A++G + I DE+ + EE+
Sbjct: 7 VTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEV---------------RSHG 51
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
E LD+S D AL + R G + +LVN AG +M
Sbjct: 52 VRA---------EIRQLDLS-DLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDF 101
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG--CIVITA 279
+ WR + +++ G ++ M ++G+G I IT
Sbjct: 102 DE-------------------WRK--IFTVDVDGAFLCSQIAARHMVKQGQGGRIINIT- 139
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP--GFENEE-K 336
S + + G +AYT++K AL G +A+ +E+ + G+ + P TP G ++ + K
Sbjct: 140 SVHEHTPLPGASAYTAAKHALGGLTKAMALELVEHGILVNAVAPGAIATPMNGMDDSDVK 199
Query: 337 SKPRE 341
R
Sbjct: 200 PDSRP 204
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 58.9 bits (143), Expect = 8e-10
Identities = 44/199 (22%), Positives = 76/199 (38%), Gaps = 52/199 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG +SGIG+ VA GA V I + A EI A
Sbjct: 11 LTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPA----------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
VSLD++ ++I + A++R G + +L N A + + +++
Sbjct: 54 ----------AIAVSLDVT-RQDSIDRIVAAAVERFGGIDILFNNAALFDMAPILDIS-- 100
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWT-VIDLNLYGTIHMTKALVEGMKQRGRGCIVIT-AS 280
S+ + +N+ G + +A+ M ++GRG +I AS
Sbjct: 101 --------------------RDSYDRLFAVNVKGLFFLMQAVARHMVEQGRGGKIINMAS 140
Query: 281 QAANLGIYGLAAYTSSKFA 299
QA G ++ Y ++K A
Sbjct: 141 QAGRRGEALVSHYCATKAA 159
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 58.9 bits (142), Expect = 8e-10
Identities = 59/232 (25%), Positives = 103/232 (44%), Gaps = 46/232 (19%)
Query: 98 NGTLS-VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
NG ++ VTGG+ GIGK + + A+ GA V I K +A E +
Sbjct: 5 NGKVAIVTGGAKGIGKAITVALAQEGAKVVINYNSSK---EAAENLVN------------ 49
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
E+ K + + V D+SK E+ ++ A++ G V +LVN AG+ T
Sbjct: 50 --ELGKEGHD------VYAVQADVSK-VEDANRLVEEAVNHFGKVDILVNNAGITRDRTF 100
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
+++ +D W R VID+NL + T A++ + + G I+
Sbjct: 101 KKLNRED--------WER-------------VIDVNLSSVFNTTSAVLPYITEAEEGRII 139
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
+S G +G Y+++K + GF ++L +E+ ++ +T+ P DT
Sbjct: 140 SISSIIGQAGGFGQTNYSAAKAGMLGFTKSLALELAKTNVTVNAICPGFIDT 191
>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 = 57.5 bits (139), Expect = 1e-09
Identities = 29/103 (28%), Positives = 41/103 (39%), Gaps = 1/103 (0%)
Query: 248 VIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEAL 307
I N+ GT + +A E MK + G ++ +S A G GL Y +SK AL G A+
Sbjct: 58 AIRANVVGTRRLLEAARELMKAKRLGRFILISSVAGLFGAPGLGGYAASKAALDGLAQQW 117
Query: 308 YMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRETSLISQTGG 350
E +GL T G + P E + G
Sbjct: 118 ASEGWGNGLPATAVACGTWAGSGMA-KGPVAPEEILGNRRHGV 159
Score = 34.4 bits (79), Expect = 0.071
Identities = 15/31 (48%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 103 VTGGSSGIGKHVAIEAAKRGA-HVTIVARDE 132
VTGGS GIG +A A RG+ V +V+R +
Sbjct: 3 VTGGSGGIGGAIARWLASRGSPKVLVVSRRD 33
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 59.9 bits (145), Expect = 1e-09
Identities = 63/286 (22%), Positives = 94/286 (32%), Gaps = 72/286 (25%)
Query: 46 TNGTLSVDGAAGSFKNFKSSEPRTNLEPPCRGVRTVASREPHLQMKRYLAPTNGTLSVTG 105
T TL VDG + + P R VA +TG
Sbjct: 237 TGSTLVVDGGWTVYGGSGPASTAQAPSPLAESPRVVA--------------------ITG 276
Query: 106 GSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKACP 165
G+ GIG+ VA A G + I+ RD + + E +
Sbjct: 277 GARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEAL--------------------GDE 316
Query: 166 NPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMA-LCGTLEEMTMQDI 224
+ DI+ D + SA R G + +LVN AG+A + E + +D
Sbjct: 317 HLSV-------QADIT-DEAAVESAFAQIQARWGRLDVLVNNAGIAEVFKPSLEQSAEDF 368
Query: 225 KVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAAN 284
V D+NL G +A M G IV S A+
Sbjct: 369 T---------------------RVYDVNLSGAFACARAAARLM--SQGGVIVNLGSIASL 405
Query: 285 LGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPG 330
L + AY +SK A+ + +L E +G+ + P +TP
Sbjct: 406 LALPPRNAYCASKAAVTMLSRSLACEWAPAGIRVNTVAPGYIETPA 451
Score = 42.1 bits (99), Expect = 5e-04
Identities = 29/111 (26%), Positives = 47/111 (42%), Gaps = 4/111 (3%)
Query: 249 IDLNLYGTIHMTKALVEGMKQRGRGC-IVITASQAANLGIYGLAAYTSSKFALKGFAEAL 307
+NL G + + + M ++G G IV AS A + + AY++SK A+ +L
Sbjct: 109 QAINLTGAYLVAREALRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAAVISLTRSL 168
Query: 308 YMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRETSLISQT---GGLYRPE 355
E G+ + LP T E++ + S + G L RPE
Sbjct: 169 ACEWAAKGIRVNAVLPGYVRTQMVAELERAGKLDPSAVRSRIPLGRLGRPE 219
>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 = 57.6 bits (139), Expect = 2e-09
Identities = 53/228 (23%), Positives = 85/228 (37%), Gaps = 44/228 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKAC-PNPKFIRFIEYEEIK 161
VTG S GIG+ A+ A+ GA V ++ R+E+KL Q + I + P++ +
Sbjct: 9 VTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFIL-DLLTCT 67
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
S++ + + + R V L N + L E
Sbjct: 68 -------------------SENCQQLAQRIAVNYPRLDGV--LHNAGLLGDVCPLSEQNP 106
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
Q W+ V +N+ T +T+AL+ + + G +V T+S
Sbjct: 107 QV-------------------WQ--DVXQVNVNATFMLTQALLPLLLKSDAGSLVFTSSS 145
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
G AY SKFA +G + L E +Q L + P T T
Sbjct: 146 VGRQGRANWGAYAVSKFATEGLXQVLADEYQQRNLRVNCINPGGTRTA 193
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 58.5 bits (142), Expect = 2e-09
Identities = 53/205 (25%), Positives = 84/205 (40%), Gaps = 46/205 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG SGIG+ VA+ AK GA + IV DE + E K+ +E E +K
Sbjct: 51 ITGGDSGIGRAVAVLFAKEGADIAIVYLDEH---EDANETKQR---------VEKEGVK- 97
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C + D+S D + A++ + G + +LVN A + Q
Sbjct: 98 -CL---------LIPGDVS-DEAFCKDAVEETVRELGRLDILVNNAA-------FQYPQQ 139
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
++ + + + T N+Y HMTKA + +KQ I+ T S
Sbjct: 140 SLEDITAEQLDKTFKT-------------NIYSYFHMTKAALPHLKQ--GSAIINTGSIT 184
Query: 283 ANLGIYGLAAYTSSKFALKGFAEAL 307
G L Y+++K A+ F +L
Sbjct: 185 GYEGNETLIDYSATKGAIHAFTRSL 209
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 57.9 bits (140), Expect = 2e-09
Identities = 56/229 (24%), Positives = 95/229 (41%), Gaps = 51/229 (22%)
Query: 98 NGTLSVTGGSS-GIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+G L+ T SS GIG VA A+ GA V +++R+E+ L +A+E+IK ++
Sbjct: 7 SGKLAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESN-------VD 59
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISK--DYENIRSALQPAMDRCGPVYMLVNCAGMALCG 214
+ Y+ D++K D E L+ G + G G
Sbjct: 60 ----------------VSYIVADLTKREDLERTVKELK----NIGEPDIFFFSTGGPKPG 99
Query: 215 TLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
EM+M+D W + L LY +++T+ALV M+++G G
Sbjct: 100 YFMEMSMED-------------------WEG--AVKLLLYPAVYLTRALVPAMERKGFGR 138
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
I+ + S A I +A + ++ G L E+ G+T+ +P
Sbjct: 139 IIYSTSVAIKEPIPNIALSNVVRISMAGLVRTLAKELGPKGITVNGIMP 187
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 57.3 bits (139), Expect = 3e-09
Identities = 49/202 (24%), Positives = 80/202 (39%), Gaps = 48/202 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTGG+ G+G +A A+RGA + I R+ +K E++ F++
Sbjct: 11 VTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEALGAKAVFVQ-------- 62
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
D+S D E+ R + A + G + LVN AG+ GT+ +
Sbjct: 63 ----------------ADLS-DVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTILD--- 102
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIVITAS 280
T L+ +N+ + + ++ M++R G IV S
Sbjct: 103 ----------------TSPELFDR--HFAVNVRAPFFLMQEAIKLMRRRKAEGTIVNIGS 144
Query: 281 QAANLGIYGLAAYTSSKFALKG 302
+A+ G LAAY +SK AL
Sbjct: 145 MSAHGGQPFLAAYCASKGALAT 166
>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 = 57.1 bits (138), Expect = 4e-09
Identities = 45/238 (18%), Positives = 86/238 (36%), Gaps = 49/238 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTI-VARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG S G+G +A A+ GA V + R + A+ +A I+
Sbjct: 5 VTGASRGLGAAIARSFAREGARVVVNYYRSTES---AEAVAAEAGERAIAIQA------- 54
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
D+ +D + +++ ++ A + GPV +VN A
Sbjct: 55 -----------------DV-RDRDQVQAMIEEAKNHFGPVDTIVNNA----LIDFPFDPD 92
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSW-TVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
Q W + ++ + G +++ +A++ K+RG G ++ +
Sbjct: 93 QRKTFDTID------------WEDYQQQLEGAVKGALNLLQAVLPDFKERGSGRVINIGT 140
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP---PDTDTPGFENEE 335
+ YT++K AL GF + E+ G+T+ + TD +E
Sbjct: 141 NLFQNPVVPYHDYTTAKAALLGFTRNMAKELGPYGITVNMVSGGLLKVTDASAATPKE 198
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 56.9 bits (138), Expect = 4e-09
Identities = 51/208 (24%), Positives = 74/208 (35%), Gaps = 51/208 (24%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG++ IG VA GA V IV D + + RFI
Sbjct: 11 VTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGERA------RFIA------ 58
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
DI+ D I A+ + R G V +LVN A C T
Sbjct: 59 ---------------TDITDD-AAIERAVATVVARFGRVDILVNLA----C------TYL 92
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D G + A W + +D+NL + +A + + G G IV S +
Sbjct: 93 D----------DGLASSRADWLA--ALDVNLVSAAMLAQAAHPHLARGG-GAIVNFTSIS 139
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYME 310
A G Y +SK A++ ++ M+
Sbjct: 140 AKFAQTGRWLYPASKAAIRQLTRSMAMD 167
>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 = 56.8 bits (137), Expect = 4e-09
Identities = 51/234 (21%), Positives = 93/234 (39%), Gaps = 43/234 (18%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG SG+G A+ AK GA +++V +E+ L A+ + + P+ +
Sbjct: 8 ITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAE------------ 55
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ + D+S D + + + +++ G + N AG+ L E
Sbjct: 56 ----------VLLIKADVS-DEAQVEAYVDATVEQFGRIDGFFNNAGIEGKQNLTEDFGA 104
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D + V+ +NL G + + +++ M+++G G IV TAS
Sbjct: 105 DE-----------FDK---------VVSINLRGVFYGLEKVLKVMREQGSGMIVNTASVG 144
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEK 336
G+ + Y ++K + G +E Q G+ I P TP E K
Sbjct: 145 GIRGVGNQSGYAAAKHGVVGLTRNSAVEYGQYGIRINAIAPGAILTPMVEGSLK 198
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 57.1 bits (138), Expect = 4e-09
Identities = 68/281 (24%), Positives = 115/281 (40%), Gaps = 68/281 (24%)
Query: 90 MKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNP 149
MKR N +TG S+GIG+ AI A+ GA+V V E E +
Sbjct: 1 MKRL---ENKVAVITGASTGIGQASAIALAQEGAYVLAVDIAE----AVSETV------- 46
Query: 150 KFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG 209
++IK K +DIS + + ++ ++ G V +L N AG
Sbjct: 47 --------DKIKSNGGKAKAYH------VDISDE-QQVKDFASEIKEQFGRVDVLFNNAG 91
Query: 210 MALCGTLEEMTMQDIKVMEQP--LWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM 267
+ ++ E P ++ + ++ +++ GT MTK L+ M
Sbjct: 92 VDNAAG---------RIHEYPVDVFDK-------------IMAVDMRGTFLMTKMLLPLM 129
Query: 268 KQRGRGCIVITAS---QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPP 324
++G G I+ T+S QAA+L G Y ++K A+ F +++ +E + G+ P
Sbjct: 130 MEQG-GSIINTSSFSGQAADLYRSG---YNAAKGAVINFTKSIAIEYGRDGIRANAIAPG 185
Query: 325 DTDTP-------GFENEEKSKPRET-SLISQTGGLYRPEVV 357
+TP E+E RE ++ G L +PE V
Sbjct: 186 TIETPLVDKLTGTSEDEAGKTFRENQKWMTPLGRLGKPEEV 226
>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 = 56.6 bits (137), Expect = 4e-09
Identities = 48/211 (22%), Positives = 76/211 (36%), Gaps = 45/211 (21%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
+V G G+G +A A G V + AR E KL +I +
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGG----------- 49
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
KA P D + E I + GP+ +LV AG + + E
Sbjct: 50 SAKAVP------------TDARDEDEVIA-LFDLIEEEIGPLEVLVYNAGANVWFPILET 96
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA 279
T + + +W + +G + + M RGRG I+ T
Sbjct: 97 TPRVFE---------------KVWE------MAAFGGFLAAREAAKRMLARGRGTIIFTG 135
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYME 310
+ A+ G G AA+ +KFAL+ A+++ E
Sbjct: 136 ATASLRGRAGFAAFAGAKFALRALAQSMARE 166
>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 = 56.6 bits (137), Expect = 4e-09
Identities = 54/223 (24%), Positives = 86/223 (38%), Gaps = 50/223 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+SGIG +A A GA V + EI +
Sbjct: 6 VTGGASGIGLAIAKRLAAEGAAVVV--------ADIDPEIAEKVAEAAQGG--------- 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
P+ + V D++ + ++SA + A+ G + ++V+ AG+A + E
Sbjct: 49 ----PRALG----VQCDVTSE-AQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAE---- 95
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR-GCIVITAS- 280
T L W +D+NL G +++ MK +G G IV AS
Sbjct: 96 ---------------TSLEDWN--RSMDINLTGHFLVSREAFRIMKSQGIGGNIVFNASK 138
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
A G AAY+++K A A L +E + G+ + P
Sbjct: 139 NAVAPGP-NAAAYSAAKAAEAHLARCLALEGGEDGIRVNTVNP 180
>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 = 57.1 bits (138), Expect = 4e-09
Identities = 44/222 (19%), Positives = 87/222 (39%), Gaps = 48/222 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIR--FIEYEEI 160
+TGG+ +G +A A+ GA V + R+++K + +EI + ++ +
Sbjct: 10 ITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITALGGRAIALAADVLDRASL 69
Query: 161 KKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG------MALCG 214
++A +I + G V +L+N AG
Sbjct: 70 ERARE-------------EIVAQF--------------GTVDILINGAGGNHPDATTDPE 102
Query: 215 TLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
E T Q+ +++ W V DLNL G+ ++ + M ++ G
Sbjct: 103 HYEPETEQNFFDLDEEGWEF-------------VFDLNLNGSFLPSQVFGKDMLEQKGGS 149
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGL 316
I+ +S A + + AY+++K A+ F + L +E +G+
Sbjct: 150 IINISSMNAFSPLTKVPAYSAAKAAVSNFTQWLAVEFATTGV 191
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 56.5 bits (137), Expect = 6e-09
Identities = 45/183 (24%), Positives = 77/183 (42%), Gaps = 48/183 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
V GG+SGI +A A+ GA+V + +R ++K+ A ++++A
Sbjct: 14 VVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQQA----------------- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVN-CAGMALCGTLEEMTM 221
P+ + VS D+ +DY + +A D GP+ +LV+ AG M+
Sbjct: 57 ---GPEGLG----VSADV-RDYAAVEAAFAQIADEFGPIDVLVSGAAGNFPA-PAAGMSA 107
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
K TV+D++L GT ++ KA +++ G I I+A Q
Sbjct: 108 NGFK---------------------TVVDIDLLGTFNVLKAAYPLLRRPGASIIQISAPQ 146
Query: 282 AAN 284
A
Sbjct: 147 AFV 149
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 55.6 bits (134), Expect = 1e-08
Identities = 53/225 (23%), Positives = 92/225 (40%), Gaps = 52/225 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV-ARDE--KKLLQAQEEIKKACPNPKFIRFIEYEE 159
VTGG++GIG+ + K GA V IV +D+ + + + C
Sbjct: 23 VTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQNVCDSLGGEPNVC------------- 69
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
+ D++ + +++ A+ +D+ G + ++VN AG L G
Sbjct: 70 ---------------FFHCDVTVE-DDVSRAVDFTVDKFGTLDIMVNNAG--LTGP---- 107
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA 279
DI+ +E L+ + V D+N+ G K M +G IV
Sbjct: 108 PCPDIRNVE-----------LSEFEK--VFDVNVKGVFLGMKHAARIMIPLKKGSIVSLC 154
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPP 324
S A+ +G G AYT SK A+ G ++ E+ + G+ + C+ P
Sbjct: 155 SVASAIGGLGPHAYTGSKHAVLGLTRSVAAELGKHGIRVN-CVSP 198
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 55.1 bits (133), Expect = 1e-08
Identities = 51/231 (22%), Positives = 88/231 (38%), Gaps = 50/231 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SG G+ +A A+ GA V I + A+ I+
Sbjct: 10 VTGAGSGFGEGIARRFAQEGARVVIADINADG---AERVAADIGEAAIAIQ--------- 57
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D++K + + + ++ A+ + G + +LVN AG+ T M
Sbjct: 58 ---------------ADVTKRAD-VEAMVEAALSKFGRLDILVNNAGI----THRNKPML 97
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
++ E + R V +N+ +ALV M+++G G I+ AS A
Sbjct: 98 EVDEEE---FDR-------------VFAVNVKSIYLSAQALVPHMEEQGGGVIINIASTA 141
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI-TLCLPPDTDTPGFE 332
GL Y +SK + +A+ +E+ + + LC P +TP
Sbjct: 142 GLRPRPGLTWYNASKGWVVTATKAMAVELAPRNIRVNCLC-PVAGETPLLS 191
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 54.7 bits (132), Expect = 2e-08
Identities = 55/235 (23%), Positives = 91/235 (38%), Gaps = 59/235 (25%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
++ T+ VTG + GIG +++ A G V +AR F
Sbjct: 2 SSRTVLVTGATKGIGLALSLRLANLGHQVIGIARS---------------AIDDF----- 41
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
P E + D++ D E + L + PV +VN G+AL L
Sbjct: 42 --------PG-------ELFACDLA-DIEQTAATLAQINEI-HPVDAIVNNVGIALPQPL 84
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV 276
++ + + V DLN+ + +T+A +EGMK R +G IV
Sbjct: 85 GKIDLAAL---------------------QDVYDLNVRAAVQVTQAFLEGMKLREQGRIV 123
Query: 277 ITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGF 331
S+A G +Y+++K AL G +E+ + G+T+ P +T F
Sbjct: 124 NICSRAI-FGALDRTSYSAAKSALVGCTRTWALELAEYGITVNAVAPGPIETELF 177
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 54.3 bits (131), Expect = 3e-08
Identities = 61/261 (23%), Positives = 108/261 (41%), Gaps = 54/261 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVAR-DEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
+TGGS+G+G+ +A+ K A V I R DE++ EEIKKA E I
Sbjct: 12 ITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIKKAGG----------EAIA 61
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
V D++ + ++ + +Q A+ G + +++N AG+ EM++
Sbjct: 62 --------------VKGDVTVE-SDVVNLIQTAVKEFGTLDVMINNAGIENAVPSHEMSL 106
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIVITAS 280
+D W + VI+ NL G ++ ++ + +G I+ +S
Sbjct: 107 ED--------WNK-------------VINTNLTGAFLGSREAIKYFVEHDIKGNIINMSS 145
Query: 281 QAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP----GFENEEK 336
+ Y +SK +K E L ME G+ + P +TP F + ++
Sbjct: 146 VHEQIPWPLFVHYAASKGGVKLMTETLAMEYAPKGIRVNNIGPGAINTPINAEKFADPKQ 205
Query: 337 SKPRETSLISQTGGLYRPEVV 357
E S+I G + +PE +
Sbjct: 206 RADVE-SMIPM-GYIGKPEEI 224
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 54.1 bits (131), Expect = 4e-08
Identities = 43/139 (30%), Positives = 65/139 (46%), Gaps = 36/139 (25%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEY-- 157
TL +TG S GIG +A+ AA+ GA++ I A K A P+PK I
Sbjct: 8 TLFITGASRGIGLAIALRAARDGANIVIAA-------------KTAEPHPKLPGTIHTAA 54
Query: 158 EEIK----KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG-MAL 212
EEI+ +A P + D+ +D + + +A+ A++R G + + VN A + L
Sbjct: 55 EEIEAAGGQALP----------LVGDV-RDEDQVAAAVAKAVERFGGIDICVNNASAINL 103
Query: 213 CGTLE-EMT----MQDIKV 226
GT + M MQ I V
Sbjct: 104 TGTEDTPMKRFDLMQQINV 122
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 53.5 bits (129), Expect = 6e-08
Identities = 47/214 (21%), Positives = 80/214 (37%), Gaps = 46/214 (21%)
Query: 90 MKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNP 149
M+ +L + VTGGSSGIG + E GA+V +I
Sbjct: 1 MQDWLNLQGKIIIVTGGSSGIGLAIVKELLANGANVVNA------------DIHGGDGQH 48
Query: 150 KFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG 209
+ +F+ D+S E + + +++ G + LVN AG
Sbjct: 49 ENYQFVP---------------------TDVS-SAEEVNHTVAEIIEKFGRIDGLVNNAG 86
Query: 210 MALCGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQ 269
+ + L + K Y A + + ++N G M++A+ M +
Sbjct: 87 INIPRLLVDEKDPAGK----------YELNEAAFDK--MFNINQKGVFLMSQAVARQMVK 134
Query: 270 RGRGCIVITASQAANLGIYGLAAYTSSKFALKGF 303
+ G IV +S+A G G + Y ++K AL F
Sbjct: 135 QHDGVIVNMSSEAGLEGSEGQSCYAATKAALNSF 168
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 53.5 bits (129), Expect = 6e-08
Identities = 49/213 (23%), Positives = 77/213 (36%), Gaps = 57/213 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGGSSGIG + GA V I RDE++L A+ +++ +F +
Sbjct: 13 VTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLRE--------KFPGARLLAA 64
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C D+ D ++ + R G V MLVN AG T + T
Sbjct: 65 RC--------------DV-LDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDD 109
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIV------ 276
WR ++L + I+ T+A + ++ IV
Sbjct: 110 A-------------------WRD--ELELKYFSVINPTRAFLPLLRASAAASIVCVNSLL 148
Query: 277 -------ITASQAANLGIYGLAAYTSSKFALKG 302
+ A+ AA G+ L +++ A KG
Sbjct: 149 ALQPEPHMVATSAARAGLLNLVKSLATELAPKG 181
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 52.8 bits (127), Expect = 7e-08
Identities = 56/234 (23%), Positives = 84/234 (35%), Gaps = 59/234 (25%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHV--TIVARDEKKLLQAQEEIKKACPNPKFIRF 154
T + V GGS GIG + GA+V T + AQE A
Sbjct: 5 TGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAGSKDAAERLAQETGATA--------- 55
Query: 155 IEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCG 214
V D S D R A+ + + G + +LV AG+A+ G
Sbjct: 56 ---------------------VQTD-SAD----RDAVIDVVRKSGALDILVVNAGIAVFG 89
Query: 215 TLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
E+ DI + +N++ H + M + GR
Sbjct: 90 DALELDADDIDRL---------------------FKINIHAPYHASVEAARQMPEGGR-I 127
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
I+I + + + G+AAY +SK AL+G A L + G+TI + P DT
Sbjct: 128 IIIGSVNGDRMPVAGMAAYAASKSALQGMARGLARDFGPRGITINVVQPGPIDT 181
>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 = 53.3 bits (128), Expect = 7e-08
Identities = 51/228 (22%), Positives = 85/228 (37%), Gaps = 50/228 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIG+ VA A GA V +V R E + + EI A
Sbjct: 9 VTGAAQGIGRGVAERLAGEGARVLLVDRSE-LVHEVLAEILAAGDA-------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT-LEEMTM 221
+ D+ Y + ++ A++R G V +L+N G + E
Sbjct: 54 ----------AHVHTADLET-YAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEE 102
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ I+ I +L+ T+ +A++ M +R +G IV S
Sbjct: 103 EQIE---------------------AEIRRSLFPTLWCCRAVLPHMLERQQGVIV-NVSS 140
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A GIY Y+++K + +L E + G+ + P T+ P
Sbjct: 141 IATRGIYR-IPYSAAKGGVNALTASLAFEHARDGIRVNAVAPGGTEAP 187
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 53.1 bits (128), Expect = 8e-08
Identities = 53/199 (26%), Positives = 84/199 (42%), Gaps = 46/199 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S GIG +A AK GA TIV D QE + K Y E
Sbjct: 15 ITGASYGIGFAIAKAYAKAGA--TIVFNDIN-----QELVDKGLAA--------YRE--- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
I YV D++ D + +++ + G + +LVN AG+ + EM+ +
Sbjct: 57 -----LGIEAHGYV-CDVT-DEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPMLEMSAE 109
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D +R VID++L ++KA++ M ++G G I+ S
Sbjct: 110 D-------------------FRQ--VIDIDLNAPFIVSKAVIPSMIKKGHGKIINICSMM 148
Query: 283 ANLGIYGLAAYTSSKFALK 301
+ LG ++AY ++K LK
Sbjct: 149 SELGRETVSAYAAAKGGLK 167
>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 = 52.8 bits (127), Expect = 8e-08
Identities = 44/125 (35%), Positives = 67/125 (53%), Gaps = 31/125 (24%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFI--EY 157
TL +TG S GIGK +A++AA+ GA+V I A K A P+PK I
Sbjct: 5 TLFITGASRGIGKAIALKAARDGANVVIAA-------------KTAEPHPKLPGTIYTAA 51
Query: 158 EEIK----KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCA-GMAL 212
EEI+ KA P +DI +D + +R+A++ A+++ G + +LVN A ++L
Sbjct: 52 EEIEAAGGKALP----------CIVDI-RDEDQVRAAVEKAVEKFGGIDILVNNASAISL 100
Query: 213 CGTLE 217
GTL+
Sbjct: 101 TGTLD 105
>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 = 52.9 bits (127), Expect = 8e-08
Identities = 48/227 (21%), Positives = 77/227 (33%), Gaps = 50/227 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG VA + G V AR K+ E + C + + Y+
Sbjct: 11 VTGASVGIGAAVARALVQHGMKVVGCARRVDKI----EALAAECQSAGYPTLFPYQ---- 62
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C D+S + E I S + V + +N AG+A L +
Sbjct: 63 -C--------------DLS-NEEQILSMFSAIRTQHQGVDVCINNAGLARPEPLLSGKTE 106
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG--RGCIVITAS 280
K M D+N+ T+ + MK+R G I+ S
Sbjct: 107 GWKEM---------------------FDVNVLALSICTREAYQSMKERNVDDGHIININS 145
Query: 281 QAANLGIYG--LAAYTSSKFALKGFAEALYMEVKQSGLTITL-CLPP 324
+ + Y ++K A+ E L E++++ I + P
Sbjct: 146 MSGHRVPPVSVFHFYAATKHAVTALTEGLRQELREAKTHIRATSISP 192
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 52.7 bits (127), Expect = 9e-08
Identities = 43/200 (21%), Positives = 81/200 (40%), Gaps = 37/200 (18%)
Query: 98 NGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEY 157
+ + +TGG+ G+G+ +A A++GA + ++ +++KL +A E
Sbjct: 5 DKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALG----------- 53
Query: 158 EEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE 217
Y +++ + + + Q A D G + L+N AG+ G L
Sbjct: 54 ------------TEVRGYA-ANVTDEEDVEATFAQIAED-FGQLNGLINNAGILRDGLL- 98
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
+K + + + L ++S VID+NL G + M + G ++I
Sbjct: 99 ------VKAKDGKVTSK---MSLEQFQS--VIDVNLTGVFLCGREAAAKMIESGSKGVII 147
Query: 278 TASQAANLGIYGLAAYTSSK 297
S A G G Y++SK
Sbjct: 148 NISSIARAGNMGQTNYSASK 167
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 53.3 bits (128), Expect = 9e-08
Identities = 55/227 (24%), Positives = 101/227 (44%), Gaps = 52/227 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG + GIGK A + A++G ++ +VAR+ KL + I+ +IK
Sbjct: 58 VTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYSK---------TQIKT 108
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMAL--CGTLEEMT 220
+ S DI + + I+ ++ +D V +L+N G++ E+
Sbjct: 109 VVVD---------FSGDIDEGVKRIKETIE-GLD----VGVLINNVGVSYPYARFFHEVD 154
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
+ +K +I +N+ GT +T+A++ GM +R +G I+ S
Sbjct: 155 EELLK---------------------NLIKVNVEGTTKVTQAVLPGMLKRKKGAIINIGS 193
Query: 281 QAANL----GIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
AA + +Y A Y ++K + F+ LY+E K+SG+ + +P
Sbjct: 194 GAAIVIPSDPLY--AVYAATKAYIDQFSRCLYVEYKKSGIDVQCQVP 238
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 52.2 bits (126), Expect = 1e-07
Identities = 58/260 (22%), Positives = 108/260 (41%), Gaps = 60/260 (23%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
T + +TG SSG+G +A E A +G + + AR +L EE+K
Sbjct: 1 TRQKILITGASSGLGAGMAREFAAKGRDLALCARRTDRL----EELK------------- 43
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGM---ALC 213
E+ P I+ + +LD++ D++ + D G + ++ AG+ A
Sbjct: 44 -AELLARYPG---IK-VAVAALDVN-DHDQVFEVFAEFRDELGGLDRVIVNAGIGKGARL 97
Query: 214 GTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRG 273
GT G W + + N + +A +E +++G G
Sbjct: 98 GT-------------------GK-----FWANKATAETNFVAALAQCEAAMEIFREQGSG 133
Query: 274 CIVITASQAANLGIYG-LAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGF- 331
+V+ +S +A G+ G AAY +SK + E L E+ ++ + ++ T PG+
Sbjct: 134 HLVLISSVSAVRGLPGVKAAYAASKAGVASLGEGLRAELAKTPIKVS------TIEPGYI 187
Query: 332 ENEEKSKPRETSLI--SQTG 349
+E +K + T + ++TG
Sbjct: 188 RSEMNAKAKSTPFMVDTETG 207
>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 = 52.1 bits (125), Expect = 2e-07
Identities = 60/273 (21%), Positives = 100/273 (36%), Gaps = 51/273 (18%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
T VTGG+ GIG + E A GA V AR++K+L + E ++ ++
Sbjct: 8 TALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWREK----------GFKV 57
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRC-GPVYMLVNCAGMALCGTLEE 218
C D+S E + + G + +LVN AG + ++
Sbjct: 58 EGSVC--------------DVSSRSER-QELMDTVASHFGGKLNILVNNAGTNIRKEAKD 102
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
T +D + ++ N H+++ +K G G IV
Sbjct: 103 YTEEDYSL---------------------IMSTNFEAAYHLSRLAHPLLKASGNGNIVFI 141
Query: 279 ASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSK 338
+S A + + A Y ++K AL +L E + + + P TP E + K
Sbjct: 142 SSVAGVIAVPSGAPYGATKGALNQLTRSLACEWAKDNIRVNAVAPWVIATPLVEPVIQQK 201
Query: 339 PRETSLISQT--GGLYRPEVVKQSGLTITLCLP 369
+I +T PE V + L LC+P
Sbjct: 202 ENLDKVIERTPLKRFGEPEEV--AALVAFLCMP 232
>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 = 51.8 bits (124), Expect = 2e-07
Identities = 56/273 (20%), Positives = 97/273 (35%), Gaps = 58/273 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG++GIGK +A AK GA V I + I++A + I
Sbjct: 4 VTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGG----------QAIGL 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C +++ + +++ + ++ + + G + +LVN AG G
Sbjct: 54 EC--------------NVTSE-QDLEAVVKATVSQFGGITILVNNAGGG--GPKPFDMPM 96
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
E W LNL+ +++ M++ G G I+ +S +
Sbjct: 97 ---TEEDFEW---------------AFKLNLFSAFRLSQLCAPHMQKAGGGAILNISSMS 138
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGF------ENEEK 336
+ +AAY SSK A+ L ++ G+ + P T E E
Sbjct: 139 SENKNVRIAAYGSSKAAVNHMTRNLAFDLGPKGIRVNAVAPGAVKTDALASVLTPEIERA 198
Query: 337 SKPRETSLISQTGGLYRPEVVKQSGLTITLCLP 369
+ G L PE + + + LC P
Sbjct: 199 MLKH-----TPLGRLGEPEDI--ANAALFLCSP 224
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 51.3 bits (123), Expect = 3e-07
Identities = 51/235 (21%), Positives = 88/235 (37%), Gaps = 52/235 (22%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+ VTG + GIG+ A A+ GA V + + + + ++I ++
Sbjct: 5 DDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVADGGTAIAVQ--- 61
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
+D+S D ++ ++ + G + LVN A A+ G
Sbjct: 62 ---------------------VDVS-DPDSAKAMADATVSAFGGIDYLVNNA--AIYG-- 95
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWT-VIDLNLYGTIHMTKALVEGMKQRGRGCI 275
M + + + W + + +NL G + T+A+ + M +RG G I
Sbjct: 96 -GMKLDLLITVP--------------WDYYKKFMSVNLDGALVCTRAVYKHMAKRGGGAI 140
Query: 276 VITASQAANL--GIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
V +S AA L YGLA K L G + L E+ + + P DT
Sbjct: 141 VNQSSTAAWLYSNFYGLA-----KVGLNGLTQQLARELGGMNIRVNAIAPGPIDT 190
>gnl|CDD|188170 TIGR01832, kduD, 2-deoxy-D-gluconate 3-dehydrogenase. This model
describes 2-deoxy-D-gluconate 3-dehydrogenase (also
called 2-keto-3-deoxygluconate oxidoreductase), a member
of the family of short-chain-alcohol dehydrogenases
(pfam00106). This protein has been characterized in
Erwinia chrysanthemi as an enzyme of pectin degradation
[Energy metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 248
Score = 51.3 bits (123), Expect = 3e-07
Identities = 53/222 (23%), Positives = 89/222 (40%), Gaps = 49/222 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG ++G+G+ +A+ A+ GA + R E Q Q E
Sbjct: 10 VTGANTGLGQGIAVGLAEAGADIVGAGRSEPSETQQQVE--------------------- 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R ++ D+S D E I++ + A++ G + +LVN AG+ EE + +
Sbjct: 49 -----ALGRRFLSLTADLS-DIEAIKALVDSAVEEFGHIDILVNNAGIIRRADAEEFSEK 102
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM-KQRGRGCIVITASQ 281
D W V+++NL +T+A + KQ G I+ AS
Sbjct: 103 D-------------------WDD--VMNVNLKSVFFLTQAAAKHFLKQGRGGKIINIASM 141
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+ G + +YT+SK A+ G + L E G+ + P
Sbjct: 142 LSFQGGIRVPSYTASKHAVAGLTKLLANEWAAKGINVNAIAP 183
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 51.3 bits (123), Expect = 3e-07
Identities = 53/232 (22%), Positives = 89/232 (38%), Gaps = 58/232 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG SGIG A A GA V + D + A +E+
Sbjct: 12 ITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEVGG------------------ 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+V D++ D + + + A + G V + N AG++ +
Sbjct: 54 -----------LFVPTDVT-DEDAVNALFDTAAETYGSVDIAFNNAGIS--------PPE 93
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D ++ T L W+ V D+NL KA + M ++G+G I+ TAS
Sbjct: 94 DDSILN---------TGLDAWQR--VQDVNLTSVYLCCKAALPHMVRQGKGSIINTASFV 142
Query: 283 ANLGIYGLAA-----YTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
A +G +A YT+SK + + L ++ + G+ + P +TP
Sbjct: 143 AVMG----SATSQISYTASKGGVLAMSRELGVQFARQGIRVNALCPGPVNTP 190
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 50.4 bits (121), Expect = 4e-07
Identities = 18/40 (45%), Positives = 22/40 (55%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
V GGSSGIG +A A GA VTI +R +L A +
Sbjct: 2 VVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARAL 41
>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 = 50.6 bits (121), Expect = 5e-07
Identities = 54/244 (22%), Positives = 101/244 (41%), Gaps = 47/244 (19%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGGS GIG+ + + GA V AR E + E+ +A P
Sbjct: 14 VTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGP--------------- 58
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGM-ALCGTLEEMTM 221
+ KF+ D++K+ E+I++ + ++R G + LVN AG T +E +
Sbjct: 59 --GSCKFV------PCDVTKE-EDIKTLISVTVERFGRIDCLVNNAGWHPPHQTTDETSA 109
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
Q+ + +++LNL +K + +++ +G I+ +S
Sbjct: 110 QEFR---------------------DLLNLNLISYFLASKYALPHLRKS-QGNIINLSSL 147
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRE 341
++G A Y ++K A+ +AL ++ + G+ + P + TP +E P
Sbjct: 148 VGSIGQKQAAPYVATKGAITAMTKALAVDESRYGVRVNCISPGNIWTPLWEELAAQTPDT 207
Query: 342 TSLI 345
+ I
Sbjct: 208 LATI 211
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 49.5 bits (119), Expect = 1e-06
Identities = 50/216 (23%), Positives = 82/216 (37%), Gaps = 58/216 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+ GIG + GA V AR + P+
Sbjct: 14 VTGGTKGIGAATVARLLEAGARVVTTAR--------------SRPDD------------- 46
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAG--MALCGTLEEMT 220
P +E+V+ D++ E + + ++R G V +LV+ G A G +T
Sbjct: 47 -LPEG-----VEFVAADLTTA-EGCAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALT 99
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS 280
++ W ++LNL + + +AL+ GM RG G I+ S
Sbjct: 100 DEE--------WQDE-------------LNLNLLAAVRLDRALLPGMIARGSGVIIHVTS 138
Query: 281 QAANLGIYG-LAAYTSSKFALKGFAEALYMEVKQSG 315
L + AY ++K AL ++++L EV G
Sbjct: 139 IQRRLPLPESTTAYAAAKAALSTYSKSLSKEVAPKG 174
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 49.6 bits (119), Expect = 1e-06
Identities = 44/174 (25%), Positives = 70/174 (40%), Gaps = 45/174 (25%)
Query: 108 SGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKACPNP 167
+GIG A A + GA V I E++L + +E+ +
Sbjct: 28 TGIGSATARRALEEGARVVISDIHERRLGETADELAAELGLGR----------------- 70
Query: 168 KFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQDIKVM 227
+E V D++ + + + A++R G + +LVN AG L G + M D
Sbjct: 71 -----VEAVVCDVT-SEAQVDALIDAAVERLGRLDVLVNNAG--LGGQTPVVDMTD---- 118
Query: 228 EQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRG-RGCIVITAS 280
++ W R V+D+ L GT T+A + M+ RG G IV AS
Sbjct: 119 DE--WSR-------------VLDVTLTGTFRATRAALRYMRARGHGGVIVNNAS 157
>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 = 49.3 bits (118), Expect = 1e-06
Identities = 41/193 (21%), Positives = 72/193 (37%), Gaps = 54/193 (27%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG + IGK GA + + + L Q +EE+ N R I E
Sbjct: 7 ITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELT----NLYKNRVIALE---- 58
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGM---ALCGTLEEM 219
LDI+ E+I+ ++ +++ G + +L+N A EE
Sbjct: 59 ---------------LDIT-SKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEF 102
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA 279
+ V+++NL G ++A ++ K++G+G I+ A
Sbjct: 103 PYEQWN---------------------EVLNVNLGGAFLCSQAFIKLFKKQGKGSIINIA 141
Query: 280 SQAANLGIYGLAA 292
S IYG+ A
Sbjct: 142 S------IYGVIA 148
>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 = 49.1 bits (117), Expect = 1e-06
Identities = 51/235 (21%), Positives = 86/235 (36%), Gaps = 44/235 (18%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG+ +A A G + + + A+ + I+
Sbjct: 3 VTGASRGIGRAIANRLAADGFEICVHYHSGRS--DAESVVS---------------AIQA 45
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
N + ++F D++ D R+ L+ + G Y +V AG+ ++ +
Sbjct: 46 QGGNARLLQF------DVA-DRVACRTLLEADIAEHGAYYGVVLNAGITRDAAFPALSEE 98
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D W HT L Y IH + +Q GR I+ AS +
Sbjct: 99 D--------WDIVIHTNLD----------GFYNVIHPCTMPMIRARQGGR--IITLASVS 138
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKS 337
+G G Y+++K L G +AL +E+ + +T+ P DT E
Sbjct: 139 GVMGNRGQVNYSAAKAGLIGATKALAVELAKRKITVNCIAPGLIDTEMLAEVEHD 193
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 50.2 bits (120), Expect = 1e-06
Identities = 52/239 (21%), Positives = 88/239 (36%), Gaps = 50/239 (20%)
Query: 91 KRYLAPTNGTLS-----VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKA 145
K P TL+ VTGG+ GIG+ A A GAHV + + + EI
Sbjct: 402 KLRRMPKEKTLARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQ 461
Query: 146 CPNPKFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLV 205
+ + + +D++ + + +++A G V ++V
Sbjct: 462 FGAGRAVA----------------------LKMDVTDE-QAVKAAFADVALAYGGVDIVV 498
Query: 206 NCAGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVE 265
N AG+A EE T+Q+ W +D+ G + +
Sbjct: 499 NNAGIATSSPFEETTLQE--------WQLN-------------LDILATGYFLVAREAFR 537
Query: 266 GMKQRGRGC-IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
M+++G G IV AS+ A +AY+++K A A L E G+ + P
Sbjct: 538 QMREQGLGGNIVFIASKNAVYAGKNASAYSAAKAAEAHLARCLAAEGGTYGIRVNTVNP 596
>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 = 49.1 bits (117), Expect = 2e-06
Identities = 21/61 (34%), Positives = 37/61 (60%), Gaps = 1/61 (1%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPK-FIRFIEYEEIK 161
+TG +SGIGK A+ AKRG V +V R++ + +A++EI+ N F+ ++ + K
Sbjct: 6 ITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIFLHIVDMSDPK 65
Query: 162 K 162
+
Sbjct: 66 Q 66
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 48.7 bits (116), Expect = 2e-06
Identities = 52/235 (22%), Positives = 91/235 (38%), Gaps = 61/235 (25%)
Query: 98 NGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEY 157
+ +TG +SGIGK +A++ AK+G V R++ L +E+ N
Sbjct: 1 MTAVLITGATSGIGKQLALDYAKQGWQVIACGRNQSVL----DELHTQSAN--------- 47
Query: 158 EEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE 217
I ++ D++ D+ ++AL + P + N G E
Sbjct: 48 ---------------IFTLAFDVT-DHPGTKAAL--SQLPFIPELWIFN------AGDCE 83
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMK---QRGRGC 274
M D ++ L R V ++N+ G +EG++ G
Sbjct: 84 YM---DDGKVDATLMAR-------------VFNVNVLGVA----NCIEGIQPHLSCGHR- 122
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+VI S A+ L + AY +SK A+ FA L ++++ G+ + P TP
Sbjct: 123 VVIVGSIASELALPRAEAYGASKAAVAYFARTLQLDLRPKGIEVVTVFPGFVATP 177
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 48.6 bits (116), Expect = 2e-06
Identities = 54/234 (23%), Positives = 91/234 (38%), Gaps = 54/234 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG SSG+G A A+ GA V + +R ++L + + EI+
Sbjct: 14 VTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELRAEIEAEGGAA------------- 60
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
VSLD++ DY++I++A+ A G + +LVN +G++ L ++T
Sbjct: 61 -----------HVVSLDVT-DYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDVTPA 108
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC-------- 274
D V D N G + + + + M R +G
Sbjct: 109 DFDF---------------------VFDTNTRGAFFVAQEVAKRMIARAKGAGNTKPGGR 147
Query: 275 IVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
I+ AS A + + Y SK A+ A+ +E + G+ + P DT
Sbjct: 148 IINIASVAGLRVLPQIGLYCMSKAAVVHMTRAMALEWGRHGINVNAICPGYIDT 201
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 48.2 bits (115), Expect = 3e-06
Identities = 49/211 (23%), Positives = 84/211 (39%), Gaps = 47/211 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG GIG+ +A+ AK G+ V + A+ K+ + E +K +K+
Sbjct: 11 VTGSGRGIGRAIAVRLAKEGSLVVVNAK--KRAEEMNETLK---------------MVKE 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V D+S E + + +DR G +LVN AG+ L +
Sbjct: 54 NGGEGIG------VLADVSTR-EGCETLAKATIDRYGVADILVNNAGLGLFSPFLNV--- 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D K++++ I + I+ ++ L + M++ G IV AS A
Sbjct: 104 DDKLIDK------------------HISTDFKSVIYCSQELAKEMREGGA--IVNIASVA 143
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQ 313
YGL+ Y + K A+ + L +E+
Sbjct: 144 GIRPAYGLSIYGAMKAAVINLTKYLALELAP 174
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 48.2 bits (115), Expect = 3e-06
Identities = 55/249 (22%), Positives = 86/249 (34%), Gaps = 52/249 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG +A A G V + A E + EI+
Sbjct: 10 VTGASRGIGAAIARRLAADGFAVAVNYAGSAAA--ADELV---------------AEIEA 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A ++ D++ D + A G + +LVN AG+ GT+ + ++
Sbjct: 53 AGGRAIAVQ------ADVA-DAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFDLE 105
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D I NL G + + + Q GR I+ ++
Sbjct: 106 DFD---------------------RTIATNLRGAFVVLREAARHLGQGGR--IINLSTSV 142
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRET 342
L + G Y +SK A++G L E++ G+T+ P T F N +
Sbjct: 143 IALPLPGYGPYAASKAAVEGLVHVLANELRGRGITVNAVAPGPVATELFFN-----GKSA 197
Query: 343 SLISQTGGL 351
I Q GL
Sbjct: 198 EQIDQLAGL 206
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 47.2 bits (112), Expect = 6e-06
Identities = 26/59 (44%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKAC-PNPKFIRF 154
++ T+ VTG S G+G+ VA A GA V +VAR +KKL + + I +A P P IRF
Sbjct: 5 SDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIRF 63
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 46.9 bits (112), Expect = 7e-06
Identities = 57/234 (24%), Positives = 96/234 (41%), Gaps = 55/234 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+SGIG +++ A+ GA I R P+ +F EE++
Sbjct: 12 VTGGASGIGAAISLRLAEEGAIPVIFGRSA--------------PDDEFA-----EELRA 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
P +F++ +D++ D R A++ + + G + LVN AG +
Sbjct: 53 LQPRAEFVQ------VDLT-DDAQCRDAVEQTVAKFGRIDGLVNNAG-----------VN 94
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIH---MTKALVEGMKQRGRGCIVITA 279
D +E R A S ++ NL IH M + +K RG IV +
Sbjct: 95 DGVGLE--------AGREAFVAS---LERNL---IHYYVMAHYCLPHLKA-SRGAIVNIS 139
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
S+ A G G + Y ++K A + + + G+ + +P + TP +EN
Sbjct: 140 SKTALTGQGGTSGYAAAKGAQLALTREWAVALAKDGVRVNAVIPAEVMTPLYEN 193
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 46.9 bits (112), Expect = 8e-06
Identities = 46/219 (21%), Positives = 74/219 (33%), Gaps = 67/219 (30%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TGG SGIG+ + GA V ++ R +KL ++
Sbjct: 11 ITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQRFGDH----------------- 53
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ V D++ Y + + A+ +D G + V AG
Sbjct: 54 ----------VLVVEGDVT-SYADNQRAVDQTVDAFGKLDCFVGNAG------------- 89
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVID--------LNLYGTIHMTKALVEGMKQRGRGC 274
+W Y+T L +D +N+ G + KA + +K G
Sbjct: 90 --------IW--DYNTSLVD-IPAETLDTAFDEIFNVNVKGYLLGAKAALPALKAS-GGS 137
Query: 275 IVITASQAANLGIY---GLAAYTSSKFALKGFAEALYME 310
++ T S N Y G YT+SK A+ G L E
Sbjct: 138 MIFTLS---NSSFYPGGGGPLYTASKHAVVGLVRQLAYE 173
>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 = 46.4 bits (110), Expect = 9e-06
Identities = 52/227 (22%), Positives = 82/227 (36%), Gaps = 59/227 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+ G + GIG+ +A A RG + + RD L E+
Sbjct: 3 ILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAEVGALA---------------- 46
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D++ + E + + Q GP+ +LV AG L L
Sbjct: 47 -------------RPADVAAELE-VWALAQEL----GPLDLLVYAAGAILGKPLAR---- 84
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+P A WR ++D NL G + K + + R V +
Sbjct: 85 -----TKP----------AAWRR--ILDANLTGAALVLKHALALLAAGARL--VFLGAYP 125
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ + GL+AY ++K AL+ + E EV+ GL +TL PP DT
Sbjct: 126 ELVMLPGLSAYAAAKAALEAYVEVARKEVR--GLRLTLVRPPAVDTG 170
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 46.7 bits (111), Expect = 1e-05
Identities = 44/205 (21%), Positives = 80/205 (39%), Gaps = 48/205 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG ++G G+ + ++G V R +++L + ++E+
Sbjct: 5 VTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELGDN----------------- 47
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+ LD+ ++ I L + +LVN AG+AL LE
Sbjct: 48 ----------LYIAQLDV-RNRAAIEEMLASLPAEWRNIDVLVNNAGLAL--GLEP---- 90
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ + W T+ID N G ++MT+A++ GM +R G I+ S A
Sbjct: 91 ------------AHKASVEDWE--TMIDTNNKGLVYMTRAVLPGMVERNHGHIINIGSTA 136
Query: 283 ANLGIYGLAAYTSSKFALKGFAEAL 307
+ G Y ++K ++ F+ L
Sbjct: 137 GSWPYAGGNVYGATKAFVRQFSLNL 161
>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 = 45.7 bits (109), Expect = 1e-05
Identities = 42/208 (20%), Positives = 66/208 (31%), Gaps = 69/208 (33%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
V G + IG VA + G V R
Sbjct: 3 VIGATGTIGLAVAQLLSAHGHEVITAGRSS------------------------------ 32
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
+DI+ D +I++ + G +V+ AG A L E+T
Sbjct: 33 -----------GDYQVDIT-DEASIKALFEKV----GHFDAIVSTAGDAEFAPLAELTDA 76
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
D + RG +++L I+L +G ++ G I +T+
Sbjct: 77 D--------FQRGLNSKL-----LGQINLVRHGLPYLND----------GGSITLTSGIL 113
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYME 310
A I G AA + AL+GF A +E
Sbjct: 114 AQRPIPGGAAAATVNGALEGFVRAAAIE 141
>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 = 45.7 bits (109), Expect = 1e-05
Identities = 52/253 (20%), Positives = 98/253 (38%), Gaps = 63/253 (24%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S GIG + + RG + T++A C +P E +
Sbjct: 3 ITGASRGIGLELVRQLLARG-NNTVIA---------------TCRDPSAAT--ELAALGA 44
Query: 163 ACPNPKFIRFIEYVSLDISKDY----ENIRSALQPAMDRCGPVYMLVNCAGMALC-GTLE 217
+ + + LD++ + E + L A + +L+N AG+ G
Sbjct: 45 SHSR------LHILELDVTDEIAESAEAVAERLGDA-----GLDVLINNAGILHSYGPAS 93
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
E+ +D+ V +N+ G + +T+A + + + R I+
Sbjct: 94 EVDSEDLL---------------------EVFQVNVLGPLLLTQAFLPLLLKGARAKIIN 132
Query: 278 TASQAANLG---IYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPP---DTD-TPG 330
+S+ ++G G +Y +SK AL ++L +E+K+ G+T+ + L P TD
Sbjct: 133 ISSRVGSIGDNTSGGWYSYRASKAALNMLTKSLAVELKRDGITV-VSLHPGWVRTDMGGP 191
Query: 331 FENEEKSKPRETS 343
F + E S
Sbjct: 192 FAKNKGPITPEES 204
>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 = 45.5 bits (108), Expect = 2e-05
Identities = 56/243 (23%), Positives = 89/243 (36%), Gaps = 62/243 (25%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
T+ +TG ++GIGK A E A+RGA V + RD K +A EI++ N +
Sbjct: 3 TVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLNHEV-------- 54
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
+R ++ SL + + A + +D +L+N AG
Sbjct: 55 ---------IVRHLDLASLKSIRAFAAEFLAEEDRLD------VLINNAG---------- 89
Query: 220 TMQDIKVMEQPLWLR--GYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
VM P G+ + +N G +T L++ +K+ IV
Sbjct: 90 ------VMRCPYSKTEDGFEMQFG---------VNHLGHFLLTNLLLDLLKKSAPSRIVN 134
Query: 278 TASQAANLG-----------IYG-LAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPD 325
+S A G Y AY SK A F L ++ +G+T+ P
Sbjct: 135 VSSLAHKAGKINFDDLNSEKSYNTGFAYCQSKLANVLFTRELARRLQGTGVTVNALHPGV 194
Query: 326 TDT 328
T
Sbjct: 195 VRT 197
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 45.5 bits (108), Expect = 2e-05
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV-ARDEKKLLQAQEEIKK 144
VTG S GIGK +A+ A+ G + + AR K + EEI+
Sbjct: 9 VTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEA 51
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 45.4 bits (107), Expect = 3e-05
Identities = 58/233 (24%), Positives = 98/233 (42%), Gaps = 44/233 (18%)
Query: 98 NGTLS-VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
+G ++ VTG S GIG+ +A+ A GA V I K QA +E IR IE
Sbjct: 5 DGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNK---QAADET---------IREIE 52
Query: 157 YEEIKKACPNPKFIRFIEYVSLD-ISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT 215
K F+ + S+D + K E +++ LQ + + +LVN AG+ GT
Sbjct: 53 SNGGK------AFLIEADLNSIDGVKKLVEQLKNELQIRVG-TSEIDILVNNAGIGTQGT 105
Query: 216 LEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCI 275
+E T + + ++ ++ +N+ + + + ++ GR +
Sbjct: 106 IENTTEE---IFDE------------------IMAVNIKAPFFLIQQTLPLLRAEGR--V 142
Query: 276 VITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
+ +S LG G AY SK AL L + + G+T+ +P T T
Sbjct: 143 INISSAEVRLGFTGSIAYGLSKGALNTMTLPLAKHLGERGITVNTIMPGYTKT 195
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 45.2 bits (107), Expect = 3e-05
Identities = 52/255 (20%), Positives = 94/255 (36%), Gaps = 65/255 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV-ARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
+TGG+ GIG+ +A + GA V ++ E + + +E
Sbjct: 12 ITGGTRGIGRAIAEAFLREGAKVAVLYNSAENEAKELRE--------------------- 50
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
+ + + D+ + + ++ + + G V +LVN AG+ EE
Sbjct: 51 ---------KGVFTIKCDVG-NRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDE 100
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ M I +NL G I+ T + +K G IV AS
Sbjct: 101 EKYNKM---------------------IKINLNGAIYTTYEFLPLLKLSKNGAIVNIAS- 138
Query: 282 AANLGIYGLAA-----YTSSKFALKGFAEALYMEVKQSGLTITLCLPP--DTD-TPGFEN 333
N GI G AA Y +K + L E+ + G+ + P +TD T ++
Sbjct: 139 --NAGI-GTAAEGTTFYAITKAGIIILTRRLAFELGKYGIRVNAVAPGWVETDMTLSGKS 195
Query: 334 EEKSKPRETSLISQT 348
+E+++ ++T
Sbjct: 196 QEEAEKLRELFRNKT 210
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 45.3 bits (107), Expect = 3e-05
Identities = 38/142 (26%), Positives = 62/142 (43%), Gaps = 22/142 (15%)
Query: 183 DYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLAL 242
D + +++ Q A V +LVN AG+ G M+ +D
Sbjct: 63 DRDEVKALGQKAEADLEGVDILVNNAGITKDGLFVRMSDED------------------- 103
Query: 243 WRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALKG 302
W S V+++NL T +T+ L M +R G I+ S G G A Y +SK + G
Sbjct: 104 WDS--VLEVNLTATFRLTRELTHPMMRRRYGRIINITSVVGVTGNPGQANYCASKAGMIG 161
Query: 303 FAEALYMEVKQSGLTITLCLPP 324
F+++L E+ +T+ C+ P
Sbjct: 162 FSKSLAQEIATRNVTVN-CVAP 182
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 45.4 bits (108), Expect = 3e-05
Identities = 17/46 (36%), Positives = 23/46 (50%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPN 148
VTG ++G+G A A +GAHV + R+ K A I A P
Sbjct: 21 VTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPG 66
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 45.1 bits (107), Expect = 4e-05
Identities = 47/215 (21%), Positives = 80/215 (37%), Gaps = 56/215 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S G+G+ +A + ++G HV ++R E K L E N
Sbjct: 6 ITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQY----NSNLT---------- 51
Query: 163 ACPNPKFIRFIEYVSLDIS------KDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTL 216
+ SLD+ ++ I S++Q D ++ L+N AGM
Sbjct: 52 ------------FHSLDLQDVHELETNFNEILSSIQE--DNVSSIH-LINNAGMV----- 91
Query: 217 EEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQR-GRGCI 275
++ I+ E + H LNL + +T ++ K +
Sbjct: 92 --APIKPIEKAESEELITNVH-------------LNLLAPMILTSTFMKHTKDWKVDKRV 136
Query: 276 VITASQAANLGIYGLAAYTSSKFALKGFAEALYME 310
+ +S AA +G +AY SSK L F + + E
Sbjct: 137 INISSGAAKNPYFGWSAYCSSKAGLDMFTQTVATE 171
>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 = 44.8 bits (106), Expect = 4e-05
Identities = 45/209 (21%), Positives = 69/209 (33%), Gaps = 59/209 (28%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVA-RDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTG S GIG+ +A E A RG + I D+ + + E+ A
Sbjct: 6 VTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLAAGRR------------- 52
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDR----CGPVYMLVNCAGMALCGTLE 217
Y DI + S + +D+ G + LVN AG+A+
Sbjct: 53 -----------AIYFQADIGE-----LSDHEALLDQAWEDFGRLDCLVNNAGIAVRP--- 93
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM------KQRG 271
D+ + + + R +I +NL G +T+A+ M
Sbjct: 94 ---RGDLLDLTEDSFDR-------------LIAINLRGPFFLTQAVARRMVEQPDRFDGP 137
Query: 272 RGCIVITASQAANLGIYGLAAYTSSKFAL 300
I+ S A L Y SK L
Sbjct: 138 HRSIIFVTSINAYLVSPNRGEYCISKAGL 166
>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 = 44.9 bits (106), Expect = 4e-05
Identities = 52/231 (22%), Positives = 92/231 (39%), Gaps = 50/231 (21%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG + GIG+ A + GA V I + L A+ + P
Sbjct: 8 ITGSARGIGRAFAQAYVREGARVAIA---DINLEAARATAAEIGPA-------------- 50
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
AC +SLD++ D +I + +DR G + +LVN A + + ++T
Sbjct: 51 ACA----------ISLDVT-DQASIDRCVAALVDRWGSIDILVNNAALFDLAPIVDIT-- 97
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT-ASQ 281
R + RL +N+ GT+ M +A+ M +GRG +I ASQ
Sbjct: 98 -----------RESYDRL--------FAINVSGTLFMMQAVARAMIAQGRGGKIINMASQ 138
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFE 332
A G + Y ++K A+ ++ + + + G+ + P D ++
Sbjct: 139 AGRRGEALVGVYCATKAAVISLTQSAGLNLIRHGINVNAIAPGVVDGEHWD 189
>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 = 45.1 bits (107), Expect = 6e-05
Identities = 49/241 (20%), Positives = 88/241 (36%), Gaps = 60/241 (24%)
Query: 77 GVRTVASREP----HLQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKR-GAHVTIVAR- 130
G+R V + EP G VTGG+ GIG+ +A A+R GA + ++ R
Sbjct: 180 GLRYVQTLEPLPLPAGAAASAPLKPGGVYLVTGGAGGIGRALARALARRYGARLVLLGRS 239
Query: 131 ----DEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYEN 186
+E+ Q ++ + Y+S D++ D
Sbjct: 240 PLPPEEEWKAQTLAALEALGAR------------------------VLYISADVT-DAAA 274
Query: 187 IRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSW 246
+R L+ +R G + +++ AG+ L + T +D +
Sbjct: 275 VRRLLEKVRERYGAIDGVIHAAGVLRDALLAQKTAEDFE--------------------- 313
Query: 247 TVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEA 306
V+ + G +++ +AL V+ +S +A G G A Y ++ L FA
Sbjct: 314 AVLAPKVDGLLNLAQAL----ADEPLDFFVLFSSVSAFFGGAGQADYAAANAFLDAFAAY 369
Query: 307 L 307
L
Sbjct: 370 L 370
>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 = 42.9 bits (102), Expect = 8e-05
Identities = 31/131 (23%), Positives = 57/131 (43%), Gaps = 24/131 (18%)
Query: 99 GTLSVTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEY 157
GT VTGG G+G +A A+RGA H+ +++R +A+ +
Sbjct: 1 GTYLVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALL--------------- 45
Query: 158 EEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLE 217
E++ + V+ D+S D + +R+ L P+ +++ AG+ L
Sbjct: 46 AELEARGAE------VTVVACDVS-DRDAVRALLAEIRADGPPLRGVIHAAGVLRDALLA 98
Query: 218 EMTMQDI-KVM 227
MT +D +V+
Sbjct: 99 NMTAEDFARVL 109
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 43.3 bits (102), Expect = 1e-04
Identities = 37/123 (30%), Positives = 56/123 (45%), Gaps = 28/123 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VT S GIG +VA E K+GA V I +R+E+ L +A +E+K EY E
Sbjct: 5 VTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELK------------EYGE--- 49
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT--LEEMT 220
+ V D+S D +++++ ++ A + G + LV AG C L E
Sbjct: 50 ----------VYAVKADLS-DKDDLKNLVKEAWELLGGIDALVWNAGNVRCEPCMLHEAG 98
Query: 221 MQD 223
D
Sbjct: 99 YSD 101
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 43.4 bits (103), Expect = 1e-04
Identities = 46/220 (20%), Positives = 77/220 (35%), Gaps = 63/220 (28%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVA-RDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTGG GIG +A A G + I D+++L Q+E++
Sbjct: 7 VTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELR------------------ 48
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALC--GTLEEM 219
+ + D++ D + L A G + LVN AG+ + G L ++
Sbjct: 49 ------ALGVEVIFFPADVA-DLSAHEAMLDAAQAAWGRIDCLVNNAGVGVKVRGDLLDL 101
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSW-TVIDLNLYGTIHMTKALVEGMKQRGR------ 272
T S+ V+ +NL G +T+A+ + M +
Sbjct: 102 TP----------------------ESFDRVLAINLRGPFFLTQAVAKRMLAQPEPEELPH 139
Query: 273 GCIV-ITASQAANLGIYGLAAYTSSKFAL----KGFAEAL 307
IV +++ A + Y SK L + FA L
Sbjct: 140 RSIVFVSSVNAIMVSP-NRGEYCISKAGLSMAAQLFAARL 178
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 43.1 bits (102), Expect = 1e-04
Identities = 59/231 (25%), Positives = 88/231 (38%), Gaps = 55/231 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG S GIG+ +A A++GAHV + +R + I A K
Sbjct: 13 VTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVAAG--------------GK 58
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A I +E I + +IR +R G + +LVN A
Sbjct: 59 AEALACHIGEME----QIDALFAHIR-------ERHGRLDILVNNAAA------------ 95
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITAS-- 280
P + T L ++ TV D+N+ G M+ + MK++G G IV AS
Sbjct: 96 ------NPYFGHILDTDLGAFQK-TV-DVNIRGYFFMSVEAGKLMKEQGGGSIVNVASVN 147
Query: 281 --QAANL-GIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
+ GIY + +K A+ +A E G+ + LP TDT
Sbjct: 148 GVSPGDFQGIYSI-----TKAAVISMTKAFAKECAPFGIRVNALLPGLTDT 193
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 43.0 bits (102), Expect = 2e-04
Identities = 44/209 (21%), Positives = 76/209 (36%), Gaps = 55/209 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG+ GIG +A GA V + R + + F
Sbjct: 11 VTGGTRGIGAGIARAFLAAGATVVVCGRRAP-----------ETVDGRPAEFH------- 52
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A D+ +D + + + + ++R G + +LVN AG + E + +
Sbjct: 53 AA--------------DV-RDPDQVAALVDAIVERHGRLDVLVNNAGGSPYALAAEASPR 97
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM-KQRGRGCIVITASQ 281
+H + +++LNL + + +A M +Q G G IV S
Sbjct: 98 -------------FHEK--------IVELNLLAPLLVAQAANAVMQQQPGGGSIVNIGSV 136
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYME 310
+ G AAY ++K L +L +E
Sbjct: 137 SGRRPSPGTAAYGAAKAGLLNLTRSLAVE 165
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 42.6 bits (101), Expect = 2e-04
Identities = 21/55 (38%), Positives = 26/55 (47%), Gaps = 8/55 (14%)
Query: 88 LQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
LQ K L +TGG+SGIG A + GA V I RD L A+ E+
Sbjct: 4 LQGKTAL--------ITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARAEL 50
>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 = 40.5 bits (96), Expect = 5e-04
Identities = 25/123 (20%), Positives = 51/123 (41%), Gaps = 23/123 (18%)
Query: 103 VTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
+TGG G+G+ +A A+RGA + +++R A + E++
Sbjct: 5 ITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALL---------------AELE 49
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
A + V+ D++ D + + + L GP+ +++ AG+ G L +T
Sbjct: 50 AA------GARVTVVACDVA-DRDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLASLTP 102
Query: 222 QDI 224
+
Sbjct: 103 ERF 105
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR family
domains have the characteristic active site tetrad and a
well-conserved NAD(P)-binding motif. This subgroup is
not well characterized, its members are annotated as
having a variety of putative functions. One
characterized member is Pseudomonas fluorescens MupV a
protein involved in the biosynthesis of Mupirocin, a
polyketide-derived antibiotic. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 41.2 bits (97), Expect = 7e-04
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
VTGG+ +G+H+ + G V ++ R E L +A E I++A +R +E
Sbjct: 3 VTGGTGFLGRHLVKRLLENGFKVLVLVRSE-SLGEAHERIEEAGLEADRVRVLE 55
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 275
Score = 40.7 bits (95), Expect = 9e-04
Identities = 10/33 (30%), Positives = 14/33 (42%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKL 135
VTG + +G V E RG V R+ +
Sbjct: 5 VTGATGFVGGAVVRELLARGHEVRAAVRNPEAA 37
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 40.8 bits (96), Expect = 0.001
Identities = 18/48 (37%), Positives = 24/48 (50%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPK 150
VTG S G+G +A A GA V + R+ K A I+ A P+ K
Sbjct: 19 VTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAK 66
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 40.1 bits (94), Expect = 0.001
Identities = 63/232 (27%), Positives = 94/232 (40%), Gaps = 52/232 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG S GIG A+ AA+RG V + + A E + +A IR E +
Sbjct: 7 ITGASRGIGAATALLAAERGYAVCLNYLRNR---DAAEAVVQA------IRRQGGEALA- 56
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDR-CGPVYMLVNCAGMALCGTLE-EMT 220
V+ D++ + + +R L A+DR G + LVN AG+ LE +M
Sbjct: 57 -------------VAADVADEADVLR--LFEAVDRELGRLDALVNNAGI-----LEAQMR 96
Query: 221 MQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQR--GR-GCIVI 277
++ M+ R + T N+ G+ + V+ M R GR G IV
Sbjct: 97 LEQ---MDAARLTRIFAT-------------NVVGSFLCAREAVKRMSTRHGGRGGAIVN 140
Query: 278 TASQAANLGIYG-LAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
+S AA LG G Y +SK A+ L EV G+ + P T
Sbjct: 141 VSSMAARLGSPGEYIDYAASKGAIDTMTIGLAKEVAAEGIRVNAVRPGVIYT 192
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 40.0 bits (93), Expect = 0.002
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
+TG S+GIGK VA+ + GA V I AR L + +EI
Sbjct: 14 ITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEI 53
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 39.4 bits (92), Expect = 0.002
Identities = 43/198 (21%), Positives = 72/198 (36%), Gaps = 47/198 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG +GIGK +AI A GA V + + +EI++ +
Sbjct: 16 ITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGG----------QAFAC 65
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
C DI+ + + + A+ + G V +LVN AG G + M
Sbjct: 66 RC--------------DIT-SEQELSALADFALSKLGKVDILVNNAG---GGGPKPFDMP 107
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
M +LN++ H+++ + M++ G G I+ S A
Sbjct: 108 ----MADFRR---------------AYELNVFSFFHLSQLVAPEMEKNGGGVILTITSMA 148
Query: 283 ANLGIYGLAAYTSSKFAL 300
A + +Y SSK A
Sbjct: 149 AENKNINMTSYASSKAAA 166
>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 = 39.3 bits (92), Expect = 0.003
Identities = 55/275 (20%), Positives = 93/275 (33%), Gaps = 78/275 (28%)
Query: 102 SVTGGSSGIGKHVAIEAAKR-GAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEI 160
+TGG SG+G+ + +E GA V ++ R +K+ + + + A
Sbjct: 8 LITGGGSGLGRAL-VERFVAEGAKVAVLDRSAEKVAELRADFGDA--------------- 51
Query: 161 KKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGM-----ALCGT 215
+ V D+ + A+ ++R G + + AG+ +L
Sbjct: 52 ------------VVGVEGDVR-SLADNERAVARCVERFGKLDCFIGNAGIWDYSTSLVDI 98
Query: 216 LEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCI 275
EE K+ E + + +N+ G I KA + + G +
Sbjct: 99 PEE------KLDE------AFDE---------LFHINVKGYILGAKAALPALYA-TEGSV 136
Query: 276 VITASQAANLGIY---GLAAYTSSKFALKGFAEALYME---------VKQSGLTITLCLP 323
+ T S N G Y G YT+SK A+ G + L E V G+ L P
Sbjct: 137 IFTVS---NAGFYPGGGGPLYTASKHAVVGLVKQLAYELAPHIRVNGVAPGGMVTDLRGP 193
Query: 324 PDTDTPGFENEEKSKPRETSLISQ---TGGLYRPE 355
+ G S P ++ G PE
Sbjct: 194 A---SLGQGETSISTPPLDDMLKSILPLGFAPEPE 225
>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 = 39.4 bits (92), Expect = 0.003
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARD-EKKLLQAQEEIKK 144
VTG S GIG+ +A++ + GA V I R +L EEI+
Sbjct: 8 VTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEA 50
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 39.2 bits (92), Expect = 0.004
Identities = 20/47 (42%), Positives = 28/47 (59%)
Query: 96 PTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
GT+ +TG SSG+G + A AKRG HV + R+ KK A +E+
Sbjct: 4 DAKGTVIITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQEL 50
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 39.6 bits (93), Expect = 0.004
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRG-AHVTIVARDEKKLLQAQEEIKKACPNPKFIRFI 155
T T+ VTGG IG + + K + + +RDE KL E+++ P K +I
Sbjct: 249 TGKTVLVTGGGGSIGSELCRQILKFNPKEIILFSRDEYKLYLIDMELREKFPELKLRFYI 308
>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 = 38.8 bits (91), Expect = 0.004
Identities = 13/49 (26%), Positives = 20/49 (40%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKF 151
VTG + I H+ + K G V R K + + +K A N +
Sbjct: 4 VTGATGFIASHIVEQLLKAGYKVRGTVRSLSKSAKLKALLKAAGYNDRL 52
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 38.7 bits (90), Expect = 0.004
Identities = 52/222 (23%), Positives = 91/222 (40%), Gaps = 49/222 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG ++G+G+ +AI AK GA + V E QAQ E
Sbjct: 13 ITGCNTGLGQGMAIGLAKAGADIVGVGVAEAPETQAQVE--------------------- 51
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R +++ D+ + ++I S + A++ G + +L+N AG+ L E +
Sbjct: 52 -----ALGRKFHFITADLIQQ-KDIDSIVSQAVEVMGHIDILINNAGIIRRQDLLEFGNK 105
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALV-EGMKQRGRGCIVITASQ 281
D W VI++N +++A+ + +KQ G I+ AS
Sbjct: 106 D-------------------WDD--VININQKTVFFLSQAVAKQFVKQGNGGKIINIASM 144
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+ G + +YT+SK A+ G AL E+ Q + + P
Sbjct: 145 LSFQGGIRVPSYTASKSAVMGLTRALATELSQYNINVNAIAP 186
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 38.9 bits (91), Expect = 0.004
Identities = 29/111 (26%), Positives = 45/111 (40%), Gaps = 29/111 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG SG+G A+ GAHV + AR +A I
Sbjct: 31 VTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGIDG------------------ 72
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALC 213
+E V LD++ D E++R+ + +D + +L+N AG+ C
Sbjct: 73 ----------VEVVMLDLA-DLESVRAFAERFLDSGRRIDILINNAGVMAC 112
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 38.4 bits (90), Expect = 0.004
Identities = 54/245 (22%), Positives = 81/245 (33%), Gaps = 80/245 (32%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
+ + G +S I + A A GA + + ARD ++L + ++++
Sbjct: 3 KILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLR---------------- 46
Query: 160 IKKACPNPKFIRF---IEYVSLDISKDYENIRSALQPAM-DRCGPVYMLVNCA-GMALCG 214
R + LDI D + A D + +V A G
Sbjct: 47 ----------ARGAVAVSTHELDIL-DTASH-----AAFLDSLPALPDIVLIAVG----- 85
Query: 215 TLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
T+ D E LAL N G I + L + RG G
Sbjct: 86 -----TLGDQAACEADP-------ALAL----REFRTNFEGPIALLTLLANRFEARGSGT 129
Query: 275 IVITASQAANLG-----IYGLAAYTSSKFALKGFAEALYMEVKQSG---LTITLCLPPDT 326
IV +S A + G +YG S+K AL F L + +SG LT+
Sbjct: 130 IVGISSVAGDRGRASNYVYG-----SAKAALTAFLSGLRNRLFKSGVHVLTV-------- 176
Query: 327 DTPGF 331
PGF
Sbjct: 177 -KPGF 180
>gnl|CDD|187555 cd05244, BVR-B_like_SDR_a, biliverdin IX beta reductase (BVR-B, aka
flavin reductase)-like proteins; atypical (a) SDRs.
Human BVR-B catalyzes pyridine nucleotide-dependent
production of bilirubin-IX beta during fetal
development; in the adult BVR-B has flavin and ferric
reductase activities. Human BVR-B catalyzes the
reduction of FMN, FAD, and riboflavin. Recognition of
flavin occurs mostly by hydrophobic interactions,
accounting for the broad substrate specificity. Atypical
SDRs are distinct from classical SDRs. BVR-B does not
share the key catalytic triad, or conserved tyrosine
typical of SDRs. The glycine-rich NADP-binding motif of
BVR-B is GXXGXXG, which is similar but not identical to
the pattern seen in extended SDRs. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 207
Score = 38.0 bits (89), Expect = 0.005
Identities = 14/41 (34%), Positives = 20/41 (48%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIK 143
+ G + G + EA RG VT + RD KL E++K
Sbjct: 4 IIGATGRTGSAIVREALARGHEVTALVRDPAKLPAEHEKLK 44
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 38.1 bits (89), Expect = 0.006
Identities = 46/228 (20%), Positives = 87/228 (38%), Gaps = 61/228 (26%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVAR--DEKKLLQAQEEIKKACPNPKFIRFIEYEEI 160
VTGGS G+G +A A+ GA V + ++ A E +A
Sbjct: 10 VTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALADELGDRAIA------------- 56
Query: 161 KKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCG-PVYMLVNCA-------GMAL 212
+ D++ D E +++ A + G P+ +VN A G A
Sbjct: 57 ---------------LQADVT-DREQVQAMFATATEHFGKPITTVVNNALADFSFDGDAR 100
Query: 213 CGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGR 272
+++T +D + +L + ++ G ++ +A + GM+++G
Sbjct: 101 -KKADDITWED------------FQQQL---------EGSVKGALNTIQAALPGMREQGF 138
Query: 273 GCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITL 320
G I+ + + YT++K AL G L E+ G+T+ +
Sbjct: 139 GRIINIGTNLFQNPVVPYHDYTTAKAALLGLTRNLAAELGPYGITVNM 186
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 38.2 bits (89), Expect = 0.006
Identities = 47/200 (23%), Positives = 75/200 (37%), Gaps = 49/200 (24%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG G+G +A+ A+ GA V I AR E +L + E+I+ A
Sbjct: 15 VTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAG---------------- 58
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
R V+ D++ E A++ G + ++VN G + L + +
Sbjct: 59 --------RRAHVVAADLA-HPEATAGLAGQAVEAFGRLDIVVNNVGGTMPNPLLSTSTK 109
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIH-MTKALVEGM-KQRGRGCIVITAS 280
D+ N+ T H +T A V M + G G ++ +S
Sbjct: 110 DLA---------------------DAFTFNV-ATAHALTVAAVPLMLEHSGGGSVINISS 147
Query: 281 QAANLGIYGLAAYTSSKFAL 300
L G AAY ++K AL
Sbjct: 148 TMGRLAGRGFAAYGTAKAAL 167
>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 = 38.0 bits (89), Expect = 0.008
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVA-RDEKKLLQAQEEIKKACPNPKFIRFI 155
T+ VTGG+ IG + + K G IV RDE KL + E++ P+ K I
Sbjct: 1 KGKTILVTGGAGSIGSELVRQILKFGPKKLIVFDRDENKLHELVRELRSRFPHDKLRFII 60
Query: 156 E 156
Sbjct: 61 G 61
>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 = 37.9 bits (88), Expect = 0.008
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 99 GTLSVTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEI 142
GT+ +TG SSG+G A A+RG HV + RD K QA +E+
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEV 46
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 37.5 bits (87), Expect = 0.010
Identities = 68/269 (25%), Positives = 102/269 (37%), Gaps = 61/269 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTI-VARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK 161
VTGGS GIG+ A+ A+ G V + ++ + I +A ++
Sbjct: 6 VTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGGKAFVLQ-------- 57
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDR-CGPVYMLVNCAGMALC-GTLEEM 219
DIS EN A+ A+D+ P+ LVN AG+ T+E +
Sbjct: 58 ----------------ADISD--ENQVVAMFTAIDQHDEPLAALVNNAGILFTQCTVENL 99
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQR--GR-GCIV 276
T + I V+ N+ G + V+ M + G G IV
Sbjct: 100 TAERIN---------------------RVLSTNVTGYFLCCREAVKRMALKHGGSGGAIV 138
Query: 277 ITASQAANLGIYG-LAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPD---TDTPGFE 332
+S A+ LG G Y +SK A+ L +EV G+ + C+ P T+
Sbjct: 139 NVSSAASRLGAPGEYVDYAASKGAIDTLTTGLSLEVAAQGIRVN-CVRPGFIYTEMHASG 197
Query: 333 NEEKSKPRETSLIS-QTGGLYRPEVVKQS 360
E R S I Q GG +PE V Q+
Sbjct: 198 GEPGRVDRVKSNIPMQRGG--QPEEVAQA 224
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 36.9 bits (86), Expect = 0.014
Identities = 44/247 (17%), Positives = 89/247 (36%), Gaps = 56/247 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
V GG +G + A+ G V + + +K +EI EY E
Sbjct: 7 VIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINA-----------EYGEGM- 54
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
D + + +++ + + + G V +LV AG+A + + +
Sbjct: 55 ----------AYGFGADATSE-QSVLALSRGVDEIFGRVDLLVYNAGIAKAAFITDFQLG 103
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM-KQRGRGCIVITASQ 281
D + +NL G + M + +G I+ S+
Sbjct: 104 DFD---------------------RSLQVNLVGYFLCAREFSRLMIRDGIQGRIIQINSK 142
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI-TLCLPPDTDTPGFENEEKSKPR 340
+ +G + Y+++KF G ++L +++ + G+T+ +L L +P F+
Sbjct: 143 SGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEYGITVHSLMLGNLLKSPMFQ-------- 194
Query: 341 ETSLISQ 347
SL+ Q
Sbjct: 195 --SLLPQ 199
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 36.6 bits (85), Expect = 0.015
Identities = 42/198 (21%), Positives = 71/198 (35%), Gaps = 45/198 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQA-QEEIKKACPNPKFIRFIEYEEIK 161
+TG + G+G+ +A A++GA V + ++ L A EI A
Sbjct: 4 ITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEINAAHGEGVAFAA------- 56
Query: 162 KACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTM 221
D+ D ++ L A D G + +LVN AG+ G +E++ +
Sbjct: 57 ---------------VQDV-TDEAQWQALLAQAADAMGGLSVLVNNAGVGSFGAIEQIEL 100
Query: 222 QDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQ 281
+ WR V+ +N+ K + ++ IV +S
Sbjct: 101 DE-------------------WRR--VMAINVESIFLGCKHALPYLRASQPASIVNISSV 139
Query: 282 AANLGIYGLAAYTSSKFA 299
AA AY +SK A
Sbjct: 140 AAFKAEPDYTAYNASKAA 157
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 36.1 bits (84), Expect = 0.018
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKL 135
V G + G+ + E RG VT ++R+ K
Sbjct: 3 VIGATGKTGRRLVKELLARGHQVTALSRNPSKA 35
>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 = 36.3 bits (84), Expect = 0.023
Identities = 18/45 (40%), Positives = 24/45 (53%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKK 144
+ VTGGS GIG+ +A + GA V I AR + A EE+
Sbjct: 8 IVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSA 52
>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 = 35.8 bits (83), Expect = 0.025
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKK 144
V GG+ +G+ A+ A+ GA V +V RD ++ +A + ++
Sbjct: 33 VLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLRA 74
>gnl|CDD|187655 cd08952, KR_1_SDR_x, ketoreductase (KR), subgroup 1, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
KR domains found in many multidomain PKSs, including six
of seven Sorangium cellulosum PKSs (encoded by
spiDEFGHIJ) which participate in the synthesis of the
polyketide scaffold of the cytotoxic spiroketal
polyketide spirangien. These seven PKSs have either a
single PKS module (SpiF), two PKR modules
(SpiD,-E,-I,-J), or three PKS modules (SpiG,-H). This
subfamily includes the single KR domain of SpiF, the
first KR domains of SpiE,-G,H,-I,and #J, the third KR
domain of SpiG, and the second KR domain of SpiH. The
second KR domains of SpiE,-G, I, and #J, and the KR
domains of SpiD, belong to a different KR_FAS_SDR
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 480
Score = 36.4 bits (85), Expect = 0.029
Identities = 16/33 (48%), Positives = 23/33 (69%), Gaps = 1/33 (3%)
Query: 99 GTLSVTGGSSGIGKHVAIEAAKRGA-HVTIVAR 130
GT+ VTGG+ +G HVA A+RGA H+ + +R
Sbjct: 231 GTVLVTGGTGALGAHVARWLARRGAEHLVLTSR 263
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 35.9 bits (83), Expect = 0.035
Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 4/68 (5%)
Query: 68 RTNLEPPCRGVRTVASREPHLQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTI 127
R A+ + R P + T+ V G + IGK V E +RG +V
Sbjct: 34 RAAAASRGSRATAAAAAQSF----RSKEPKDVTVLVVGATGYIGKFVVRELVRRGYNVVA 89
Query: 128 VARDEKKL 135
VAR++ +
Sbjct: 90 VAREKSGI 97
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 36.0 bits (84), Expect = 0.042
Identities = 54/219 (24%), Positives = 81/219 (36%), Gaps = 55/219 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIK- 161
VTG + GIG +A A+ GAHV V D + A E + +
Sbjct: 215 VTGAARGIGAAIAEVLARDGAHV--VCLD---VPAAGEALAAVA-----------NRVGG 258
Query: 162 KACPNPKFIRFIEYVSLDISKD--YENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEM 219
A LDI+ I L +R G + ++V+ AG+ TL M
Sbjct: 259 TALA------------LDITAPDAPARIAEHLA---ERHGGLDIVVHNAGITRDKTLANM 303
Query: 220 TMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITA 279
A W S V+ +NL + +T+AL+ G IV +
Sbjct: 304 DE-------------------ARWDS--VLAVNLLAPLRITEALLAAGALGDGGRIVGVS 342
Query: 280 SQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTI 318
S + G G Y +SK + G +AL + + G+TI
Sbjct: 343 SISGIAGNRGQTNYAASKAGVIGLVQALAPLLAERGITI 381
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 34.9 bits (81), Expect = 0.043
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKK 134
V G + +G+HV E RG V + RD +
Sbjct: 4 VVGATGKVGRHVVRELLDRGYQVRALVRDPSQ 35
>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 = 35.4 bits (82), Expect = 0.043
Identities = 41/235 (17%), Positives = 72/235 (30%), Gaps = 61/235 (25%)
Query: 99 GTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYE 158
+ V GG +G V RG + + D L EE +
Sbjct: 2 RVVLVYGGRGALGSAVVQAFKSRGW--WVASID----LAENEEADASI------------ 43
Query: 159 EIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEE 218
+ LD E + + G V L+ AG G+ +
Sbjct: 44 -----------------IVLDSDSFTEQAKQVVASVARLSGKVDALICVAGGWAGGSAKS 86
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSW-TVIDLNLYGTIHMTKALVEGMKQRGRGCIVI 277
+ ++W + NL+ + + + + G +V+
Sbjct: 87 KS---------------------FVKNWDLMWKQNLWTSFIASHLATKHLLSGGL--LVL 123
Query: 278 TASQAANLGIYGLAAYTSSKFALKGFAEALYME--VKQSGLTITLCLPPDTDTPG 330
T ++AA G+ Y ++K A+ ++L E +G T LP DTP
Sbjct: 124 TGAKAALEPTPGMIGYGAAKAAVHQLTQSLAAENSGLPAGSTANAILPVTLDTPA 178
>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 = 35.3 bits (82), Expect = 0.048
Identities = 9/39 (23%), Positives = 16/39 (41%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEE 141
VTG + +G V + A V + R+ +K +
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVALVRNPEKAKAFAAD 41
>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 = 35.4 bits (82), Expect = 0.049
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 12/65 (18%)
Query: 67 PRTNLEPPCRGVRTVASREPHLQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGA-HV 125
PR L +A+ P YL +TGG G+G VA A RGA H+
Sbjct: 130 PR--LVRAPAAALELAAA-PGGLDGTYL--------ITGGLGGLGLLVARWLAARGARHL 178
Query: 126 TIVAR 130
+++R
Sbjct: 179 VLLSR 183
>gnl|CDD|225462 COG2910, COG2910, Putative NADH-flavin reductase [General function
prediction only].
Length = 211
Score = 34.6 bits (80), Expect = 0.068
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 101 LSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQ-EEIKKA 145
+++ G S G + EA KRG VT + R+ KL Q I +
Sbjct: 3 IAIIGASGKAGSRILKEALKRGHEVTAIVRNASKLAARQGVTILQK 48
>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 = 34.5 bits (79), Expect = 0.075
Identities = 48/245 (19%), Positives = 93/245 (37%), Gaps = 57/245 (23%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTGG GIGK + ++ + G V DE+ R ++ E +
Sbjct: 6 VTGGGHGIGKQICLDFLEAGDKVVFADIDEE-------------------RGADFAEAEG 46
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
PN + +V D++ D ++ + +++ G + +LVN A G L + ++
Sbjct: 47 --PN------LFFVHGDVA-DETLVKFVVYAMLEKLGRIDVLVNNAARGSKGILSSLLLE 97
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
+ W R ++ +NL G +++ + + + +G I+ AS
Sbjct: 98 E--------WDR-------------ILSVNLTGPYELSRYCRDELI-KNKGRIINIASTR 135
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFENEEKSKPRET 342
A AY +SK L AL M + + +PG+ N + +
Sbjct: 136 AFQSEPDSEAYAASKGGLVALTHALAMSLGPDIRVNCI-------SPGWINTTEQQEFTA 188
Query: 343 SLISQ 347
+ ++Q
Sbjct: 189 APLTQ 193
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 34.5 bits (80), Expect = 0.082
Identities = 16/30 (53%), Positives = 20/30 (66%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDE 132
VTG + GIG+ VA+ AA GA V +V R E
Sbjct: 13 VTGAAQGIGRGVALRAAAEGARVVLVDRSE 42
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 34.4 bits (79), Expect = 0.10
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 251 LNLYGTIHMTKALVEGM-KQRGRGCIVITASQAANLG-IYGLAAYTSSKFALKGFAEALY 308
+N+ T ++ G K+ G I +T+ Q G + G AY ++K A+ +L
Sbjct: 126 VNVRATTLLSSQFARGFDKKSGGRIINMTSGQF--QGPMVGELAYAATKGAIDALTSSLA 183
Query: 309 MEVKQSGLTITLCLPPDTDTPGFENEE 335
EV G+T+ P TDT G+ EE
Sbjct: 184 AEVAHLGITVNAINPGPTDT-GWMTEE 209
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 34.4 bits (79), Expect = 0.10
Identities = 46/209 (22%), Positives = 76/209 (36%), Gaps = 53/209 (25%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SSGIG+ +A G V AR + + A
Sbjct: 6 ITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALAAAGFTA----------------- 48
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
V LD++ D + + G + +L+N AG G L
Sbjct: 49 -------------VQLDVN-DGAALARLAEELEAEHGGLDVLINNAGYGAMGPL------ 88
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQA 282
L G A+ R + + N++ + +T+AL ++ R RG +V S +
Sbjct: 89 ----------LDGGVE--AMRRQF---ETNVFAVVGVTRALFPLLR-RSRGLVVNIGSVS 132
Query: 283 ANLGIYGLAAYTSSKFALKGFAEALYMEV 311
L AY +SK A+ ++AL +E+
Sbjct: 133 GVLVTPFAGAYCASKAAVHALSDALRLEL 161
>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 = 34.5 bits (80), Expect = 0.11
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKR-GAHVTIVARDEKKL 135
T+ V GGS +G H A++ A+ GA V A +
Sbjct: 147 TVLVHGGSGAVG-HAAVQLARWAGARVIATASSAEGA 182
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 34.4 bits (79), Expect = 0.11
Identities = 52/203 (25%), Positives = 79/203 (38%), Gaps = 55/203 (27%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG ++G+G+ A+ A+ GA T+V D L A + + +EI+
Sbjct: 17 VTGAAAGLGRAEALGLARLGA--TVVVNDVASALDASDVL---------------DEIRA 59
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A V+ DIS + A G + ++VN AG+ L M+ +
Sbjct: 60 AGAK------AVAVAGDIS-QRATADELVATA-VGLGGLDIVVNNAGITRDRMLFNMSDE 111
Query: 223 D----IKVMEQPLWLRGY----HTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGC 274
+ I V LRG+ A WR+ KA G GR
Sbjct: 112 EWDAVIAVH-----LRGHFLLTRNAAAYWRA---------------KAKAAGGPVYGR-- 149
Query: 275 IVITASQAANLGIYGLAAYTSSK 297
IV T+S+A +G G A Y ++K
Sbjct: 150 IVNTSSEAGLVGPVGQANYGAAK 172
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site, and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 34.3 bits (80), Expect = 0.11
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 100 TLSVTGGSSGIGKHVAIEAAK-RGAHVTIVARDEKKLLQAQE 140
T+ + GG+SG+G AI+ AK GA V A E+KL +
Sbjct: 142 TVLIHGGASGVGTA-AIQLAKALGARVIATAGSEEKLEACRA 182
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 34.0 bits (78), Expect = 0.12
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 98 NGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKK 144
+++ G S G+G VA A K GA V I +R+E KL + ++ + K
Sbjct: 5 GKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSK 51
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 33.5 bits (77), Expect = 0.15
Identities = 14/28 (50%), Positives = 15/28 (53%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVAR 130
VTG S GIG A A GAHV + R
Sbjct: 11 VTGSSRGIGADTAKILAGAGAHVVVNYR 38
>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 = 33.3 bits (76), Expect = 0.18
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 4/44 (9%)
Query: 103 VTGGSSGIGKHVAIEAAKR----GAHVTIVARDEKKLLQAQEEI 142
VTG S G G+ +A E AK G+ + + AR+++ L Q + EI
Sbjct: 5 VTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEI 48
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 33.0 bits (75), Expect = 0.19
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
VTGG GIG++ A+ AK+GA V + D++ EEI
Sbjct: 21 VTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEI 60
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 33.2 bits (76), Expect = 0.19
Identities = 52/235 (22%), Positives = 83/235 (35%), Gaps = 52/235 (22%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTI-VARDEKKLLQAQEEIKKACPNPKFIRFIEYE 158
+ +TG S GIG+ A+ AA RG V I ARD + + ++ A
Sbjct: 4 VVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRAAG------------ 51
Query: 159 EIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGM-ALCGTLE 217
+AC V+ D++ + ++ + G + LVN AG+ A L
Sbjct: 52 --GRACV----------VAGDVANE-ADVIAMFDAVQSAFGRLDALVNNAGIVAPSMPLA 98
Query: 218 EMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGM-KQRG--RGC 274
+M ++ M D N+ G + + RG G
Sbjct: 99 DMDAARLRRM---------------------FDTNVLGAYLCAREAARRLSTDRGGRGGA 137
Query: 275 IVITASQAANLGI-YGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDT 328
IV +S A+ LG Y SK A+ L E+ G+ + P +T
Sbjct: 138 IVNVSSIASRLGSPNEYVDYAGSKGAVDTLTLGLAKELGPHGVRVNAVRPGLIET 192
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 33.2 bits (76), Expect = 0.20
Identities = 46/216 (21%), Positives = 79/216 (36%), Gaps = 54/216 (25%)
Query: 90 MKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIK----KA 145
M + + +TG + GIG +A A+ GA + I ++ A +++ KA
Sbjct: 1 MNDLFSLAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIKA 60
Query: 146 CPNPKFIRFIEYEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLV 205
P +E++ A IE++ DI GP+ +L+
Sbjct: 61 HAAP--FNVTHKQEVEAA---------IEHIEKDI------------------GPIDVLI 91
Query: 206 NCAGMALCGTLEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVE 265
N AG+ E Q+ W VI +N +++A+
Sbjct: 92 NNAGIQRRHPFTEFPEQE-------------------WND--VIAVNQTAVFLVSQAVAR 130
Query: 266 GMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALK 301
M +R G I+ S + LG + Y +SK A+K
Sbjct: 131 YMVKRQAGKIINICSMQSELGRDTITPYAASKGAVK 166
>gnl|CDD|217199 pfam02719, Polysacc_synt_2, Polysaccharide biosynthesis protein.
This is a family of diverse bacterial polysaccharide
biosynthesis proteins including the CapD protein, WalL
protein mannosyl-transferase and several putative
epimerases (e.g. WbiI).
Length = 280
Score = 33.2 bits (77), Expect = 0.20
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 5/67 (7%)
Query: 103 VTGGSSGIGKHVAIEAAKRG-AHVTIVARDEKKLLQAQEEIKKACPNPKFIRFI----EY 157
VTGG IG + + K + + +RDE KL + ++E+++ +PK FI +
Sbjct: 3 VTGGGGSIGSELCRQILKFNPKKIILFSRDEFKLYEIRQELRQEYNDPKLRFFIGDVRDR 62
Query: 158 EEIKKAC 164
E +++A
Sbjct: 63 ERLERAM 69
>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 = 33.4 bits (77), Expect = 0.21
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKR-GAHVTIVARDEKKLLQAQE 140
T+ + GG+SGIG AI+ AK GA V A ++K +
Sbjct: 142 TVLIHGGASGIGTT-AIQLAKAFGARVFTTAGSDEKCAACEA 182
>gnl|CDD|176228 cd08267, MDR1, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 33.3 bits (77), Expect = 0.21
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 103 VTGGSSGIGKHVAIEAAK-RGAHVTIVARDEK 133
+ G S G+G A++ AK GAHVT V
Sbjct: 149 INGASGGVG-TFAVQIAKALGAHVTGVCSTRN 179
>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 = 33.0 bits (76), Expect = 0.22
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLL 136
V G + G V + K G V + RD K L
Sbjct: 3 VFGATGYQGGSVVRASLKAGHPVRALVRDPKSEL 36
>gnl|CDD|187553 cd05242, SDR_a8, atypical (a) SDRs, subgroup 8. This subgroup
contains atypical SDRs of unknown function. Proteins in
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that resembles that of the extended SDRs,
(GXXGXXG or GGXGXXG), but lacks the characteristic
active site residues of the SDRs. A Cys often replaces
the usual Lys of the YXXXK active site motif, while the
upstream Ser is generally present and Arg replaces the
usual Asn. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 296
Score = 33.4 bits (77), Expect = 0.23
Identities = 11/43 (25%), Positives = 19/43 (44%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
+ +TGG+ IG+ + G V +++R K E I
Sbjct: 1 KIVITGGTGFIGRALTRRLTAAGHEVVVLSRRPGKAEGLAEVI 43
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 33.4 bits (76), Expect = 0.23
Identities = 11/41 (26%), Positives = 16/41 (39%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIK 143
VTGG+ IG H+ G V + R L ++
Sbjct: 5 VTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDPLLSGVE 45
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 33.3 bits (76), Expect = 0.23
Identities = 53/228 (23%), Positives = 91/228 (39%), Gaps = 47/228 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
+TG SGIG+ AI A+ GA + + E++ Q E+ ++ I+ E +K
Sbjct: 60 ITGADSGIGRATAIAFAREGADIALNYLPEEE--QDAAEV---------VQLIQ-AEGRK 107
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
A P + KD R ++ A+ G + +LVN AG ++ ++
Sbjct: 108 AVALPGDL-----------KDEAFCRQLVERAVKELGGLDILVNIAG-------KQTAVK 149
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVI-TASQ 281
DI + + + T N+Y + KA + + G +I T S
Sbjct: 150 DIADITTEQFDATFKT-------------NVYAMFWLCKAAIPHLPP---GASIINTGSI 193
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTP 329
+ L Y S+K A+ F +AL +V + G+ + P TP
Sbjct: 194 QSYQPSPTLLDYASTKAAIVAFTKALAKQVAEKGIRVNAVAPGPVWTP 241
>gnl|CDD|143426 cd07108, ALDH_MGR_2402, Magnetospirillum NAD(P)+-dependent aldehyde
dehydrogenase MSR-1-like. NAD(P)+-dependent aldehyde
dehydrogenase of Magnetospirillum gryphiswaldense MSR-1
(MGR_2402) , and other similar sequences, are present in
this CD.
Length = 457
Score = 33.5 bits (77), Expect = 0.24
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 106 GSSGIGKHVAIEAAKRGAHVTI 127
GS+ +GK + AA R V++
Sbjct: 203 GSTEVGKIIYRAAADRLIPVSL 224
>gnl|CDD|200089 TIGR01289, LPOR, light-dependent protochlorophyllide reductase.
This model represents the light-dependent,
NADPH-dependent form of protochlorophyllide reductase.
It belongs to the short chain alcohol dehydrogenase
family, in contrast to the nitrogenase-related
light-independent form [Biosynthesis of cofactors,
prosthetic groups, and carriers, Chlorophyll and
bacteriochlorphyll].
Length = 314
Score = 32.9 bits (75), Expect = 0.29
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 96 PTNGTLSVTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKA 145
T+ +TG SSG+G + A A G HV + RD L+A++ K
Sbjct: 1 QQKPTVIITGASSGLGLYAAKALAATGEWHVIMACRD---FLKAEQAAKSL 48
>gnl|CDD|176231 cd08270, MDR4, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 305
Score = 32.7 bits (75), Expect = 0.37
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKK 134
VTG S G+G+ AA GAHV V +
Sbjct: 138 VTGASGGVGRFAVQLAALAGAHVVAVVGSPAR 169
>gnl|CDD|187575 cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in
this subgroup are poorly defined and have been
identified putatively as isoflavones reductase, sugar
dehydratase, mRNA binding protein etc. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
retain the canonical active site triad (though not the
upstream Asn found in most SDRs) but have an unusual
putative glycine-rich NAD(P)-binding motif, GGXXXXG, in
the usual location. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 250
Score = 32.3 bits (74), Expect = 0.44
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKL 135
+ GG+ IGK + E G VT+ R K
Sbjct: 5 IIGGTRFIGKALVEELLAAGHDVTVFNRGRTKP 37
>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 = 31.6 bits (72), Expect = 0.45
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKL 135
+ G + IG+ +A E ++G VT++ R+ K+L
Sbjct: 3 ILGATGFIGRALARELLEQGHEVTLLVRNTKRL 35
>gnl|CDD|217913 pfam04127, DFP, DNA / pantothenate metabolism flavoprotein. The
DNA/pantothenate metabolism flavoprotein (EC:4.1.1.36)
affects synthesis of DNA, and pantothenate metabolism.
Length = 184
Score = 32.0 bits (74), Expect = 0.46
Identities = 13/24 (54%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 107 SSGI-GKHVAIEAAKRGAHVTIVA 129
SSG G +A AA+RGA VT+V+
Sbjct: 27 SSGKMGYALAEAAARRGAEVTLVS 50
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 32.3 bits (73), Expect = 0.49
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKK 144
VTGG SGIG+ AI A+ GA V I ++ + +++KK
Sbjct: 54 VTGGDSGIGRAAAIAYAREGADVAISYLPVEE--EDAQDVKK 93
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 32.2 bits (74), Expect = 0.50
Identities = 20/107 (18%), Positives = 36/107 (33%), Gaps = 26/107 (24%)
Query: 105 GGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKAC 164
+ I +A AA+ GA V + + A +E+ K P
Sbjct: 3 ADDNSIAWAIAKAAAEEGAEVVLTTWPPALRMGAVDELAKELPAD--------------- 47
Query: 165 PNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMA 211
+ LD++ D E+I + + G + LV+ M+
Sbjct: 48 ----------VIPLDVTSD-EDIDELFEKVKEDGGKIDFLVHSIAMS 83
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 32.3 bits (74), Expect = 0.55
Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 99 GTLSVTGGSSGIGKHVAIE-AAKRGAHVTIVA-RDEKKLL 136
T+ V G + G+G AI+ A GA V V EK L
Sbjct: 144 ETVLVHGAAGGVG-SAAIQLAKALGATVVAVVSSSEKLEL 182
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 32.3 bits (74), Expect = 0.59
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIK-KACPNP 149
+S+ GG+ G+GK A ++G V + RD KK + +E+ + +
Sbjct: 2 KISIIGGTGGLGKWFARFLKEKGFEVIVTGRDPKKGKEVAKELGVEYANDN 52
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 31.9 bits (73), Expect = 0.59
Identities = 24/112 (21%), Positives = 43/112 (38%), Gaps = 23/112 (20%)
Query: 97 TNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIE 156
T+ +TG IG + + G V D++ L + E + K E
Sbjct: 3 KGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGK-----------E 51
Query: 157 YEEIKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCA 208
++ + + V LDI+ D E++ L + ++ G + VNCA
Sbjct: 52 FKS-----------KKLSLVELDIT-DQESLEEFLSKSAEKYGKIDGAVNCA 91
>gnl|CDD|176220 cd08259, Zn_ADH5, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group contains proteins that
share the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenase family. 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 have 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
(His-51), the ribose of NAD, a serine (Ser-48), 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 = 332
Score = 31.9 bits (73), Expect = 0.61
Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 103 VTGGSSGIGKHVAIEAAK-RGAHVTIVARDEKKL 135
VTG G+G H AI+ AK GA V V R +KL
Sbjct: 168 VTGAGGGVGIH-AIQLAKALGARVIAVTRSPEKL 200
>gnl|CDD|187589 cd05328, 3alpha_HSD_SDR_c, alpha hydroxysteroid dehydrogenase
(3alpha_HSD), classical (c) SDRs. Bacterial
3-alpha_HSD, which catalyzes the NAD-dependent
oxidoreduction of hydroxysteroids, is a dimeric member
of the classical SDR family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 31.7 bits (72), Expect = 0.62
Identities = 33/185 (17%), Positives = 57/185 (30%), Gaps = 72/185 (38%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEE 159
T+ +TG +SGIG A G V + +
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVIGI------------------------------D 30
Query: 160 IKKACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVY-MLVNCAGMALCGTLEE 218
+++A V D+S E +A+ + RC V LVNCAG+
Sbjct: 31 LREA-----------DVIADLS-TPEGRAAAIADVLARCSGVLDGLVNCAGVGGTTVAG- 77
Query: 219 MTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT 278
V+ +N +G + +AL+ +++ V+
Sbjct: 78 ----------------------------LVLKVNYFGLRALMEALLPRLRKGHGPAAVVV 109
Query: 279 ASQAA 283
+S A
Sbjct: 110 SSIAG 114
>gnl|CDD|204539 pfam10674, Ycf54, Protein of unknown function (DUF2488). This
protein is conserved in the green lineage and located in
the chloroplast.
Length = 92
Score = 29.9 bits (68), Expect = 0.66
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 13/43 (30%)
Query: 147 PNPKFIRFIEYEEIKKACP---------NPKFIRF----IEYV 176
P P F+ E E+K P + +FI + +EYV
Sbjct: 43 PQPAFLEAPELAELKAKLPQPAAAVVSTDKQFITWLKLRLEYV 85
>gnl|CDD|187579 cd05271, NDUFA9_like_SDR_a, NADH dehydrogenase (ubiquinone) 1 alpha
subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical
(a) SDRs. This subgroup of extended SDR-like proteins
are atypical SDRs. They have a glycine-rich
NAD(P)-binding motif similar to the typical SDRs,
GXXGXXG, and have the YXXXK active site motif (though
not the other residues of the SDR tetrad). Members
identified include NDUFA9 (mitochondrial) and putative
nucleoside-diphosphate-sugar epimerase. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 273
Score = 31.4 bits (72), Expect = 0.79
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEK 133
V G + IG++V AKRG+ V + R E
Sbjct: 5 VFGATGFIGRYVVNRLAKRGSQVIVPYRCEA 35
>gnl|CDD|232901 TIGR00275, TIGR00275, flavoprotein, HI0933 family. The model when
searched with a partial length search brings in proteins
with a dinucleotide-binding motif (Rossman fold) over
the initial 40 residues of the model, including
oxidoreductases and dehydrogenases. Partially
characterized members include an FAD-binding protein
from Bacillus cereus and flavoprotein HI0933 from
Haemophilus influenzae [Unknown function, Enzymes of
unknown specificity].
Length = 400
Score = 31.8 bits (73), Expect = 0.86
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 16/73 (21%)
Query: 105 GGSSGIGKHVAIEAAKRGAHVTIVARDE---KKLLQA---QEEIKKACPNPKFIRFIEYE 158
GG++G+ AI AA+ G V ++ +++ KKLL + + + +CP P+F+ +
Sbjct: 5 GGAAGL--MAAITAAREGLSVLLLEKNKKIGKKLLISGGGRCNLTNSCPTPEFVAYY--- 59
Query: 159 EIKKACPNPKFIR 171
N KF+R
Sbjct: 60 -----PRNGKFLR 67
>gnl|CDD|235776 PRK06300, PRK06300, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 299
Score = 31.3 bits (71), Expect = 0.98
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 400 PEVVAKQLLEDALKGNYFSTVGLESYLITTLCAGFSPIVSIQETFIQAFLMGPLR 454
PE+ +K LLE + KG Y + + SY +L + F PI++ + I + +R
Sbjct: 131 PEI-SKPLLETSRKG-YLAALSTSSYSFVSLLSHFGPIMNPGGSTISLTYLASMR 183
>gnl|CDD|236232 PRK08309, PRK08309, short chain dehydrogenase; Provisional.
Length = 177
Score = 30.5 bits (69), Expect = 1.1
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEE 141
V GG+ G+ K V++ ++G HV+++AR E KL + E
Sbjct: 5 VIGGT-GMLKRVSLWLCEKGFHVSVIARREVKLENVKRE 42
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 29.8 bits (68), Expect = 1.1
Identities = 8/32 (25%), Positives = 20/32 (62%)
Query: 110 IGKHVAIEAAKRGAHVTIVARDEKKLLQAQEE 141
+G+ +A E + G V ++ +D +++ + +EE
Sbjct: 9 VGRSLAEELREGGPDVVVIDKDPERVEELREE 40
>gnl|CDD|219686 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 283
Score = 31.2 bits (71), Expect = 1.1
Identities = 16/40 (40%), Positives = 22/40 (55%)
Query: 106 GSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKA 145
G IG +A AK G VT+V R ++ L +A +EI A
Sbjct: 149 GGGYIGLELAAALAKLGKEVTVVERRDRLLARADDEISAA 188
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 30.9 bits (70), Expect = 1.1
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIK 143
TL ++GG+ GIGK + E A+ G ++ + A + +
Sbjct: 10 TLVISGGTRGIGKAIVYEFAQSGVNIAFTYNSNVEE--ANKIAE 51
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 30.8 bits (70), Expect = 1.2
Identities = 56/242 (23%), Positives = 102/242 (42%), Gaps = 52/242 (21%)
Query: 103 VTGGS--SGIGKHVAIEAAKRGAHV--TIVARDEKKLLQAQEEIKKACPNPKFIRFIEYE 158
VTG S +GIG V A +G + T + +K + + + + E
Sbjct: 10 VTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEP---------VLLKE 60
Query: 159 EIKK---ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGT 215
EI+ C E++ +D+S+ Y R +R G +L+N A +
Sbjct: 61 EIESYGVRC---------EHMEIDLSQPYAPNR-VFYAVSERLGDPSILINNAAYSTHTR 110
Query: 216 LEEMTMQDIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCI 275
LEE+T + + + + V N+ T+ ++ A + + G I
Sbjct: 111 LEELTAEQLD------------------KHYAV---NVRATMLLSSAFAKQYDGKAGGRI 149
Query: 276 V-ITASQAANLG-IYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPGFEN 333
+ +T+ Q +LG + AY ++K A++ F ++L E+ + G+T+ P TDT G+
Sbjct: 150 INLTSGQ--SLGPMPDELAYAATKGAIEAFTKSLAPELAEKGITVNAVNPGPTDT-GWIT 206
Query: 334 EE 335
EE
Sbjct: 207 EE 208
>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 = 31.0 bits (70), Expect = 1.2
Identities = 22/105 (20%), Positives = 43/105 (40%), Gaps = 7/105 (6%)
Query: 257 IHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGL 316
+ +A + MK+ G G I+ S + + Y ++ A AE+L E+ + +
Sbjct: 109 FALLQAAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAAVALAESLAKELSRDNI 168
Query: 317 TITLCLPPDTDTPGF------ENEEKSKPRETSLISQTGGLYRPE 355
+ P ++P + EN + + R + G L RP+
Sbjct: 169 LVYAIGPNFFNSPTYFPTSDWENNPELRERVKRDVP-LGRLGRPD 212
>gnl|CDD|216400 pfam01266, DAO, FAD dependent oxidoreductase. This family includes
various FAD dependent oxidoreductases:
Glycerol-3-phosphate dehydrogenase EC:1.1.99.5,
Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine
oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1.
Length = 234
Score = 30.7 bits (70), Expect = 1.4
Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 105 GGSSGIGKHVAIEAAKRGAHVTIVARDE 132
GG G+ A E A+RG VT++ R +
Sbjct: 7 GGIVGLS--TAYELARRGLSVTLLERGD 32
>gnl|CDD|143299 cd05891, Ig_M-protein_C, C-terminal immunoglobulin (Ig)-like domain
of M-protein (also known as myomesin-2).
Ig_M-protein_C: the C-terminal immunoglobulin (Ig)-like
domain of M-protein (also known as myomesin-2).
M-protein is a structural protein localized to the
M-band, a transverse structure in the center of the
sarcomere, and is a candidate for M-band bridges.
M-protein is modular consisting mainly of repetitive
IG-like and fibronectin type III (FnIII) domains, and
has a muscle-type specific expression pattern. M-protein
is present in fast fibers.
Length = 92
Score = 29.1 bits (65), Expect = 1.4
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 9/77 (11%)
Query: 349 GGLYRPEVV-----KQSGLTITLCLPPDTDTPGFENEEKSKPRETSLISQTGGLYRPEVV 403
GGL P+VV K LT T+ PD + F+N++ + E + G Y +
Sbjct: 5 GGL--PDVVTIMEGKTLNLTCTVFGNPDPEVIWFKNDQDIELSEHYSVKLEQGKYASLTI 62
Query: 404 AKQLLEDALKGNYFSTV 420
ED+ G Y V
Sbjct: 63 KGVTSEDS--GKYSINV 77
Score = 28.7 bits (64), Expect = 2.1
Identities = 14/50 (28%), Positives = 22/50 (44%)
Query: 309 MEVKQSGLTITLCLPPDTDTPGFENEEKSKPRETSLISQTGGLYRPEVVK 358
ME K LT T+ PD + F+N++ + E + G Y +K
Sbjct: 14 MEGKTLNLTCTVFGNPDPEVIWFKNDQDIELSEHYSVKLEQGKYASLTIK 63
>gnl|CDD|199207 cd08963, L-asparaginase_I, Type I (cytosolic) bacterial
L-asparaginase. Asparaginases (amidohydrolases, E.C.
3.5.1.1) are enzymes that catalyze the hydrolysis of
asparagine to aspartic acid and ammonia. In bacteria,
there are two classes of amidohydrolases. This model
represents type I L-asparaginases, which are highly
specific for asparagine and localized in the cytosol.
Type I L-asparaginase acts as a dimer. A conserved
threonine residue is thought to supply the nucleophile
hydroxy-group that attacks the amide bond. Many
bacterial L-asparaginases have both L-asparagine and
L-glutamine hydrolysis activities, to a different
degree, and some of them are annotated as
asparaginase/glutaminase. One example of an enzyme with
no L-glutaminase activity is the type I L-asparaginase
from Wolinella succinogenes.
Length = 316
Score = 30.6 bits (70), Expect = 1.5
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 5/39 (12%)
Query: 255 GTIHMTKALVEGMKQ-RGRGCIVITASQAA----NLGIY 288
G I L+ +++ RG V+ +Q +L +Y
Sbjct: 237 GNIPYDGDLLAALEEATARGKPVVVTTQCPYGGSDLSVY 275
>gnl|CDD|224169 COG1249, Lpd, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide dehydrogenase (E3) component, and
related enzymes [Energy production and conversion].
Length = 454
Score = 31.0 bits (71), Expect = 1.5
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEK 133
V G G AI AA+ G V +V + E+
Sbjct: 9 VIGAGPA-GYVAAIRAAQLGLKVALVEKGER 38
>gnl|CDD|163279 TIGR03466, HpnA, hopanoid-associated sugar epimerase. The
sequences in this family are members of the pfam01370
superfamily of NAD-dependent epimerases and dehydratases
typically acting on nucleotide-sugar substrates. The
genes of the family modeled here are generally in the
same locus with genes involved in the biosynthesis and
elaboration of hopene, the cyclization product of the
polyisoprenoid squalene. This gene and its association
with hopene biosynthesis in Zymomonas mobilis has been
noted in the literature where the gene symbol hpnA was
assigned. Hopanoids are known to be components of the
plasma membrane and to have polar sugar head groups in
Z. mobilis and other species.
Length = 328
Score = 30.7 bits (70), Expect = 1.5
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARD 131
VTG + +G V ++G V ++ R
Sbjct: 5 VTGATGFVGSAVVRLLLEQGEEVRVLVRP 33
>gnl|CDD|187558 cd05247, UDP_G4E_1_SDR_e, UDP-glucose 4 epimerase, subgroup 1,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 323
Score = 30.6 bits (70), Expect = 1.6
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 8/54 (14%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV---ARDEKKLLQAQEEIKKACPNPKFIR 153
VTGG+ IG H +E + G V ++ + ++ L E+I+ +F
Sbjct: 4 VTGGAGYIGSHTVVELLEAGYDVVVLDNLSNGHREALPRIEKIR-----IEFYE 52
>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 = 30.5 bits (69), Expect = 1.7
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 7/66 (10%)
Query: 248 VIDLNLYGTIHMTKALVEGMKQRGRGCIVITASQAANLGIY---GLAAYTSSKFALKGFA 304
V +N+ G + KA + + RG ++ T S N G Y G YT++K A+ G
Sbjct: 111 VFHINVKGYLLAVKAALPALVA-SRGSVIFTIS---NAGFYPNGGGPLYTAAKHAVVGLV 166
Query: 305 EALYME 310
+ L E
Sbjct: 167 KELAFE 172
>gnl|CDD|219065 pfam06506, PrpR_N, Propionate catabolism activator. This domain is
found at the N terminus of several sigma54- dependent
transcriptional activators including PrpR, which
activates catabolism of propionate.
Length = 169
Score = 29.8 bits (68), Expect = 1.9
Identities = 20/92 (21%), Positives = 39/92 (42%), Gaps = 17/92 (18%)
Query: 233 LRGYHTRLAL---------WRSWT-VIDLNL----YGTIHMTKALVEGMKQRGRGCIV-- 276
R Y R+ L ++ + ++ L++ Y + +A V+ +K +G IV
Sbjct: 71 ARRYGGRIGLVGYENIIPGLKALSELLGLDIVQRAYQSEEEARAAVKELKAQGIKVIVGD 130
Query: 277 -ITASQAANLGIYGLAAYTSSKFALKGFAEAL 307
+ A G+ G+ Y+ + + F EAL
Sbjct: 131 GLVCDLAEQAGLQGVLIYSGKESVREAFEEAL 162
>gnl|CDD|176205 cd08243, quinone_oxidoreductase_like_1, Quinone oxidoreductase
(QOR). NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. The medium chain alcohol
dehydrogenase family (MDR) have a NAD(P)(H)-binding
domain in a Rossmann fold of a beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 320
Score = 30.3 bits (69), Expect = 2.1
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKK--LLQAQ 139
TL + GG+S +G A GA VT R ++ LL+
Sbjct: 145 TLLIRGGTSSVGLAALKLAKALGATVTATTRSPERAALLKEL 186
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 30.0 bits (68), Expect = 2.2
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDE 132
VTGG+ IG H+ +RG V ++ R +
Sbjct: 3 VTGGAGFIGSHLVRRLLERGHEVVVIDRLD 32
>gnl|CDD|187572 cd05262, SDR_a7, atypical (a) SDRs, subgroup 7. This subgroup
contains atypical SDRs of unknown function. Members of
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that matches the extended SDRs, TGXXGXXG, but
lacks the characteristic active site residues of the
SDRs. This subgroup has basic residues (HXXXR) in place
of the active site motif YXXXK, these may have a
catalytic role. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 291
Score = 30.0 bits (68), Expect = 2.3
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEK 133
VTG + IG V E G V +AR +
Sbjct: 5 VTGATGFIGSAVVRELVAAGHEVVGLARSDA 35
>gnl|CDD|187540 cd05229, SDR_a3, atypical (a) SDRs, subgroup 3. These atypical SDR
family members of unknown function have a glycine-rich
NAD(P)-binding motif consensus that is very similar to
the extended SDRs, GXXGXXG. Generally, this group has
poor conservation of the active site tetrad, However,
individual sequences do contain matches to the YXXXK
active site motif, and generally Tyr or Asn in place of
the upstream Ser found in most SDRs. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 302
Score = 30.0 bits (68), Expect = 2.4
Identities = 16/38 (42%), Positives = 20/38 (52%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQ 137
T V G S IG+ VA E +RG V +V+R KL
Sbjct: 1 TAHVLGASGPIGREVARELRRRGWDVRLVSRSGSKLAW 38
>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 = 30.0 bits (68), Expect = 2.5
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 103 VTGGSSGIGKHVAIEAAK-RGAHVTIVARDEKKL 135
V G G+G +A + AK GA V + R ++KL
Sbjct: 140 VLGAG-GVG-LLAAQLAKAAGARVIVTDRSDEKL 171
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 30.2 bits (69), Expect = 2.6
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 106 GSSGIGKHVAIEAAK-RGAHVTIVARDEKKLLQAQE 140
G+ G+G H+A++ AK GA V + R E+KL A++
Sbjct: 174 GAGGLG-HMAVQYAKAMGAEVIAITRSEEKLELAKK 208
>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 = 29.9 bits (67), Expect = 2.6
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 100 TLSVTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEI 142
+ +TG +SGIG A A GAHV + R+ + A I
Sbjct: 3 VIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRI 45
>gnl|CDD|219171 pfam06776, IalB, Invasion associated locus B (IalB) protein. This
family consists of several invasion associated locus B
(IalB) proteins and related sequences. IalB is known to
be a major virulence factor in Bartonella bacilliformis
where it was shown to have a direct role in human
erythrocyte parasitism. IalB is upregulated in response
to environmental cues signaling vector-to-host
transmission. Such environmental cues would include, but
not be limited to, temperature, pH, oxidative stress,
and haemin limitation. It is also thought that IalB
would aide B. bacilliformis survival under
stress-inducing environmental conditions. The role of
this protein in other bacterial species is unknown.
Length = 133
Score = 28.8 bits (65), Expect = 2.8
Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 9/54 (16%)
Query: 254 YGTIHMTKALVEGMKQRGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEAL 307
I + AL+ +K+ + + + I +LKGF AL
Sbjct: 86 VAEIPLDDALLAALKKGKTATLSFVPAPGQPVTI---------PVSLKGFTAAL 130
>gnl|CDD|176186 cd05283, CAD1, Cinnamyl alcohol dehydrogenases (CAD). Cinnamyl
alcohol dehydrogenases (CAD), members of the medium
chain dehydrogenase/reductase family, reduce
cinnamaldehydes to cinnamyl alcohols in the last step of
monolignal metabolism in plant cells walls. CAD binds 2
zinc ions and is NADPH- dependent. CAD family members
are also found in non-plant species, e.g. in yeast where
they have an aldehyde reductase activity. 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 = 337
Score = 29.8 bits (68), Expect = 2.9
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 109 GIGKHVAIE-AAKRGAHVTIVARDEKKLLQAQEEIKK 144
G+G H+A++ A GA VT +R K +E+ K
Sbjct: 180 GLG-HLAVKFAKALGAEVTAFSRSPSK----KEDALK 211
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 29.7 bits (67), Expect = 3.0
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 271 GRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLPPDTDTPG 330
G+ ++T+ A Y +AY SK ++ F A E G+++T P DTP
Sbjct: 139 GKIVTLVTSLLGAFTPFY--SAYAGSKAPVEHFTRAASKEFGARGISVTAVGPGPMDTPF 196
Query: 331 FENEE 335
F +E
Sbjct: 197 FYPQE 201
>gnl|CDD|215691 pfam00070, Pyr_redox, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 82
Score = 27.9 bits (63), Expect = 3.0
Identities = 16/41 (39%), Positives = 20/41 (48%)
Query: 106 GSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKAC 146
G IG A AK G+ VT+V R ++ L EEI K
Sbjct: 6 GGGYIGLEFASALAKLGSKVTVVERRDRLLRGFDEEIAKIL 46
>gnl|CDD|224012 COG1087, GalE, UDP-glucose 4-epimerase [Cell envelope biogenesis,
outer membrane].
Length = 329
Score = 29.8 bits (68), Expect = 3.1
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIV 128
VTGG+ IG H + K G V ++
Sbjct: 5 VTGGAGYIGSHTVRQLLKTGHEVVVL 30
>gnl|CDD|215257 PLN02464, PLN02464, glycerol-3-phosphate dehydrogenase.
Length = 627
Score = 30.1 bits (68), Expect = 3.2
Identities = 15/32 (46%), Positives = 22/32 (68%), Gaps = 2/32 (6%)
Query: 101 LSVTGGSSGIGKHVAIEAAKRGAHVTIVARDE 132
L V GG++G G VA++AA RG V +V R++
Sbjct: 75 LVVGGGATGAG--VALDAATRGLRVGLVERED 104
>gnl|CDD|187654 cd08951, DR_C-13_KR_SDR_c_like, daunorubicin C-13 ketoreductase
(KR), classical (c)-like SDRs. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Daunorubicin C-13 ketoreductase is
member of the classical SDR family with a canonical
glycine-rich NAD(P)-binding motif, but lacking a
complete match to the active site tetrad characteristic
of this group. The critical Tyr, plus the Lys and
upstream Asn are present, but the catalytic Ser is
replaced, generally by Gln. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 260
Score = 29.4 bits (66), Expect = 3.5
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACP 147
+TG S G+G A +G V + AR +K+ + K ACP
Sbjct: 12 ITGSSDGLGLAAARTLLHQGHEVVLHARSQKRA----ADAKAACP 52
>gnl|CDD|223247 COG0169, AroE, Shikimate 5-dehydrogenase [Amino acid transport and
metabolism].
Length = 283
Score = 29.2 bits (66), Expect = 4.2
Identities = 12/59 (20%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 106 GSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKKA 163
G+ G + VA A+ GA +T+V R ++ + + + + + E +++A
Sbjct: 133 GAGGAARAVAFALAEAGAKRITVVNRTRERAEELADLFGELGAAVEAAALADLEGLEEA 191
>gnl|CDD|235513 PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine
decarboxylase/phosphopantothenate synthase; Validated.
Length = 399
Score = 29.3 bits (67), Expect = 4.5
Identities = 13/24 (54%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 107 SSGI-GKHVAIEAAKRGAHVTIVA 129
SSG G +A AA+RGA VT+V+
Sbjct: 212 SSGKMGYALARAAARRGADVTLVS 235
>gnl|CDD|134311 PRK00536, speE, spermidine synthase; Provisional.
Length = 262
Score = 29.1 bits (65), Expect = 5.2
Identities = 36/158 (22%), Positives = 58/158 (36%), Gaps = 33/158 (20%)
Query: 81 VASREPHLQMKRYLAPTNGTLSVTGGSS-----------GIGKHVAIEAAKRGAHVTIVA 129
+A L K +L + L+ GG + G +A + K HV V
Sbjct: 42 IAMLNKQLLFKNFLHIESELLAHMGGCTKKELKEVLIVDGFDLELAHQLFKYDTHVDFVQ 101
Query: 130 RDEKKLLQAQEEIKKACPNPKFIRFI-EYEEIKKACPNPKFIRFIEYVSLDISKDYENIR 188
DEK L FI F + E+K N F + + LDI K Y+ I
Sbjct: 102 ADEKIL-------------DSFISFFPHFHEVKN---NKNFTHAKQLLDLDI-KKYDLII 144
Query: 189 SALQPAMDRCGPVYMLVNCAGMALCGT----LEEMTMQ 222
+P + + + ++ G+ + LE ++MQ
Sbjct: 145 CLQEPDIHKIDGLKRMLKEDGVFISVAKHPLLEHVSMQ 182
>gnl|CDD|233570 TIGR01777, yfcH, TIGR01777 family protein. This model represents a
clade of proteins of unknown function including the E.
coli yfcH protein [Hypothetical proteins, Conserved].
Length = 291
Score = 28.8 bits (65), Expect = 5.8
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVAR 130
+TGG+ IG+ + KRG VTI+ R
Sbjct: 3 ITGGTGFIGRALTQRLTKRGHEVTILTR 30
>gnl|CDD|187536 cd05193, AR_like_SDR_e, aldehyde reductase, flavonoid reductase,
and related proteins, extended (e) SDRs. This subgroup
contains aldehyde reductase and flavonoid reductase of
the extended SDR-type and related proteins. Proteins in
this subgroup have a complete SDR-type active site
tetrad and a close match to the canonical extended SDR
NADP-binding motif. Aldehyde reductase I (aka carbonyl
reductase) is an NADP-binding SDR; it catalyzes the
NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 295
Score = 28.7 bits (64), Expect = 5.9
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKK 134
VTG S + HV + +RG V RD K
Sbjct: 3 VTGASGFVASHVVEQLLERGYKVRATVRDPSK 34
>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 = 6.1
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 77 GVRTVASREPHLQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGA-HVTIVAR 130
G R VA R L P + T +TGG G+G VA +RGA H+ + R
Sbjct: 131 GARYVARLVRA--PARPLRP-DATYLITGGLGGLGLLVAEWLVERGARHLVLTGR 182
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 28.9 bits (65), Expect = 6.3
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 103 VTGGSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKA 145
+TG SSG+G A A+ G HV + RD L+A+ K A
Sbjct: 2 ITGASSGLGLATAKALAETGKWHVVMACRD---FLKAERAAKSA 42
>gnl|CDD|218864 pfam06032, DUF917, Protein of unknown function (DUF917). This
family consists of hypothetical bacterial and archaeal
proteins of unknown function.
Length = 349
Score = 28.7 bits (65), Expect = 6.9
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 105 GGSSGIGKHVAIEAAKRGAHVTIVARDE 132
GG IGK + A K G V +V+ DE
Sbjct: 21 GGDPYIGKLLLRAALKEGGPVELVSPDE 48
>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 = 28.4 bits (64), Expect = 7.0
Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARD-EKKLLQAQEEIKKA 145
VTG + IG+ +A A G V + E + + ++E+
Sbjct: 5 VTGAAKRIGRAIAEALAAEGYRVVVHYNRSEAEAQRLKDELNAL 48
>gnl|CDD|220770 pfam10469, AKAP7_NLS, AKAP7 2'5' RNA ligase-like domain. AKAP7_NLS
is the N-terminal domain of the cyclic AMP-dependent
protein kinase A, PKA, anchor protein AKAP7. This
protein anchors PKA for its role in regulating
PKA-mediated gene transcription in both somatic cells
and oocytes. AKAP7_NLS carries the nuclear localisation
signal (NLS) KKRKK, that indicates the cellular destiny
of this anchor protein. Binding to the regulatory
subunits RI and RII of PKA is mediated via the family
AKAP7_RIRII_bdg. at the C-terminus. This family
represents a region that contains two 2'5' RNA ligase
like domains pfam02834. Presumably this domain carried
out some as yet unknown enzymatic function.
Length = 205
Score = 28.3 bits (64), Expect = 7.1
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 14/61 (22%)
Query: 109 GIGKHVAIEAAKRGAHVTI----------VARDEKKLLQAQEEIKKACPNPKFIRF--IE 156
G+ + + I K H+T+ V ++ L + +EEIK NP +RF +E
Sbjct: 31 GLDESLFIPPEK--LHLTLLVLVLLDQEEVEAAKEALQECKEEIKDILGNPLELRFKGLE 88
Query: 157 Y 157
Sbjct: 89 T 89
>gnl|CDD|183587 PRK12550, PRK12550, shikimate 5-dehydrogenase; Reviewed.
Length = 272
Score = 28.4 bits (64), Expect = 7.4
Identities = 17/31 (54%), Positives = 19/31 (61%), Gaps = 5/31 (16%)
Query: 106 GSSGIGKHVAIEAAKRGA---HVTIVARDEK 133
GS G+ K VA AA R A TIVAR+EK
Sbjct: 129 GSGGMAKAVA--AALRDAGFTDGTIVARNEK 157
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 28.3 bits (63), Expect = 7.5
Identities = 44/222 (19%), Positives = 88/222 (39%), Gaps = 49/222 (22%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKKLLQAQEEIKKACPNPKFIRFIEYEEIKK 162
VTG +G+G+ +A+ A+ G + + +++ E I++ +
Sbjct: 15 VTGCDTGLGQGMALGLAEAGCDIVGI-----NIVEPTETIEQVTALGR------------ 57
Query: 163 ACPNPKFIRFIEYVSLDISKDYENIRSALQPAMDRCGPVYMLVNCAGMALCGTLEEMTMQ 222
RF+ ++ D+ K + I + L+ A+ G + +LVN AG+ E + +
Sbjct: 58 --------RFLS-LTADLRK-IDGIPALLERAVAEFGHIDILVNNAGLIRREDAIEFSEK 107
Query: 223 DIKVMEQPLWLRGYHTRLALWRSWTVIDLNLYGTIHMTKALVEGMKQRGRGCIVIT-ASQ 281
D W V++LN+ M++A + +G G +I AS
Sbjct: 108 D-------------------WDD--VMNLNIKSVFFMSQAAAKHFIAQGNGGKIINIASM 146
Query: 282 AANLGIYGLAAYTSSKFALKGFAEALYMEVKQSGLTITLCLP 323
+ G + +YT+SK + G + E + + + P
Sbjct: 147 LSFQGGIRVPSYTASKSGVMGVTRLMANEWAKHNINVNAIAP 188
>gnl|CDD|216074 pfam00710, Asparaginase, Asparaginase.
Length = 318
Score = 28.7 bits (65), Expect = 7.5
Identities = 13/57 (22%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 254 YGTIHMTKALVEGMKQ-RGRGCIVITASQAANLGIYGLAAYTSSKFALKGFAEALYM 309
+G ++ AL++ +K+ RG V+ ASQ + + T G A +
Sbjct: 239 FGAGNVPPALLDALKEAVARGIPVVVASQCGSGRVSLGYYGTGRDLLKAGVISAGDL 295
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 28.6 bits (64), Expect = 7.7
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 95 APTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVAR 130
+P G L V G+ G GK +A A ++GA V I R
Sbjct: 375 SPLAGKLFVVIGAGGAGKALAYGAKEKGARVVIANR 410
>gnl|CDD|215721 pfam00107, ADH_zinc_N, Zinc-binding dehydrogenase.
Length = 131
Score = 27.7 bits (62), Expect = 7.9
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 109 GIGKHVAIEAAK-RGA-HVTIVARDEKKLLQAQE 140
G+G A++ AK GA V V R E+KL A+E
Sbjct: 1 GVG-LAAVQLAKALGAARVIAVDRSEEKLELAKE 33
>gnl|CDD|215146 PLN02260, PLN02260, probable rhamnose biosynthetic enzyme.
Length = 668
Score = 28.6 bits (64), Expect = 8.0
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 12/58 (20%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDE-------KKLLQAQEEIKKACPNPKFIR 153
+TG + I HVA + IV D+ K L + K+ PN KF++
Sbjct: 11 ITGAAGFIASHVANRLIRNYPDYKIVVLDKLDYCSNLKNLNPS-----KSSPNFKFVK 63
>gnl|CDD|176214 cd08252, AL_MDR, Arginate lyase and other MDR family members. This
group contains a structure identified as an arginate
lyase. Other members are identified quinone reductases,
alginate lyases, and other proteins related to the
zinc-dependent dehydrogenases/reductases. 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 = 336
Score = 28.3 bits (64), Expect = 8.5
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 87 HLQMKRYLAPTNGTLSVTGGSSGIGKHVAIEAAKRGAHVTIVA---RDE 132
L + TL + GG+ G+G +AI+ AK+ +T++A R E
Sbjct: 139 RLGISEDAENEGKTLLIIGGAGGVGS-IAIQLAKQLTGLTVIATASRPE 186
>gnl|CDD|236057 PRK07578, PRK07578, short chain dehydrogenase; Provisional.
Length = 199
Score = 27.9 bits (63), Expect = 9.0
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 13/61 (21%)
Query: 176 VSLDISKDYENIRSALQPAM-DRCGPVYMLVNCAGMALCGTLEEMTMQDI------KVME 228
V +DI+ D +IR A+ ++ G V +V+ AG L EMT +D K+M
Sbjct: 36 VQVDIT-DPASIR-----ALFEKVGKVDAVVSAAGKVHFAPLAEMTDEDFNVGLQSKLMG 89
Query: 229 Q 229
Q
Sbjct: 90 Q 90
>gnl|CDD|221566 pfam12416, DUF3668, Cep120 protein. This family includes the
Cep120 protein which is associated with centriole
structure and function.
Length = 334
Score = 28.1 bits (63), Expect = 9.5
Identities = 20/80 (25%), Positives = 28/80 (35%), Gaps = 2/80 (2%)
Query: 332 ENEEKSKPRETSLISQTGGLYRPEVVKQSGLTITLCLPPDTDTPGFENEEKSKPRETSLI 391
E ++ KP+ L+S ++PE+ L I TD + K P
Sbjct: 96 EGDKTPKPKWHKLLSSKYRKHKPEL--LLSLAIETDSSLHTDDFKDLMKAKPAPPRQGHS 153
Query: 392 SQTGGLYRPEVVAKQLLEDA 411
L P V LLED
Sbjct: 154 IPALMLLDPATVIVILLEDE 173
>gnl|CDD|224015 COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase
[General function prediction only].
Length = 297
Score = 28.0 bits (63), Expect = 9.6
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 103 VTGGSSGIGKHVAIEAAKRGAHVTIVARDEKK 134
+TGG+ IG+ + K G VTI+ R K
Sbjct: 3 ITGGTGLIGRALTARLRKGGHQVTILTRRPPK 34
>gnl|CDD|133443 cd01065, NAD_bind_Shikimate_DH, NAD(P) binding domain of Shikimate
dehydrogenase. Shikimate dehydrogenase (DH) is an amino
acid DH family member. Shikimate pathway links
metabolism of carbohydrates to de novo biosynthesis of
aromatic amino acids, quinones and folate. It is
essential in plants, bacteria, and fungi but absent in
mammals, thus making enzymes involved in this pathway
ideal targets for broad spectrum antibiotics and
herbicides. Shikimate DH catalyzes the reduction of
3-hydroshikimate to shikimate using the cofactor NADH.
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 DHs, 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 = 155
Score = 27.6 bits (62), Expect = 9.6
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 106 GSSGIGKHVAIEAAKRGA-HVTIVARDEKKLLQAQEEIKKACPNPKFI 152
G+ G + VA A+ GA + IV R +K E + ++
Sbjct: 26 GAGGAARAVAYALAELGAAKIVIVNRTLEKAKALAERFGELGIAIAYL 73
>gnl|CDD|223523 COG0446, HcaD, Uncharacterized NAD(FAD)-dependent dehydrogenases
[General function prediction only].
Length = 415
Score = 28.3 bits (63), Expect = 9.7
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 114 VAIEAAKRGAHVTIVARDEKKLLQ-AQEEIKKACPNPKFIRFIEYEEIK 161
A AAKRG VT++ ++ Q E+ + + +E ++
Sbjct: 151 AAEAAAKRGKKVTLIEAADRLGGQLLDPEVAE-----ELAELLEKYGVE 194
>gnl|CDD|236541 PRK09496, trkA, potassium transporter peripheral membrane
component; Reviewed.
Length = 453
Score = 28.2 bits (64), Expect = 9.9
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 105 GGSSGIGKHVAIEAAKRGAHVTIVARDEKK 134
GG + IG ++A K G V ++ RD ++
Sbjct: 238 GGGN-IGYYLAKLLEKEGYSVKLIERDPER 266
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
0.318 0.134 0.396
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: 24,008,853
Number of extensions: 2305475
Number of successful extensions: 3083
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2858
Number of HSP's successfully gapped: 455
Length of query: 475
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 374
Effective length of database: 6,457,848
Effective search space: 2415235152
Effective search space used: 2415235152
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.1 bits)