RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13409
(330 letters)
>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 = 306 bits (786), Expect = e-104
Identities = 137/309 (44%), Positives = 178/309 (57%), Gaps = 59/309 (19%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GKT I+TG+NTGIGK TA ELA+RGARVIMACR + K E AA +IR + EV++
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLN----HEVIV 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLF 135
R LDL+SLKS+R A E L E + +LINNAGVM CP TEDG+E+QF NHLGH+L
Sbjct: 57 RHLDLASLKSIRAFAAEFLAEEDRLDVLINNAGVMRCPYSKTEDGFEMQFGVNHLGHFLL 116
Query: 136 TLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFTT 195
T LLL + KSAP+RI+N+SSLAH G ++F+D+N EK Y+ AY +SKLAN+LFT
Sbjct: 117 TNLLLDLLKKSAPSRIVNVSSLAHKAGK--INFDDLNSEKSYNTGFAYCQSKLANVLFTR 174
Query: 196 ELAKRLQVNFSRHYSCRLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFHPPGAN 255
ELA+RLQ G
Sbjct: 175 ELARRLQ--------------------------------------------------GTG 184
Query: 256 ITNVNTYAVHPGVVDTELSRHFDSIIPGTAWLYQRVGGLFIKSPLQGAQTTLYCALDKKC 315
+T A+HPGVV TEL RH + L + F+K+P +GAQT++Y AL ++
Sbjct: 185 VT---VNALHPGVVRTELGRHTGIHHLFLSTLLNPLFWPFVKTPREGAQTSIYLALAEEL 241
Query: 316 ERETGLYYA 324
E +G Y++
Sbjct: 242 EGVSGKYFS 250
>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 = 297 bits (762), Expect = e-101
Identities = 132/310 (42%), Positives = 172/310 (55%), Gaps = 63/310 (20%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK ++TG+N+GIGK TA ELAKRGA VI+ACR+ EK E AA +I+ + +V +
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGN----AKVEV 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLF 135
QLDLSSL SVR+ A+E L + +LINNAG+M PR+LT+DG+ELQFA N+LGH+L
Sbjct: 57 IQLDLSSLASVRQFAEEFLARFPRLDILINNAGIMAPPRRLTKDGFELQFAVNYLGHFLL 116
Query: 136 TLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFTT 195
T LLLP + SAP+RI+N+SS+AH G + D+ K YS AYG+SKLANILFT
Sbjct: 117 TNLLLPVLKASAPSRIVNVSSIAHRAGPIDFNDLDLENNKEYSPYKAYGQSKLANILFTR 176
Query: 196 ELAKRLQVNFSRHYSCRLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFHPPGAN 255
ELA+RL
Sbjct: 177 ELARRL-----------------------------------------------------E 183
Query: 256 ITNVNTYAVHPGVVDTELSRHFDSIIPGTAWLYQRVGGLFIK-SPLQGAQTTLYCALDKK 314
T V A+HPGVV TEL R G+ +L ++ F+K SP QGAQT LY A +
Sbjct: 184 GTGVTVNALHPGVVRTELLRRN-----GSFFLLYKLLRPFLKKSPEQGAQTALYAATSPE 238
Query: 315 CERETGLYYA 324
E +G Y++
Sbjct: 239 LEGVSGKYFS 248
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 243 bits (621), Expect = 5e-79
Identities = 110/299 (36%), Positives = 150/299 (50%), Gaps = 61/299 (20%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
G+ A+VTG+NTG+G TA LA +GA V++A R+L+K + AA I + +V
Sbjct: 15 SGRVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPG----ADVT 70
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYL 134
+++LDL+SL SVR A + I LLINNAGVM P+Q T DG+ELQF TNHLGH+
Sbjct: 71 LQELDLTSLASVRAAADALRAAYPRIDLLINNAGVMYTPKQTTADGFELQFGTNHLGHFA 130
Query: 135 FTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFT 194
T LLL R++ +R++ +SS H ++HF+D+ E+ Y+ AYG+SKLAN+LFT
Sbjct: 131 LTGLLLDRLLPVPGSRVVTVSSGGHRIR-AAIHFDDLQWERRYNRVAAYGQSKLANLLFT 189
Query: 195 TELAKRLQVNFSRHYSCRLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFHPPGA 254
EL +RL GA
Sbjct: 190 YELQRRLA------------------------------------------------AAGA 201
Query: 255 NITNVNTYAVHPGVVDTELSRHFDSII-PGTAWLYQRVGGLFIKSPLQGAQTTLYCALD 312
V A HPGV +TEL+R+ + P L L +SP GA TL A D
Sbjct: 202 TTIAV---AAHPGVSNTELARNLPRALRPVATVL----APLLAQSPEMGALPTLRAATD 253
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 198 bits (506), Expect = 1e-61
Identities = 104/319 (32%), Positives = 139/319 (43%), Gaps = 72/319 (22%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GKTAIVTG +G+G T LA+ GA VI+ R + A A I V
Sbjct: 24 LSGKTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGID----------GV 73
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHY 133
+ LDL+ L+SVR A+ LD+ I +LINNAGVM CP DG+E QFATNHLGH+
Sbjct: 74 EVVMLDLADLESVRAFAERFLDSGRRIDILINNAGVMACPETRVGDGWEAQFATNHLGHF 133
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILF 193
LL P + A AR++ LSS H + ++D + +GY AYG+SK AN LF
Sbjct: 134 ALVNLLWPALAAGAGARVVALSSAGHRRSP--IRWDDPHFTRGYDKWLAYGQSKTANALF 191
Query: 194 TTELAKRLQVNFSRHYSCRLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFHPPG 253
L K LG+ +
Sbjct: 192 AVHLDK------------------LGKDQ------------------------------- 202
Query: 254 ANITNVNTYAVHPGVVDTELSRHF---DSIIPGTAWLYQ--RVGGLFIKSPLQGAQTTLY 308
V ++VHPG + T L RH + + G W+ + K+P QGA T ++
Sbjct: 203 ----GVRAFSVHPGGILTPLQRHLPREEQVALG--WVDEHGNPIDPGFKTPAQGAATQVW 256
Query: 309 CALDKKCERETGLYYAKAD 327
A + GLY D
Sbjct: 257 AATSPQLAGMGGLYCEDCD 275
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 184 bits (470), Expect = 2e-56
Identities = 85/188 (45%), Positives = 118/188 (62%), Gaps = 8/188 (4%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A+VTG++ G+G A LA GA VI+ R+ K E A IRT++ D K +
Sbjct: 12 LSGKRAVVTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAK----L 67
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP-RQLTEDGYELQFATNHLGH 132
+R LDLSSL SV +++ IHLLINNAGVM P RQ T DG+ELQF TNHLGH
Sbjct: 68 SLRALDLSSLASVAALGEQLRAEGRPIHLLINNAGVMTPPERQTTADGFELQFGTNHLGH 127
Query: 133 YLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANIL 192
+ T LLP ++++ AR+ + SS+A G+++++D+N E+ Y+ AY +SK+A L
Sbjct: 128 FALTAHLLP-LLRAGRARVTSQSSIAAR--RGAINWDDLNWERSYAGMRAYSQSKIAVGL 184
Query: 193 FTTELAKR 200
F EL +R
Sbjct: 185 FALELDRR 192
>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 = 155 bits (392), Expect = 4e-45
Identities = 102/318 (32%), Positives = 150/318 (47%), Gaps = 75/318 (23%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK I+TG+N+GIG TA A GA VI+ACR++ +A A I + V
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKAR----VEA 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLF 135
LDL+SL+SV++ A+ S +H+L+ NA V P LTEDG E F NHLGH+
Sbjct: 57 MTLDLASLRSVQRFAEAFKAKNSPLHVLVCNAAVFALPWTLTEDGLETTFQVNHLGHFYL 116
Query: 136 TLLLLPRIIKSAPARIINLSSLAHTWGD-----GSMHFEDIN-LEKGYSATGAYGRSKLA 189
LL + +SAPAR+I +SS +H + D G++ F ++ +K Y + AY R+KL
Sbjct: 117 VQLLEDVLRRSAPARVIVVSSESHRFTDLPDSCGNLDFSLLSPPKKKYWSMLAYNRAKLC 176
Query: 190 NILFTTELAKRLQVNFSRHYSCRLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLF 249
NILF+ EL +R S
Sbjct: 177 NILFSNELH-----------------------RRLS------------------------ 189
Query: 250 HPPGANITNVNTYAVHPG-VVDTELSRHFDSIIPGTAWLYQRVGGL---FIKSPLQGAQT 305
P G + + ++HPG ++ + + R++ W+Y + L F KS QGA T
Sbjct: 190 -PRG-----ITSNSLHPGNMMYSSIHRNW--------WVYTLLFTLARPFTKSMQQGAAT 235
Query: 306 TLYCALDKKCERETGLYY 323
T+YCA + E G+Y+
Sbjct: 236 TVYCATAPELEGLGGMYF 253
>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 = 126 bits (319), Expect = 9e-35
Identities = 67/192 (34%), Positives = 104/192 (54%), Gaps = 21/192 (10%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG--EV 73
G++ ++TG+N+GIGK A +AKRG V M CR+ +AE A +I ++G +
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEI------ETESGNQNI 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHY 133
+ +D+S K V + +E + +H+LINNAG M+ R+LTEDG E FATN LG Y
Sbjct: 55 FLHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNAGCMVNKRELTEDGLEKNFATNTLGTY 114
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINL-----EKG-YSATGAYGRSK 187
+ T L+P + K R+I +SS G M + +N E+ + T Y ++K
Sbjct: 115 ILTTHLIPVLEKEEDPRVITVSS-------GGMLVQKLNTNNLQSERTAFDGTMVYAQNK 167
Query: 188 LANILFTTELAK 199
++ T + AK
Sbjct: 168 RQQVIMTEQWAK 179
>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 = 128 bits (322), Expect = 2e-34
Identities = 69/211 (32%), Positives = 97/211 (45%), Gaps = 33/211 (15%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
T ++TG+++G+G A LA+RG V+MACR KAE AA ++ +
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEV------GMPKDSYSV 55
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM----CPRQLTEDGYELQFATNHLG 131
DL+SL SVR+ + L+ NA V + PR T DG+EL NHLG
Sbjct: 56 LHCDLASLDSVRQFVDNFRRTGRPLDALVCNAAVYLPTAKEPR-FTADGFELTVGVNHLG 114
Query: 132 HYLFTLLLLPRIIKS--APARIINLSSLAH-------------TWGDGSMH------FED 170
H+L T LLL + +S A RI+ + S+ H T GD F
Sbjct: 115 HFLLTNLLLEDLQRSENASPRIVIVGSITHNPNTLAGNVPPRATLGDLEGLAGGLKGFNS 174
Query: 171 INLEKGYSATGAYGRSKLANILFTTELAKRL 201
+ + AY SK+ N+L T EL +RL
Sbjct: 175 MIDGGEFEGAKAYKDSKVCNMLTTYELHRRL 205
>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 = 124 bits (312), Expect = 1e-33
Identities = 63/195 (32%), Positives = 87/195 (44%), Gaps = 28/195 (14%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS--LEKAETAADDIRTSLKDVKDA 70
L GK A+VTG+++GIG+ A LA+ GARV++A R E AE A I+
Sbjct: 2 DLSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKE-----AGG 56
Query: 71 GEVVIRQLDLSS-LKSVRKCAQEILDNESAIHLLINNAGVMMC---PRQLTEDGYELQFA 126
G D+S +SV + I +L+NNAG+ +LTE+ ++
Sbjct: 57 GRAAAVAADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPLEELTEEDWDRVID 116
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRS 186
N LG +L T LP + K RI+N+SS+A G AY S
Sbjct: 117 VNLLGAFLLTRAALPLMKK---QRIVNISSVAGLGGPPGQ--------------AAYAAS 159
Query: 187 KLANILFTTELAKRL 201
K A I T LA L
Sbjct: 160 KAALIGLTKALALEL 174
>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 = 120 bits (304), Expect = 1e-32
Identities = 55/186 (29%), Positives = 83/186 (44%), Gaps = 23/186 (12%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
A+VTG+++GIG+ A LA+ GA+V++A R+ E A G V Q
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAIEA-------LGGNAVAVQA 53
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNHLGHYLFT 136
D+S + V +E L+ + +L+NNAG+ +LT++ ++ N G +L T
Sbjct: 54 DVSDEEDVEALVEEALEEFGRLDILVNNAGIARPGPLEELTDEDWDRVLDVNLTGVFLLT 113
Query: 137 LLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFTTE 196
LP + K RI+N+SS+A G AY SK A T
Sbjct: 114 RAALPHMKKQGGGRIVNISSVA-----GLR---------PLPGQAAYAASKAALEGLTRS 159
Query: 197 LAKRLQ 202
LA L
Sbjct: 160 LALELA 165
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 117 bits (295), Expect = 2e-30
Identities = 74/214 (34%), Positives = 97/214 (45%), Gaps = 38/214 (17%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
T I+TG+++G+G A LAKRG VIMACR+L+KAE AA ++ I
Sbjct: 7 GTVIITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGI------PPDSYTII 60
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE-----DGYELQFATNHLG 131
+DL L SVR+ + + L+ NA V M P L E GYEL ATNHLG
Sbjct: 61 HIDLGDLDSVRRFVDDFRALGKPLDALVCNAAVYM-PL-LKEPLRSPQGYELSMATNHLG 118
Query: 132 HYLFTLLLLPRIIKS--APARIINLSSLAHTW---------------GDGSMHFEDINLE 174
H+L LLL + KS R++ L ++ GD S FE
Sbjct: 119 HFLLCNLLLEDLKKSPAPDPRLVILGTVTANPKELGGKIPIPAPADLGDLS-GFEAGFKA 177
Query: 175 -------KGYSATGAYGRSKLANILFTTELAKRL 201
K + AY SKL N+L EL +R
Sbjct: 178 PISMADGKKFKPGKAYKDSKLCNMLTMRELHRRY 211
>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 = 102 bits (257), Expect = 6e-26
Identities = 75/315 (23%), Positives = 113/315 (35%), Gaps = 102/315 (32%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLKDVKDAGE-VV 74
K A+VTG+N GIG +LAK G VI+ R +E+ + A + ++ G V
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAV-------EKLRAEGLSVR 53
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM---CPRQLTEDGYELQFATNHLG 131
QLD++ S+ A + + + +L+NNAG+ T + TN G
Sbjct: 54 FHQLDVTDDASIEAAADFVEEKYGGLDILVNNAGIAFKGFDDSTPTREQARETMKTNFFG 113
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANI 191
T LLP + KS RI+N+SS GS+ T AYG SK A
Sbjct: 114 TVDVTQALLPLLKKSPAGRIVNVSSGL-----GSL-------------TSAYGVSKAA-- 153
Query: 192 LFTTELAKRLQVN-FSRHYSCRLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFH 250
+N +R + L +
Sbjct: 154 -----------LNALTRILAKELKE----------------------------------- 167
Query: 251 PPGANITNVNTYAVHPGVVDTELSRHFDSIIPGTAWLYQRVGGLFIKSPLQGAQTTLYCA 310
T + A PG V T++ G A K+P +GA+T +Y A
Sbjct: 168 ------TGIKVNACCPGWVKTDMG-------GGKAP----------KTPEEGAETPVYLA 204
Query: 311 LDKKCERETGLYYAK 325
L TG +++
Sbjct: 205 LLPPDGEPTGKFFSD 219
>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 = 104 bits (261), Expect = 9e-26
Identities = 69/213 (32%), Positives = 92/213 (43%), Gaps = 41/213 (19%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
T I+TG+++G+G A LA G VIMACR KAE AA + I
Sbjct: 5 TVIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSLGMP------KDSYTIM 58
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMC----PRQLTEDGYELQFATNHLGH 132
LDL SL SVR+ Q+ ++ + L+ NA V PR T DG+EL TNHLGH
Sbjct: 59 HLDLGSLDSVRQFVQQFRESGRPLDALVCNAAVYFPTAKEPR-FTADGFELSVGTNHLGH 117
Query: 133 YLFTLLLL----------PRII---------------KSAPARIINLSSLAHTWGDGSMH 167
+L LLL R+I A + +LS LA +
Sbjct: 118 FLLCNLLLDDLKNSPNKDKRLIIVGSITGNTNTLAGNVPPKANLGDLSGLAAGFKAPIAM 177
Query: 168 FEDINLEKGYSATGAYGRSKLANILFTTELAKR 200
+ K + AY SK+ N+L EL +R
Sbjct: 178 IDG----KEFKGAKAYKDSKVCNMLTVRELHRR 206
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 101 bits (254), Expect = 4e-25
Identities = 45/147 (30%), Positives = 74/147 (50%), Gaps = 7/147 (4%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
+ GKTA++TG+++GIG A +LA+RG +I+ R +K E A ++ K EV
Sbjct: 4 MKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELED-----KTGVEV 58
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNHLG 131
+ DLS +++ + E+ + I +L+NNAG +L+ D E N L
Sbjct: 59 EVIPADLSDPEALERLEDELKERGGPIDVLVNNAGFGTFGPFLELSLDEEEEMIQLNILA 118
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
T +LP +++ IIN+ S A
Sbjct: 119 LTRLTKAVLPGMVERGAGHIINIGSAA 145
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 100 bits (251), Expect = 8e-25
Identities = 50/191 (26%), Positives = 85/191 (44%), Gaps = 21/191 (10%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L+G+ A+VTG+ GIG+ A LA GA VI+ + A A+ + G+
Sbjct: 3 DLEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVE------AAGGK 56
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFATNHL 130
RQ+D+ +++ +++ + +L+ NAG+ + P ++ ++ +E N
Sbjct: 57 ARARQVDVRDRAALKAAVAAGVEDFGRLDILVANAGIFPLTPFAEMDDEQWERVIDVNLT 116
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G +L T LP +I++ RI+ SS+A GY Y SK
Sbjct: 117 GTFLLTQAALPALIRAGGGRIVLTSSVA-------------GPRVGYPGLAHYAASKAGL 163
Query: 191 ILFTTELAKRL 201
+ FT LA L
Sbjct: 164 VGFTRALALEL 174
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 99 bits (250), Expect = 1e-24
Identities = 61/192 (31%), Positives = 95/192 (49%), Gaps = 23/192 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMAC-RSLEKAETAADDIRTSLKDVKDAG 71
+L GK AIVTG++ GIG+ A LAK GA+V++A + E A+ ++I+ ++ G
Sbjct: 2 KLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIK------EEGG 55
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNH 129
+ + + D+SS + V ++I++ I +L+NNAG+ +T++ ++ N
Sbjct: 56 DAIAVKADVSSEEDVENLVEQIVEKFGKIDILVNNAGISNFGLVTDMTDEEWDRVIDVNL 115
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
G L T LP +IK I+N+SS WG G S Y SK A
Sbjct: 116 TGVMLLTRYALPYMIKRKSGVIVNISS---IWG-----------LIGASCEVLYSASKGA 161
Query: 190 NILFTTELAKRL 201
FT LAK L
Sbjct: 162 VNAFTKALAKEL 173
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 97.7 bits (244), Expect = 8e-24
Identities = 54/190 (28%), Positives = 75/190 (39%), Gaps = 22/190 (11%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A+VTG+ G+G A LA+ GA V +A A + + G
Sbjct: 5 LAGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEAA------GGRA 58
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLG 131
DL+ SV++ + L+NNAG+ +L D ++ N G
Sbjct: 59 HAIAADLADPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATELDIDTWDAVMNVNVRG 118
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANI 191
+L LP + S RI+NL+S WG K GAY SK A I
Sbjct: 119 TFLMLRAALPHLRDSGRGRIVNLASDTALWG----------APKL----GAYVASKGAVI 164
Query: 192 LFTTELAKRL 201
T LA+ L
Sbjct: 165 GMTRSLAREL 174
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 97.6 bits (244), Expect = 9e-24
Identities = 56/195 (28%), Positives = 84/195 (43%), Gaps = 30/195 (15%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL+GK AIVTG+++GIG+ A A GARV++ R+ E AE A +I G
Sbjct: 2 RLEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEIL-------AGGR 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV------MMCPRQLTEDGYELQFA 126
+ D+S V L+ ++ +L+NNAG ++ + E ++ FA
Sbjct: 55 AIAVAADVSDEADVEAAVAAALERFGSVDILVNNAGTTHRNGPLL---DVDEAEFDRIFA 111
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRS 186
N YL+T +P + I+N++S A + G Y S
Sbjct: 112 VNVKSPYLWTQAAVPAMRGEGGGAIVNVASTA------GLRPRP--------GLGWYNAS 157
Query: 187 KLANILFTTELAKRL 201
K A I T LA L
Sbjct: 158 KGAVITLTKALAAEL 172
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 96.4 bits (241), Expect = 2e-23
Identities = 57/194 (29%), Positives = 91/194 (46%), Gaps = 26/194 (13%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L GKTA+VTG++ GIG+ A LA GA+V++ + E AE A ++R GE
Sbjct: 2 SLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELR------AAGGE 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV--MMCPRQLTEDGYELQFATNHL 130
+ D+S +VR + ++ A+ +L+NNAG+ +++E+ ++ N
Sbjct: 56 ARVLVFDVSDEAAVRALIEAAVEAFGALDILVNNAGITRDALLPRMSEEDWDRVIDVNLT 115
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G + LP +IK+ RI+N+SS++ G G Y +K
Sbjct: 116 GTFNVVRAALPPMIKARYGRIVNISSVS-----GVT---------GNPGQTNYSAAKAGV 161
Query: 191 ILFT----TELAKR 200
I FT ELA R
Sbjct: 162 IGFTKALALELASR 175
>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 = 93.8 bits (234), Expect = 2e-22
Identities = 55/191 (28%), Positives = 89/191 (46%), Gaps = 30/191 (15%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVVI 75
K A+VTG++ GIG+ A LA GA+V + RS E A ++I K G
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEI-------KALGGNAAA 53
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-----MMCPRQLTEDGYELQFATNHL 130
+ D+S ++V +++ + +L+NNAG+ +M +++E+ ++ N
Sbjct: 54 LEADVSDREAVEALVEKVEAEFGPVDILVNNAGITRDNLLM---RMSEEDWDAVINVNLT 110
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G + T ++ +IK RIIN+SS+ G+ N Y+A SK
Sbjct: 111 GVFNVTQAVIRAMIKRRSGRIINISSVVGLIGN----PGQAN----YAA------SKAGV 156
Query: 191 ILFTTELAKRL 201
I FT LAK L
Sbjct: 157 IGFTKSLAKEL 167
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 93.3 bits (233), Expect = 3e-22
Identities = 57/196 (29%), Positives = 91/196 (46%), Gaps = 29/196 (14%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLE-KAETAADDIRTSLKDVKDA 70
L+GK A+VTG++ GIG+ A LA +GA V++ S E AE +I
Sbjct: 1 MSLEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIG------ALG 54
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM----MCPRQLTEDGYELQFA 126
G+ + Q D+S +SV + E + +L+NNAG+ + ++ E+ ++
Sbjct: 55 GKALAVQGDVSDAESVERAVDEAKAEFGGVDILVNNAGITRDNLL--MRMKEEDWDRVID 112
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGD-GSMHFEDINLEKGYSATGAYGR 185
TN G + T + ++K RIIN+SS+ G+ G + Y+A
Sbjct: 113 TNLTGVFNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQAN---------YAA------ 157
Query: 186 SKLANILFTTELAKRL 201
SK I FT LA+ L
Sbjct: 158 SKAGVIGFTKSLAREL 173
>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 = 93.1 bits (232), Expect = 4e-22
Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 11/144 (7%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K ++TG ++GIG A LA +G RVI R+ +K E+ + + +L EV+
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELLNDNL-------EVL-- 51
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM-CP-RQLTEDGYELQFATNHLGHYL 134
+LD++ +S++ +E+++ I +L+NNAG + P + + + F N G
Sbjct: 52 ELDVTDEESIKAAVKEVIERFGRIDVLVNNAGYGLFGPLEETSIEEVRELFEVNVFGPLR 111
Query: 135 FTLLLLPRIIKSAPARIINLSSLA 158
T LP + K RI+N+SS+A
Sbjct: 112 VTRAFLPLMRKQGSGRIVNVSSVA 135
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 92.7 bits (231), Expect = 5e-22
Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 10/152 (6%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
T L GK A++TG+++GIG+ TA LA+ GA+V++A R E+ E AD+I AG
Sbjct: 2 TTLKGKVALITGASSGIGEATARALAEAGAKVVLAARREERLEALADEIG--------AG 53
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNH 129
+ LD++ +V + + + I +L+NNAG+ + + D ++ TN
Sbjct: 54 AALALALDVTDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEADLDDWDRMIDTNV 113
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTW 161
G T +LP +++ IINL S+A +
Sbjct: 114 KGLLNGTRAVLPGMVERKSGHIINLGSIAGRY 145
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 93.2 bits (232), Expect = 1e-21
Identities = 50/132 (37%), Positives = 69/132 (52%), Gaps = 12/132 (9%)
Query: 20 IVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
I+TG+++G+G TA LA+ G V+MACR KAE AA + L
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSAGM------PKDSYTVMHL 54
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGVMM----CPRQLTEDGYELQFATNHLGHYL 134
DL+SL SVR+ + + +L+ NA V + P T DG+EL TNHLGH+L
Sbjct: 55 DLASLDSVRQFVDNFRRSGRPLDVLVCNAAVYLPTAKEPT-FTADGFELSVGTNHLGHFL 113
Query: 135 FTLLLLPRIIKS 146
+ LLL + KS
Sbjct: 114 LSRLLLDDLKKS 125
>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 = 90.4 bits (225), Expect = 4e-21
Identities = 54/189 (28%), Positives = 90/189 (47%), Gaps = 22/189 (11%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
KT ++TG+++GIG+ TA AK GA++I+ R E+ + AD++ +V+
Sbjct: 1 KTVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFP-----VKVLPL 55
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCP-RQLTEDGYELQFATNHLGHY 133
QLD+S +S+ + + + I +L+NNAG+ + P ++ + +E TN G
Sbjct: 56 QLDVSDRESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLEDWETMIDTNVKGLL 115
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILF 193
T L+LP +I IINL S+A + Y+ Y +K A F
Sbjct: 116 NVTRLILPIMIARNQGHIINLGSIAGRY--------------PYAGGNVYCATKAAVRQF 161
Query: 194 TTELAKRLQ 202
+ L K L
Sbjct: 162 SLNLRKDLI 170
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 90.9 bits (226), Expect = 4e-21
Identities = 54/176 (30%), Positives = 82/176 (46%), Gaps = 21/176 (11%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
K AIVTG+++G G T ELAK+G VI R+ EK E ++ + + + +
Sbjct: 3 KKIAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQE----NLLSQATQLNLQQNIKV 58
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMC--PRQLTEDGYELQFATNHLGHY 133
+QLD++ S+ Q +L I LL+NNAG ++ + Y QF TN G
Sbjct: 59 QQLDVTDQNSI-HNFQLVLKEIGRIDLLVNNAGYANGGFVEEIPVEEYRKQFETNVFGAI 117
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
T +LP + K +IIN+SS++ G + G+ Y SK A
Sbjct: 118 SVTQAVLPYMRKQKSGKIINISSIS-----GRV---------GFPGLSPYVSSKYA 159
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 88.2 bits (219), Expect = 2e-20
Identities = 57/190 (30%), Positives = 87/190 (45%), Gaps = 28/190 (14%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A++TG+ GIG+ A LAK G V + R+ E + A+++ VK V
Sbjct: 5 LQGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAY--GVK----V 58
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-----MMCPRQLTEDGYELQFATN 128
VI D+S + V +++ + +I +LINNAG+ + +L +E N
Sbjct: 59 VIATADVSDYEEVTAAIEQLKNELGSIDILINNAGISKFGKFL---ELDPAEWEKIIQVN 115
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKL 188
+G Y T +LP +I+ IIN+SS A +KG + T AY SK
Sbjct: 116 LMGVYYATRAVLPSMIERQSGDIINISSTAG--------------QKGAAVTSAYSASKF 161
Query: 189 ANILFTTELA 198
+ T L
Sbjct: 162 GVLGLTESLM 171
>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 = 86.9 bits (216), Expect = 6e-20
Identities = 43/148 (29%), Positives = 70/148 (47%), Gaps = 14/148 (9%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK A+VT +++GIG A LA+ GARV + R+ E E AA ++R V+
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRENLERAASELRAGG------AGVLA 54
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQ-----LTEDGYELQFATNHL 130
DL+ + + + ++ D + +L+NNAG P LT++ + F L
Sbjct: 55 VVADLTDPEDIDRLVEKAGDAFGRVDILVNNAG---GPPPGPFAELTDEDWLEAFDLKLL 111
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLA 158
+LP + + RI+N+SSL
Sbjct: 112 SVIRIVRAVLPGMKERGWGRIVNISSLT 139
>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 = 86.2 bits (214), Expect = 1e-19
Identities = 43/145 (29%), Positives = 68/145 (46%), Gaps = 4/145 (2%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK ++TG ++GIGK A EL K GA VI+ RS K E A ++I +V
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAE--ANASGQKVSY 58
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP--RQLTEDGYELQFATNHLGHY 133
DLS + V + + ++ L++N AG+ + LT + +E N+ G
Sbjct: 59 ISADLSDYEEVEQAFAQAVEKGGPPDLVVNCAGISIPGLFEDLTAEEFERGMDVNYFGSL 118
Query: 134 LFTLLLLPRIIKSAPARIINLSSLA 158
+LP + + P I+ +SS A
Sbjct: 119 NVAHAVLPLMKEQRPGHIVFVSSQA 143
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 86.1 bits (214), Expect = 1e-19
Identities = 41/152 (26%), Positives = 72/152 (47%), Gaps = 11/152 (7%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS-LEKAETAADDIRTSLKDVKD 69
L G+ A+VTG+ G+G+ A LA+ GA V++ RS E AE + V+
Sbjct: 1 MGSLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELV-------EAVEA 53
Query: 70 AG-EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFA 126
G Q D++ ++ ++ I +L+NNAG+ P +++D ++
Sbjct: 54 LGRRAQAVQADVTDKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLADMSDDEWDEVID 113
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLA 158
N G + ++P + K RI+N+SS+A
Sbjct: 114 VNLSGVFHLLRAVVPPMRKQRGGRIVNISSVA 145
>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 = 82.9 bits (205), Expect = 2e-18
Identities = 58/191 (30%), Positives = 83/191 (43%), Gaps = 26/191 (13%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L+GK AIVTG+ GIG A LA+ GARV++A A+ I G +
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQI--------AGGAL 52
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE---DGYELQFATNHL 130
+R +D++ + V + ++ + LL+NNAG M + + ++ A N
Sbjct: 53 ALR-VDVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDTDLAVWDQTMAINLR 111
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G +L PR+I I+NLSS+A GD GAYG SK A
Sbjct: 112 GTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDP--------------GYGAYGASKAAI 157
Query: 191 ILFTTELAKRL 201
T LA L
Sbjct: 158 RNLTRTLAAEL 168
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 82.5 bits (204), Expect = 3e-18
Identities = 56/194 (28%), Positives = 81/194 (41%), Gaps = 28/194 (14%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
R D K AIVTG+ GIG+ A LA+ GA V++A + E AE A I V D G
Sbjct: 3 RFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQI------VADGGT 56
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTE---DGYELQFAT 127
+ Q+D+S S + A + I L+NNA + M L D Y+ +
Sbjct: 57 AIAVQVDVSDPDSAKAMADATVSAFGGIDYLVNNAAIYGGMKLDLLITVPWDYYKKFMSV 116
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK 187
N G + T + + K I+N SS A + + YG +K
Sbjct: 117 NLDGALVCTRAVYKHMAKRGGGAIVNQSSTA-----------------AWLYSNFYGLAK 159
Query: 188 LANILFTTELAKRL 201
+ T +LA+ L
Sbjct: 160 VGLNGLTQQLAREL 173
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 82.1 bits (203), Expect = 4e-18
Identities = 54/189 (28%), Positives = 85/189 (44%), Gaps = 22/189 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RLDG+TA++TG++ GIG A E GA V++ R + A R L + E
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQA----RDELAEEFPERE 61
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL--TEDGYELQFATNHL 130
V D+S + R + D+ +H+L+NNAG + + TED + F TN
Sbjct: 62 VHGLAADVSDDEDRRAILDWVEDHWDGLHILVNNAGGNIRKAAIDYTEDEWRGIFETNLF 121
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA-YGRSKLA 189
+ + P + + A + I+N+ S++ G H +GA YG +K A
Sbjct: 122 SAFELSRYAHPLLKQHASSAIVNIGSVS-----GLTH----------VRSGAPYGMTKAA 166
Query: 190 NILFTTELA 198
+ T LA
Sbjct: 167 LLQMTRNLA 175
>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 = 81.9 bits (203), Expect = 4e-18
Identities = 49/155 (31%), Positives = 73/155 (47%), Gaps = 10/155 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A +TG TGIGK A A+ GA V +A R E E AA++I ++ G
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSAT-----GGRA 55
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNA-GVMMCP-RQLTEDGYELQFATNHLG 131
Q D+ ++V E L I +LINNA G + P L+ +G++ + G
Sbjct: 56 HPIQCDVRDPEAVEAAVDETLKEFGKIDILINNAAGNFLAPAESLSPNGFKTVIDIDLNG 115
Query: 132 HYLFTLLLLPRIIKS-APARIINLSSLAHTWGDGS 165
+ T + R+I++ I+N+S A GS
Sbjct: 116 TFNTTKAVGKRLIEAKHGGSILNIS--ATYAYTGS 148
>gnl|CDD|187645 cd08941, 3KS_SDR_c, 3-keto steroid reductase, classical (c) SDRs.
3-keto steroid reductase (in concert with other enzymes)
catalyzes NADP-dependent sterol C-4 demethylation, as
part of steroid biosynthesis. 3-keto reductase is a
classical SDR, with a well conserved canonical active
site tetrad and fairly well conserved characteristic
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 290
Score = 81.3 bits (201), Expect = 1e-17
Identities = 61/237 (25%), Positives = 93/237 (39%), Gaps = 49/237 (20%)
Query: 17 KTAIVTGSNTGIG-----KCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
K +VTG+N+G+G + A + +I+ACR+L++AE A + S D +
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASHPDARVVF 61
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP------------------ 113
+ V +DLS++ SV A+E+ + L NAG+M P
Sbjct: 62 DYV--LVDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNPGIDWIGAIKEVLTNPLFA 119
Query: 114 -----------------RQLTEDGYELQFATNHLGHYLFTLLLLPRIIKSA-PARIINLS 155
+ TEDG F TN GHY L P + +S ++II S
Sbjct: 120 VTNPTYKIQAEGLLSQGDKATEDGLGEVFQTNVFGHYYLIRELEPLLCRSDGGSQIIWTS 179
Query: 156 SLAHTWGDGSMHFEDINLEKGYSATGAYGRSK-LANILFTTELAKRLQVNFSRHYSC 211
SL + EDI KG Y SK L ++L K ++ +
Sbjct: 180 SLNAS--PKYFSLEDIQHLKG---PAPYSSSKYLVDLLSLALNRKFNKLGVYSYVVH 231
>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 = 80.0 bits (198), Expect = 1e-17
Identities = 42/148 (28%), Positives = 65/148 (43%), Gaps = 16/148 (10%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L G T ++TG +GIG A + + G VI+ R E+ A K+ +
Sbjct: 3 LTGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREERLAEA----------KKELPNI 52
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE-----DGYELQFATN 128
LD+ +SV A+ +L + +LINNAG+ P L + D + + TN
Sbjct: 53 HTIVLDVGDAESVEALAEALLSEYPNLDILINNAGIQR-PIDLRDPASDLDKADTEIDTN 111
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSS 156
+G LP + K A I+N+SS
Sbjct: 112 LIGPIRLIKAFLPHLKKQPEATIVNVSS 139
>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 = 79.3 bits (196), Expect = 2e-17
Identities = 56/186 (30%), Positives = 85/186 (45%), Gaps = 26/186 (13%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
++TG+++GIG+ TA A+RGA+V++A RS E A ++R GE + D
Sbjct: 4 VITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVREL------GGEAIAVVAD 57
Query: 80 LSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLGHYLFTL 137
++ V + A ++ I +NNAGV + R +T + + F N+LGH TL
Sbjct: 58 VADAAQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPEEFRRVFDVNYLGHVYGTL 117
Query: 138 LLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFT--- 194
LP + + +IN+ SL G S + AY SK A FT
Sbjct: 118 AALPHLRRRGGGALINVGSLL---GYRSAPLQ-----------AAYSASKHAVRGFTESL 163
Query: 195 -TELAK 199
ELA
Sbjct: 164 RAELAH 169
>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 = 78.9 bits (195), Expect = 5e-17
Identities = 56/192 (29%), Positives = 79/192 (41%), Gaps = 25/192 (13%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMA-CRSLEKAETAADDIRTSLKDVKDAGE 72
L GK A+VTG++ GIG+ A LA+ GA V++ S AE +I G+
Sbjct: 1 LAGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIE------AAGGK 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNHL 130
+ Q D+S V + + +L+NNAGVM P + +E+ ++ F N
Sbjct: 55 AIAVQADVSDPSQVARLFDAAEKAFGGVDILVNNAGVMLKKPIAETSEEEFDRMFTVNTK 114
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G + R+ RIIN+SS GAY SK A
Sbjct: 115 GAFFVLQEAAKRL--RDGGRIINISSSL--------------TAAYTPNYGAYAGSKAAV 158
Query: 191 ILFTTELAKRLQ 202
FT LAK L
Sbjct: 159 EAFTRVLAKELG 170
>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 = 78.4 bits (194), Expect = 8e-17
Identities = 45/149 (30%), Positives = 73/149 (48%), Gaps = 11/149 (7%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK I+TG+++GIG+ A LA+ GAR++++ R E+ E + A
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLE-----LGAPSP 55
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL----TEDGYELQFATNH 129
+ LD+S L+ + +E L + +LINNAG+ M R L + D N+
Sbjct: 56 HVVPLDMSDLEDAEQVVEEALKLFGGLDILINNAGISM--RSLFHDTSIDVDRKIMEVNY 113
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
G T LP +I+ + I+ +SS+A
Sbjct: 114 FGPVALTKAALPHLIERSQGSIVVVSSIA 142
>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 = 77.7 bits (192), Expect = 8e-17
Identities = 55/191 (28%), Positives = 85/191 (44%), Gaps = 28/191 (14%)
Query: 19 AIVTGSNTGIGKCTANELAKRG-ARVIMACRSLEKAETAADDIRTSLKDVKDAGE-VVIR 76
++TG++ GIG +L RG VI CR A T L + + + I
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVIATCRDPSAA--------TELAALGASHSRLHIL 52
Query: 77 QLDLSSLKSVRKCAQEI--LDNESAIHLLINNAGV--MMCP-RQLTEDGYELQFATNHLG 131
+LD++ + + A+ + ++ + +LINNAG+ P ++ + F N LG
Sbjct: 53 ELDVTDEIA--ESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQVNVLG 110
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANI 191
L T LP ++K A A+IIN+SS GS+ D YS Y SK A
Sbjct: 111 PLLLTQAFLPLLLKGARAKIINISSRV-----GSI--GDNTSGGWYS----YRASKAALN 159
Query: 192 LFTTELAKRLQ 202
+ T LA L+
Sbjct: 160 MLTKSLAVELK 170
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 77.8 bits (192), Expect = 1e-16
Identities = 44/150 (29%), Positives = 72/150 (48%), Gaps = 14/150 (9%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL GK A++TG+ +GIG+ A GARV++A +A AA +I + V
Sbjct: 3 RLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPAAIAV----- 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNHL 130
LD++ S+ + ++ I +L NNA + M P ++ D Y+ FA N
Sbjct: 58 ----SLDVTRQDSIDRIVAAAVERFGGIDILFNNAALFDMAPILDISRDSYDRLFAVNVK 113
Query: 131 GHYLFTLLLLPR--IIKSAPARIINLSSLA 158
G F + + R + + +IIN++S A
Sbjct: 114 G-LFFLMQAVARHMVEQGRGGKIINMASQA 142
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 77.4 bits (190), Expect = 2e-16
Identities = 53/192 (27%), Positives = 92/192 (47%), Gaps = 21/192 (10%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
+L+GK AIVTG GIGK LA+ GA+V++ S ++ AA+++ L +
Sbjct: 2 VQLNGKVAIVTGGAKGIGKAITVALAQEGAKVVINYNS---SKEAAENLVNELGK--EGH 56
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNH 129
+V Q D+S ++ + +E +++ + +L+NNAG+ ++L + +E N
Sbjct: 57 DVYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNAGITRDRTFKKLNREDWERVIDVNL 116
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
+ T +LP I ++ RII++SS+ I G+ T Y +K
Sbjct: 117 SSVFNTTSAVLPYITEAEEGRIISISSI-------------IGQAGGFGQTN-YSAAKAG 162
Query: 190 NILFTTELAKRL 201
+ FT LA L
Sbjct: 163 MLGFTKSLALEL 174
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 77.5 bits (191), Expect = 2e-16
Identities = 48/183 (26%), Positives = 78/183 (42%), Gaps = 23/183 (12%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L GK ++TG+++GIG+ A + A+RGA V+ R + + AD I + G+
Sbjct: 37 DLTGKRILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRITRA------GGD 90
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDG------YELQFA 126
+ DLS L +V ++ + +LINNAG + R+ + E
Sbjct: 91 AMAVPCDLSDLDAVDALVADVEKRIGGVDILINNAGRSI--RRPLAESLDRWHDVERTMV 148
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWG---DGSMHFEDINLEKGYSATGAY 183
N+ L P +++ IIN++ TWG + S F N K +A A
Sbjct: 149 LNYYAPLRLIRGLAPGMLERGDGHIINVA----TWGVLSEASPLFSVYNASK--AALSAV 202
Query: 184 GRS 186
R
Sbjct: 203 SRV 205
>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 = 76.8 bits (189), Expect = 3e-16
Identities = 55/194 (28%), Positives = 85/194 (43%), Gaps = 26/194 (13%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
+ GK +VTG + GIG+ A + GARVI++ R E AA+++ GE
Sbjct: 4 VAGKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEELSA-------YGEC 56
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP--RQLTEDGYELQFATNHLG 131
+ DLSS + + + + + +L+NNAG E G++ N
Sbjct: 57 IAIPADLSSEEGIEALVARVAERSDRLDVLVNNAGATWGAPLEAFPESGWDKVMDINVKS 116
Query: 132 HYLFTLLLLPRIIKSA----PARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK 187
+ T LLP + +A PAR+IN+ S+A G ++ +YG SK
Sbjct: 117 VFFLTQALLPLLRAAATAENPARVINIGSIAGIVVSGLENY-------------SYGASK 163
Query: 188 LANILFTTELAKRL 201
A T +LAK L
Sbjct: 164 AAVHQLTRKLAKEL 177
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 76.9 bits (190), Expect = 3e-16
Identities = 48/163 (29%), Positives = 75/163 (46%), Gaps = 25/163 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A++TG +G A ELA+ GA+V + R+ EKAE +I+ + GE
Sbjct: 8 LKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAA------GGEA 61
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP------------------RQ 115
+ + D+ +S+ + Q+IL++ +LIN AG P
Sbjct: 62 LAVKADVLDKESLEQARQQILEDFGPCDILINGAGGNH-PKATTDNEFHELIEPTKTFFD 120
Query: 116 LTEDGYELQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLA 158
L E+G+E F N LG L T + ++ IIN+SS+
Sbjct: 121 LDEEGFEFVFDLNLLGTLLPTQVFAKDMVGRKGGNIINISSMN 163
>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 = 76.3 bits (188), Expect = 4e-16
Identities = 64/262 (24%), Positives = 100/262 (38%), Gaps = 43/262 (16%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADD-----IRTSLKDVK 68
L GK A VTG++ GIG+ A LAK GA V++A ++ + + + I + ++++
Sbjct: 1 LSGKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIE 60
Query: 69 DAG-EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDG----YEL 123
AG + + +D+ VR + +D + +L+NNAG + L ED ++L
Sbjct: 61 AAGGQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGAIW--LSLVEDTPAKRFDL 118
Query: 124 QFATNHLGHYLFTLLLLPRIIKSAPARIINLSS---LAHTWGDGSMHFEDINLEKGYSAT 180
N G YL + LP ++K+ I+N+S L GD
Sbjct: 119 MQRVNLRGTYLLSQAALPHMVKAGQGHILNISPPLSLRPARGD----------------- 161
Query: 181 GAYGRSKLANILFTTELAKRLQVNFSRH---YSCRLPKEILGRTKRFSNLTILLCDANLQ 237
AY K T LA RH + P + T + L D
Sbjct: 162 VAYAAGKAGMSRLTLGLAA----ELRRHGIAVNSLWPSTAI-ETPAATEL-SGGSDPARA 215
Query: 238 TPTNHYCKNVL--FHPPGANIT 257
VL P A T
Sbjct: 216 RSPEILSDAVLAILSRPAAERT 237
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 76.1 bits (188), Expect = 4e-16
Identities = 47/182 (25%), Positives = 68/182 (37%), Gaps = 35/182 (19%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGAR-VIMACRSLEKAETAADDIRTSLKDVKDA 70
+ GK +VTG+N GIG+ +L RGA V A R E
Sbjct: 2 MDIKGKVVLVTGANRGIGRAFVEQLLARGAAKVYAAARDPESVTDLGPR----------- 50
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL---TEDGYELQFAT 127
VV QLD++ SV A+ D + +L+NNAG+ L ED + T
Sbjct: 51 --VVPLQLDVTDPASVAAAAEAASD----VTILVNNAGIFRTGSLLLEGDEDALRAEMET 104
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK 187
N+ G P + + I+N+ S+ +W + G Y SK
Sbjct: 105 NYFGPLAMARAFAPVLAANGGGAIVNVLSVL-SW-------------VNFPNLGTYSASK 150
Query: 188 LA 189
A
Sbjct: 151 AA 152
Score = 27.5 bits (62), Expect = 7.7
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 263 AVHPGVVDTELSRHFD 278
VHPG +DT+++ D
Sbjct: 173 GVHPGPIDTDMAAGLD 188
>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 = 75.7 bits (187), Expect = 5e-16
Identities = 59/193 (30%), Positives = 89/193 (46%), Gaps = 37/193 (19%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRS-LEKAETAADDIRTSLKDVKDAGEVVIRQ 77
A+VTG++ GIG+ A +LAK GA+VI+ RS E AE ++++ + +
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAY------GVKALGVV 54
Query: 78 LDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGY-----ELQF----ATN 128
D+S + V+ +EI + I +L+NNAG+ T D E + TN
Sbjct: 55 CDVSDREDVKAVVEEIEEELGPIDILVNNAGI-------TRDNLLMRMKEEDWDAVIDTN 107
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKL 188
G + T +L +IK RIIN+SS+ G+ + Y+A SK
Sbjct: 108 LTGVFNLTQAVLRIMIKQRSGRIINISSVVGLMGNAG--------QANYAA------SKA 153
Query: 189 ANILFTTELAKRL 201
I FT LAK L
Sbjct: 154 GVIGFTKSLAKEL 166
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 78.5 bits (194), Expect = 5e-16
Identities = 43/150 (28%), Positives = 71/150 (47%), Gaps = 14/150 (9%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L GK ++TG+++GIG+ TA ++A+ GA V + R+ E + +IR G
Sbjct: 368 PLVGKVVLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRA------KGGT 421
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDG------YELQFA 126
DL+ +V ++IL + L+NNAG + R+ E+ YE A
Sbjct: 422 AHAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNAGRSI--RRSVENSTDRFHDYERTMA 479
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSS 156
N+ G L LLP + + ++N+SS
Sbjct: 480 VNYFGAVRLILGLLPHMRERRFGHVVNVSS 509
>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 = 76.0 bits (187), Expect = 6e-16
Identities = 59/194 (30%), Positives = 87/194 (44%), Gaps = 28/194 (14%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLDL 80
+TGS+ G+G A L +G V++ RS ++A A A V+I DL
Sbjct: 12 ITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAK-------AACPGAAGVLIG--DL 62
Query: 81 SSLKSVRKCAQEI--LDNESAIHLLINNAGVMMCPRQLTED-GYELQFATNHLGHYLFTL 137
SSL RK A ++ + A+ I+NAG++ P + T D G A N L Y+ T
Sbjct: 63 SSLAETRKLADQVNAIGRFDAV---IHNAGILSGPNRKTPDTGIPAMVAVNVLAPYVLTA 119
Query: 138 LLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEK-GYSATGAYGRSKLANILFTTE 196
L+ P R+I LSS H G+ S+ +DI+ G + + AY SK L
Sbjct: 120 LIRR------PKRLIYLSSGMHRGGNASL--DDIDWFNRGENDSPAYSDSK----LHVLT 167
Query: 197 LAKRLQVNFSRHYS 210
LA + + S
Sbjct: 168 LAAAVARRWKDVSS 181
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 75.5 bits (186), Expect = 8e-16
Identities = 58/198 (29%), Positives = 89/198 (44%), Gaps = 26/198 (13%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
LDGK AIVTG NTG+G+ A LAK GA +I+ ET + ++ G
Sbjct: 12 SLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTNWDETR--------RLIEKEGR 63
Query: 73 -VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL--TEDGYELQFATNH 129
V Q+DL+ +S K +E L+ I +L+NNAG + L ++ + N
Sbjct: 64 KVTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNAGTIRRAPLLEYKDEDWNAVMDINL 123
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT--GAYGRSK 187
Y + + + K +IIN++S+ + F+ Y+A+ G G +K
Sbjct: 124 NSVYHLSQAVAKVMAKQGSGKIINIASM--------LSFQGGKFVPAYTASKHGVAGLTK 175
Query: 188 LANILFTTELA-KRLQVN 204
F ELA +QVN
Sbjct: 176 ----AFANELAAYNIQVN 189
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 75.5 bits (186), Expect = 9e-16
Identities = 46/143 (32%), Positives = 72/143 (50%), Gaps = 15/143 (10%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K+ ++TG ++GIG A EL +RG RV+ ACR K + A +
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAACR---KPDDVARMNSLGFTGI--------- 50
Query: 77 QLDLSSLKSVRKCAQEILD-NESAIHLLINNAGV-MMCPRQ-LTEDGYELQFATNHLGHY 133
LDL +SV + A E++ ++ ++ L NNAG + P ++ E QF+TN G +
Sbjct: 51 LLDLDDPESVERAADEVIALTDNRLYGLFNNAGFGVYGPLSTISRQQMEQQFSTNFFGTH 110
Query: 134 LFTLLLLPRIIKSAPARIINLSS 156
T+LLLP ++ RI+ SS
Sbjct: 111 QLTMLLLPAMLPHGEGRIVMTSS 133
>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 = 75.1 bits (185), Expect = 1e-15
Identities = 57/200 (28%), Positives = 90/200 (45%), Gaps = 31/200 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A+VTG++ GIG A+ LA+ GA +++ R+ EKAE A I K+ E
Sbjct: 3 LKGKVALVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIE------KEGVEA 56
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQF----ATNH 129
D+S ++++ + I ++ I +L+NNAG+ R E+ E ++ N
Sbjct: 57 TAFTCDVSDEEAIKAAVEAIEEDFGKIDILVNNAGI--IRRHPAEEFPEAEWRDVIDVNL 114
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
G + + + +IK +IIN+ S + E G AY SK
Sbjct: 115 NGVFFVSQAVARHMIKQGHGKIINICS--------------LLSELGGPPVPAYAASKGG 160
Query: 190 NILFT----TELAKR-LQVN 204
T TE A+ +QVN
Sbjct: 161 VAGLTKALATEWARHGIQVN 180
>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 = 74.9 bits (184), Expect = 1e-15
Identities = 45/147 (30%), Positives = 76/147 (51%), Gaps = 8/147 (5%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A+VTG+++GIG+ TA LA GA V +A R +++ E AD++ G+
Sbjct: 1 LQGKVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEAE------GGKA 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQ--FATNHLG 131
++ +LD++ + V + ++ + +L+NNAG+M+ D + TN LG
Sbjct: 55 LVLELDVTDEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTTDWTRMIDTNLLG 114
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
T LP + I+N+SS+A
Sbjct: 115 LMYTTHAALPHHLLRNKGTIVNISSVA 141
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 74.9 bits (185), Expect = 1e-15
Identities = 44/147 (29%), Positives = 73/147 (49%), Gaps = 10/147 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L GK A+VTG+ +GIG A LAK GA+V++A + E A AA+ ++ K G+
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQ------KAGGK 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG---VMMCPRQLTEDGYELQFATNH 129
+ +D++ +++ ++ + +L+NNAG V TE ++ A
Sbjct: 55 AIGVAMDVTDEEAINAGIDYAVETFGGVDILVNNAGIQHVAPIEDFPTEK-WKKMIAIML 113
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSS 156
G +L T LP + RIIN++S
Sbjct: 114 DGAFLTTKAALPIMKAQGGGRIINMAS 140
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 75.2 bits (185), Expect = 1e-15
Identities = 46/149 (30%), Positives = 77/149 (51%), Gaps = 11/149 (7%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL+ K A++TG++TGIG+ +A LA+ GA V+ + E D I+ + G+
Sbjct: 3 RLENKVAVITGASTGIGQASAIALAQEGAYVLAVDIA-EAVSETVDKIK------SNGGK 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE---DGYELQFATNH 129
+D+S + V+ A EI + + +L NNAGV ++ E D ++ A +
Sbjct: 56 AKAYHVDISDEQQVKDFASEIKEQFGRVDVLFNNAGVDNAAGRIHEYPVDVFDKIMAVDM 115
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
G +L T +LLP +++ IIN SS +
Sbjct: 116 RGTFLMTKMLLPLMMEQG-GSIINTSSFS 143
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 74.8 bits (184), Expect = 2e-15
Identities = 49/188 (26%), Positives = 81/188 (43%), Gaps = 22/188 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
+L GKTA++TG+ GIG+ A A+ GA +I+ S + E AD++
Sbjct: 3 KLTGKTALITGALQGIGEGIARVFARHGANLILLDIS-PEIEKLADEL------CGRGHR 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHL 130
D+ SV + + E I +L+NNAGV ++++ + N
Sbjct: 56 CTAVVADVRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHIDINIK 115
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G + T +LP +I RI+ +SS+ D+ + G + AY +K A
Sbjct: 116 GVWNVTKAVLPEMIARKDGRIVMMSSVTG----------DMVADPGET---AYALTKAAI 162
Query: 191 ILFTTELA 198
+ T LA
Sbjct: 163 VGLTKSLA 170
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 74.6 bits (184), Expect = 2e-15
Identities = 47/148 (31%), Positives = 71/148 (47%), Gaps = 22/148 (14%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K A+VTG+++GIGK TA LA +G V A R ++K ++D+ G +
Sbjct: 4 KVALVTGASSGIGKATARRLAAQGYTVYGAARRVDK-----------MEDLASLGVHPLS 52
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAG------VMMCPRQLTEDGYELQFATNHL 130
LD++ S++ I+ E I +L+NNAG + P + E QF N
Sbjct: 53 -LDVTDEASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAIEDVP--IDEARR--QFEVNLF 107
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLA 158
G T L+LP + RIIN+SS+
Sbjct: 108 GAARLTQLVLPHMRAQRSGRIINISSMG 135
>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 = 73.8 bits (182), Expect = 3e-15
Identities = 50/185 (27%), Positives = 83/185 (44%), Gaps = 36/185 (19%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQ 77
++TG +GIG+ A E AKRGA+V++ + + AE A+++R K G+V +
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVR------KAGGKVHYYK 54
Query: 78 LDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM------CPRQLTEDGYELQFATNHLG 131
D+S + V + A++I + +LINNAGV+ P + E F N L
Sbjct: 55 CDVSKREEVYEAAKKIKKEVGDVTILINNAGVVSGKKLLELPDEEIEK----TFEVNTLA 110
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT---GAYGRSKL 188
H+ T LP +++ I+ ++S+A G + Y SK
Sbjct: 111 HFWTTKAFLPDMLERNHGHIVTIASVA-----------------GLISPAGLADYCASKA 153
Query: 189 ANILF 193
A + F
Sbjct: 154 AAVGF 158
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 73.5 bits (181), Expect = 4e-15
Identities = 44/154 (28%), Positives = 74/154 (48%), Gaps = 11/154 (7%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDA 70
L GK A+VTG +GIG A A +GARV + RS + AE AA + + K +
Sbjct: 10 AFDLSGKVAVVTGGASGIGHAIAELFAAKGARVALLDRSEDVAEVAAQLLGGNAKGL--- 66
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCPRQ-LTEDGYELQFATN 128
D+S +SV ++ I +L+N+AGV ++ P + ++E+ ++ N
Sbjct: 67 ------VCDVSDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDVSEEDWDKTIDIN 120
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWG 162
G +L + +I + +I+NL+S A
Sbjct: 121 LKGSFLMAQAVGRHMIAAGGGKIVNLASQAGVVA 154
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 72.9 bits (179), Expect = 5e-15
Identities = 46/195 (23%), Positives = 70/195 (35%), Gaps = 30/195 (15%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
L GK +TG G+G+ TA LA RGARV + R A + +L V
Sbjct: 3 HSLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRG-------AAPLSQTLPGVPADA 55
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNH 129
+ +DL ++ R+ E+ + L+N AG + D ++ + N
Sbjct: 56 LRIGG-IDLVDPQAARRAVDEVNRQFGRLDALVNIAGAFVWGTIADGDADTWDRMYGVNV 114
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT---GAYGRS 186
+ LP + S RI+N+ + A A GAY +
Sbjct: 115 KTTLNASKAALPALTASGGGRIVNIGAGA-----------------ALKAGPGMGAYAAA 157
Query: 187 KLANILFTTELAKRL 201
K T LA L
Sbjct: 158 KAGVARLTEALAAEL 172
>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 = 72.9 bits (179), Expect = 6e-15
Identities = 42/152 (27%), Positives = 73/152 (48%), Gaps = 17/152 (11%)
Query: 10 ADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKD 69
+ GK A+VTG+ GIG+ T LAK GARV+ R+ + SL V++
Sbjct: 1 MELDFAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLD--------SL--VRE 50
Query: 70 AGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFAT 127
+ +DLS + + L + + LL+NNA V ++ P ++T++ ++ F
Sbjct: 51 CPGIEPVCVDLSDWDATEEA----LGSVGPVDLLVNNAAVAILQPFLEVTKEAFDRSFDV 106
Query: 128 NHLGHYLFTLLLLPRII-KSAPARIINLSSLA 158
N + ++ +I + P I+N+SS A
Sbjct: 107 NVRAVIHVSQIVARGMIARGVPGSIVNVSSQA 138
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 72.7 bits (179), Expect = 6e-15
Identities = 44/149 (29%), Positives = 69/149 (46%), Gaps = 10/149 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A++TG + GIG A L G +V + R ++ E AA ++ + G V
Sbjct: 4 LKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAA-------AELNNKGNV 56
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFATNHLG 131
+ D+ V++ I+ + +LI NAGV P +LT + + L TN G
Sbjct: 57 LGLAADVRDEADVQRAVDAIVAAFGGLDVLIANAGVGHFAPVEELTPEEWRLVIDTNLTG 116
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHT 160
+ +P + + IIN+SSLA T
Sbjct: 117 AFYTIKAAVPALKRGGGY-IINISSLAGT 144
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 71.0 bits (175), Expect = 7e-15
Identities = 36/170 (21%), Positives = 64/170 (37%), Gaps = 19/170 (11%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVVI 75
T ++TG G+G A LA GAR ++ A AA+ + +++ G EV +
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVA----ELEALGAEVTV 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCPRQ-LTEDGYELQFATNHLGHY 133
D++ ++ + + +++NAGV+ P + LT + +E A G +
Sbjct: 57 AACDVADRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEELTPERFERVLAPKVTGAW 116
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAY 183
L + SS+A G Y+A A
Sbjct: 117 NLHELTRDL----DLGAFVLFSSVAGVLGSPGQA--------NYAAANAA 154
>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 = 72.5 bits (178), Expect = 8e-15
Identities = 50/188 (26%), Positives = 76/188 (40%), Gaps = 34/188 (18%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
DGK A++T + GIG+ A A+ GA VI A D LK+++ +
Sbjct: 1 DGKVALITAAAQGIGRAIALAFAREGANVI-----------ATDINEEKLKELERGPGIT 49
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR----QLTEDGYELQFATNHL 130
R LD++ + V A+E I +L N AG +D ++ N
Sbjct: 50 TRVLDVTDKEQVAALAKEE----GRIDVLFNCAGF--VHHGSILDCEDDDWDFAMNLNVR 103
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
YL +LP+++ IIN+SS+A S+ KG Y +K A
Sbjct: 104 SMYLMIKAVLPKMLARKDGSIINMSSVA-----SSI--------KGVPNRFVYSTTKAAV 150
Query: 191 ILFTTELA 198
I T +A
Sbjct: 151 IGLTKSVA 158
>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 = 72.5 bits (178), Expect = 9e-15
Identities = 49/173 (28%), Positives = 75/173 (43%), Gaps = 17/173 (9%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L+GKTA+VTG GIG ELA GA V R+ ++ + + R K K G
Sbjct: 3 NLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWRE--KGFKVEGS 60
Query: 73 VVIRQLDLSSLKSVRKCAQEILDN-ESAIHLLINNAGVMMCPRQL--TEDGYELQFATNH 129
V D+SS ++ + + +++L+NNAG + TE+ Y L +TN
Sbjct: 61 VC----DVSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEEDYSLIMSTNF 116
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA 182
Y + L P + S I+ +SS+A G + + Y AT
Sbjct: 117 EAAYHLSRLAHPLLKASGNGNIVFISSVA-----GVIA---VPSGAPYGATKG 161
>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 = 71.7 bits (176), Expect = 2e-14
Identities = 45/149 (30%), Positives = 73/149 (48%), Gaps = 12/149 (8%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL+GK AIVTG+ +G G+ A A+ GARV++A + + AE A DI
Sbjct: 2 RLEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADI---------GEA 52
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR---QLTEDGYELQFATNH 129
+ Q D++ V + L + +L+NNAG+ + ++ E+ ++ FA N
Sbjct: 53 AIAIQADVTKRADVEAMVEAALSKFGRLDILVNNAGITHRNKPMLEVDEEEFDRVFAVNV 112
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
YL L+P + + IIN++S A
Sbjct: 113 KSIYLSAQALVPHMEEQGGGVIINIASTA 141
>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 = 71.3 bits (175), Expect = 2e-14
Identities = 45/147 (30%), Positives = 72/147 (48%), Gaps = 10/147 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS-LEKAETAADDIRTSLKDVKDAGE 72
L GK A+VTG+++GIGK A LA GA V++ RS + AE ++I+ G+
Sbjct: 1 LKGKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKEDAAEEVVEEIK------AVGGK 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNHL 130
+ Q D+S + V Q + + +L+NNAG+ ++T + + N
Sbjct: 55 AIAVQADVSKEEDVVALFQSAIKEFGTLDILVNNAGLQGDASSHEMTLEDWNKVIDVNLT 114
Query: 131 GHYLFTLLLLPRIIKS-APARIINLSS 156
G +L + R KS +IIN+SS
Sbjct: 115 GQFLCAREAIKRFRKSKIKGKIINMSS 141
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 71.1 bits (175), Expect = 2e-14
Identities = 51/188 (27%), Positives = 80/188 (42%), Gaps = 30/188 (15%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
A++TG+++GIGK TA AK G + + RS + E A ++R++ +
Sbjct: 7 PRALITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELRST------GVKAAAY 60
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE---DGYELQFATNHLGHY 133
+DLS+ +++ E+L+ +LINNAG M L E ++ N +
Sbjct: 61 SIDLSNPEAIAPGIAELLEQFGCPDVLINNAG-MAYTGPLLEMPLSDWQWVIQLNLTSVF 119
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT---GAYGRSKLAN 190
+LP + IIN+SS+A +A GAY SK A
Sbjct: 120 QCCSAVLPGMRARGGGLIINVSSIA-----------------ARNAFPQWGAYCVSKAAL 162
Query: 191 ILFTTELA 198
FT LA
Sbjct: 163 AAFTKCLA 170
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 70.5 bits (173), Expect = 5e-14
Identities = 42/146 (28%), Positives = 67/146 (45%), Gaps = 6/146 (4%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL GK A+VTG+ GIG A A+ GA V +A AE AA I +
Sbjct: 4 RLAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAG----AR 59
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG--VMMCPRQLTEDGYELQFATNHL 130
V+ D++ SV + + +L+NNAG V P +T++ + FA +
Sbjct: 60 VLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNAGINVFADPLAMTDEDWRRCFAVDLD 119
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSS 156
G + +LP +++ I+N++S
Sbjct: 120 GAWNGCRAVLPGMVERGRGSIVNIAS 145
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 70.2 bits (172), Expect = 6e-14
Identities = 45/155 (29%), Positives = 80/155 (51%), Gaps = 16/155 (10%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L+GK A+VTG+++G+G A LA+ GA+V++A R +E+ + ++R ++ A V
Sbjct: 7 LEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRRVERLK----ELRAEIEAEGGAAHV 62
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLG 131
V LD++ +S++ I +L+NN+GV + +T ++ F TN G
Sbjct: 63 V--SLDVTDYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDVTPADFDFVFDTNTRG 120
Query: 132 HYLFTLLLLPRIIKSA--------PARIINLSSLA 158
+ + R+I A RIIN++S+A
Sbjct: 121 AFFVAQEVAKRMIARAKGAGNTKPGGRIINIASVA 155
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 69.8 bits (171), Expect = 7e-14
Identities = 45/146 (30%), Positives = 69/146 (47%), Gaps = 9/146 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL G+ AIVTG+ +GIG+ TA A+ GARV++A R E AE A I G
Sbjct: 2 RLAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAA-------GGR 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLT--EDGYELQFATNHL 130
RQ D+ S ++V + + +L+NNAG +T E ++ N
Sbjct: 55 AFARQGDVGSAEAVEALVDFVAARWGRLDVLVNNAGFGCGGTVVTTDEADWDAVMRVNVG 114
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSS 156
G +L+ +P + + I+N +S
Sbjct: 115 GVFLWAKYAIPIMQRQGGGSIVNTAS 140
>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 = 69.1 bits (169), Expect = 1e-13
Identities = 42/143 (29%), Positives = 69/143 (48%), Gaps = 9/143 (6%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
AIVTG GIGK A LAK GA V++A E AE A I+ + G+ + +
Sbjct: 2 AIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQ------QAGGQAIGLEC 55
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNA---GVMMCPRQLTEDGYELQFATNHLGHYLF 135
+++S + + + + I +L+NNA G +TE+ +E F N +
Sbjct: 56 NVTSEQDLEAVVKATVSQFGGITILVNNAGGGGPKPFDMPMTEEDFEWAFKLNLFSAFRL 115
Query: 136 TLLLLPRIIKSAPARIINLSSLA 158
+ L P + K+ I+N+SS++
Sbjct: 116 SQLCAPHMQKAGGGAILNISSMS 138
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 69.6 bits (171), Expect = 1e-13
Identities = 43/148 (29%), Positives = 62/148 (41%), Gaps = 12/148 (8%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L GK +TG GIG TA LA GARV + A+ A ++ G
Sbjct: 2 DLRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAEL----------GL 51
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL--TEDGYELQFATNHL 130
VV LD++ S + + I +L+NNAGVM L + N
Sbjct: 52 VVGGPLDVTDPASFAAFLDAVEADLGPIDVLVNNAGVMPVGPFLDEPDAVTRRILDVNVY 111
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLA 158
G L + L PR++ ++N++SLA
Sbjct: 112 GVILGSKLAAPRMVPRGRGHVVNVASLA 139
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 70.3 bits (173), Expect = 1e-13
Identities = 37/148 (25%), Positives = 66/148 (44%), Gaps = 8/148 (5%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
+ + ++TG++ G+G+ TA A+RGA+V++ R E E A +IR + GE
Sbjct: 5 PIGRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAA------GGE 58
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFATNHL 130
+ D++ ++V+ A + I +NNA V + P +T + + +L
Sbjct: 59 ALAVVADVADAEAVQAAADRAEEELGPIDTWVNNAMVTVFGPFEDVTPEEFRRVTEVTYL 118
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLA 158
G TL L + II + S
Sbjct: 119 GVVHGTLAALRHMRPRDRGAIIQVGSAL 146
>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 = 69.3 bits (170), Expect = 1e-13
Identities = 50/197 (25%), Positives = 81/197 (41%), Gaps = 29/197 (14%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K AI+TG +GIG TA L K+GA+V + R+ A L+ + +
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAAE------LQAINPKVKATFV 54
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-----MMCPRQLTEDGYELQFATNHLG 131
Q D++S + + ++ ++ + +LINNAG+ + +L +E N G
Sbjct: 55 QCDVTSWEQLAAAFKKAIEKFGRVDILINNAGILDEKSYLFAGKLPPP-WEKTIDVNLTG 113
Query: 132 HYLFTLLLLPRIIKSAP---ARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKL 188
T L L + K+ I+N+ S+A G + YSA SK
Sbjct: 114 VINTTYLALHYMDKNKGGKGGVIVNIGSVA---GLYPAPQFPV-----YSA------SKH 159
Query: 189 ANILFTTELAKRLQVNF 205
+ FT LA L+
Sbjct: 160 GVVGFTRSLADLLEYKT 176
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 68.8 bits (169), Expect = 2e-13
Identities = 56/201 (27%), Positives = 82/201 (40%), Gaps = 34/201 (16%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
+RL GKTA++TG +GIG TA + GARV + R E A R L
Sbjct: 2 SRLQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPASLEAA----RAEL-----GE 52
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFATNH 129
++ + D + + + AQ + + + + NAGV P E ++ F TN
Sbjct: 53 SALVIRADAGDVAAQKALAQALAEAFGRLDAVFINAGVAKFAPLEDWDEAMFDRSFNTNV 112
Query: 130 LGHYLFTLLLLPRIIKSAPARII-NLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKL 188
G Y LLP + + PA I+ N S AH G + Y SK
Sbjct: 113 KGPYFLIQALLP--LLANPASIVLNGSINAHI---------------GMPNSSVYAASKA 155
Query: 189 ANI----LFTTELAKR-LQVN 204
A + + EL R ++VN
Sbjct: 156 ALLSLAKTLSGELLPRGIRVN 176
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 69.0 bits (169), Expect = 2e-13
Identities = 53/198 (26%), Positives = 92/198 (46%), Gaps = 29/198 (14%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-E 72
L K +VTGS GIG+ A LAK G+ V++ A+ A+++ +LK VK+ G E
Sbjct: 4 LKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVV------NAKKRAEEMNETLKMVKENGGE 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDG--YELQFATNHL 130
+ D+S+ + A+ +D +L+NNAG+ + L D + +T+
Sbjct: 58 GIGVLADVSTREGCETLAKATIDRYGVADILVNNAGLGLFSPFLNVDDKLIDKHISTDFK 117
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
++ L + ++ A I+N++S+A G +++ YG K A
Sbjct: 118 S-VIYCSQELAKEMREGGA-IVNIASVA-----GIRPAYGLSI---------YGAMKAAV 161
Query: 191 ILFTT----ELAKRLQVN 204
I T ELA +++VN
Sbjct: 162 INLTKYLALELAPKIRVN 179
>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 = 68.1 bits (167), Expect = 3e-13
Identities = 53/197 (26%), Positives = 92/197 (46%), Gaps = 32/197 (16%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIM-----ACRSLEKAETAADDIRTSLKDV 67
R DG+ +VTG+ G+G+ A A+RGA+V++ + K+ +AAD + +K
Sbjct: 2 RFDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIK-- 59
Query: 68 KDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR-----QLTEDGYE 122
G+ V + S++ K + +D + +L+NNAG++ R +++E+ ++
Sbjct: 60 AAGGKAVA---NYDSVEDGEKIVKTAIDAFGRVDILVNNAGIL---RDRSFAKMSEEDWD 113
Query: 123 LQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA 182
L + G + T P + K RIIN SS A +G+ F N YSA
Sbjct: 114 LVMRVHLKGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGN----FGQAN----YSA--- 162
Query: 183 YGRSKLANILFTTELAK 199
+KL + + LA
Sbjct: 163 ---AKLGLLGLSNTLAI 176
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 67.9 bits (166), Expect = 4e-13
Identities = 49/190 (25%), Positives = 78/190 (41%), Gaps = 30/190 (15%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
R GK A++TG GIG+ A + GA+V + S E K++++ G
Sbjct: 4 RFKGKVALITGGTRGIGRAIAEAFLREGAKVAVLYNSAENEA----------KELREKG- 52
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNHL 130
V + D+ + V+K + + + +L+NNAG+M M + E+ Y N
Sbjct: 53 VFTIKCDVGNRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDEEKYNKMIKINLN 112
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA--YGRSKL 188
G T LP + S I+N++S N G +A G Y +K
Sbjct: 113 GAIYTTYEFLPLLKLSKNGAIVNIAS---------------NAGIGTAAEGTTFYAITKA 157
Query: 189 ANILFTTELA 198
I+ T LA
Sbjct: 158 GIIILTRRLA 167
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 67.8 bits (166), Expect = 4e-13
Identities = 45/144 (31%), Positives = 72/144 (50%), Gaps = 10/144 (6%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEK-AETAADDIRTSLKDVKDAGEVVI 75
+ AIVT S++GIGK A LA++G + + S E+ A+ A+++R I
Sbjct: 3 QVAIVTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEVR------SHGVRAEI 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQ--FATNHLGHY 133
RQLDLS L + +++ I +L+NNAG M L D E + F + G +
Sbjct: 57 RQLDLSDLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDFDEWRKIFTVDVDGAF 116
Query: 134 LFTLLLLPRIIKSA-PARIINLSS 156
L + + ++K RIIN++S
Sbjct: 117 LCSQIAARHMVKQGQGGRIINITS 140
>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 = 67.6 bits (165), Expect = 5e-13
Identities = 50/154 (32%), Positives = 80/154 (51%), Gaps = 14/154 (9%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
LDGKTA++TGS GIG+ A + GARV +A +LE A A +I + +
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAACAI------ 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNHLG 131
LD++ S+ +C ++D +I +L+NNA + + P +T + Y+ FA N G
Sbjct: 55 ---SLDVTDQASIDRCVAALVDRWGSIDILVNNAALFDLAPIVDITRESYDRLFAINVSG 111
Query: 132 HYLFTLLLLPR--IIKSAPARIINLSSLAHTWGD 163
LF + + R I + +IIN++S A G+
Sbjct: 112 -TLFMMQAVARAMIAQGRGGKIINMASQAGRRGE 144
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 67.7 bits (166), Expect = 5e-13
Identities = 40/146 (27%), Positives = 59/146 (40%), Gaps = 10/146 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L K ++TG++ GIG+ A LA GAR+++ R+ EK E A + G
Sbjct: 2 DLKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPYP-------GR 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHL 130
DL+S + I++LINNAGV + E A N
Sbjct: 55 HRWVVADLTSEAGREAVLARAREMG-GINVLINNAGVNHFALLEDQDPEAIERLLALNLT 113
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSS 156
T LLP + A ++N+ S
Sbjct: 114 APMQLTRALLPLLRAQPSAMVVNVGS 139
>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 = 67.0 bits (164), Expect = 6e-13
Identities = 45/188 (23%), Positives = 68/188 (36%), Gaps = 32/188 (17%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K A+VTG++ GIG A LA+ G RV + R+ E S G+V
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSLGLRNPEDLA------ALSASG----GDVEAV 50
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGY-----ELQFATNHLG 131
D + R + D I +L++NAG+ R T E F+ N +
Sbjct: 51 PYDARDPEDARALVDALRDRFGRIDVLVHNAGIG---RPTTLREGSDAELEAHFSINVIA 107
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANI 191
T LLP + ++ R++ L+SL+ Y SK A
Sbjct: 108 PAELTRALLPALREAGSGRVVFLNSLSGKRVLAGN--------------AGYSASKFALR 153
Query: 192 LFTTELAK 199
L +
Sbjct: 154 ALAHALRQ 161
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 67.2 bits (165), Expect = 9e-13
Identities = 44/143 (30%), Positives = 66/143 (46%), Gaps = 18/143 (12%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K A+VTG+++GIG+ TA +LA+ G RV R+ +A V +
Sbjct: 5 KVALVTGASSGIGRATAEKLARAGYRVFGTSRNPARAAPIPG--------------VELL 50
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM---CPRQLTEDGYELQFATNHLGHY 133
+LD++ SV+ E++ I +L+NNAGV + L F TN G
Sbjct: 51 ELDVTDDASVQAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSIAQAQAL-FDTNVFGIL 109
Query: 134 LFTLLLLPRIIKSAPARIINLSS 156
T +LP + RIIN+SS
Sbjct: 110 RMTRAVLPHMRAQGSGRIINISS 132
>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 = 66.3 bits (162), Expect = 9e-13
Identities = 50/186 (26%), Positives = 74/186 (39%), Gaps = 31/186 (16%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
KT +VTG+N GIGK L GA +V A R A K +VV
Sbjct: 3 DKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVRDPGSAAHLVA---------KYGDKVV 53
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE---DGYELQFATNHLG 131
+LD++ +S++ A + D + ++INNAGV+ L E + + + N G
Sbjct: 54 PLRLDVTDPESIKAAAAQAKD----VDVVINNAGVLKPATLLEEGALEALKQEMDVNVFG 109
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANI 191
P + + I+NL+S+A K + A G Y SK A
Sbjct: 110 LLRLAQAFAPVLKANGGGAIVNLNSVASL--------------KNFPAMGTYSASKSAAY 155
Query: 192 LFTTEL 197
T L
Sbjct: 156 SLTQGL 161
Score = 27.4 bits (61), Expect = 8.8
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 258 NVNTYAVHPGVVDTELSRHFD 278
+VHPG +DT ++
Sbjct: 169 GTLVLSVHPGPIDTRMAAGAG 189
>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 = 66.7 bits (163), Expect = 1e-12
Identities = 43/150 (28%), Positives = 68/150 (45%), Gaps = 18/150 (12%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG- 71
+ G T ++TG +GIG A + G VI+ R+ E+ L + K
Sbjct: 2 KTTGNTILITGGASGIGLALAKRFLELGNTVIICGRNEER-----------LAEAKAENP 50
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-----MCPRQLTEDGYELQFA 126
E+ D++ S R+ + + +++LINNAG+ L +D E + A
Sbjct: 51 EIHTEVCDVADRDSRRELVEWLKKEYPNLNVLINNAGIQRNEDLTGAEDLLDDA-EQEIA 109
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSS 156
TN L T LLLP +++ A IIN+SS
Sbjct: 110 TNLLAPIRLTALLLPHLLRQPEATIINVSS 139
>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 = 66.6 bits (163), Expect = 1e-12
Identities = 41/146 (28%), Positives = 64/146 (43%), Gaps = 9/146 (6%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GKTA+VTG+ +GIG A LA GA V++ E AE AA + G V+
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDA------GGSVIY 54
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFATNHLGHY 133
D++ + + +L+NNAG+ + P + + ++ A +
Sbjct: 55 LPADVTKEDEIADMIAAAAAEFGGLDILVNNAGIQHVAPIEEFPPEDWDRIIAVMLTSAF 114
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAH 159
LP + K RIIN++S AH
Sbjct: 115 HTIRAALPHMKKQGWGRIINIAS-AH 139
>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 = 66.3 bits (162), Expect = 1e-12
Identities = 56/203 (27%), Positives = 83/203 (40%), Gaps = 46/203 (22%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RLDGK AI+TG +GIG+ TA AK GARV++A DI DAG+
Sbjct: 1 RLDGKVAIITGGASGIGEATARLFAKHGARVVIA------------DID------DDAGQ 42
Query: 73 VVIRQL----------DLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP----RQLTE 118
V +L D++ VR + + ++ NNAGV+ P + +
Sbjct: 43 AVAAELGDPDISFVHCDVTVEADVRAAVDTAVARFGRLDIMFNNAGVLGAPCYSILETSL 102
Query: 119 DGYELQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYS 178
+ +E N G +L T +I + I++++S+A G H
Sbjct: 103 EEFERVLDVNVYGAFLGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPH----------- 151
Query: 179 ATGAYGRSKLANILFTTELAKRL 201
AY SK A + T A L
Sbjct: 152 ---AYTASKHAVLGLTRSAATEL 171
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 66.2 bits (161), Expect = 2e-12
Identities = 60/197 (30%), Positives = 93/197 (47%), Gaps = 31/197 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
LDGK A+VTG++ GIG+ A LA GA V + + + AAD+ ++ + G+
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAI---HYGRNKQAADETIREIE--SNGGKA 58
Query: 74 VIRQLDLSSLKSVRKCAQEILDNE-------SAIHLLINNAGV--MMCPRQLTEDGYELQ 124
+ + DL+S+ V+K ++ L NE S I +L+NNAG+ TE+ ++
Sbjct: 59 FLIEADLNSIDGVKKLVEQ-LKNELQIRVGTSEIDILVNNAGIGTQGTIENTTEEIFDEI 117
Query: 125 FATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYG 184
A N + LP + A R+IN+SS + G++ + AYG
Sbjct: 118 MAVNIKAPFFLIQQTLPLL--RAEGRVINISS--------------AEVRLGFTGSIAYG 161
Query: 185 RSKLANILFTTELAKRL 201
SK A T LAK L
Sbjct: 162 LSKGALNTMTLPLAKHL 178
>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 = 65.4 bits (160), Expect = 2e-12
Identities = 47/198 (23%), Positives = 73/198 (36%), Gaps = 33/198 (16%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
A+VTG+ IG+ A LA G RV++ ++E A ++ L V+
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVHYN---RSEAEAQRLKDELN--ALRNSAVLV 55
Query: 77 QLDLSSLKSVRKCAQEILDNESA----IHLLINNAGVMMC--PRQLTEDGYELQFATNHL 130
Q DLS + +++ +L+NNA Q +ED + F N
Sbjct: 56 QADLSDFAAC----ADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGSEDAWAELFGINLK 111
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK--L 188
YL R+ S IIN+ D ++ + AY SK L
Sbjct: 112 APYLLIQAFARRLAGSRNGSIINII--------------DAMTDRPLTGYFAYCMSKAAL 157
Query: 189 ANI--LFTTELAKRLQVN 204
+ ELA ++VN
Sbjct: 158 EGLTRSAALELAPNIRVN 175
>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 = 65.4 bits (160), Expect = 2e-12
Identities = 50/184 (27%), Positives = 76/184 (41%), Gaps = 30/184 (16%)
Query: 18 TAIVTGSNTGIGKCTANELAKRG--ARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
I+TG++ GIG+ A EL KRG + V++ RS E + +++R L+ V
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELRPGLR-------VTT 53
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQ--FATNHLG 131
+ DLS V + + I + LLINNAG + + + + ELQ F N
Sbjct: 54 VKADLSDAAGVEQLLEAIRKLDGERDLLINNAGSLGPVSKIEFIDLD-ELQKYFDLNLTS 112
Query: 132 HYLFTLLLLPRIIK-SAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA- 189
T LL K ++N+SS A + G Y SK A
Sbjct: 113 PVCLTSTLLRAFKKRGLKKTVVNVSSGAAV--------------NPFKGWGLYCSSKAAR 158
Query: 190 NILF 193
++ F
Sbjct: 159 DMFF 162
>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 = 65.5 bits (160), Expect = 2e-12
Identities = 42/147 (28%), Positives = 70/147 (47%), Gaps = 6/147 (4%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK AI+TGS++GIG TA A+ GAR+ + R E+ E L+ ++
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSC---LQAGVSEKKI 57
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTED--GYELQFATNHLG 131
++ DL+ + + L + +L+NNAG++ +D Y+ N
Sbjct: 58 LLVVADLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIEEYDKVMNLNLRA 117
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
T L +P +IK+ I+N+SS+A
Sbjct: 118 VIYLTKLAVPHLIKTKGE-IVNVSSVA 143
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 67.2 bits (165), Expect = 3e-12
Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 9/123 (7%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A+VTG+ GIGK TA LA GA V++A E AE AA ++
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAEL-------GGPDRA 472
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLG 131
+ D++ +V+ +E + ++++NAG+ + + +++ + F N G
Sbjct: 473 LGVACDVTDEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEETSDEDWRRSFDVNATG 532
Query: 132 HYL 134
H+L
Sbjct: 533 HFL 535
>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 = 64.8 bits (158), Expect = 6e-12
Identities = 54/209 (25%), Positives = 81/209 (38%), Gaps = 52/209 (24%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L K A++TG +G A LA+ GA+V R+ EK + A K++ G
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVA-------KEITALGGR 55
Query: 74 VIR----QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--------------- 114
I LD +SL+ R +EI+ + +LIN AG P
Sbjct: 56 AIALAADVLDRASLERAR---EEIVAQFGTVDILINGAGGNH-PDATTDPEHYEPETEQN 111
Query: 115 --QLTEDGYELQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDIN 172
L E+G+E F N G +L + + +++ IIN+SS+
Sbjct: 112 FFDLDEEGWEFVFDLNLNGSFLPSQVFGKDMLEQKGGSIINISSMN-------------- 157
Query: 173 LEKGYSATG---AYGRSKLANILFTTELA 198
+S AY +K A FT LA
Sbjct: 158 ---AFSPLTKVPAYSAAKAAVSNFTQWLA 183
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 64.4 bits (157), Expect = 7e-12
Identities = 38/147 (25%), Positives = 71/147 (48%), Gaps = 10/147 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEK-AETAADDIRTSLKDVKDAGE 72
L+GK ++TG +TG+G+ A K A+V++ RS E+ A A++I+ K GE
Sbjct: 5 LEGKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIK------KAGGE 58
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM--CPRQLTEDGYELQFATNHL 130
+ + D++ V Q + + ++INNAG+ +++ + + TN
Sbjct: 59 AIAVKGDVTVESDVVNLIQTAVKEFGTLDVMINNAGIENAVPSHEMSLEDWNKVINTNLT 118
Query: 131 GHYLFTLLLLPRIIK-SAPARIINLSS 156
G +L + + ++ IIN+SS
Sbjct: 119 GAFLGSREAIKYFVEHDIKGNIINMSS 145
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 63.8 bits (156), Expect = 1e-11
Identities = 35/151 (23%), Positives = 60/151 (39%), Gaps = 17/151 (11%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVVI 75
A+VTG GIG A LA G + + +++ + ++++ G EV+
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAIN------DRPDDEELAATQQELRALGVEVIF 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR----QLTEDGYELQFATNHLG 131
D++ L + I L+NNAGV + R LT + ++ A N G
Sbjct: 57 FPADVADLSAHEAMLDAAQAAWGRIDCLVNNAGVGVKVRGDLLDLTPESFDRVLAINLRG 116
Query: 132 HYLFT------LLLLPRIIKSAPARIINLSS 156
+ T +L P + I+ +SS
Sbjct: 117 PFFLTQAVAKRMLAQPEPEELPHRSIVFVSS 147
>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 = 63.6 bits (155), Expect = 1e-11
Identities = 40/152 (26%), Positives = 66/152 (43%), Gaps = 17/152 (11%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARV-IMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
AIVTG++ GIG+ A ELA RG + I ++A ++ +
Sbjct: 3 VAIVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVL------AAGRRAIYF 56
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR----QLTEDGYELQFATNHLGH 132
Q D+ L + ++ + L+NNAG+ + PR LTED ++ A N G
Sbjct: 57 QADIGELSDHEALLDQAWEDFGRLDCLVNNAGIAVRPRGDLLDLTEDSFDRLIAINLRGP 116
Query: 133 YLFTLLLLPRII-----KSAPAR-IINLSSLA 158
+ T + R++ P R II ++S+
Sbjct: 117 FFLTQAVARRMVEQPDRFDGPHRSIIFVTSIN 148
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 63.9 bits (156), Expect = 1e-11
Identities = 56/200 (28%), Positives = 80/200 (40%), Gaps = 42/200 (21%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK IVTG ++GIG EL GA V+ A DI D +
Sbjct: 7 LQGKIIIVTGGSSGIGLAIVKELLANGANVVNA------------DIHGG--DGQHENYQ 52
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR------------QLTEDGY 121
+ D+SS + V EI++ I L+NNAG+ + PR +L E +
Sbjct: 53 FV-PTDVSSAEEVNHTVAEIIEKFGRIDGLVNNAGINI-PRLLVDEKDPAGKYELNEAAF 110
Query: 122 ELQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATG 181
+ F N G +L + + +++K I+N+SS A LE G
Sbjct: 111 DKMFNINQKGVFLMSQAVARQMVKQHDGVIVNMSSEA-------------GLE-GSEGQS 156
Query: 182 AYGRSKLANILFTTELAKRL 201
Y +K A FT AK L
Sbjct: 157 CYAATKAALNSFTRSWAKEL 176
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 63.7 bits (155), Expect = 1e-11
Identities = 50/142 (35%), Positives = 75/142 (52%), Gaps = 12/142 (8%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
+VT S+ GIG A EL K+GARV+++ R+ E ++ +LK++K+ GEV + D
Sbjct: 4 LVTASSRGIGFNVARELLKKGARVVISSRNEE-------NLEKALKELKEYGEVYAVKAD 56
Query: 80 LSSLKSVRKCAQEILDNESAIHLLINNAGVMMC-PRQLTEDGYE--LQFATNHL--GHYL 134
LS ++ +E + I L+ NAG + C P L E GY L+ A HL YL
Sbjct: 57 LSDKDDLKNLVKEAWELLGGIDALVWNAGNVRCEPCMLHEAGYSDWLEAALLHLVAPGYL 116
Query: 135 FTLLLLPRIIKSAPARIINLSS 156
TLL+ + K ++ LSS
Sbjct: 117 TTLLIQAWLEKKMKGVLVYLSS 138
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 63.5 bits (155), Expect = 1e-11
Identities = 36/108 (33%), Positives = 59/108 (54%), Gaps = 8/108 (7%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
K I+TG ++G+GK A A+ GA V++ R+ EK E A +I G+V+
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQ------FPGQVLT 54
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINN-AGVMMCP-RQLTEDGY 121
Q+D+ + + V+K ++I + I LINN AG +CP L+ +G+
Sbjct: 55 VQMDVRNPEDVQKMVEQIDEKFGRIDALINNAAGNFICPAEDLSVNGW 102
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 62.9 bits (153), Expect = 2e-11
Identities = 39/147 (26%), Positives = 69/147 (46%), Gaps = 7/147 (4%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RLDGK AI+TG+ GIGK A A GA V+++ + + A D+I+ G+
Sbjct: 8 RLDGKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQL------GGQ 61
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMC-PRQLTEDGYELQFATNHLG 131
+ D++S + + A L + +L+NNAG P + + + N
Sbjct: 62 AFACRCDITSEQELSALADFALSKLGKVDILVNNAGGGGPKPFDMPMADFRRAYELNVFS 121
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
+ + L+ P + K+ I+ ++S+A
Sbjct: 122 FFHLSQLVAPEMEKNGGGVILTITSMA 148
>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 = 63.1 bits (154), Expect = 2e-11
Identities = 55/194 (28%), Positives = 90/194 (46%), Gaps = 27/194 (13%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG- 71
+L GK A++TG ++GIG+ A A+ GA V + E+ DD + K +++ G
Sbjct: 23 KLKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEE-----DDAEETKKLIEEEGR 77
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQ----LTEDGYELQFAT 127
+ ++ DL R +E++ + +L+NNA P++ +T + E F T
Sbjct: 78 KCLLIPGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQH-PQESIEDITTEQLEKTFRT 136
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK 187
N + T LP + K + IIN +S+ T GS H D Y+AT K
Sbjct: 137 NIFSMFYLTKAALPHLKKG--SSIINTTSV--TAYKGSPHLLD------YAAT------K 180
Query: 188 LANILFTTELAKRL 201
A + FT L+ +L
Sbjct: 181 GAIVAFTRGLSLQL 194
>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 = 62.6 bits (153), Expect = 2e-11
Identities = 49/149 (32%), Positives = 70/149 (46%), Gaps = 14/149 (9%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
G A+VTG+ GIGK A ELAKRG VI+ R+ EK + A +I K E
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEE-----KYGVETKT 55
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMC---PRQLTE-DGYELQ--FATNH 129
D S+ + + ++ L+ I +L+NN G + P E ELQ N
Sbjct: 56 IAADFSAGDDIYERIEKELEGLD-IGILVNNVG--ISHSIPEYFLETPEDELQDIINVNV 112
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
+ T L+LP ++K I+N+SS A
Sbjct: 113 MATLKMTRLILPGMVKRKKGAIVNISSFA 141
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 63.1 bits (154), Expect = 2e-11
Identities = 30/99 (30%), Positives = 47/99 (47%), Gaps = 8/99 (8%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
GK A++TG+ +G G A A G ++++A + + A ++R G
Sbjct: 2 KDFAGKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELR-------AQG 54
Query: 72 -EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
EV+ + D+S V A L+ A+HLL NNAGV
Sbjct: 55 AEVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNAGV 93
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 62.8 bits (153), Expect = 3e-11
Identities = 33/98 (33%), Positives = 48/98 (48%), Gaps = 9/98 (9%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDA 70
D L GK ++TG++ GIG A A G + + R + E A D+R + V
Sbjct: 2 DLHLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLR-AAHGVD-- 58
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG 108
V + LDLSS ++ + A E D I +L+NNAG
Sbjct: 59 --VAVHALDLSSPEAREQLAAEAGD----IDILVNNAG 90
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 63.8 bits (156), Expect = 3e-11
Identities = 27/99 (27%), Positives = 47/99 (47%), Gaps = 6/99 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
GK +VTG+ +GIG+ TA A+ GA V+ + AE A+ IR +
Sbjct: 312 PFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAA------GAV 365
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM 111
++D+S ++ A+ + +++NNAG+ M
Sbjct: 366 AHAYRVDVSDADAMEAFAEWVRAEHGVPDIVVNNAGIGM 404
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 62.1 bits (151), Expect = 3e-11
Identities = 49/185 (26%), Positives = 77/185 (41%), Gaps = 23/185 (12%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K A+VTG+ GIG A EL G RVI S + +D +V ++
Sbjct: 3 KIALVTGAKRGIGSAIARELLNDGYRVIATYFSGNDCAKDWFEEYGFTED-----QVRLK 57
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM---MCPRQLTEDGYELQFATNHLGHY 133
+LD++ + + EI + E + +L+NNAG+ + R ++ ++ TN +
Sbjct: 58 ELDVTDTEECAEALAEIEEEEGPVDILVNNAGITRDSVFKRMSHQEWNDV-INTNLNSVF 116
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILF 193
T L + + RIIN+SS +N KG Y +K I F
Sbjct: 117 NVTQPLFAAMCEQGYGRIINISS--------------VNGLKGQFGQTNYSAAKAGMIGF 162
Query: 194 TTELA 198
T LA
Sbjct: 163 TKALA 167
>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 = 62.0 bits (151), Expect = 4e-11
Identities = 47/184 (25%), Positives = 75/184 (40%), Gaps = 25/184 (13%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL GK AIVTG G+G A L GA+V+++ E+ + AA ++ + +
Sbjct: 2 RLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAELGDAARFF----- 56
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQ--FATNHL 130
LD++ + + +L+NNAG++ T E + N
Sbjct: 57 ----HLDVTDEDGWTAVVDTAREAFGRLDVLVNNAGILTGGTVETTTLEEWRRLLDINLT 112
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
G +L T ++P + ++ IIN+SS+ GD A AY SK A
Sbjct: 113 GVFLGTRAVIPPMKEAGGGSIINMSSIEGLVGD--------------PALAAYNASKGAV 158
Query: 191 ILFT 194
T
Sbjct: 159 RGLT 162
>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 = 61.8 bits (150), Expect = 4e-11
Identities = 42/148 (28%), Positives = 66/148 (44%), Gaps = 19/148 (12%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLK----DVKDAGE 72
K A+VTG++ GIG+ TA L G RV + R + AA + DV+D +
Sbjct: 1 KAALVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQELEGVLGLAGDVRDEAD 60
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCP-RQLTEDGYELQFATNHL 130
VR+ + + + L+NNAGV +M P +LT + + L TN
Sbjct: 61 -------------VRRAVDAMEEAFGGLDALVNNAGVGVMKPVEELTPEEWRLVLDTNLT 107
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLA 158
G + P +++ I+N+ SLA
Sbjct: 108 GAFYCIHKAAPALLRRGGGTIVNVGSLA 135
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 62.9 bits (153), Expect = 5e-11
Identities = 48/191 (25%), Positives = 77/191 (40%), Gaps = 28/191 (14%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
+ +VTG+ GIG+ A+ G +V++A R++E+A AD + +
Sbjct: 5 SRVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGP---------DHHA 55
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV----MMCPRQLTEDGYELQFATNHLG 131
+D+S +R+ +++ I +L+NNAGV M T + + A N G
Sbjct: 56 LAMDVSDEAQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATLDTTLEEFARLQAINLTG 115
Query: 132 HYLFTLLLLPRIIKSAP-ARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLAN 190
YL L +I+ A I+N++S A AY SK A
Sbjct: 116 AYLVAREALRLMIEQGHGAAIVNVASGAGL--------------VALPKRTAYSASKAAV 161
Query: 191 ILFTTELAKRL 201
I T LA
Sbjct: 162 ISLTRSLACEW 172
Score = 54.1 bits (130), Expect = 4e-08
Identities = 23/95 (24%), Positives = 42/95 (44%), Gaps = 9/95 (9%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
+ +TG GIG+ A+ A G R+++ R E A+ A+ + E +
Sbjct: 268 SPRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEAL---------GDEHL 318
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
Q D++ +V +I + +L+NNAG+
Sbjct: 319 SVQADITDEAAVESAFAQIQARWGRLDVLVNNAGI 353
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 61.5 bits (150), Expect = 6e-11
Identities = 58/193 (30%), Positives = 88/193 (45%), Gaps = 27/193 (13%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG- 71
L GKTA+VTG + G+G A L + GARV+++ R E+ E AA + + G
Sbjct: 9 DLSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHL-------EALGI 61
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM-CPRQLTED----GYELQFA 126
+ + D++ + + A+E L+ + +L+NNAG P ED ++
Sbjct: 62 DALWIAADVADEADIERLAEETLERFGHVDILVNNAGATWGAP---AEDHPVEAWDKVMN 118
Query: 127 TNHLGHYLFTLLLLPR-IIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGR 185
N G +L + + R +I RIIN++S+A G G T AY
Sbjct: 119 LNVRGLFLLSQAVAKRSMIPRGYGRIINVASVA---GLGGNP-------PEVMDTIAYNT 168
Query: 186 SKLANILFTTELA 198
SK A I FT LA
Sbjct: 169 SKGAVINFTRALA 181
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 61.5 bits (150), Expect = 7e-11
Identities = 47/197 (23%), Positives = 79/197 (40%), Gaps = 32/197 (16%)
Query: 9 TADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVK 68
+ L GK A+VTG GIG T L + GARV+ RS DD+
Sbjct: 2 SFFLELAGKRALVTGGTKGIGAATVARLLEAGARVVTTARS------RPDDL-------- 47
Query: 69 DAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP----RQLTEDGYELQ 124
V DL++ + A+ +L+ + +L++ G P LT++ ++ +
Sbjct: 48 -PEGVEFVAADLTTAEGCAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALTDEEWQDE 106
Query: 125 FATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYG 184
N L LLP +I II+++S+ + L +T AY
Sbjct: 107 LNLNLLAAVRLDRALLPGMIARGSGVIIHVTSIQRR----------LPL---PESTTAYA 153
Query: 185 RSKLANILFTTELAKRL 201
+K A ++ L+K +
Sbjct: 154 AAKAALSTYSKSLSKEV 170
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 60.9 bits (148), Expect = 8e-11
Identities = 53/200 (26%), Positives = 81/200 (40%), Gaps = 31/200 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK ++TGS GIG A LA+ GA +I+ + E+AE A +R A
Sbjct: 7 LAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIKAHAAP-- 64
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM----MCPRQLTEDGYELQFATNH 129
+++ + V + I + I +LINNAG+ + E + A N
Sbjct: 65 ----FNVTHKQEVEAAIEHIEKDIGPIDVLINNAGIQRRHPFT--EFPEQEWNDVIAVNQ 118
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
+L + + ++K +IIN+ SM E G Y SK A
Sbjct: 119 TAVFLVSQAVARYMVKRQAGKIINI---------CSMQS-----ELGRDTITPYAASKGA 164
Query: 190 NILFT----TELAK-RLQVN 204
+ T ELA+ +QVN
Sbjct: 165 VKMLTRGMCVELARHNIQVN 184
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 61.2 bits (149), Expect = 9e-11
Identities = 52/193 (26%), Positives = 75/193 (38%), Gaps = 28/193 (14%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
LDG +VTG +GIG+ A A+ GARV + S E A L K V
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVS----EAALAATAARLPGAKVTATV 64
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP----RQLTEDGYELQFATNH 129
D++ V + ++ + +L+NNAG+ P ++T + +E A N
Sbjct: 65 A----DVADPAQVERVFDTAVERFGGLDVLVNNAGIAG-PTGGIDEITPEQWEQTLAVNL 119
Query: 130 LGHYLFTLLLLPRIIKSAPAR-IINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKL 188
G + F +P + S II LSS+A GY Y SK
Sbjct: 120 NGQFYFARAAVPLLKASGHGGVIIALSSVAG--------------RLGYPGRTPYAASKW 165
Query: 189 ANILFTTELAKRL 201
A + LA L
Sbjct: 166 AVVGLVKSLAIEL 178
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 61.2 bits (149), Expect = 1e-10
Identities = 40/149 (26%), Positives = 71/149 (47%), Gaps = 16/149 (10%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI- 75
K VTG+ +GIG+ TA LA +GA + + R AD + ++ D + G V
Sbjct: 1 KRCFVTGAASGIGRATALRLAAQGAELFLTDRD-------ADGLAQTVADARALGGTVPE 53
Query: 76 -RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM--CPRQLTEDGYELQFATNHLG- 131
R LD+S +V A +I ++ +++N AG+ +LT + + N +G
Sbjct: 54 HRALDISDYDAVAAFAADIHAAHGSMDVVMNIAGISAWGTVDRLTHEQWRRMVDVNLMGP 113
Query: 132 -HYLFTLLLLPRIIKSAPAR-IINLSSLA 158
H + T +P ++ + ++N+SS A
Sbjct: 114 IHVIET--FVPPMVAAGRGGHLVNVSSAA 140
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 60.8 bits (148), Expect = 1e-10
Identities = 32/99 (32%), Positives = 48/99 (48%), Gaps = 7/99 (7%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMAC-RSLEKAETAADDIRTSLKDVKDA 70
RLDGK A+VTG G+G A A+RGA ++ C R+ EK E A ++
Sbjct: 2 GRLDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEAL------G 55
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+ V Q DLS ++ R+ + + L+N AG+
Sbjct: 56 AKAVFVQADLSDVEDCRRVVAAADEAFGRLDALVNAAGL 94
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 60.7 bits (148), Expect = 1e-10
Identities = 47/194 (24%), Positives = 81/194 (41%), Gaps = 30/194 (15%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
RL+GK AI+TG+++GIG+ A A+ GA+V++ R + + +IR + G
Sbjct: 2 MRLNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRA------EGG 55
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCP-RQLTEDGYELQFATN 128
E V D+ + ++ + + NNAG + M P +++ +G+ ATN
Sbjct: 56 EAVALAGDVRDEAYAKALVALAVERFGGLDIAFNNAGTLGEMGPVAEMSLEGWRETLATN 115
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSA----TGAYG 184
+L +P ++ +I S+ G++A AY
Sbjct: 116 LTSAFLGAKHQIPAMLARGGGSLIFTSTFV-----------------GHTAGFPGMAAYA 158
Query: 185 RSKLANILFTTELA 198
SK I T LA
Sbjct: 159 ASKAGLIGLTQVLA 172
>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 = 60.6 bits (147), Expect = 1e-10
Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 5/97 (5%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
R G+ A+VTG++ GIG A L + G +V+ R ++K E A + ++
Sbjct: 3 RWRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQS-----AGYPT 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+ Q DLS+ + + I + + INNAG+
Sbjct: 58 LFPYQCDLSNEEQILSMFSAIRTQHQGVDVCINNAGL 94
>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 = 60.0 bits (146), Expect = 2e-10
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 10/94 (10%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
G A+VTG +G+G T L +GA+V++ ET A K
Sbjct: 2 GLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGETVA----------KLGDNCRF 51
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+D++S K V+ + +++N AG+
Sbjct: 52 VPVDVTSEKDVKAALALAKAKFGRLDIVVNCAGI 85
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 60.0 bits (146), Expect = 2e-10
Identities = 43/146 (29%), Positives = 76/146 (52%), Gaps = 10/146 (6%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK I+TG++ GIG+ A LA+ GA++++A R+ + + A ++ GE ++
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADH------GGEALV 54
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDG-YELQFATNHLGH 132
D+S ++ + + + I +L+NNAG+ M R +LT+ +E N+LG
Sbjct: 55 VPTDVSDAEACERLIEAAVARFGGIDILVNNAGITMWSRFDELTDLSVFERVMRVNYLGA 114
Query: 133 YLFTLLLLPRIIKSAPARIINLSSLA 158
T LP + S +I+ +SSLA
Sbjct: 115 VYCTHAALPHLKASR-GQIVVVSSLA 139
>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 = 60.4 bits (147), Expect = 2e-10
Identities = 50/195 (25%), Positives = 83/195 (42%), Gaps = 35/195 (17%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K ++TG ++G G A +L G V+ C L K A ++R + D +
Sbjct: 1 KAVLITGCDSGFGNLLAKKLDSLGFTVLAGC--LTKNGPGAKELR---RVCSDRLRTL-- 53
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHL--LINNAGVMMCPRQLTEDGYELQFAT------- 127
QLD++ + +++ AQ + ++ L L+NNAG++ D L
Sbjct: 54 QLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAGILGFG----GDEELLPMDDYRKCMEV 109
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK 187
N G T LP +++ A R++N+SS+ G + + A GAY SK
Sbjct: 110 NLFGTVEVTKAFLP-LLRRAKGRVVNVSSMG-----GRV---------PFPAGGAYCASK 154
Query: 188 LANILFTTELAKRLQ 202
A F+ L + LQ
Sbjct: 155 AAVEAFSDSLRRELQ 169
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 59.3 bits (144), Expect = 3e-10
Identities = 22/96 (22%), Positives = 37/96 (38%), Gaps = 9/96 (9%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
L GK AIVTG T IG A L GARV + + A + + +
Sbjct: 2 IGLAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGERARFI---- 57
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNA 107
D++ ++ + ++ + +L+N A
Sbjct: 58 -----ATDITDDAAIERAVATVVARFGRVDILVNLA 88
>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 = 59.3 bits (144), Expect = 3e-10
Identities = 48/192 (25%), Positives = 82/192 (42%), Gaps = 28/192 (14%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVV 74
K AI+TG+ GIG+ A LA G +++A +LE+A + ++++ +AG V
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKST------IQEISEAGYNAV 55
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQ----LTEDGYELQFATNHL 130
D++ V + ++ + +++NNAG+ P +TE+ + +A N
Sbjct: 56 AVGADVTDKDDVEALIDQAVEKFGSFDVMVNNAGI--APITPLLTITEEDLKKVYAVNVF 113
Query: 131 GHYLFTLLLLPRIIK-SAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
G + K +IIN SS+A +G+ GAY SK A
Sbjct: 114 GVLFGIQAAARQFKKLGHGGKIINASSIAG--------------VQGFPNLGAYSASKFA 159
Query: 190 NILFTTELAKRL 201
T A+ L
Sbjct: 160 VRGLTQTAAQEL 171
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 59.4 bits (144), Expect = 3e-10
Identities = 41/144 (28%), Positives = 69/144 (47%), Gaps = 8/144 (5%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
D + A+V G+++GIG TA ELA G V + R +EK E D IR D GE V
Sbjct: 9 DRRPALVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRA------DGGEAV 62
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLGH 132
LD++ SV+ + + I +L++ AG + +++ + +E Q + +G
Sbjct: 63 AFPLDVTDPDSVKSFVAQAEEALGEIEVLVSGAGDTYFGKLHEISTEQFESQVQIHLVGA 122
Query: 133 YLFTLLLLPRIIKSAPARIINLSS 156
+LP +I+ +I + S
Sbjct: 123 NRLATAVLPGMIERRRGDLIFVGS 146
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 59.3 bits (144), Expect = 4e-10
Identities = 38/151 (25%), Positives = 62/151 (41%), Gaps = 16/151 (10%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L G+ A+VTGS G+G A LA GA V++ R+ E A +R G
Sbjct: 9 LAGQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALR------AAGGAA 62
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR------QLTEDGYELQFAT 127
D++ ++V I + +L+NN G R +L + T
Sbjct: 63 EALAFDIADEEAVAAAFARIDAEHGRLDILVNNVGA----RDRRPLAELDDAAIRALLET 118
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSSLA 158
+ + L + L R+ + RII ++S+A
Sbjct: 119 DLVAPILLSRLAAQRMKRQGYGRIIAITSIA 149
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 60.6 bits (147), Expect = 4e-10
Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L + A VTG GIG+ TA LA GA V++A +LE AE A +I AG
Sbjct: 412 LARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEI----NGQFGAGRA 467
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP--RQLTEDGYELQFATNHLG 131
V ++D++ ++V+ ++ + +++NNAG+ + T ++L G
Sbjct: 468 VALKMDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPFEETTLQEWQLNLDILATG 527
Query: 132 HYL 134
++L
Sbjct: 528 YFL 530
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 58.6 bits (142), Expect = 5e-10
Identities = 42/148 (28%), Positives = 63/148 (42%), Gaps = 12/148 (8%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L G+ A+VTGS+ GIG A LA+ GA VI+ R K AA+ ++
Sbjct: 8 LTGRRALVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAHALA-- 65
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE----DGYELQFATNH 129
D++ +VR I +L+NNAG M R E D +E TN
Sbjct: 66 ----FDVTDHDAVRAAIDAFEAEIGPIDILVNNAG--MQFRTPLEDFPADAFERLLRTNI 119
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSL 157
+ + +I +IIN++S+
Sbjct: 120 SSVFYVGQAVARHMIARGAGKIINIASV 147
>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 = 58.7 bits (142), Expect = 6e-10
Identities = 40/153 (26%), Positives = 69/153 (45%), Gaps = 18/153 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
R +GK +VTG+ GIG+ A LA GARV++ RS E +I +
Sbjct: 1 RFEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDRS-ELVHEVLAEILAA------GDA 53
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG--VMMCPRQLTEDGYELQFATNHL 130
+ DL + + + ++ + +LINN G + P + E+ +++ A
Sbjct: 54 AHVHTADLETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEEE-QIE-AEIR- 110
Query: 131 GHYLFTLL-----LLPRIIKSAPARIINLSSLA 158
LF L +LP +++ I+N+SS+A
Sbjct: 111 -RSLFPTLWCCRAVLPHMLERQQGVIVNVSSIA 142
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 58.6 bits (142), Expect = 6e-10
Identities = 54/207 (26%), Positives = 91/207 (43%), Gaps = 43/207 (20%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG- 71
RLD + A+VTG+ G+G A A+ GA V++A R+ + + A+ IR AG
Sbjct: 7 RLDDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIR-------AAGR 59
Query: 72 --EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLT-------EDGYE 122
VV DL+ ++ A + ++ + +++NN G M P L D +
Sbjct: 60 RAHVVA--ADLAHPEATAGLAGQAVEAFGRLDIVVNNVGGTM-PNPLLSTSTKDLADAFT 116
Query: 123 LQFATNHLGHYLFTLLLLPRIIK-SAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATG 181
AT H T+ +P +++ S +IN+SS +G++
Sbjct: 117 FNVATAH----ALTVAAVPLMLEHSGGGSVINISSTMGRLAG-----------RGFA--- 158
Query: 182 AYGRSKLANILFT----TELAKRLQVN 204
AYG +K A +T +L R++VN
Sbjct: 159 AYGTAKAALAHYTRLAALDLCPRIRVN 185
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 58.4 bits (142), Expect = 6e-10
Identities = 37/150 (24%), Positives = 64/150 (42%), Gaps = 18/150 (12%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
GKT VTG+ GIG A + GA+VI ++A +D
Sbjct: 6 FSGKTVWVTGAAQGIGYAVALAFVEAGAKVI----GFDQAFLTQEDYP-----------F 50
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNHLG 131
LD+S +V + Q +L + +L+N AG++ M L+++ ++ FA N G
Sbjct: 51 ATFVLDVSDAAAVAQVCQRLLAETGPLDVLVNAAGILRMGATDSLSDEDWQQTFAVNAGG 110
Query: 132 HYLFTLLLLPRIIKSAPARIINLSS-LAHT 160
+ ++P+ + I+ + S AH
Sbjct: 111 AFNLFRAVMPQFRRQRSGAIVTVGSNAAHV 140
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 58.2 bits (141), Expect = 7e-10
Identities = 38/149 (25%), Positives = 66/149 (44%), Gaps = 9/149 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
GK A+VTG GIG+ TA A+ GA+V++A R E IR + GE
Sbjct: 4 TFSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREA------GGE 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL---TEDGYELQFATNH 129
+ D++ V+ ++ + + NNAG+ + +L +E ++ N
Sbjct: 58 ALFVACDVTRDAEVKALVEQTIAAYGRLDYAFNNAGIEIEQGRLAEGSEAEFDAIMGVNV 117
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
G +L +P ++ I+N +S+A
Sbjct: 118 KGVWLCMKYQIPLMLAQGGGAIVNTASVA 146
>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 = 58.3 bits (141), Expect = 7e-10
Identities = 37/150 (24%), Positives = 62/150 (41%), Gaps = 11/150 (7%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
R K IVTG + GIG+ + GA+V+ R + ++ + G
Sbjct: 5 LRYADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRA-----GPG 59
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTED----GYELQFAT 127
D++ + ++ ++ I L+NNAG P Q T++ +
Sbjct: 60 SCKFVPCDVTKEEDIKTLISVTVERFGRIDCLVNNAG-WHPPHQTTDETSAQEFRDLLNL 118
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSSL 157
N + ++L + LP + KS IINLSSL
Sbjct: 119 NLISYFLASKYALPHLRKSQ-GNIINLSSL 147
>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 = 58.1 bits (141), Expect = 7e-10
Identities = 38/146 (26%), Positives = 66/146 (45%), Gaps = 9/146 (6%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACR-SLEKAETAADDIRTSLKDVKDAGEVVIRQ 77
A+VTG + GIGK A LA+RGA V++ R S + A A +I + G+ V+ +
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIE------ELGGKAVVVR 54
Query: 78 LDLSSLKSVRKCAQEILDNESAIHLLINNA--GVMMCPRQLTEDGYELQFATNHLGHYLF 135
D+S + V + + + + +L++NA G +LT ++ + TN
Sbjct: 55 ADVSQPQDVEEMFAAVKERFGRLDVLVSNAAAGAFRPLSELTPAHWDAKMNTNLKALVHC 114
Query: 136 TLLLLPRIIKSAPARIINLSSLAHTW 161
+ + RI+ +SSL
Sbjct: 115 AQQAAKLMRERGGGRIVAISSLGSIR 140
>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 = 58.0 bits (140), Expect = 9e-10
Identities = 46/147 (31%), Positives = 63/147 (42%), Gaps = 8/147 (5%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L KTAIVTG GIG T A+ GA+V + + E AE A DIR G
Sbjct: 1 LKDKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAK------GGNA 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCPRQLTEDG-YELQFATNHLG 131
D++ SV + +L+NNAG P TE +E A N G
Sbjct: 55 QAFACDITDRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWERLIAINLTG 114
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
+LP +++ RI+N++S A
Sbjct: 115 ALHMHHAVLPGMVERGAGRIVNIASDA 141
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 57.8 bits (140), Expect = 9e-10
Identities = 43/149 (28%), Positives = 68/149 (45%), Gaps = 18/149 (12%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
GK+ +VTG+++GIG+ A LA+RGARV+ A R+ + A + G
Sbjct: 6 DFSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGET----------GC 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL--TEDGYELQFATNHL 130
+R LD+ ++R L A L+N AG+ L T +G++ A N
Sbjct: 56 EPLR-LDVGDDAAIR----AALAAAGAFDGLVNCAGIASLESALDMTAEGFDRVMAVNAR 110
Query: 131 GHYLFTLLLLPRIIKSAPA-RIINLSSLA 158
G L + +I + I+N+SS A
Sbjct: 111 GAALVARHVARAMIAAGRGGSIVNVSSQA 139
>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 = 58.1 bits (141), Expect = 9e-10
Identities = 47/188 (25%), Positives = 77/188 (40%), Gaps = 30/188 (15%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
+VTG+ GIG A LA+ GARV R+ E+ D+R +L
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRR------YGYPFATYKL 54
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNHLGHYLFT 136
D++ +V + Q + I +L+N AG++ + L+++ ++ FA N G +F
Sbjct: 55 DVADSAAVDEVVQRLEREYGPIDVLVNVAGILRLGAIDSLSDEDWQATFAVNTFG--VFN 112
Query: 137 LL--LLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFT 194
+ + PR+ + I+ + S A M AY SK A + T
Sbjct: 113 VSQAVSPRMKRRRSGAIVTVGSNAANVPRMGM--------------AAYAASKAALTMLT 158
Query: 195 T----ELA 198
ELA
Sbjct: 159 KCLGLELA 166
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 58.0 bits (141), Expect = 1e-09
Identities = 40/152 (26%), Positives = 69/152 (45%), Gaps = 11/152 (7%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDA 70
L GKT +TG++ GIG A A+ GA +++A ++ E I T+ ++++ A
Sbjct: 1 MMSLSGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAA 60
Query: 71 G-EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL--TED----GYEL 123
G + + D+ V + ++ I + +NNA + L TED ++L
Sbjct: 61 GGQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNASAI----NLTGTEDTPMKRFDL 116
Query: 124 QFATNHLGHYLFTLLLLPRIIKSAPARIINLS 155
N G +L + LP + KS I+ LS
Sbjct: 117 MQQINVRGTFLVSQACLPHLKKSENPHILTLS 148
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 57.4 bits (139), Expect = 1e-09
Identities = 37/148 (25%), Positives = 66/148 (44%), Gaps = 9/148 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGAR-VIMACRSLEKAETAADDIRTSLKDVKDAG 71
GK A+VTGS+ GIGK A LA+ G + RS + AE A++I
Sbjct: 1 VFSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIE------ALGR 54
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNA--GVMMCPRQLTEDGYELQFATNH 129
+ + + ++ ++ +++ +I + + + +NNA GV+ +L E ++ N
Sbjct: 55 KALAVKANVGDVEKIKEMFAQIDEEFGRLDVFVNNAASGVLRPAMELEESHWDWTMNINA 114
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSL 157
+ K +II+LSSL
Sbjct: 115 KALLFCAQEAAKLMEKVGGGKIISLSSL 142
>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 = 57.1 bits (138), Expect = 2e-09
Identities = 47/150 (31%), Positives = 72/150 (48%), Gaps = 13/150 (8%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-- 71
L GKT +TG++ GIGK A + A+ GA V++A ++ E I T+ ++++ AG
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGGK 60
Query: 72 ----EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDG--YELQF 125
V IR D VR ++ ++ I +L+NNA + L Y+L
Sbjct: 61 ALPCIVDIRDED-----QVRAAVEKAVEKFGGIDILVNNASAISLTGTLDTPMKRYDLMM 115
Query: 126 ATNHLGHYLFTLLLLPRIIKSAPARIINLS 155
N G YL + LP + KS I+NLS
Sbjct: 116 GVNTRGTYLCSKACLPYLKKSKNPHILNLS 145
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 57.1 bits (138), Expect = 2e-09
Identities = 39/146 (26%), Positives = 69/146 (47%), Gaps = 14/146 (9%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE-VVIRQL 78
+VTG+ G G+C ++G +VI R E+ + LKD + G+ + I QL
Sbjct: 4 LVTGATAGFGECITRRFIQQGHKVIATGRRQERLQE--------LKD--ELGDNLYIAQL 53
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTE-DGYELQFATNHLGHYLF 135
D+ + ++ + + I +L+NNAG+ + P + +E TN+ G
Sbjct: 54 DVRNRAAIEEMLASLPAEWRNIDVLVNNAGLALGLEPAHKASVEDWETMIDTNNKGLVYM 113
Query: 136 TLLLLPRIIKSAPARIINLSSLAHTW 161
T +LP +++ IIN+ S A +W
Sbjct: 114 TRAVLPGMVERNHGHIINIGSTAGSW 139
>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 = 56.6 bits (137), Expect = 2e-09
Identities = 38/109 (34%), Positives = 55/109 (50%), Gaps = 13/109 (11%)
Query: 1 MFLFSGKCTADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDI 60
+ LFS L GK AIVTG + GIG A LA+ GA V + S +AE A+++
Sbjct: 1 LDLFS--------LKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEEL 52
Query: 61 RTSLKDVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
K + + D+SS +SV K ++I + I +LI NAG+
Sbjct: 53 AK-----KYGVKTKAYKCDVSSQESVEKTFKQIQKDFGKIDILIANAGI 96
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 56.5 bits (137), Expect = 3e-09
Identities = 25/98 (25%), Positives = 47/98 (47%), Gaps = 6/98 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L K ++TG G+G+ A LA++GA++ + + EK E A + E
Sbjct: 2 DLKDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECG------ALGTE 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM 110
V +++ + V +I ++ ++ LINNAG++
Sbjct: 56 VRGYAANVTDEEDVEATFAQIAEDFGQLNGLINNAGIL 93
>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 = 56.7 bits (137), Expect = 3e-09
Identities = 40/148 (27%), Positives = 62/148 (41%), Gaps = 11/148 (7%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDV--KDAGEV 73
GK A+VTGS +GIG A LA GA +++ A +I + K +V
Sbjct: 2 GKVALVTGSTSGIGLGIARALAAAGANIVL------NGFGDAAEIEAVRAGLAAKHGVKV 55
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP--RQLTEDGYELQFATNHLG 131
+ DLS ++ + +L+NNAG+ + ++ A N
Sbjct: 56 LYHGADLSKPAAIEDMVAYAQRQFGGVDILVNNAGIQHVAPIEDFPTEKWDAIIALNLSA 115
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAH 159
+ T L LP + K RIIN++S H
Sbjct: 116 VFHTTRLALPHMKKQGWGRIINIAS-VH 142
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 56.2 bits (136), Expect = 3e-09
Identities = 60/198 (30%), Positives = 84/198 (42%), Gaps = 46/198 (23%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+ I+TG++ G+G+ AN+L ++G VI R+ K T + S +
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQYNS--------NLTFH 53
Query: 77 QLDLSSLKSVRKCAQEIL-----DNESAIHLLINNAGVMMCPRQLTEDGYELQFATN-HL 130
LDL + + EIL DN S+IH LINNAG M+ P + E + TN HL
Sbjct: 54 SLDLQDVHELETNFNEILSSIQEDNVSSIH-LINNAG-MVAPIKPIEKAESEELITNVHL 111
Query: 131 GHYLFTLLLLPRIIKS----------APARIINLSSLAHTWGDGSMHFEDINLEKGYSAT 180
LL P I+ S R+IN+SS A N G+S
Sbjct: 112 N------LLAPMILTSTFMKHTKDWKVDKRVINISSGAAK-----------NPYFGWS-- 152
Query: 181 GAYGRSKLANILFTTELA 198
AY SK +FT +A
Sbjct: 153 -AYCSSKAGLDMFTQTVA 169
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 55.9 bits (135), Expect = 5e-09
Identities = 34/110 (30%), Positives = 55/110 (50%), Gaps = 8/110 (7%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
K A+VTG+ GIG A L + G +V + + E A+ AAD + KD G+ +
Sbjct: 2 SKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLS------KDGGKAIA 55
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQF 125
+ D+S V ++++D +++++NNAGV P E E QF
Sbjct: 56 VKADVSDRDQVFAAVRQVVDTFGDLNVVVNNAGV--APTTPIETITEEQF 103
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 55.3 bits (133), Expect = 7e-09
Identities = 32/98 (32%), Positives = 58/98 (59%), Gaps = 6/98 (6%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
+ L+GKTA+VTG+ +GIGK A ELA+ GA V +A + + A AD+I K G
Sbjct: 3 SNLNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEIN------KAGG 56
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+ + +D+++ +V ++ + ++ +L++NAG+
Sbjct: 57 KAIGVAMDVTNEDAVNAGIDKVAERFGSVDILVSNAGI 94
>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 = 55.2 bits (133), Expect = 8e-09
Identities = 42/152 (27%), Positives = 71/152 (46%), Gaps = 22/152 (14%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EV 73
D + A+VTG+ +GIG A L K G RV + R E + T++K++++AG E
Sbjct: 2 DSEVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEG-------LATTVKELREAGVEA 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR-------QLTEDGYELQFA 126
R D+ S+ + + I +L+NNAG R +L ++ +
Sbjct: 55 DGRTCDVRSVPEIEALVAAAVARYGPIDVLVNNAG-----RSGGGATAELADELWLDVVE 109
Query: 127 TNHLGHYLFT--LLLLPRIIKSAPARIINLSS 156
TN G + T +L +++ RIIN++S
Sbjct: 110 TNLTGVFRVTKEVLKAGGMLERGTGRIINIAS 141
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 55.1 bits (133), Expect = 1e-08
Identities = 35/149 (23%), Positives = 68/149 (45%), Gaps = 14/149 (9%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-E 72
L GK A++TG++ GIG A AK GA ++ + E + L ++ G E
Sbjct: 8 LKGKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKG-------LAAYRELGIE 60
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM----MCPRQLTEDGYELQFATN 128
D++ V+ +I I +L+NNAG++ M +++ + + +
Sbjct: 61 AHGYVCDVTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPML--EMSAEDFRQVIDID 118
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSL 157
++ + ++P +IK +IIN+ S+
Sbjct: 119 LNAPFIVSKAVIPSMIKKGHGKIINICSM 147
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 54.2 bits (131), Expect = 1e-08
Identities = 34/147 (23%), Positives = 64/147 (43%), Gaps = 18/147 (12%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVV 74
KT ++TG+ +G G+ A LA++G VI + A + + G +
Sbjct: 2 SKTILITGAGSGFGREVALRLARKGHNVIAGVQI-------APQVTALRAEAARRGLALR 54
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYEL---QFATNHLG 131
+ +LDL+ + A+ D + +L+NNAG+ + + EL F TN G
Sbjct: 55 VEKLDLTDAIDRAQAAE--WD----VDVLLNNAGIGE-AGAVVDIPVELVRELFETNVFG 107
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
T + +++ +++ SS+A
Sbjct: 108 PLELTQGFVRKMVARGKGKVVFTSSMA 134
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 54.0 bits (130), Expect = 2e-08
Identities = 44/140 (31%), Positives = 69/140 (49%), Gaps = 28/140 (20%)
Query: 9 TADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVI---MACRSLEKAETAADDIRTS-L 64
T T L GK A+VTG+ G+G+ A LA+ GA V+ +A S A D+IR +
Sbjct: 5 TNTTDLSGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVA--SALDASDVLDEIRAAGA 62
Query: 65 KDVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHL-----LINNAGVMMCPRQL--- 116
K V AG++ S R A E++ +A+ L ++NNAG+ R L
Sbjct: 63 KAVAVAGDI-----------SQRATADELV--ATAVGLGGLDIVVNNAGITR-DRMLFNM 108
Query: 117 TEDGYELQFATNHLGHYLFT 136
+++ ++ A + GH+L T
Sbjct: 109 SDEEWDAVIAVHLRGHFLLT 128
>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 = 53.6 bits (129), Expect = 3e-08
Identities = 54/192 (28%), Positives = 80/192 (41%), Gaps = 31/192 (16%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVVI 75
K A+VTG GIGK A LAK G V +A + E A+ A K++ AG + V
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETA-------KEINQAGGKAVA 53
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP----RQLTEDGYELQFATNHLG 131
+LD+S V + + +++NNAGV P ++TE+ + + N G
Sbjct: 54 YKLDVSDKDQVFSAIDQAAEKFGGFDVMVNNAGV--APITPILEITEEELKKVYNVNVKG 111
Query: 132 HYLFTLLLLPRIIK--SAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
LF + R K +IIN +S+A +G AY +K A
Sbjct: 112 -VLFGIQAAARQFKKQGHGGKIINAASIAG--------------HEGNPILSAYSSTKFA 156
Query: 190 NILFTTELAKRL 201
T A+ L
Sbjct: 157 VRGLTQTAAQEL 168
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 53.4 bits (129), Expect = 3e-08
Identities = 43/153 (28%), Positives = 65/153 (42%), Gaps = 18/153 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
R GK +VTG+ GIG+ A A GARV++ RS E AA+ GE
Sbjct: 5 RFAGKVVVVTGAAQGIGRGVALRAAAEGARVVLVDRSELVHEVAAELRAAG-------GE 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG--VMMCPRQLTEDGYELQFATNHL 130
+ DL + + ++ I +LINN G + P + YE + +
Sbjct: 58 ALALTADLETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFE----EYEEEQIEAEI 113
Query: 131 GHYLFTLL-----LLPRIIKSAPARIINLSSLA 158
LF L +LP ++ I+N+SS+A
Sbjct: 114 RRSLFPTLWCCRAVLPHMLAQGGGAIVNVSSIA 146
>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 = 52.8 bits (127), Expect = 5e-08
Identities = 31/97 (31%), Positives = 53/97 (54%), Gaps = 8/97 (8%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L+GK A+VTG+NTG+G+ A LA+ GA ++ A RS E +ET +
Sbjct: 3 LEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRS-EPSETQQ-------QVEALGRRF 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM 110
+ DLS +++++ ++ I +L+NNAG++
Sbjct: 55 LSLTADLSDIEAIKALVDSAVEEFGHIDILVNNAGII 91
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 52.8 bits (127), Expect = 5e-08
Identities = 35/142 (24%), Positives = 60/142 (42%), Gaps = 5/142 (3%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
A +TG+ G+G+ A +A++GA+V + + D + G
Sbjct: 2 AFITGAAGGLGRAIARRMAEQGAKVFLTDIN---DAAGLDAFAAEINAAHGEGVAFAAVQ 58
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGV--MMCPRQLTEDGYELQFATNHLGHYLFT 136
D++ + + D + +L+NNAGV Q+ D + A N +L
Sbjct: 59 DVTDEAQWQALLAQAADAMGGLSVLVNNAGVGSFGAIEQIELDEWRRVMAINVESIFLGC 118
Query: 137 LLLLPRIIKSAPARIINLSSLA 158
LP + S PA I+N+SS+A
Sbjct: 119 KHALPYLRASQPASIVNISSVA 140
>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 = 52.8 bits (127), Expect = 5e-08
Identities = 47/184 (25%), Positives = 77/184 (41%), Gaps = 21/184 (11%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+ A+VTG GIG LAK G RV C E+ A + +L + +
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGF-----DFRVV 55
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNHLGHYL 134
+ D+SS +S + ++ I +L+NNAG+ +++T + + TN +
Sbjct: 56 EGDVSSFESCKAAVAKVEAELGPIDVLVNNAGITRDATFKKMTYEQWSAVIDTNLNSVFN 115
Query: 135 FTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFT 194
T ++ + + RIIN+SS +N +KG Y +K I FT
Sbjct: 116 VTQPVIDGMRERGWGRIINISS--------------VNGQKGQFGQTNYSAAKAGMIGFT 161
Query: 195 TELA 198
LA
Sbjct: 162 KALA 165
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 53.1 bits (128), Expect = 5e-08
Identities = 27/100 (27%), Positives = 45/100 (45%), Gaps = 7/100 (7%)
Query: 10 ADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKD 69
T L GK +VTG+ GIG A L RGA++ + + A L
Sbjct: 3 PMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAA----ELGGDDR 58
Query: 70 AGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
VV D++ L +++ A+E ++ I +++ NAG+
Sbjct: 59 VLTVVA---DVTDLAAMQAAAEEAVERFGGIDVVVANAGI 95
>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 = 52.8 bits (127), Expect = 5e-08
Identities = 37/146 (25%), Positives = 61/146 (41%), Gaps = 12/146 (8%)
Query: 17 KTAIVTGSNTGIGKCTANELA---KRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
++TG ++GIG A LA + +V R L+K + G +
Sbjct: 1 TVVLITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRLWEAAGALA-----GGTL 55
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCPRQ-LTEDGYELQFATNHLG 131
QLD+ KSV + + + + +L+ NAGV ++ P + L+ED F N G
Sbjct: 56 ETLQLDVCDSKSVAAAVERVTERH--VDVLVCNAGVGLLGPLEALSEDAMASVFDVNVFG 113
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSL 157
LP + + RI+ SS+
Sbjct: 114 TVRMLQAFLPDMKRRGSGRILVTSSV 139
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 53.1 bits (128), Expect = 5e-08
Identities = 46/170 (27%), Positives = 72/170 (42%), Gaps = 31/170 (18%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIM---------ACRSLEKAETAADDIRTSL 64
LDG+ IVTG+ GIG+ A A GARV++ + A+ D+I +
Sbjct: 4 LDGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAA- 62
Query: 65 KDVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV----MMCPRQLTEDG 120
GE V D++ ++ + +L+NNAG+ M+ ++E+
Sbjct: 63 -----GGEAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAGILRDRMIA--NMSEEE 115
Query: 121 YELQFATNHL-GHYLFTLLLLPRIIKSAP-------ARIINLSSLAHTWG 162
++ A HL GH+ TL ++ ARIIN SS A G
Sbjct: 116 WDAVIAV-HLKGHFA-TLRHAAAYWRAESKAGRAVDARIINTSSGAGLQG 163
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 52.7 bits (127), Expect = 5e-08
Identities = 35/152 (23%), Positives = 57/152 (37%), Gaps = 17/152 (11%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GKT ++TG+ IG + + G VI A E + + K K +
Sbjct: 2 LKGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLS--- 58
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLT-----EDGYELQFATN 128
+ +LD++ +S+ + + + I +N A PR D F N
Sbjct: 59 -LVELDITDQESLEEFLSKSAEKYGKIDGAVNCA----YPRNKDYGKKFFDVSLDDFNEN 113
Query: 129 ---HLGHY-LFTLLLLPRIIKSAPARIINLSS 156
HLG LF+ K ++N+SS
Sbjct: 114 LSLHLGSSFLFSQQFAKYFKKQGGGNLVNISS 145
>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 = 52.6 bits (126), Expect = 6e-08
Identities = 52/196 (26%), Positives = 86/196 (43%), Gaps = 28/196 (14%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L+ + +VTG++ GIG+ A A+ GA VI+ R+ EK AD I + G
Sbjct: 2 LNDRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHI-------NEEGGR 54
Query: 74 --VIRQLDL--SSLKSVRKCAQEILDNESAIHLLINNAGVM--MCP-RQLTEDGYELQFA 126
LDL + ++ ++ AQ I N + +++NAG++ +CP + ++
Sbjct: 55 QPQWFILDLLTCTSENCQQLAQRIAVNYPRLDGVLHNAGLLGDVCPLSEQNPQVWQDVXQ 114
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRS 186
N ++ T LLP ++KS ++ SS + G +G + GAY S
Sbjct: 115 VNVNATFMLTQALLPLLLKSDAGSLVFTSS---SVG-----------RQGRANWGAYAVS 160
Query: 187 KLANILFTTELAKRLQ 202
K A LA Q
Sbjct: 161 KFATEGLXQVLADEYQ 176
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 52.6 bits (127), Expect = 6e-08
Identities = 50/183 (27%), Positives = 82/183 (44%), Gaps = 28/183 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-- 71
L + +VTG+ GIG+ A A+ GA VI+ R+ EK E D+I + AG
Sbjct: 10 LKDRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEI-------EAAGGP 62
Query: 72 EVVIRQLDLSSLKS--VRKCAQEILDNESAIHLLINNAGVM--MCP-RQLTEDGYELQFA 126
+ I LDL + ++ A I + + +++NAG++ + P Q + ++
Sbjct: 63 QPAIIPLDLLTATPQNYQQLADTIEEQFGRLDGVLHNAGLLGELGPMEQQDPEVWQDVMQ 122
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRS 186
N ++ T LLP ++KS A ++ SS G +G + GAY S
Sbjct: 123 VNVNATFMLTQALLPLLLKSPAASLVFTSS-----SVGR---------QGRANWGAYAVS 168
Query: 187 KLA 189
K A
Sbjct: 169 KFA 171
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 52.3 bits (126), Expect = 7e-08
Identities = 22/48 (45%), Positives = 32/48 (66%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIR 61
L GK A+VTG++ GIG+ A LA++GA VI++ R L+ + AD I
Sbjct: 6 LTGKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIV 53
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 52.3 bits (126), Expect = 8e-08
Identities = 48/191 (25%), Positives = 79/191 (41%), Gaps = 31/191 (16%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
+ A+V G +G + LA+ G RV +A + EKA A +I G
Sbjct: 2 NQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEY----GEGMAYG 57
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYE---LQFATNHLGH 132
D +S +SV ++ + + + LL+ NAG+ +T+ N +G+
Sbjct: 58 FGADATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAF-ITDFQLGDFDRSLQVNLVGY 116
Query: 133 YL----FTLLLLPRIIKSAPARIINLSSLAHTWGD-GSMHFEDINLEKGYSATGAYGRSK 187
+L F+ L++ I+ RII ++S + G GS H GYSA +K
Sbjct: 117 FLCAREFSRLMIRDGIQ---GRIIQINSKS---GKVGSKH------NSGYSA------AK 158
Query: 188 LANILFTTELA 198
+ T LA
Sbjct: 159 FGGVGLTQSLA 169
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 52.4 bits (126), Expect = 8e-08
Identities = 39/158 (24%), Positives = 68/158 (43%), Gaps = 24/158 (15%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDA 70
+L+G+ A+VTG ++GIG T L + GA V + R E+ +A +R
Sbjct: 3 QIQLEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFPG---- 58
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCPRQLTEDG-----YELQ 124
++ + D+ V A + + +L+NNAG + T D EL+
Sbjct: 59 ARLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDDAWRDELELK 118
Query: 125 FATNHLGHYLFTLL-----LLPRIIKSAPARIINLSSL 157
+ F+++ LP + SA A I+ ++SL
Sbjct: 119 Y---------FSVINPTRAFLPLLRASAAASIVCVNSL 147
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 52.4 bits (125), Expect = 8e-08
Identities = 47/155 (30%), Positives = 71/155 (45%), Gaps = 19/155 (12%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSL-EKAETAADDIRTSLKDVKDAGE 72
L GK A+VTG++ GIG+ A LA GA V + + E+AE +I++ + G
Sbjct: 2 LKGKVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQS------NGGS 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNE-------SAIHLLINNAGVMMCP--RQLTEDGYEL 123
+L SL V LDNE + +LINNAG+ + TE ++
Sbjct: 56 AFSIGANLESLHGVEALYSS-LDNELQNRTGSTKFDILINNAGIGPGAFIEETTEQFFDR 114
Query: 124 QFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLA 158
+ N + L R+ + +RIIN+SS A
Sbjct: 115 MVSVNAKAPFFIIQQALSRLRDN--SRIINISSAA 147
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 52.0 bits (125), Expect = 1e-07
Identities = 37/152 (24%), Positives = 70/152 (46%), Gaps = 13/152 (8%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIM----ACRSLEKAETAADDIRTSLKDVKD 69
LD + ++TG + G+G+ A LA GA VI+ R +A+ A I +
Sbjct: 4 LDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAA------ 57
Query: 70 AGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFAT 127
G+ + D+ + R ++ + +L+NNAG+ +L+ + ++
Sbjct: 58 GGKALGLAFDVRDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIEEWDDVIDV 117
Query: 128 NHLGHYLFTLLLLPRIIKSAPA-RIINLSSLA 158
N G + T LP +I++ RI+N++S+A
Sbjct: 118 NLDGFFNVTQAALPPMIRARRGGRIVNIASVA 149
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 52.4 bits (126), Expect = 1e-07
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 6/97 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L G ++TG+++GIG+ TA A+RGAR+++A R E + A++ R E
Sbjct: 4 PLHGAVVVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECR------ALGAE 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
V++ D++ V+ A + I + +NN GV
Sbjct: 58 VLVVPTDVTDADQVKALATQAASFGGRIDVWVNNVGV 94
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 51.7 bits (124), Expect = 1e-07
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 11/97 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL G+ A++TG +GIG TA LA GA V++ E + AAD++ G
Sbjct: 4 RLAGRVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEV---------GGL 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
V D++ +V + ++ + NNAG+
Sbjct: 55 FV--PTDVTDEDAVNALFDTAAETYGSVDIAFNNAGI 89
>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 = 51.3 bits (123), Expect = 1e-07
Identities = 34/149 (22%), Positives = 60/149 (40%), Gaps = 18/149 (12%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMA-CRSLEKAETAADDIRTSLKDVKDAGEVVI 75
+ +VTG++ G+G A A+ GARV++ RS E AE A + +
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEA---------GERAIA 51
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNA--GVMMCPRQ------LTEDGYELQFAT 127
Q D+ V+ +E ++ + ++NNA P Q + + Y+ Q
Sbjct: 52 IQADVRDRDQVQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEG 111
Query: 128 NHLGHYLFTLLLLPRIIKSAPARIINLSS 156
G +LP + R+IN+ +
Sbjct: 112 AVKGALNLLQAVLPDFKERGSGRVINIGT 140
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 51.2 bits (122), Expect = 2e-07
Identities = 37/111 (33%), Positives = 55/111 (49%), Gaps = 6/111 (5%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A++TG++TGIGK A + GA+V +A R L+ E AD+I TS G+V
Sbjct: 7 LHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTS------GGKV 60
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQ 124
V D+S + V ++ I + + NAG++ L E Q
Sbjct: 61 VPVCCDVSQHQQVTSMLDQVTAELGGIDIAVCNAGIITVTPMLDMPLEEFQ 111
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 50.9 bits (122), Expect = 2e-07
Identities = 30/95 (31%), Positives = 41/95 (43%), Gaps = 7/95 (7%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS-LEKAETAADDIRTSLKDVKDAGE 72
L GKTA+VTGS+ GIG TA LA GA V++ R +A +I G
Sbjct: 4 LPGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIE------AAGGR 57
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNA 107
DL+ +SV + + L+ NA
Sbjct: 58 ASAVGADLTDEESVAALMDTAREEFGGLDALVLNA 92
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 51.2 bits (123), Expect = 2e-07
Identities = 42/179 (23%), Positives = 67/179 (37%), Gaps = 35/179 (19%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
++ ++TG ++GIG A L G RV CR E + +
Sbjct: 5 RSILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEAF------------ 52
Query: 77 QLDLSSLKSVRKCAQEILD-NESAIHLLINN-----AGVMMCPRQLTEDGYELQFATNHL 130
QLD + +S+ ++L+ + + L NN G + L + QF N
Sbjct: 53 QLDYAEPESIAALVAQVLELSGGRLDALFNNGAYGQPGAV---EDLPTEALRAQFEANFF 109
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
G + T ++P + K RI+ SS+ G M + GAY SK A
Sbjct: 110 GWHDLTRRVIPVMRKQGQGRIVQCSSIL---GLVPMKYR-----------GAYNASKFA 154
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 51.0 bits (122), Expect = 2e-07
Identities = 38/146 (26%), Positives = 63/146 (43%), Gaps = 19/146 (13%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L K AIVTG + GIGK N L + G+ VI E + D +
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINFDIK-EPSYNDVDYFK------------ 50
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCPRQLTEDG-YELQFATNHLG 131
+D+S+ + V K ++ I +L+NNAG+ E+ ++ N G
Sbjct: 51 ----VDVSNKEQVIKGIDYVISKYGRIDILVNNAGIESYGAIHAVEEDEWDRIINVNVNG 106
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSL 157
+L + +P ++K IIN++S+
Sbjct: 107 IFLMSKYTIPYMLKQDKGVIINIASV 132
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 50.7 bits (122), Expect = 2e-07
Identities = 48/208 (23%), Positives = 74/208 (35%), Gaps = 65/208 (31%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
KT ++TG+ +GIG A +GA+V + + + D+ D E
Sbjct: 5 TKTVLITGAASGIGLAQARAFLAQGAQVYGV--DKQDKPDLSGNFHFLQLDLSDDLE--- 59
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGY---------ELQ-- 124
+ D ++ +L N AG++ D Y E Q
Sbjct: 60 ----------------PLFDWVPSVDILCNTAGIL--------DDYKPLLDTSLEEWQHI 95
Query: 125 FATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATG--- 181
F TN +L T LP++++ IIN+ S+A + A G
Sbjct: 96 FDTNLTSTFLLTRAYLPQMLERKSGIIINMCSIA-----------------SFVAGGGGA 138
Query: 182 AYGRSKLANILFTTELA-----KRLQVN 204
AY SK A FT +LA +QV
Sbjct: 139 AYTASKHALAGFTKQLALDYAKDGIQVF 166
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 51.0 bits (122), Expect = 3e-07
Identities = 43/147 (29%), Positives = 68/147 (46%), Gaps = 8/147 (5%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
G A+VTG GIGK A +LA++G +++ R+ +K + +D I++ + VV
Sbjct: 53 GSWALVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYSKTQIKTVVVD 112
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM-CPRQLTEDGYEL---QFATNHLG 131
D+ + V++ + I + + LINN GV R E EL N G
Sbjct: 113 FSGDID--EGVKRIKETIEGLDVGV--LINNVGVSYPYARFFHEVDEELLKNLIKVNVEG 168
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLA 158
T +LP ++K IIN+ S A
Sbjct: 169 TTKVTQAVLPGMLKRKKGAIINIGSGA 195
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 50.3 bits (121), Expect = 4e-07
Identities = 38/160 (23%), Positives = 67/160 (41%), Gaps = 18/160 (11%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L G+ A++TG +GIG+ GARV + RS EK + +R D
Sbjct: 3 WLHGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEKLAS----LRQRFGD-----H 53
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--------MCPRQLTEDGYELQ 124
V++ + D++S ++ + +D + + NAG+ + L + ++
Sbjct: 54 VLVVEGDVTSYADNQRAVDQTVDAFGKLDCFVGNAGIWDYNTSLVDIPAETL-DTAFDEI 112
Query: 125 FATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDG 164
F N G+ L LP + S + I LS+ + G G
Sbjct: 113 FNVNVKGYLLGAKAALPALKASGGSMIFTLSNSSFYPGGG 152
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 50.3 bits (121), Expect = 4e-07
Identities = 25/95 (26%), Positives = 39/95 (41%), Gaps = 6/95 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
GK +V G +GI A A+ GA V +A RS EK + A ++ E
Sbjct: 6 DFAGKNVVVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQQ------AGPE 59
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNA 107
+ D+ +V +I D I +L++ A
Sbjct: 60 GLGVSADVRDYAAVEAAFAQIADEFGPIDVLVSGA 94
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 48.8 bits (116), Expect = 5e-07
Identities = 34/97 (35%), Positives = 50/97 (51%), Gaps = 6/97 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
+L GK AIVTG GIG+ TA LAK+GA+VI+ E + ++I T+L GE
Sbjct: 13 KLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEI-TNL-----GGE 66
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+ D+ ++ L+ S I +L NAG+
Sbjct: 67 ALFVSYDMEKQGDWQRVISITLNAFSRIDMLFQNAGL 103
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 50.0 bits (120), Expect = 5e-07
Identities = 34/140 (24%), Positives = 64/140 (45%), Gaps = 8/140 (5%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLDL 80
+TG+ +G+G+ A A+ G R+ +A + E E +R G+ ++ D+
Sbjct: 5 ITGAASGLGRAIALRWAREGWRLALADVNEEGGEETLKLLRE------AGGDGFYQRCDV 58
Query: 81 SSLKSVRKCAQEILDNESAIHLLINNAGVMMCP--RQLTEDGYELQFATNHLGHYLFTLL 138
+ AQ + I +++NNAGV +L+ + ++ Q A N +G
Sbjct: 59 RDYSQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLEDWDWQIAINLMGVVKGCKA 118
Query: 139 LLPRIIKSAPARIINLSSLA 158
LP + RI+N++S+A
Sbjct: 119 FLPLFKRQKSGRIVNIASMA 138
>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 = 49.7 bits (119), Expect = 5e-07
Identities = 32/121 (26%), Positives = 54/121 (44%), Gaps = 9/121 (7%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK A+VTG +GIG A LA GA V++A E AE A+ A V
Sbjct: 1 GKVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEKVAEA--AQGGP--RALGVQC 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLGHY 133
D++S V+ ++ + + ++++NAG+ + + + + N GH+
Sbjct: 57 ---DVTSEAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAETSLEDWNRSMDINLTGHF 113
Query: 134 L 134
L
Sbjct: 114 L 114
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 49.9 bits (120), Expect = 5e-07
Identities = 39/187 (20%), Positives = 61/187 (32%), Gaps = 45/187 (24%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
KT ++TG ++G G+ A G RV+ RS +
Sbjct: 3 SMKTWLITGVSSGFGRALAQAALAAGHRVVGTVRSEAARADFEA---------LHPDRAL 53
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYE------------ 122
R LD++ ++ + I +L+NNAG G+E
Sbjct: 54 ARLLDVTDFDAIDAVVADAEATFGPIDVLVNNAGY----------GHEGAIEESPLAEMR 103
Query: 123 LQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA 182
QF N G T +LP + I+N++S+ G + G
Sbjct: 104 RQFEVNVFGAVAMTKAVLPGMRARRRGHIVNITSMG-----GLITM---------PGIGY 149
Query: 183 YGRSKLA 189
Y SK A
Sbjct: 150 YCGSKFA 156
>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 = 49.8 bits (119), Expect = 5e-07
Identities = 41/169 (24%), Positives = 75/169 (44%), Gaps = 19/169 (11%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K ++TG +G+G TA LAK GA++ + ++ E + + +L ++ EV++
Sbjct: 4 KVVLITGGGSGLGLATAVRLAKEGAKLSL----VDLNEEGLEAAKAALLEIAPDAEVLLI 59
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQ-LTEDGYELQF----ATNHLG 131
+ D+S V ++ I NNAG+ +Q LTED +F + N G
Sbjct: 60 KADVSDEAQVEAYVDATVEQFGRIDGFFNNAGIE--GKQNLTEDFGADEFDKVVSINLRG 117
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT 180
+ +L + + I+N +S+ G G+ + GY+A
Sbjct: 118 VFYGLEKVLKVMREQGSGMIVNTASVGGIRGVGN--------QSGYAAA 158
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 49.6 bits (119), Expect = 5e-07
Identities = 37/145 (25%), Positives = 56/145 (38%), Gaps = 14/145 (9%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSL--EKAETAADDIRTSLKDVKDAGEVVIR 76
AIVTG + G+G A +L + G V+ RS A A + + D+ DA
Sbjct: 4 AIVTGHSRGLGAALAEQLLQPGIAVLGVARSRHPSLAAAAGERLAEVELDLSDAAAAA-- 61
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQL-TEDGYELQ--FATNHLGHY 133
+ + ++ LLINNAG + L T D + N
Sbjct: 62 -------AWLAGDLLAAFVDGASRVLLINNAGTVEPIGPLATLDAAAIARAVGLNVAAPL 114
Query: 134 LFTLLLLPRIIKSAPARIINLSSLA 158
+ T L +A RI+++SS A
Sbjct: 115 MLTAALAQAASDAAERRILHISSGA 139
>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 = 49.6 bits (119), Expect = 6e-07
Identities = 39/147 (26%), Positives = 68/147 (46%), Gaps = 12/147 (8%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
K ++TG+ IGK L GAR+I+A + E +++ T+L V+
Sbjct: 2 DKIILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEEL-TNLYKN----RVIA 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAG--VMMCPRQLTEDGYELQFATN---HL 130
+LD++S +S+++ + L+ I +LINNA + + E YE Q+ +L
Sbjct: 57 LELDITSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYE-QWNEVLNVNL 115
Query: 131 GHY-LFTLLLLPRIIKSAPARIINLSS 156
G L + + K IIN++S
Sbjct: 116 GGAFLCSQAFIKLFKKQGKGSIINIAS 142
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 49.1 bits (117), Expect = 7e-07
Identities = 41/159 (25%), Positives = 72/159 (45%), Gaps = 25/159 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L G+ A+VTG++ GIG+ A L +GA V + +EK E A ++ +K
Sbjct: 4 LSGRKALVTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAELGERVK-------- 55
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFA------- 126
I +LS V+ Q+ + + +L+NNAG+ T+DG ++ +
Sbjct: 56 -IFPANLSDRDEVKALGQKAEADLEGVDILVNNAGI-------TKDGLFVRMSDEDWDSV 107
Query: 127 --TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGD 163
N + T L +++ RIIN++S+ G+
Sbjct: 108 LEVNLTATFRLTRELTHPMMRRRYGRIINITSVVGVTGN 146
>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 = 7e-07
Identities = 49/192 (25%), Positives = 86/192 (44%), Gaps = 25/192 (13%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
+VTG++ GIG+ AN LA G + + S + A+ + +++ G + Q D
Sbjct: 2 LVTGASRGIGRAIANRLAADGFEICVHYHS---GRSDAESVVSAI--QAQGGNARLLQFD 56
Query: 80 LSSLKSVRKCAQEILDNESAIHLLINNAGVM---MCPRQLTEDGYELQFATNHLGHY-LF 135
++ + R + + A + ++ NAG+ P L+E+ +++ TN G Y +
Sbjct: 57 VADRVACRTLLEADIAEHGAYYGVVLNAGITRDAAFP-ALSEEDWDIVIHTNLDGFYNVI 115
Query: 136 TLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT--GAYGRSKLANILF 193
+P I RII L+S++ G+ + YSA G G +K +
Sbjct: 116 HPCTMPMIRARQGGRIITLASVSGVMGNRG--------QVNYSAAKAGLIGATKALAV-- 165
Query: 194 TTELAKR-LQVN 204
ELAKR + VN
Sbjct: 166 --ELAKRKITVN 175
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 49.2 bits (118), Expect = 9e-07
Identities = 47/194 (24%), Positives = 75/194 (38%), Gaps = 31/194 (15%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACR-SLEKAETAADDIRTSLKDVKDAGEV 73
K A++TG IG A L G RV + S +A+ A + L ++ G
Sbjct: 5 SAKVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAE----LNALR-PGSA 59
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR---QLTEDGYELQFATNHL 130
Q DL ++ + + + L+NNA P +TE ++ FA+N
Sbjct: 60 AALQADLLDPDALPELVAACVAAFGRLDALVNNASSFY-PTPLGSITEAQWDDLFASNLK 118
Query: 131 GHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLE---KGYSATGAYGRSK 187
+ + P++ K A I+N++ DI+ E KGY Y +K
Sbjct: 119 APFFLSQAAAPQLRKQRGA-IVNIT--------------DIHAERPLKGYP---VYCAAK 160
Query: 188 LANILFTTELAKRL 201
A + T LA L
Sbjct: 161 AALEMLTRSLALEL 174
>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 = 49.1 bits (117), Expect = 9e-07
Identities = 43/156 (27%), Positives = 75/156 (48%), Gaps = 12/156 (7%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIM--ACRSLEK-----AETAADDIRTSLKD 66
L+GK A +TG+ G G+ A LA GA +I C L T D T+ +
Sbjct: 1 LEGKVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETA-RL 59
Query: 67 VKDAG-EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYEL 123
V+ G +V+ R+ D+ L VR ++ ++ + +++ NAGV+ R +L+E+ ++
Sbjct: 60 VEALGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWELSEEQWDT 119
Query: 124 QFATNHLGHYLFTLLLLPRIIKSAP-ARIINLSSLA 158
N G + ++P +I+ II SS+A
Sbjct: 120 VLDINLTGVWRTCKAVVPHMIERGNGGSIIITSSVA 155
>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 = 48.5 bits (116), Expect = 1e-06
Identities = 33/143 (23%), Positives = 60/143 (41%), Gaps = 10/143 (6%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
++TG+++GIG+ A E AK G V +A R ++ + ++ + V + L
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAEL------LNPNPSVEVEIL 54
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGVMM---CPRQLTEDGYELQFATNHLGHYLF 135
D++ + + E+ + L+I NAGV + E TN LG
Sbjct: 55 DVTDEERNQLVIAELEAELGGLDLVIINAGVGKGTSLGDLSFKAFRET-IDTNLLGAAAI 113
Query: 136 TLLLLPRIIKSAPARIINLSSLA 158
LP+ ++ +SS+A
Sbjct: 114 LEAALPQFRAKGRGHLVLISSVA 136
>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 = 48.2 bits (115), Expect = 2e-06
Identities = 44/200 (22%), Positives = 80/200 (40%), Gaps = 32/200 (16%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLE-KAETAADDIRTSLKDVKDAGE 72
L GK A+VTG++ GIG+ A +L + GA V + R++ + A++I G+
Sbjct: 1 LSGKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEAR------GGK 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESA-IHLLINNA--GVMMCPRQLTEDGYELQ----- 124
+ + D S V + + + + +L+NNA V + + + +E
Sbjct: 55 CIPVRCDHSDDDEVEALFERVAREQQGRLDILVNNAYAAVQLILVGVAKPFWEEPPTIWD 114
Query: 125 --FATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA 182
HY ++ P ++K+ I+ +SS T G + A
Sbjct: 115 DINNVGLRAHYACSVYAAPLMVKAGKGLIVIISS---TGGLEYLF------------NVA 159
Query: 183 YGRSKLANILFTTELAKRLQ 202
YG K A ++A L+
Sbjct: 160 YGVGKAAIDRMAADMAHELK 179
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 48.7 bits (117), Expect = 2e-06
Identities = 28/101 (27%), Positives = 50/101 (49%), Gaps = 19/101 (18%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETA----ADDIR-TSLKDVK 68
L GK A+VTG+ GIG A LA+ GA V+ C + A A A+ + T+L
Sbjct: 208 LAGKVALVTGAARGIGAAIAEVLARDGAHVV--CLDVPAAGEALAAVANRVGGTAL---- 261
Query: 69 DAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
LD+++ + + A+ + + + ++++NAG+
Sbjct: 262 --------ALDITAPDAPARIAEHLAERHGGLDIVVHNAGI 294
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 47.8 bits (114), Expect = 2e-06
Identities = 34/130 (26%), Positives = 60/130 (46%), Gaps = 6/130 (4%)
Query: 9 TADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVK 68
AD L GK ++ G +G A +LA +GA+ + + ++ A++ ++ VK
Sbjct: 1 MADHSLKGKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADAEE---TVAAVK 57
Query: 69 DAG-EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG-VMMCP-RQLTEDGYELQF 125
AG + V Q DL++ +V K + + IN G V+ P +++E Y+ F
Sbjct: 58 AAGAKAVAFQADLTTAAAVEKLFDDAKAAFGRPDIAINTVGKVLKKPIVEISEAEYDEMF 117
Query: 126 ATNHLGHYLF 135
A N + F
Sbjct: 118 AVNSKSAFFF 127
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 47.9 bits (114), Expect = 2e-06
Identities = 43/155 (27%), Positives = 64/155 (41%), Gaps = 13/155 (8%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARV-IMACRSLEKAETAADDIRTSLKDVKDAGEV 73
K ++TG++ GIG+ TA A RG V I R AE AD +R + G
Sbjct: 1 MRKVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRAA------GGRA 54
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE---DGYELQFATNHL 130
+ D+++ V + + L+NNAG++ L + F TN L
Sbjct: 55 CVVAGDVANEADVIAMFDAVQSAFGRLDALVNNAGIVAPSMPLADMDAARLRRMFDTNVL 114
Query: 131 GHYLFTLLLLPRIIKSAPAR---IINLSSLAHTWG 162
G YL R+ R I+N+SS+A G
Sbjct: 115 GAYLCAREAARRLSTDRGGRGGAIVNVSSIASRLG 149
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 47.6 bits (114), Expect = 2e-06
Identities = 35/149 (23%), Positives = 62/149 (41%), Gaps = 12/149 (8%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-E 72
L GK +V+G G+G+ A A+ GA V++A R+ E+ + A +I D G
Sbjct: 3 LKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEID-------DLGRR 55
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTE-DGYELQFATNH 129
+ D++ L+ + L+NNA + M P + + N
Sbjct: 56 ALAVPTDITDEDQCANLVALALERFGRVDALVNNAFRVPSMKPLADADFAHWRAVIELNV 115
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
LG T P + +S + I+ ++S+
Sbjct: 116 LGTLRLTQAFTPALAESGGS-IVMINSMV 143
>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 = 47.6 bits (113), Expect = 2e-06
Identities = 38/144 (26%), Positives = 59/144 (40%), Gaps = 14/144 (9%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GK AIVTG GIGK + + G +V+ A E+ A+ +L V
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEAEGPNLFFVH------- 53
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYE---LQFATNHLGH 132
D++ V+ +L+ I +L+NNA L+ E + N G
Sbjct: 54 --GDVADETLVKFVVYAMLEKLGRIDVLVNNAAR-GSKGILSSLLLEEWDRILSVNLTGP 110
Query: 133 YLFTLLLLPRIIKSAPARIINLSS 156
Y + +IK+ RIIN++S
Sbjct: 111 YELSRYCRDELIKNK-GRIINIAS 133
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 47.4 bits (113), Expect = 3e-06
Identities = 40/145 (27%), Positives = 62/145 (42%), Gaps = 9/145 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L K AIVTG++ GIG A LA G V + + AAD++ + G
Sbjct: 3 LSNKVAIVTGASRGIGAAIARRLAADGFAVAVNYAG---SAAAADELVAEI--EAAGGRA 57
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLG 131
+ Q D++ +V + I +L+NNAGVM + ++ ATN G
Sbjct: 58 IAVQADVADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFDLEDFDRTIATNLRG 117
Query: 132 HYLFTLLLLPRIIKSAPARIINLSS 156
++ + + RIINLS+
Sbjct: 118 AFVVLREAARHLGQG--GRIINLST 140
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 47.3 bits (113), Expect = 3e-06
Identities = 39/178 (21%), Positives = 70/178 (39%), Gaps = 29/178 (16%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDA-GEVV 74
K +TG++ G G+ +RG RV+ R L D+ + G+ +
Sbjct: 3 EKVWFITGASRGFGRAWTEAALERGDRVVATARDTAT-----------LADLAEKYGDRL 51
Query: 75 IR-QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM-MCP-RQLTEDGYELQFATNHLG 131
+ LD++ +V + +++ + +++NNAG ++TE Q TN G
Sbjct: 52 LPLALDVTDRAAVFAAVETAVEHFGRLDIVVNNAGYGLFGMIEEVTESEARAQIDTNFFG 111
Query: 132 HYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
T +LP + + II +SS+ G + +G Y SK A
Sbjct: 112 ALWVTQAVLPYLREQRSGHIIQISSIG-----GIS---------AFPMSGIYHASKWA 155
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 47.0 bits (112), Expect = 4e-06
Identities = 36/143 (25%), Positives = 62/143 (43%), Gaps = 11/143 (7%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
KT +TG+++G G+ L RG RV R + A DD++ D + +
Sbjct: 2 SKTWFITGASSGFGRGMTERLLARGDRVAATVRRPD----ALDDLKARYGD-----RLWV 52
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM--CPRQLTEDGYELQFATNHLGHY 133
QLD++ +VR I ++++NAG + +L++ Q TN +G
Sbjct: 53 LQLDVTDSAAVRAVVDRAFAALGRIDVVVSNAGYGLFGAAEELSDAQIRRQIDTNLIGSI 112
Query: 134 LFTLLLLPRIIKSAPARIINLSS 156
LP + + RI+ +SS
Sbjct: 113 QVIRAALPHLRRQGGGRIVQVSS 135
>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 = 46.0 bits (110), Expect = 5e-06
Identities = 29/94 (30%), Positives = 45/94 (47%), Gaps = 6/94 (6%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARVIMAC-RSLEKAETAADDIRTSLKDVKDAG-EVVI 75
T +VTG G+G A LA+RGAR ++ RS A + +++ G EV +
Sbjct: 2 TYLVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLA----ELEARGAEVTV 57
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
D+S +VR EI + + +I+ AGV
Sbjct: 58 VACDVSDRDAVRALLAEIRADGPPLRGVIHAAGV 91
>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 = 47.4 bits (113), Expect = 5e-06
Identities = 32/116 (27%), Positives = 56/116 (48%), Gaps = 6/116 (5%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
G +VTG GIG+ A LA+R GAR+++ RS + +L ++ G
Sbjct: 204 PGGVYLVTGGAGGIGRALARALARRYGARLVLLGRS--PLPPEEEWKAQTLAALEALGAR 261
Query: 74 VI-RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFA 126
V+ D++ +VR+ +++ + AI +I+ AGV+ Q T + +E A
Sbjct: 262 VLYISADVTDAAAVRRLLEKVRERYGAIDGVIHAAGVLRDALLAQKTAEDFEAVLA 317
>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 = 45.5 bits (108), Expect = 9e-06
Identities = 25/62 (40%), Positives = 35/62 (56%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
L GKTA+V G +G+ A LA+ GARV++ R LE+A+ AAD +R + A
Sbjct: 24 KDLKGKTAVVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLRARFGEGVGAV 83
Query: 72 EV 73
E
Sbjct: 84 ET 85
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 46.1 bits (110), Expect = 9e-06
Identities = 54/198 (27%), Positives = 75/198 (37%), Gaps = 41/198 (20%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDA 70
D L K IVTG +GIG + LA+ GA ++ RS E A+++R
Sbjct: 2 DLNLKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPDDEF-AEELR------ALQ 54
Query: 71 GEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNH- 129
Q+DL+ R ++ + I L+NNAGV DG L+ A
Sbjct: 55 PRAEFVQVDLTDDAQCRDAVEQTVAKFGRIDGLVNNAGV--------NDGVGLE-AGREA 105
Query: 130 --------LGHY-LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSAT 180
L HY + LP + S A I+N+SS G G T
Sbjct: 106 FVASLERNLIHYYVMAHYCLPHLKASRGA-IVNISSKTALTGQGG--------------T 150
Query: 181 GAYGRSKLANILFTTELA 198
Y +K A + T E A
Sbjct: 151 SGYAAAKGAQLALTREWA 168
>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 = 45.2 bits (108), Expect = 1e-05
Identities = 27/95 (28%), Positives = 47/95 (49%), Gaps = 6/95 (6%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGAR-VIMACRSLEKAETAADDIRTSLKDVKDAG-EVV 74
T ++TG G+G+ A LA+RGAR +++ RS A AA + +++ AG V
Sbjct: 1 GTYLITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLA----ELEAAGARVT 56
Query: 75 IRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+ D++ ++ I E + +I+ AGV
Sbjct: 57 VVACDVADRDALAAVLAAIPAVEGPLTGVIHAAGV 91
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 45.7 bits (108), Expect = 1e-05
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 6/98 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
G+ A++TG +GIG T E A+RGARV++ A + +R DV
Sbjct: 4 FPGRGAVITGGASGIGLATGTEFARRGARVVLGDVDKPGLRQAVNHLRAEGFDVHGV--- 60
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM 111
D+ + V A E + ++ +NAG+++
Sbjct: 61 ---MCDVRHREEVTHLADEAFRLLGHVDVVFSNAGIVV 95
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 45.8 bits (109), Expect = 1e-05
Identities = 55/193 (28%), Positives = 89/193 (46%), Gaps = 26/193 (13%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
+L GK A++TG ++GIG+ A AK GA + + L++ E A + T + K+ +
Sbjct: 43 KLKGKVALITGGDSGIGRAVAVLFAKEGADIAIV--YLDEHEDANE---TKQRVEKEGVK 97
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQ----LTEDGYELQFATN 128
++ D+S + +E + + +L+NNA P+Q +T + + F TN
Sbjct: 98 CLLIPGDVSDEAFCKDAVEETVRELGRLDILVNNAAFQY-PQQSLEDITAEQLDKTFKTN 156
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKL 188
++ T LP +K A IIN S+ T +G+ D YSAT K
Sbjct: 157 IYSYFHMTKAALPH-LKQGSA-IINTGSI--TGYEGNETLID------YSAT------KG 200
Query: 189 ANILFTTELAKRL 201
A FT LA+ L
Sbjct: 201 AIHAFTRSLAQSL 213
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 45.5 bits (108), Expect = 1e-05
Identities = 41/148 (27%), Positives = 71/148 (47%), Gaps = 11/148 (7%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K I+TG++ GIG TA A+RG V C + + AA+ + +++ GE +
Sbjct: 3 KVMIITGASRGIGAATALLAAERGYAV---CLNYLRNRDAAEAVVQAIRR--QGGEALAV 57
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE-DGYELQ--FATNHLGHY 133
D++ V + + + + L+NNAG++ +L + D L FATN +G +
Sbjct: 58 AADVADEADVLRLFEAVDRELGRLDALVNNAGILEAQMRLEQMDAARLTRIFATNVVGSF 117
Query: 134 LFTLLLLPRIIKSAPAR---IINLSSLA 158
L + R+ R I+N+SS+A
Sbjct: 118 LCAREAVKRMSTRHGGRGGAIVNVSSMA 145
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 45.0 bits (107), Expect = 2e-05
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 6/60 (10%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDI------RTSLKDVKDAGEV 73
+V G ++GIG A A GARV +A RS ++ AA + RT+ D+ D V
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGGGAPVRTAALDITDEAAV 60
>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 = 45.4 bits (108), Expect = 2e-05
Identities = 37/159 (23%), Positives = 64/159 (40%), Gaps = 16/159 (10%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L G+ A++TG +G+G+ GA+V + RS EK D DA
Sbjct: 1 WLKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEKVAELR-------ADFGDA-- 51
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-------MMCPRQLTEDGYELQF 125
VV + D+ SL + ++ + I NAG+ + P + ++ ++ F
Sbjct: 52 VVGVEGDVRSLADNERAVARCVERFGKLDCFIGNAGIWDYSTSLVDIPEEKLDEAFDELF 111
Query: 126 ATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDG 164
N G+ L LP + + + I +S+ G G
Sbjct: 112 HINVKGYILGAKAALPALYATEGSVIFTVSNAGFYPGGG 150
>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 = 45.2 bits (107), Expect = 2e-05
Identities = 51/187 (27%), Positives = 72/187 (38%), Gaps = 33/187 (17%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
IVTG+ GIG+ A L + GA VI D +R + DV DA
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIALDLPFVLLLEYGDPLRLTPLDVADA-------- 52
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGV--MMCPRQLTEDGYELQFATNHLGHYLFT 136
+VR+ +L I L+N AGV L+ + +E FA N G +F
Sbjct: 53 -----AAVREVCSRLLAEHGPIDALVNCAGVLRPGATDPLSTEDWEQTFAVNVTG--VFN 105
Query: 137 LL--LLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFT 194
LL + P + I+ ++S A H I++ AYG SK A +
Sbjct: 106 LLQAVAPHMKDRRTGAIVTVASNA-------AHVPRISM-------AAYGASKAALASLS 151
Query: 195 TELAKRL 201
L L
Sbjct: 152 KCLGLEL 158
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 45.2 bits (107), Expect = 2e-05
Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 4/60 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
+T +VTG +GIGK A L GA V++ R+ +K AA++I K AG V
Sbjct: 5 FQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEAL----KGAGAV 60
>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 = 45.1 bits (107), Expect = 3e-05
Identities = 34/159 (21%), Positives = 55/159 (34%), Gaps = 16/159 (10%)
Query: 9 TADTRLDGKTAIVTGSNTGIGKCTANELAKRGAR-VIMACRSLEKAETAADDIRTSLKDV 67
A T ++TG G+G A LA RGAR +++ R AA
Sbjct: 143 AAAPGGLDGTYLITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAG-- 200
Query: 68 KDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV----MMCPRQLTEDGYEL 123
V + + D++ ++ E L + +I+ AGV ++ +LT +
Sbjct: 201 --GARVSVVRCDVTDPAALAALLAE-LAAGGPLAGVIHAAGVLRDALL--AELTPAAFAA 255
Query: 124 QFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWG 162
A G L L + SS+A G
Sbjct: 256 VLAAKVAG----ALNLHELTPDLPLDFFVLFSSVAALLG 290
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 44.5 bits (105), Expect = 3e-05
Identities = 19/47 (40%), Positives = 26/47 (55%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDI 60
L KT +VTG++ G+G+ A A GA VI+ R +K E D I
Sbjct: 4 LSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAI 50
>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 = 44.4 bits (105), Expect = 3e-05
Identities = 35/153 (22%), Positives = 55/153 (35%), Gaps = 19/153 (12%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTS-LKDVK---DAGE 72
K +TG+ +GIG+ TA A+ G V DI L + A
Sbjct: 1 KAIFITGAASGIGRETALLFARNGWFV------------GLYDIDEDGLAALAAELGAEN 48
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESA-IHLLINNAGVMMCPR--QLTEDGYELQFATNH 129
VV LD++ + + + L NNAGV + ++ N
Sbjct: 49 VVAGALDVTDRAAWAAALADFAAATGGRLDALFNNAGVGRGGPFEDVPLAAHDRMVDINV 108
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWG 162
G LP + + AR+IN +S + +G
Sbjct: 109 KGVLNGAYAALPYLKATPGARVINTASSSAIYG 141
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 44.5 bits (105), Expect = 4e-05
Identities = 43/196 (21%), Positives = 80/196 (40%), Gaps = 31/196 (15%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL G+ A++TG+++GIG+ TA A+ GA + + E+ D ++ ++ G
Sbjct: 52 RLQGRKALITGADSGIGRATAIAFAREGADIALNYLPEEEQ-----DAAEVVQLIQAEGR 106
Query: 73 VVIR-QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPR---QLTEDGYELQFATN 128
+ DL R+ + + + +L+N AG + +T + ++ F TN
Sbjct: 107 KAVALPGDLKDEAFCRQLVERAVKELGGLDILVNIAGKQTAVKDIADITTEQFDATFKTN 166
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGA---YGR 185
+ +P + A IIN S+ + Y + Y
Sbjct: 167 VYAMFWLCKAAIPHL--PPGASIINTGSI-----------------QSYQPSPTLLDYAS 207
Query: 186 SKLANILFTTELAKRL 201
+K A + FT LAK++
Sbjct: 208 TKAAIVAFTKALAKQV 223
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 43.6 bits (103), Expect = 5e-05
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 7/96 (7%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL GK + G + G+G A K GA+V + R+ K + ++ +L G
Sbjct: 2 RLKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLK----RMKKTLSKY---GN 54
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG 108
+ D+SS +S R ++ +AI L+ G
Sbjct: 55 IHYVVGDVSSTESARNVIEKAAKVLNAIDGLVVTVG 90
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 43.3 bits (102), Expect = 6e-05
Identities = 39/152 (25%), Positives = 68/152 (44%), Gaps = 11/152 (7%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
A+VTG + GIG+ TA LA+ G V + + ++ AA ++ + + G+ +
Sbjct: 2 AIALVTGGSRGIGRATALLLAQEGYTVAV---NYQQNLHAAQEVVNLI--TQAGGKAFVL 56
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM---CPRQLTEDGYELQFATNHLGHY 133
Q D+S V I ++ + L+NNAG++ LT + +TN G++
Sbjct: 57 QADISDENQVVAMFTAIDQHDEPLAALVNNAGILFTQCTVENLTAERINRVLSTNVTGYF 116
Query: 134 LFTLLLLPRIIKSAPAR---IINLSSLAHTWG 162
L + R+ I+N+SS A G
Sbjct: 117 LCCREAVKRMALKHGGSGGAIVNVSSAASRLG 148
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 43.6 bits (103), Expect = 7e-05
Identities = 38/146 (26%), Positives = 63/146 (43%), Gaps = 19/146 (13%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
++TG ++GIG+ A+ G V R E E A A
Sbjct: 2 PVVLITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALA------------AAGFTAV 49
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-MMCPRQLTEDGYEL---QFATNHLGH 132
QLD++ ++ + A+E+ + +LINNAG M P L + G E QF TN
Sbjct: 50 QLDVNDGAALARLAEELEAEHGGLDVLINNAGYGAMGP--LLDGGVEAMRRQFETNVFAV 107
Query: 133 YLFTLLLLPRIIKSAPARIINLSSLA 158
T L P +++ + ++N+ S++
Sbjct: 108 VGVTRALFP-LLRRSRGLVVNIGSVS 132
>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 = 43.2 bits (102), Expect = 7e-05
Identities = 36/151 (23%), Positives = 65/151 (43%), Gaps = 16/151 (10%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL G+ +VTG +G+G+ + GARV + L+K+ ++ + D
Sbjct: 2 RLKGEVVLVTGGASGLGRAIVDRFVAEGARVAV----LDKSAAGLQELEAAHGD-----A 52
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV-------MMCPRQLTEDGYELQF 125
VV + D+ SL ++ + I LI NAG+ + P ++ ++ F
Sbjct: 53 VVGVEGDVRSLDDHKEAVARCVAAFGKIDCLIPNAGIWDYSTALVDIPDDRIDEAFDEVF 112
Query: 126 ATNHLGHYLFTLLLLPRIIKSAPARIINLSS 156
N G+ L LP ++ S + I +S+
Sbjct: 113 HINVKGYLLAVKAALPALVASRGSVIFTISN 143
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 43.3 bits (102), Expect = 7e-05
Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 7/97 (7%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
RL GK A+VTG TGIG+ K GA+V + + + ++ SL +
Sbjct: 15 RLLGKVALVTGGATGIGESIVRLFHKHGAKVCIV----DLQDDLGQNVCDSLGGEPNVCF 70
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
D++ V + +D + +++NNAG+
Sbjct: 71 F---HCDVTVEDDVSRAVDFTVDKFGTLDIMVNNAGL 104
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 42.3 bits (100), Expect = 1e-04
Identities = 22/94 (23%), Positives = 43/94 (45%), Gaps = 13/94 (13%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+TA++ G++ G+G + L +RG +V R ++ +L+ + V I
Sbjct: 2 RTALIIGASRGLGLGLVDRLLERGWQVTATVRGPQQDT--------ALQAL---PGVHIE 50
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM 110
+LD++ S+ + Q + LL NAG+
Sbjct: 51 KLDMNDPASLDQLLQRL--QGQRFDLLFVNAGIS 82
>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 = 42.5 bits (100), Expect = 1e-04
Identities = 36/142 (25%), Positives = 53/142 (37%), Gaps = 30/142 (21%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQ 77
T ++TG+ +GIG TA L G VI D+R +V
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVI------------GIDLRE--------ADV---I 37
Query: 78 LDLSSLKSVRKCAQEILDNES-AIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLFT 136
DLS+ + ++L S + L+N AGV L N+ G
Sbjct: 38 ADLSTPEGRAAAIADVLARCSGVLDGLVNCAGV---GGTT---VAGLVLKVNYFGLRALM 91
Query: 137 LLLLPRIIKSAPARIINLSSLA 158
LLPR+ K + +SS+A
Sbjct: 92 EALLPRLRKGHGPAAVVVSSIA 113
>gnl|CDD|187633 cd08928, KR_fFAS_like_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS)-like, classical
(c)-like SDRs. KR domain of FAS, including the
fungal-type multidomain FAS alpha chain, and the single
domain daunorubicin C-13 ketoreductase. Fungal-type FAS
is a heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the classical SDR and has partial
identity of the active site tetrad, but the upstream Asn
is replaced in KR by Met. As in other SDRs, there is a
glycine rich NAD(P)-binding motif, but the pattern found
in KR does not match the classical SDRs, and is not
strictly conserved within this group. Daunorubicin is a
clinically important therapeutic compound used in some
cancer treatments. Single domain 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 = 248
Score = 42.7 bits (100), Expect = 1e-04
Identities = 34/195 (17%), Positives = 60/195 (30%), Gaps = 23/195 (11%)
Query: 19 AIVTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETA-ADDIRTSLKDVKDAGEVVIR 76
++TG+ G IG L GA+V + + T DI + +++
Sbjct: 1 VLITGAGDGSIGAEVLQGLLNGGAKVYVTTSRFSRQVTKYYQDIYAACG--AAGSVLIVV 58
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP-RQLTEDGYELQF--ATNHLGHY 133
+ S + V A I D + + + P + E G E+ + + + H
Sbjct: 59 PFNQGSKQDVEALAIGIYDTVNG----LGWDLDLYGPFAAIPETGIEIPAIDSKSEVAHR 114
Query: 134 LFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDI----NLEKGYSATGAYGRSKLA 189
+ LL P ++ + + I + GAY SKL
Sbjct: 115 IMLTNLL------RPKGLVKIQKQLRGQETRPA--QVILPFSPNHGTFGDDGAYSESKLH 166
Query: 190 NILFTTELAKRLQVN 204
A N
Sbjct: 167 LETLFNRWASESWGN 181
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 42.2 bits (99), Expect = 1e-04
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 8/97 (8%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L+GK AI+TG NTG+G+ A LAK GA ++ A + + ++ +
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIVGV------GVAEAPETQAQVEALGRKFHF 59
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM 110
+ DL K + + ++ I +LINNAG++
Sbjct: 60 ITA--DLIQQKDIDSIVSQAVEVMGHIDILINNAGII 94
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 42.2 bits (100), Expect = 2e-04
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
K ++ G+ + I + A A GAR+ +A R +E+ E ADD+R + A V
Sbjct: 1 MKKILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLR-----ARGAVAVST 55
Query: 76 RQLDLSSLKS 85
+LD+ S
Sbjct: 56 HELDILDTAS 65
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 42.3 bits (99), Expect = 2e-04
Identities = 43/149 (28%), Positives = 67/149 (44%), Gaps = 11/149 (7%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG- 71
RL + A+VTG ++GIG+ A A+ GA V A L E A D++ K +++ G
Sbjct: 46 RLKDRKALVTGGDSGIGRAAAIAYAREGADV--AISYLPVEEEDAQDVK---KIIEECGR 100
Query: 72 EVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQ---LTEDGYELQFATN 128
+ V+ DLS K R E + ++ AG + LT + ++ FA N
Sbjct: 101 KAVLLPGDLSDEKFARSLVHEAHKALGGLDIMALVAGKQVAIPDIADLTSEQFQKTFAIN 160
Query: 129 HLGHYLFTLLLLPRIIKSAPARIINLSSL 157
+ T +P + K A II SS+
Sbjct: 161 VFALFWLTQEAIPLLPKG--ASIITTSSI 187
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 42.1 bits (99), Expect = 2e-04
Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 5/82 (6%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GK A T S+ GIG A LA+ GA VI+ R+ E + A + I+ S +V +V
Sbjct: 6 LSGKLAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIK-SESNV----DV 60
Query: 74 VIRQLDLSSLKSVRKCAQEILD 95
DL+ + + + +E+ +
Sbjct: 61 SYIVADLTKREDLERTVKELKN 82
>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 = 42.1 bits (99), Expect = 2e-04
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIR 61
L K A+VT S GIG A LA+ GA V+++ R + + A ++
Sbjct: 8 LANKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQ 55
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 41.7 bits (98), Expect = 2e-04
Identities = 35/153 (22%), Positives = 65/153 (42%), Gaps = 9/153 (5%)
Query: 13 RLDGKTAIVTGSN--TGIGKCTANELAKRGARVIMAC-----RSLEKAETAADDIRTSLK 65
+L K A+VTG + GIG ELA+ GA + + + + I+ +
Sbjct: 3 QLKNKVAVVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQIQLQEE 62
Query: 66 DVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNA--GVMMCPRQLTEDGYEL 123
+K+ +V +LDL+ + ++ ++ + H+L+NNA LT + +
Sbjct: 63 LLKNGVKVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSNLTAEELDK 122
Query: 124 QFATNHLGHYLFTLLLLPRIIKSAPARIINLSS 156
+ N L + K + RIIN++S
Sbjct: 123 HYMVNVRATTLLSSQFARGFDKKSGGRIINMTS 155
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 41.5 bits (98), Expect = 3e-04
Identities = 34/115 (29%), Positives = 48/115 (41%), Gaps = 9/115 (7%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARV-IMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
+ A+VTG+ IG+ A +LA G V + RS ++AE A +IR V
Sbjct: 10 RAALVTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRAL------GRRAVA 63
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCP--RQLTEDGYELQFATN 128
Q DL+ VR I LL+NNA + T ++ ATN
Sbjct: 64 LQADLADEAEVRALVARASAALGPITLLVNNASLFEYDSAASFTRASWDRHMATN 118
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 41.2 bits (97), Expect = 3e-04
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMAC-RSLEKAETAADDIRTSL----KDV 67
++ +T +VTG + G+G A A+ GARV++ +S + AE AD++ DV
Sbjct: 2 QISEQTVLVTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALADELGDRAIALQADV 61
Query: 68 KDAGEV 73
D +V
Sbjct: 62 TDREQV 67
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 41.3 bits (97), Expect = 3e-04
Identities = 38/145 (26%), Positives = 60/145 (41%), Gaps = 22/145 (15%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+T +VTG+ GIG + LA G +VI RS A DD GE+
Sbjct: 4 RTVLVTGATKGIGLALSLRLANLGHQVIGIARS------AIDDF---------PGELF-- 46
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTE-DGYELQ--FATNHLGHY 133
DL+ ++ +I + + ++NN G+ + P+ L + D LQ + N
Sbjct: 47 ACDLADIEQTAATLAQINE-IHPVDAIVNNVGIAL-PQPLGKIDLAALQDVYDLNVRAAV 104
Query: 134 LFTLLLLPRIIKSAPARIINLSSLA 158
T L + RI+N+ S A
Sbjct: 105 QVTQAFLEGMKLREQGRIVNICSRA 129
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 41.3 bits (97), Expect = 3e-04
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 5/94 (5%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
+ A+V G +G+ + LA+ G V +A + E AE AD+I K G
Sbjct: 2 NQVAVVIGGGQTLGEFLCHGLAEAGYDVAVADINSENAEKVADEINAEY-GEKAYG---- 56
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
D ++ +SV ++ + + + LL+ +AG+
Sbjct: 57 FGADATNEQSVIALSKGVDEIFKRVDLLVYSAGI 90
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 41.2 bits (96), Expect = 4e-04
Identities = 45/195 (23%), Positives = 74/195 (37%), Gaps = 37/195 (18%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMAC--------RSLEKAETAADDIRTSLKDVK 68
+ A VTG GIG L K G +V+ C + LE + D S +V
Sbjct: 4 RIAYVTGGMGGIGTSICQRLHKDGFKVVAGCGPNSPRRVKWLEDQKALGFDFIASEGNVG 63
Query: 69 DAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFA 126
D S + ++ I +L+NNAG+ + R++T + +
Sbjct: 64 D-------------WDSTKAAFDKVKAEVGEIDVLVNNAGITRDVVFRKMTREDWTAVID 110
Query: 127 TNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRS 186
TN + T ++ +++ RIIN+SS +N +KG Y +
Sbjct: 111 TNLTSLFNVTKQVIDGMVERGWGRIINISS--------------VNGQKGQFGQTNYSTA 156
Query: 187 KLANILFTTELAKRL 201
K FT LA+ +
Sbjct: 157 KAGIHGFTMSLAQEV 171
>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 = 40.7 bits (95), Expect = 6e-04
Identities = 35/155 (22%), Positives = 65/155 (41%), Gaps = 19/155 (12%)
Query: 19 AIVTGSNTGIGKCTANELAKR----GARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
+VTG++ G G+ A ELAK G+ ++++ R+ E +I ++ VV
Sbjct: 3 CLVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLR----VV 58
Query: 75 IRQLDLSSLKSVRKCAQEILD----NESAIHLLINNAGVMMCPRQLTEDGYELQFATNHL 130
LDL + + + + + + LLINNAG + + D + N+
Sbjct: 59 RVSLDLGAEAGLEQLLKALRELPRPKGLQRLLLINNAGTLGDVSKGFVDLSDSTQVQNYW 118
Query: 131 GHYLFTLL----LLPRIIK---SAPARIINLSSLA 158
L ++L + + K ++N+SSL
Sbjct: 119 ALNLTSMLCLTSSVLKAFKDSPGLNRTVVNISSLC 153
>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 = 40.1 bits (94), Expect = 7e-04
Identities = 23/91 (25%), Positives = 30/91 (32%), Gaps = 5/91 (5%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQ 77
A V G+ G+G A A G V +A R K E DI G
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDA-----GGSAKAVP 55
Query: 78 LDLSSLKSVRKCAQEILDNESAIHLLINNAG 108
D V I + + +L+ NAG
Sbjct: 56 TDARDEDEVIALFDLIEEEIGPLEVLVYNAG 86
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 39.9 bits (94), Expect = 8e-04
Identities = 35/153 (22%), Positives = 61/153 (39%), Gaps = 19/153 (12%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
K+ +TG+ +GIG+ TA A G RV + A ++ AG
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAEL--------GAGNAWTG 53
Query: 77 QLDLSSLKSVRKCAQEILDNESA-----IHLLINNAGVMM--CPRQLTEDGYELQFATNH 129
LD++ + L + +A + +L NNAG++ + + ++ N
Sbjct: 54 ALDVTDRAAW----DAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLEAHDRVIDINV 109
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLAHTWG 162
G LP + + AR+IN SS + +G
Sbjct: 110 KGVLNGAHAALPYLKATPGARVINTSSASAIYG 142
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 39.8 bits (93), Expect = 0.001
Identities = 37/149 (24%), Positives = 69/149 (46%), Gaps = 9/149 (6%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
LDG+ A VTG+ +GIG+ A LA+ GA V A L D + + + ++ AG
Sbjct: 5 DLDGQVAFVTGAGSGIGQRIAIGLAQAGADV--ALFDLR----TDDGLAETAEHIEAAGR 58
Query: 73 VVIR-QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMC--PRQLTEDGYELQFATNH 129
I+ D++S +R A+ L +N AG+ ++ E+ ++ N
Sbjct: 59 RAIQIAADVTSKADLRAAVARTEAELGALTLAVNAAGIANANPAEEMEEEQWQTVMDINL 118
Query: 130 LGHYLFTLLLLPRIIKSAPARIINLSSLA 158
G +L ++++ I+N++S++
Sbjct: 119 TGVFLSCQAEARAMLENGGGSIVNIASMS 147
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 39.6 bits (93), Expect = 0.001
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 9/98 (9%)
Query: 14 LDGKTAIVTGS-NTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGE 72
L GK +VT + TGIG TA + GARV+++ + AD++ + G
Sbjct: 15 LAGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELA------AELGL 68
Query: 73 VVIRQL--DLSSLKSVRKCAQEILDNESAIHLLINNAG 108
+ + D++S V ++ + +L+NNAG
Sbjct: 69 GRVEAVVCDVTSEAQVDALIDAAVERLGRLDVLVNNAG 106
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 39.4 bits (92), Expect = 0.001
Identities = 31/142 (21%), Positives = 50/142 (35%), Gaps = 10/142 (7%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+TA+VTG+ GIG+ A G RV+ AD + V
Sbjct: 3 RTALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADAL--------GDARFVPV 54
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM--MCPRQLTEDGYELQFATNHLGHYL 134
DL+ S+ + +L+ NAG T + A N YL
Sbjct: 55 ACDLTDAASLAAALANAAAERGPVDVLVANAGAARAASLHDTTPASWRADNALNLEAAYL 114
Query: 135 FTLLLLPRIIKSAPARIINLSS 156
+L ++K + ++N+ S
Sbjct: 115 CVEAVLEGMLKRSRGAVVNIGS 136
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 39.1 bits (91), Expect = 0.001
Identities = 31/101 (30%), Positives = 49/101 (48%), Gaps = 16/101 (15%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L+GK A+VTG +TG+G+ A LA+ G I+ +E ET ++ V G
Sbjct: 8 LEGKVAVVTGCDTGLGQGMALGLAEAGCD-IVGINIVEPTET--------IEQVTALGR- 57
Query: 74 VIRQLDLSSLKSVRKCAQEILDNESA----IHLLINNAGVM 110
R L L++ +L+ A I +L+NNAG++
Sbjct: 58 --RFLSLTADLRKIDGIPALLERAVAEFGHIDILVNNAGLI 96
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 39.5 bits (92), Expect = 0.001
Identities = 39/198 (19%), Positives = 57/198 (28%), Gaps = 28/198 (14%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+VTG IG L G V R + + +
Sbjct: 1 MRILVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDPLLSGVE-------------FV 47
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLFT 136
LDL+ V + A+ + D A+ L + V N G T
Sbjct: 48 VLDLTDRDLVDELAKGVPD---AVIHLAAQSSV----PDSNASDPAEFLDVNVDG----T 96
Query: 137 LLLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFTTE 196
L LL + R + SS++ +GD D +L YG SKLA
Sbjct: 97 LNLLEAARAAGVKRFVFASSVSVVYGDPPPLPIDEDLGP-PRPLNPYGVSKLAAEQLLRA 155
Query: 197 LAKRLQVNFSRHYSCRLP 214
A+ + R
Sbjct: 156 YARLYGLPV---VILRPF 170
>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
Length = 275
Score = 39.2 bits (92), Expect = 0.002
Identities = 27/91 (29%), Positives = 47/91 (51%), Gaps = 11/91 (12%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAG-EVVIRQL 78
+V G+ GIG+ A + G +V++A + E E AA +R +AG +V +++
Sbjct: 6 VVIGAG-GIGQAIARRVGA-GKKVLLADYNEENLEAAAKTLR-------EAGFDVSTQEV 56
Query: 79 DLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
D+SS +SV+ A + L++ AGV
Sbjct: 57 DVSSRESVKALAATA-QTLGPVTGLVHTAGV 86
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 38.8 bits (91), Expect = 0.002
Identities = 21/93 (22%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
+ ++TG+++G+G A E A +G + + R ++ E ++ +K V +
Sbjct: 3 QKILITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAELLARYPGIK----VAVA 58
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGV 109
LD++ V + E D + +I NAG+
Sbjct: 59 ALDVNDHDQVFEVFAEFRDELGGLDRVIVNAGI 91
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 38.4 bits (90), Expect = 0.003
Identities = 24/96 (25%), Positives = 38/96 (39%), Gaps = 16/96 (16%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS-LEKAETAADDIRTSLKDVKDAGE 72
L G+ +VTG GIG A GA V++ R E + + + DV+D +
Sbjct: 4 LTGRVVLVTGGTRGIGAGIARAFLAAGATVVVCGRRAPETVDGRPAEFHAA--DVRDPDQ 61
Query: 73 VVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAG 108
V I++ + +L+NNAG
Sbjct: 62 -------------VAALVDAIVERHGRLDVLVNNAG 84
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 38.1 bits (89), Expect = 0.003
Identities = 38/160 (23%), Positives = 57/160 (35%), Gaps = 25/160 (15%)
Query: 14 LDGKTAIVTGSN--TGIGKCTANELAKRGARVIMACRSLEKAETAADD-------IRTSL 64
L K A+VTG++ GIG LA +G + S ++ +
Sbjct: 3 LMKKIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEI 62
Query: 65 KDVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQ 124
+ E + ++DLS + + + + +LINNA T E
Sbjct: 63 ESYGVRCEHM--EIDLSQPYAPNRVFYAVSERLGDPSILINNA------AYSTHTRLEEL 114
Query: 125 FATNHLGHYLF----TLLLLPRIIKS----APARIINLSS 156
A HY T+LL K A RIINL+S
Sbjct: 115 TAEQLDKHYAVNVRATMLLSSAFAKQYDGKAGGRIINLTS 154
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 38.2 bits (89), Expect = 0.005
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 5 SGKCTADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDI 60
+ + L GK +V G+ G GK A ++GARV++A R+ E+A+ AD +
Sbjct: 368 GSSPASGSPLAGKLFVVIGAG-GAGKALAYGAKEKGARVVIANRTYERAKELADAV 422
>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 = 37.6 bits (88), Expect = 0.005
Identities = 27/94 (28%), Positives = 41/94 (43%), Gaps = 15/94 (15%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
V G+ IG+ N LAKRG++VI+ R A L + D G+V+
Sbjct: 1 MVVTVFGATGFIGRYVVNRLAKRGSQVIVPYRCEAYA--------RRLLVMGDLGQVLFV 52
Query: 77 QLDLSSLKSVRKCAQEILDNESAIHLLINNAGVM 110
+ DL +S+RK L+ + IN G +
Sbjct: 53 EFDLRDDESIRKA----LEGSDVV---INLVGRL 79
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 37.2 bits (87), Expect = 0.006
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 21/131 (16%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
TA++TG++ GIG A ELA +++ R E+ + A ++ G
Sbjct: 4 PTALITGASRGIGAAIARELA-PTHTLLLGGRPAERLDELAAEL---------PGATPF- 52
Query: 77 QLDLSSLKSVRKCAQEI--LDNESAIHLLINNAGVMMCPR--QLTEDGYELQFATNHLGH 132
+DL+ +++ +++ LD L++NAGV + T D + N +
Sbjct: 53 PVDLTDPEAIAAAVEQLGRLDV------LVHNAGVADLGPVAESTVDEWRATLEVNVVAP 106
Query: 133 YLFTLLLLPRI 143
T LLLP +
Sbjct: 107 AELTRLLLPAL 117
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR 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.
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 = 37.5 bits (88), Expect = 0.007
Identities = 24/61 (39%), Positives = 32/61 (52%), Gaps = 7/61 (11%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAETA----ADD-IRTSLKDVKD 69
G+T +V G+ G+G A +LAK GARVI A S EK A AD I D+++
Sbjct: 140 GETVLVLGAAGGVG-LAAVQLAKALGARVIAAASSEEKLALARALGADHVIDYRDPDLRE 198
Query: 70 A 70
Sbjct: 199 R 199
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 36.6 bits (85), Expect = 0.013
Identities = 24/67 (35%), Positives = 34/67 (50%), Gaps = 8/67 (11%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAET---AADDIRTSLK---DVK 68
G+T +VTG+ G+G A ++AK GA+VI S KA+ AD + K +VK
Sbjct: 163 GETVLVTGAGGGVG-IHAIQVAKALGAKVIAVTSSESKAKIVSKYADYVIVGSKFSEEVK 221
Query: 69 DAGEVVI 75
G I
Sbjct: 222 KIGGADI 228
>gnl|CDD|180586 PRK06483, PRK06483, dihydromonapterin reductase; Provisional.
Length = 236
Score = 36.1 bits (84), Expect = 0.016
Identities = 45/193 (23%), Positives = 72/193 (37%), Gaps = 33/193 (17%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
++TG+ IG A L +G VI++ R+ ++ ++ AG I Q D
Sbjct: 6 LITGAGQRIGLALAWHLLAQGQPVIVSYRTH----------YPAIDGLRQAGAQCI-QAD 54
Query: 80 LSSLKSVRKCAQEILDNESAIHLLINNAGVMMC--PRQLTEDGYELQFATNHLGHYLFTL 137
S+ + E+ + + +I+NA + P D + YL L
Sbjct: 55 FSTNAGIMAFIDELKQHTDGLRAIIHNASDWLAEKPGAPLADVLARMMQIHVNAPYLLNL 114
Query: 138 LLLPRIIKS--APARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSK--LANIL- 192
L + A + II H D +EKG AY SK L N+
Sbjct: 115 ALEDLLRGHGHAASDII--------------HITDYVVEKGSDKHIAYAASKAALDNMTL 160
Query: 193 -FTTELAKRLQVN 204
F +LA ++VN
Sbjct: 161 SFAAKLAPEVKVN 173
>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 = 36.1 bits (84), Expect = 0.016
Identities = 33/88 (37%), Positives = 45/88 (51%), Gaps = 17/88 (19%)
Query: 16 GKTAIVTGSNTGIGKCTANELAK-RGARVIMACRSLEKAETA----ADDIRTSL---KDV 67
G T +VTG+ G+G A +LAK GARVI RS EK + AD + +DV
Sbjct: 163 GDTVLVTGAGGGVG-IHAIQLAKALGARVIAVTRSPEKLKILKELGADYVIDGSKFSEDV 221
Query: 68 KDAG--EVVI-----RQLDLSSLKSVRK 88
K G +VVI ++ SL+S+ K
Sbjct: 222 KKLGGADVVIELVGSPTIE-ESLRSLNK 248
>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 = 36.2 bits (84), Expect = 0.017
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 11/71 (15%)
Query: 13 RLDGKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAETAADDIRTSLKDVKDAG 71
L G+ +VTG++ G+G+ A +LA GA V+ S +AE + A
Sbjct: 130 PLLGRRVLVTGASGGVGR-FAVQLAALAGAHVVAVVGSPARAEGLRE---------LGAA 179
Query: 72 EVVIRQLDLSS 82
EVV+ +LS
Sbjct: 180 EVVVGGSELSG 190
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 35.7 bits (83), Expect = 0.019
Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 9/90 (10%)
Query: 21 VTGSNTGIGKCTANELAKRGARV-IMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
+TG+++GIG+ A E A++GA + ++A R+ AA + A V + D
Sbjct: 7 ITGASSGIGQALAREYARQGATLGLVARRTDALQAFAA--------RLPKAARVSVYAAD 58
Query: 80 LSSLKSVRKCAQEILDNESAIHLLINNAGV 109
+ ++ A + + ++I NAG+
Sbjct: 59 VRDADALAAAAADFIAAHGLPDVVIANAGI 88
>gnl|CDD|216461 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
This family of proteins utilise NAD as a cofactor. The
proteins in this family use nucleotide-sugar substrates
for a variety of chemical reactions.
Length = 233
Score = 35.7 bits (83), Expect = 0.020
Identities = 38/188 (20%), Positives = 59/188 (31%), Gaps = 29/188 (15%)
Query: 19 AIVTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQ 77
+VTG TG IG L + G VI+ R IR +
Sbjct: 1 ILVTGG-TGFIGSHLVRRLLQEGYEVIVLGRRRRSESLNTGRIR-------------FHE 46
Query: 78 LDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLFTL 137
DL+ ++ + L E +I+ A + N LG TL
Sbjct: 47 GDLTDPDALER-----LLAEVQPDAVIHLAAQSGVGASFEDPAD--FIRANVLG----TL 95
Query: 138 LLLPRIIKSAPARIINLSSLAHTWGDGSMHFEDINLEKGYSATGAYGRSKLANILFTTEL 197
LL ++ R + SS + +GD + I + Y +KLA
Sbjct: 96 RLLEAARRAGVKRFVFASS-SEVYGDVAD--PPITEDTPLGPLSPYAAAKLAAERLVEAY 152
Query: 198 AKRLQVNF 205
A+ +
Sbjct: 153 ARAYGLRA 160
>gnl|CDD|131732 TIGR02685, pter_reduc_Leis, pteridine reductase. Pteridine
reductase is an enzyme used by trypanosomatids
(including Trypanosoma cruzi and Leishmania major) to
obtain reduced pteridines by salvage rather than
biosynthetic pathways. Enzymes in T. cruzi described as
pteridine reductase 1 (PTR1) and pteridine reductase 2
(PTR2) have different activity profiles. PTR1 is more
active with with fully oxidized biopterin and folate
than with reduced forms, while PTR2 reduces
dihydrobiopterin and dihydrofolate but not oxidized
pteridines. T. cruzi PTR1 and PTR2 are more similar to
each other in sequence than either is to the pteridine
reductase of Leishmania major, and all are included in
this family.
Length = 267
Score = 35.7 bits (82), Expect = 0.024
Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 10/94 (10%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMAC-RSLEKAETAADDIRTSLKDVKDAGEVVIRQ 77
A+VTG+ IG A L + G RV++ RS A T A ++ + + V Q
Sbjct: 4 AVVTGAAKRIGSSIAVALHQEGYRVVLHYHRSAAAASTLAAEL-----NARRPNSAVTCQ 58
Query: 78 LDLSSLKSVRKCAQEILDNE----SAIHLLINNA 107
DLS+ ++ + I+D +L+NNA
Sbjct: 59 ADLSNSATLFSRCEAIIDACFRAFGRCDVLVNNA 92
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 35.2 bits (81), Expect = 0.030
Identities = 23/70 (32%), Positives = 36/70 (51%), Gaps = 6/70 (8%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARVIMACRS---LEKAETAADDIRTSLKDVKDAGEVV 74
++TG+ +GIGK A + AK+G +VI R+ L++ T + +I T DV D
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVIACGRNQSVLDELHTQSANIFTLAFDVTDHPGT- 61
Query: 75 IRQLDLSSLK 84
+ LS L
Sbjct: 62 --KAALSQLP 69
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 35.3 bits (81), Expect = 0.035
Identities = 20/67 (29%), Positives = 25/67 (37%), Gaps = 13/67 (19%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLDL 80
VTG+ +G EL RG V A R+ E A AG V + DL
Sbjct: 5 VTGATGFVGGAVVRELLARGHEVRAAVRNPEAA-------------AALAGGVEVVLGDL 51
Query: 81 SSLKSVR 87
KS+
Sbjct: 52 RDPKSLV 58
>gnl|CDD|217556 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family
comprised of three structural domains that can not be
separated in the linear sequence. In some organisms
this enzyme is found as a bifunctional polypeptide with
lysine ketoglutarate reductase. The saccharopine
dehydrogenase can also function as a saccharopine
reductase.
Length = 380
Score = 35.0 bits (81), Expect = 0.042
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 27 GIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLDLSSLKS 85
G+G+ A LA+ G + +A RSLEKA+ +L K + +D + ++
Sbjct: 8 GVGQGVAPLLARHGDLEITVADRSLEKAQ--------ALAAPKLGLRFIAIAVDADNYEA 59
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 35.1 bits (81), Expect = 0.048
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 4/80 (5%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIR 76
T +V G+ IGK EL +RG V+ R EK+ + + K EVV
Sbjct: 61 VTVLVVGATGYIGKFVVRELVRRGYNVVAVAR--EKSGIRGKNGKEDTKKELPGAEVVFG 118
Query: 77 QLDLSSLKSVRKCAQEILDN 96
D++ S+RK D
Sbjct: 119 --DVTDADSLRKVLFSEGDP 136
>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 = 34.6 bits (80), Expect = 0.053
Identities = 17/59 (28%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
VTG+ +G L + A V+ R+ EKA+ A D V +RQ D
Sbjct: 3 VTGATGKLGTAVVELLLAKVASVVALVRNPEKAKAFAAD------------GVEVRQGD 49
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 34.6 bits (80), Expect = 0.057
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 8/71 (11%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTSLK----DVKD-- 69
+V G+ G+G A++LA+ G V +A RS EK A+ I ++ D D
Sbjct: 2 MKILVIGAG-GVGSVVAHKLAQNGDGEVTIADRSKEKCARIAELIGGKVEALQVDAADVD 60
Query: 70 AGEVVIRQLDL 80
A +I+ DL
Sbjct: 61 ALVALIKDFDL 71
>gnl|CDD|176555 cd08616, PI-PLCXD1c, Catalytic domain of
phosphatidylinositol-specific phospholipase C, X domain
containing 1. This subfamily corresponds to the
catalytic domain present in a group of
phosphatidylinositol-specific phospholipase C X domain
containing 1 (PI-PLCXD1), 2 (PI-PLCXD2) and 3
(PI-PLCXD3), which are bacterial
phosphatidylinositol-specific phospholipase C (PI-PLC,
EC 4.6.1.13) sequence homologs found in vertebrates. The
typical eukaryotic phosphoinositide-specific
phospholipase C (PI-PLC, EC 3.1.4.11) has a multidomain
organization that consists of a PLC catalytic core
domain, and various regulatory domains. The catalytic
core domain is assembled from two highly conserved X-
and Y-regions split by a divergent linker sequence. In
contrast, members in this group contain a single
TIM-barrel type catalytic domain, X domain, and are more
closely related to bacterial PI-PLCs, which participate
in Ca2+-independent PI metabolism, hydrolyzing the
membrane lipid phosphatidylinositol (PI) to produce
phosphorylated myo-inositol and diacylglycerol (DAG).
Although the biological function of eukaryotic PI-PLCXDs
still remains unclear, it may distinct from that of
typical eukaryotic PI-PLCs.
Length = 290
Score = 34.5 bits (80), Expect = 0.060
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 12/73 (16%)
Query: 57 ADDIRTSLKDVKD-----AGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM 111
++ L+++ D EVVI LD + + + D+E + ++ + G +
Sbjct: 96 GILVKEILEEINDFLTEHPKEVVI--LDFNHFYGMTEE-----DHEKLLKMIKSIFGKKL 148
Query: 112 CPRQLTEDGYELQ 124
CPR L+
Sbjct: 149 CPRDPDLLNVTLE 161
>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 = 33.6 bits (77), Expect = 0.080
Identities = 30/132 (22%), Positives = 50/132 (37%), Gaps = 19/132 (14%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEK-AETAADDIRTSLKDVKDAGEVVIRQ 77
A++ G+ GIG+ A LA RG R++++ R A AA+ +L
Sbjct: 1 ALILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAE--VGALARPA--------- 49
Query: 78 LDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQ--FATNHLGHYLF 135
D+++ V AQE+ + LL+ AG ++ + N G L
Sbjct: 50 -DVAAELEVWALAQEL----GPLDLLVYAAGAILGKPLARTKPAAWRRILDANLTGAALV 104
Query: 136 TLLLLPRIIKSA 147
L + A
Sbjct: 105 LKHALALLAAGA 116
>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 = 33.4 bits (77), Expect = 0.11
Identities = 21/44 (47%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 16 GKTAIVTGSNTGIGKCTANELAK-RGARVIMACRSLEKAETAAD 58
G T +V G+ G+G A +LAK GARVI+ RS EK E A +
Sbjct: 135 GDTVLVLGA-GGVGLLAA-QLAKAAGARVIVTDRSDEKLELAKE 176
>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 = 32.6 bits (75), Expect = 0.18
Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDI--RTSLKDV-KDAGEV 73
IV G+ IG A L+ G VI A RS + DI S+K + + G
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEVITAGRS---SGDYQVDITDEASIKALFEKVGHF 55
>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 = 33.0 bits (76), Expect = 0.19
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAE 54
G+T ++ G +GIG TA +LAK GARV S EK
Sbjct: 140 GETVLIHGGASGIGT-TAIQLAKAFGARVFTTAGSDEKCA 178
>gnl|CDD|187653 cd08950, KR_fFAS_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS), classical
(c)-like SDRs. KR domain of fungal-type fatty acid
synthase (FAS), type I. Fungal-type FAS is a
heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member, is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the Classical SDR and has partial
identity of the active site tetrad, but the upstream
Asn is replaced in KR by Met. As in other SDRs, there
is a glycine rich NAD-binding motif, but the pattern
found in KR does not match the classical SDRs, and is
not strictly conserved within this group. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate
binding is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical
SDRs have lost catalytic activity and/or have an
unusual NAD(P)-binding motif and missing or unusual
active site residues. Reactions catalyzed within the
SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase
activity, dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 259
Score = 32.5 bits (75), Expect = 0.22
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 16 GKTAIVTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETA 56
GK A+VTG+ G IG L GA VI+ TA
Sbjct: 7 GKVALVTGAGPGSIGAEVVAGLLAGGATVIVTTSRFSHERTA 48
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 32.7 bits (75), Expect = 0.24
Identities = 16/41 (39%), Positives = 20/41 (48%)
Query: 9 TADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS 49
L GK A+V G+ G G+ A EL GA V + RS
Sbjct: 1 PMMKPLRGKVALVAGATRGAGRGIAVELGAAGATVYVTGRS 41
>gnl|CDD|240642 cd12165, 2-Hacid_dh_6, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 314
Score = 32.6 bits (75), Expect = 0.25
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 14 LDGKTAIVTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETAADD-IRTSLKDVKDAG 71
L GKT + G G IG+ A L G RVI RS ++ E A + L + +
Sbjct: 135 LRGKTVGILG--YGHIGREIARLLKAFGMRVIGVSRSPKEDEGADFVGTLSDLDEALEQA 192
Query: 72 EVVI 75
+VV+
Sbjct: 193 DVVV 196
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 32.0 bits (73), Expect = 0.29
Identities = 26/114 (22%), Positives = 40/114 (35%), Gaps = 26/114 (22%)
Query: 12 TRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMA-CRSLEKA-----ETAADDIRTSLK 65
GK +V G + GIG GA V S + A ET A ++T
Sbjct: 2 GAFTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAGSKDAAERLAQETGATAVQT--- 58
Query: 66 DVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTED 119
D D V+ +++ A+ +L+ NAG+ + L D
Sbjct: 59 DSADRDAVI-----------------DVVRKSGALDILVVNAGIAVFGDALELD 95
>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 = 32.2 bits (74), Expect = 0.31
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAETAAD 58
G+T +V G + +G A +LA+ GARVI S E AE
Sbjct: 145 GETVLVHGGSGAVGH-AAVQLARWAGARVIATASSAEGAELVRQ 187
>gnl|CDD|233635 TIGR01915, npdG, NADPH-dependent F420 reductase. This model
represents a subset of a parent family described by
pfam03807. Unlike the parent family, members of this
family are found only in species with evidence of
coenzyme F420. All members of this family are believed
to act as NADPH-dependent F420 reductase [Energy
metabolism, Electron transport].
Length = 219
Score = 32.1 bits (73), Expect = 0.31
Identities = 29/90 (32%), Positives = 40/90 (44%), Gaps = 21/90 (23%)
Query: 17 KTAIVTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLK---------- 65
K A++ G TG GK A LAK G ++I+ R LEKAE AA L
Sbjct: 2 KIAVLGG--TGDQGKGLALRLAKAGNKIIIGSRDLEKAEEAAAKALEELGHGGSDIKVTG 59
Query: 66 ----DVKDAGEVVIRQLD----LSSLKSVR 87
+ +VVI + L +L+S+R
Sbjct: 60 ADNAEAAKRADVVILAVPWDHVLKTLESLR 89
>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 = 32.3 bits (74), Expect = 0.32
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 7/59 (11%)
Query: 18 TAIVTGSNTGIGKCTANELAKRGARVIMACRS------LEKAETAADDIRTSLKDVKDA 70
TA V G++ IG+ A EL +RG V + RS L E A D + V A
Sbjct: 1 TAHVLGASGPIGREVARELRRRGWDVRLVSRSGSKLAWLPGVEIVAADAMDA-SSVIAA 58
>gnl|CDD|181417 PRK08416, PRK08416, 7-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 260
Score = 32.1 bits (73), Expect = 0.34
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 11 DTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRS-LEKAETAADDIRTSLK 65
+ GKT +++G GIGK E A+ G + S +E+A A+D+
Sbjct: 3 SNEMKGKTLVISGGTRGIGKAIVYEFAQSGVNIAFTYNSNVEEANKIAEDLEQKYG 58
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 31.6 bits (72), Expect = 0.36
Identities = 20/70 (28%), Positives = 29/70 (41%), Gaps = 3/70 (4%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLE-KAETAADDIRTSLKDVKDAGEV-- 73
KT ++ G++ GIG+ + G RVI R A A DV D V
Sbjct: 2 KTVLIVGASRGIGREFVRQYRADGWRVIATARDAAALAALQALGAEALALDVADPASVAG 61
Query: 74 VIRQLDLSSL 83
+ +LD +L
Sbjct: 62 LAWKLDGEAL 71
>gnl|CDD|187556 cd05245, SDR_a2, atypical (a) SDRs, subgroup 2. This subgroup
contains atypical SDRs, one member is identified as
Escherichia coli protein ybjT, function unknown.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine-rich NAD(P)-binding
motif consensus that generally 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 = 293
Score = 31.5 bits (72), Expect = 0.47
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 14/82 (17%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLDL 80
VTG+ +G L + G +V RS EK L D + V + + DL
Sbjct: 3 VTGATGYVGGRLVPRLLQEGHQVRALVRSPEK-----------LADRPWSERVTVVRGDL 51
Query: 81 SSLKSVRKCAQEILDNESAIHL 102
+S+R + I ++A +L
Sbjct: 52 EDPESLRAALEGI---DTAYYL 70
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 31.9 bits (73), Expect = 0.51
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
L GKT +VTG IG ++ K + I + E I L++ ++
Sbjct: 248 LTGKTVLVTGGGGSIGSELCRQILKFNPKEI---ILFSRDEYKLYLIDMELREKFPELKL 304
Query: 74 V 74
Sbjct: 305 R 305
>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 = 30.3 bits (69), Expect = 0.76
Identities = 18/71 (25%), Positives = 36/71 (50%), Gaps = 10/71 (14%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIR--------TSL 64
L GK ++ G+ G + A LA+ GA ++++ R+LEKA+ A+ L
Sbjct: 17 LKGKKVLILGAG-GAARAVAYALAELGAAKIVIVNRTLEKAKALAERFGELGIAIAYLDL 75
Query: 65 KDVKDAGEVVI 75
+++ +++I
Sbjct: 76 EELLAEADLII 86
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 31.2 bits (71), Expect = 0.83
Identities = 13/31 (41%), Positives = 21/31 (67%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGARVI 44
L GKT VTG++ +G+ EL ++GA+V+
Sbjct: 176 LKGKTVAVTGASGTLGQALLKELHQQGAKVV 206
>gnl|CDD|161904 TIGR00507, aroE, shikimate 5-dehydrogenase. This model finds
proteins from prokaryotes and functionally equivalent
domains from larger, multifunctional proteins of fungi
and plants. Below the trusted cutoff of 180, but above
the noise cutoff of 20, are the putative shikimate
dehydrogenases of Thermotoga maritima and Mycobacterium
tuberculosis, and uncharacterized paralogs of shikimate
dehydrogenase from E. coli and H. influenzae. The
related enzyme quinate 5-dehydrogenase scores below the
noise cutoff. A neighbor-joining tree, constructed with
quinate 5-dehydrogenases as the outgroup, shows the
Clamydial homolog as clustering among the shikimate
dehydrogenases, although the sequence is unusual in the
degree of sequence divergence and the presence of an
additional N-terminal domain [Amino acid biosynthesis,
Aromatic amino acid family].
Length = 270
Score = 30.5 bits (69), Expect = 0.99
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIR 61
+ ++ G+ G K A EL K VI+A R++ KAE A+ +
Sbjct: 117 NQNVLIIGAG-GAAKAVALELLKADCNVIIANRTVSKAEELAERFQ 161
>gnl|CDD|176249 cd08289, MDR_yhfp_like, Yhfp putative quinone oxidoreductases.
yhfp putative quinone oxidoreductases (QOR). QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation. ADH
is a member of the medium chain alcohol dehydrogenase
family (MDR), which has a NAD(P)(H)-binding domain in a
Rossmann fold of a beta-alpha form. The NAD(H)-binding
region is comprised of 2 structurally similar halves,
each of which contacts a mononucleotide. A GxGxxG motif
after the first mononucleotide contact half allows the
close contact of the coenzyme with the ADH backbone.
The N-terminal catalytic domain has a distant homology
to GroES. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and have 2 tightly bound zinc atoms per
subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. In human ADH
catalysis, the zinc ion helps coordinate the alcohol,
followed by deprotonation of a histidine, the ribose of
NAD, a serine, then the alcohol, which allows the
transfer of a hydride to NAD+, creating NADH and a
zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 326
Score = 30.8 bits (70), Expect = 1.0
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 10/75 (13%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVV 74
+ +VTG+ G+G + LAK G V+ A T D LK + A EV+
Sbjct: 146 EQGPVLVTGATGGVGSLAVSILAKLGYEVV--------ASTGKADAADYLKKL-GAKEVI 196
Query: 75 IRQ-LDLSSLKSVRK 88
R+ L S+K + K
Sbjct: 197 PREELQEESIKPLEK 211
>gnl|CDD|234592 PRK00045, hemA, glutamyl-tRNA reductase; Reviewed.
Length = 423
Score = 30.9 bits (71), Expect = 1.0
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 7/62 (11%)
Query: 14 LDGKTAIVTGSNTG-IGKCTANELAKRGAR-VIMACRSLEKAETAADDIR---TSLKDVK 68
L GK +V G G +G+ A LA++G R + +A R+LE+AE A++ L ++
Sbjct: 180 LSGKKVLVIG--AGEMGELVAKHLAEKGVRKITVANRTLERAEELAEEFGGEAIPLDELP 237
Query: 69 DA 70
+A
Sbjct: 238 EA 239
>gnl|CDD|178748 PLN03209, PLN03209, translocon at the inner envelope of chloroplast
subunit 62; Provisional.
Length = 576
Score = 30.7 bits (69), Expect = 1.1
Identities = 30/98 (30%), Positives = 43/98 (43%), Gaps = 19/98 (19%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQL 78
A V G+ +G T EL K G RV RS ++AE+ S+K +K L
Sbjct: 83 AFVAGATGKVGSRTVRELLKLGFRVRAGVRSAQRAESLVQ----SVKQMK---------L 129
Query: 79 DLSSLKSVRKCAQEI----LDNESAIHLLINNAGVMMC 112
D+ + V K EI L+ I + NA V++C
Sbjct: 130 DVEGTQPVEKL--EIVECDLEKPDQIGPALGNASVVIC 165
>gnl|CDD|223450 COG0373, HemA, Glutamyl-tRNA reductase [Coenzyme metabolism].
Length = 414
Score = 30.7 bits (70), Expect = 1.2
Identities = 30/136 (22%), Positives = 53/136 (38%), Gaps = 29/136 (21%)
Query: 14 LDGKTAIVTGSNTG-IGKCTANELAKRG-ARVIMACRSLEKAETAADDIR------TSLK 65
L K +V G G +G+ A LA++G ++ +A R+LE+AE A + L
Sbjct: 176 LKDKKVLVIG--AGEMGELVAKHLAEKGVKKITIANRTLERAEELAKKLGAEAVALEELL 233
Query: 66 DVKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMMC----PRQLTEDGY 121
+ +VVI SS + I+ E L +++ PR + +
Sbjct: 234 EALAEADVVI-----SSTSAP----HPIITREMVERALKIRKRLLIVDIAVPRDVEPE-- 282
Query: 122 ELQFATNHLGHYLFTL 137
+L+T+
Sbjct: 283 ----VGELPNVFLYTI 294
>gnl|CDD|133452 cd05213, NAD_bind_Glutamyl_tRNA_reduct, NADP-binding domain of
glutamyl-tRNA reductase. Glutamyl-tRNA reductase
catalyzes the conversion of glutamyl-tRNA to
glutamate-1-semialdehyde, initiating the synthesis of
tetrapyrrole. Whereas tRNAs are generally associated
with peptide bond formation in protein translation, here
the tRNA activates glutamate in the initiation of
tetrapyrrole biosynthesis in archaea, plants and many
bacteria. In the first step, activated glutamate is
reduced to glutamate-1-semi-aldehyde via the NADPH
dependent glutamyl-tRNA reductase. Glutamyl-tRNA
reductase forms a V-shaped dimer. Each monomer has 3
domains: an N-terminal catalytic domain, a classic
nucleotide binding domain, and a C-terminal dimerization
domain. Although the representative structure 1GPJ lacks
a bound NADPH, a theoretical binding pocket has been
described. (PMID 11172694). Amino acid dehydrogenase
(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 = 311
Score = 30.3 bits (69), Expect = 1.2
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGAR-VIMACRSLEKAETAADDIR------TSLKD 66
L GK +V G+ +G+ A LA +G + +A R+ E+AE A ++ L +
Sbjct: 176 LKGKKVLVIGAGE-MGELAAKHLAAKGVAEITIANRTYERAEELAKELGGNAVPLDELLE 234
Query: 67 VKDAGEVVI 75
+ + +VVI
Sbjct: 235 LLNEADVVI 243
>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 = 1.3
Identities = 22/89 (24%), Positives = 36/89 (40%), Gaps = 17/89 (19%)
Query: 16 GKTAIVTGSNTGIGKCTANELAK-RGARVIMACRSLEKAET----AADDI----RTSLKD 66
G T ++ G + +G LAK GA V RS E+A AD++ +
Sbjct: 143 GDTLLIRGGTSSVGLAALK-LAKALGATVTATTRSPERAALLKELGADEVVIDDGAIAEQ 201
Query: 67 VKDAGEVVIRQLDL-------SSLKSVRK 88
++ A + L+L SL+ +R
Sbjct: 202 LRAAPGGFDKVLELVGTATLKDSLRHLRP 230
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase
(ENR), divergent SDR. This bacterial subgroup of ENRs
includes Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the
typical Gly-rich NAD-binding pattern. Such so-called
divergent SDRs have a GXXXXXSXA NAD-binding motif and a
YXXMXXXK (or YXXXMXXXK) active site motif. SDRs are a
functionally diverse family of oxidoreductases that
have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a
central beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 30.2 bits (69), Expect = 1.3
Identities = 14/80 (17%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 16 GKTAIVTG--SNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
GK ++TG ++ I A L + GA + + E + + + ++ V
Sbjct: 1 GKRILITGIANDRSIAWGIAKALHEAGAELAFTYQP----EALRKRVEKLAERLGESALV 56
Query: 74 VIRQLDLSSLKSVRKCAQEI 93
+ D+S+ + +++ E+
Sbjct: 57 LP--CDVSNDEEIKELFAEV 74
>gnl|CDD|216263 pfam01044, Vinculin, Vinculin family.
Length = 850
Score = 30.5 bits (69), Expect = 1.4
Identities = 19/82 (23%), Positives = 35/82 (42%), Gaps = 11/82 (13%)
Query: 31 CTANELAKRGARVIMACRS----------LEKAETAADDIRTSLKD-VKDAGEVVIRQLD 79
TA +A R RV++ ++ E+ + A D + ++ +A EV + LD
Sbjct: 521 ATAGSIAGRANRVLLVAKAEMDNSEDPVYTERVKEAVDILSNTIPPMFAEAKEVAVNALD 580
Query: 80 LSSLKSVRKCAQEILDNESAIH 101
+ KS + E LD ++
Sbjct: 581 PGAAKSWEENNYEFLDAVRLVY 602
>gnl|CDD|111764 pfam02912, Phe_tRNA-synt_N, Aminoacyl tRNA synthetase class II,
N-terminal domain.
Length = 73
Score = 27.5 bits (62), Expect = 2.0
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKD 66
GK +T G+GK + E K GA + A E E A ++ + +L++
Sbjct: 18 GKKGPLTELLKGLGKLSPEERPKVGALINEA---KEAVEEALEERKAALEE 65
>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 = 29.5 bits (67), Expect = 2.0
Identities = 27/144 (18%), Positives = 55/144 (38%), Gaps = 20/144 (13%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVI 75
GKT +VTG IG ++ K G + ++ ++ E ++ L+ ++
Sbjct: 2 GKTILVTGGAGSIGSELVRQILKFGPKKLIV---FDRDENKLHELVRELRSRFPHDKLRF 58
Query: 76 RQLDLSSLKSVRKCAQEILDNESAIHLLINNAG---VMMCPRQLTEDGYELQFATNHLGH 132
D+ + +R+ E ++ + A V ED E TN LG
Sbjct: 59 IIGDVRDKERLRR-----AFKERGPDIVFHAAALKHVPSM-----EDNPEEAIKTNVLG- 107
Query: 133 YLFTLLLLPRIIKSAPARIINLSS 156
T ++ I++ + + +S+
Sbjct: 108 ---TKNVIDAAIENGVEKFVCIST 128
>gnl|CDD|163175 TIGR03178, allantoinase, allantoinase. This enzyme carries out the
first step in the degradation of allantoin, a
ring-opening hydrolysis. The seed members of this model
are all in the vicinity of other genes involved in the
processes of xanthine/urate/allantoin catabolism.
Although not included in the seed, many eukaryotic
homologs of this family are included above the trusted
cutoff. Below the noise cutoff are related
hydantoinases.
Length = 443
Score = 29.7 bits (67), Expect = 2.1
Identities = 15/37 (40%), Positives = 18/37 (48%), Gaps = 5/37 (13%)
Query: 251 PPGANITNVNTYAVHPGVVDTELSRHFDSIIPG-TAW 286
P A I + V PGVVDT + H + PG T W
Sbjct: 36 GPAAKIIDAGGLVVFPGVVDTHV--HINE--PGRTEW 68
>gnl|CDD|234978 PRK01747, mnmC, bifunctional tRNA
(mnm(5)s(2)U34)-methyltransferase/FAD-dependent
cmnm(5)s(2)U34 oxidoreductase; Reviewed.
Length = 662
Score = 29.8 bits (68), Expect = 2.3
Identities = 12/46 (26%), Positives = 18/46 (39%), Gaps = 3/46 (6%)
Query: 12 TRLDGKTAIVTGSNTGIGKC-TANELAKRGARVIMACRSLEKAETA 56
+ A + G GI A LA+RG +V + A+ A
Sbjct: 256 GSPKARDAAIIG--GGIAGAALALALARRGWQVTLYEADEAPAQGA 299
>gnl|CDD|233242 TIGR01035, hemA, glutamyl-tRNA reductase. This enzyme, together
with glutamate-1-semialdehyde-2,1-aminomutase
(TIGR00713), leads to the production of
delta-amino-levulinic acid from Glu-tRNA [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 417
Score = 29.7 bits (67), Expect = 2.6
Identities = 29/144 (20%), Positives = 59/144 (40%), Gaps = 28/144 (19%)
Query: 14 LDGKTAIVTGSNTGIGKCTANELAKRGA-RVIMACRSLEKAETAADDIRTS------LKD 66
L GK A++ G+ +G+ A L ++G ++++A R+ E+AE A ++ L++
Sbjct: 178 LKGKKALLIGAGE-MGELVAKHLLRKGVGKILIANRTYERAEDLAKELGGEAVKFEDLEE 236
Query: 67 VKDAGEVVIRQLDLSSLKSVRKCAQEILDNESAIHLLINNAGVMM-----CPRQLTEDGY 121
++VI SS + I+ E L + PR +
Sbjct: 237 YLAEADIVI-----SSTGAPHP----IVSKEDVERALRERTRPLFIIDIAVPRDVDPAVA 287
Query: 122 ELQFATNHLGHYLFTLLLLPRIIK 145
L+ G +L+ + L +++
Sbjct: 288 RLE------GVFLYDVDDLQPVVE 305
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 328
Score = 29.5 bits (67), Expect = 2.6
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 16 GKTAIVTGSNTGIGKCTANELAK-RGARVIMACRSLEKAE 54
G + ++T +++ +G A ++A GA VI R+ EK +
Sbjct: 145 GDSVLITAASSSVG-LAAIQIANAAGATVIATTRTSEKRD 183
>gnl|CDD|224996 COG2085, COG2085, Predicted dinucleotide-binding enzymes [General
function prediction only].
Length = 211
Score = 29.2 bits (66), Expect = 2.6
Identities = 20/66 (30%), Positives = 26/66 (39%), Gaps = 9/66 (13%)
Query: 17 KTAIVTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETAADD---IRTSLKDVKDA-- 70
+ G TG IG A LAK G VI+ KA AA + +DA
Sbjct: 2 MIIAIIG--TGNIGSALALRLAKAGHEVIIGSSRGPKALAAAAAALGPLITGGSNEDAAA 59
Query: 71 -GEVVI 75
+VV+
Sbjct: 60 LADVVV 65
>gnl|CDD|176180 cd05276, p53_inducible_oxidoreductase, PIG3 p53-inducible quinone
oxidoreductase. PIG3 p53-inducible quinone
oxidoreductase, a medium chain dehydrogenase/reductase
family member, acts in the apoptotic pathway. PIG3
reduces ortho-quinones, but its apoptotic activity has
been attributed to oxidative stress generation, since
overexpression of PIG3 accumulates reactive oxygen
species. PIG3 resembles the MDR family member quinone
reductases, which catalyze the reduction of quinone to
hydroxyquinone. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site, and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 29.3 bits (67), Expect = 2.8
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 16 GKTAIVTGSNTGIGKCTANELAK-RGARVIMACRSLEKAETA 56
G+T ++ G +G+G A +LAK GARVI S EK E
Sbjct: 140 GETVLIHGGASGVGT-AAIQLAKALGARVIATAGSEEKLEAC 180
>gnl|CDD|236301 PRK08577, PRK08577, hypothetical protein; Provisional.
Length = 136
Score = 28.4 bits (64), Expect = 2.8
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 15/61 (24%)
Query: 33 ANELAKRGARVIMA-CRSLEKAETAA--------------DDIRTSLKDVKDAGEVVIRQ 77
LA+ G ++ C L++ E A +++ LK +++ EV IRQ
Sbjct: 74 TGLLAEHGVDILATECEELKRGELAECVIIVDLSKSDIDLEELEEELKKLEEVKEVEIRQ 133
Query: 78 L 78
+
Sbjct: 134 I 134
>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein. This entry is a highly
conserved protein present in eukaryotes.
Length = 680
Score = 29.5 bits (66), Expect = 2.9
Identities = 10/48 (20%), Positives = 25/48 (52%)
Query: 215 KEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFHPPGANITNVNTY 262
EI+ + +++ ++ ++ +++ T HY N L PP ++ + Y
Sbjct: 630 AEIVDLKSKIADILAVMPESRIRSVTPHYSANFLEKPPLVRLSPTSEY 677
>gnl|CDD|236130 PRK07914, PRK07914, hypothetical protein; Reviewed.
Length = 320
Score = 29.0 bits (65), Expect = 3.0
Identities = 30/93 (32%), Positives = 39/93 (41%), Gaps = 10/93 (10%)
Query: 15 DGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKD--VKDAGE 72
G +V S G K AN+L K GA V C + KA AD +R + VK +
Sbjct: 93 PGTVLVVVHSGGGRAKALANQLRKLGAEV-HPCARITKAAERADFVRKEFRSLRVKVDDD 151
Query: 73 VVIRQL-----DLSSLKSVRKCAQEILDNESAI 100
V L DL L S C+Q + D A+
Sbjct: 152 TVTALLDAVGSDLRELASA--CSQLVADTGGAV 182
>gnl|CDD|178484 PLN02896, PLN02896, cinnamyl-alcohol dehydrogenase.
Length = 353
Score = 29.0 bits (65), Expect = 3.2
Identities = 16/62 (25%), Positives = 23/62 (37%), Gaps = 6/62 (9%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAE------TAADDIRTSLKDVKD 69
T VTG+ IG L +RG V R K+ D +R D+++
Sbjct: 10 TGTYCVTGATGYIGSWLVKLLLQRGYTVHATLRDPAKSLHLLSKWKEGDRLRLFRADLQE 69
Query: 70 AG 71
G
Sbjct: 70 EG 71
>gnl|CDD|187652 cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like
proteins (5beta-POR), atypical (a) SDRs. 5beta-POR
catalyzes the reduction of progesterone to
5beta-pregnane-3,20-dione in Digitalis plants. This
subgroup of atypical-extended SDRs, shares the
structure of an extended SDR, but has a different
glycine-rich nucleotide binding motif (GXXGXXG) and
lacks the YXXXK active site motif of classical and
extended SDRs. Tyr-179 and Lys 147 are present in the
active site, but not in the usual SDR configuration.
Given these differences, it has been proposed that this
subfamily represents a new SDR class. Other atypical
SDRs include biliverdin IX beta reductase (BVR-B,aka
flavin reductase), NMRa (a negative transcriptional
regulator of various fungi), phenylcoumaran benzylic
ether and pinoresinol-lariciresinol reductases,
phenylpropene synthases, eugenol synthase,
triphenylmethane reductase, isoflavone reductases, and
others. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. In
addition to the Rossmann fold core region typical of
all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids,
and typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase
domains of fatty acid synthase have a GGXGXXG
NAD(P)-binding motif and an altered active site motif
(YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 308
Score = 29.1 bits (66), Expect = 3.2
Identities = 18/73 (24%), Positives = 26/73 (35%), Gaps = 6/73 (8%)
Query: 18 TAIVTGSNTGI-GKCTANELAKR---GARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
A+V G+ TGI G L +V R E + D+ D +
Sbjct: 1 VALVVGA-TGISGWALVEHLLSDPGTWWKVYGLSRRPLPTEDDPRLVEHIGIDLLDPADT 59
Query: 74 VIRQLDLSSLKSV 86
V+R L L+ V
Sbjct: 60 VLRAK-LPGLEDV 71
>gnl|CDD|149793 pfam08847, DUF1817, Domain of unknown function (DUF1817). Members
of this family are functionally uncharacterized.
Length = 150
Score = 28.4 bits (64), Expect = 3.3
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 75 IRQLDLSSLKSVRKC-AQEILDNESAIHLLINNAGVMMCPRQLTE 118
IR+LDLS L+ + ++L E + L I+ PR+L+E
Sbjct: 7 IRRLDLSPLQEWIELPLGDLLALEQQLELTIDWPREPDDPRELSE 51
>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 = 28.7 bits (65), Expect = 3.5
Identities = 19/88 (21%), Positives = 32/88 (36%), Gaps = 19/88 (21%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLDL 80
V G+ +G+ EL RG +V R +AE +A + DL
Sbjct: 4 VVGATGKVGRHVVRELLDRGYQVRALVRDPSQAE------------KLEAAGAEVVVGDL 51
Query: 81 SSLKSVRKCAQEILDNESAIHLLINNAG 108
+ +S+ + I +I+ AG
Sbjct: 52 TDAESLAAALE-------GIDAVISAAG 72
>gnl|CDD|236326 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 28.8 bits (65), Expect = 4.0
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 5/63 (7%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDI----RTSLKDVKDAGE 72
K +I+ G+ G+GK A L ++G VI+ R +K + A ++ D +
Sbjct: 2 KISIIGGTG-GLGKWFARFLKEKGFEVIVTGRDPKKGKEVAKELGVEYANDNIDAAKDAD 60
Query: 73 VVI 75
+VI
Sbjct: 61 IVI 63
>gnl|CDD|235867 PRK06819, PRK06819, flagellin; Validated.
Length = 376
Score = 29.0 bits (65), Expect = 4.1
Identities = 20/82 (24%), Positives = 30/82 (36%), Gaps = 16/82 (19%)
Query: 9 TADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVK 68
D D + GK TA+ L L+ A D +R+SL V+
Sbjct: 263 NGDPITDATKLEAAAQFSPAGKATASPLET-----------LDDALKQVDGLRSSLGAVQ 311
Query: 69 DAGEVVIRQL-----DLSSLKS 85
+ E + L +LSS +S
Sbjct: 312 NRFESTVTNLNNTVTNLSSARS 333
>gnl|CDD|180434 PRK06158, PRK06158, thiolase; Provisional.
Length = 384
Score = 28.8 bits (65), Expect = 4.5
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 11 DTRLDGKTAIVTGSNTGIGKC---TANELAKRGAR 42
+ L G+TAIV + G+G+ +A EL + A
Sbjct: 3 ERFLRGRTAIVGAATAGLGEAPGLSAMELLAQAAH 37
>gnl|CDD|181609 PRK09009, PRK09009, C factor cell-cell signaling protein;
Provisional.
Length = 235
Score = 28.5 bits (64), Expect = 4.5
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 255 NITNVNTYAVHPGVVDTELSRHFDSIIPG 283
++ + A+HPG DT LS+ F +P
Sbjct: 169 SLKHGVVLALHPGTTDTALSKPFQQNVPK 197
>gnl|CDD|236446 PRK09279, PRK09279, pyruvate phosphate dikinase; Provisional.
Length = 879
Score = 28.5 bits (65), Expect = 5.2
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 32 TANELAKRGARVIMACRSLEKAETAADDIR 61
A LA RG +VI+ R ET+ +DI
Sbjct: 415 EAEALAARGEKVIL-VRP----ETSPEDIH 439
>gnl|CDD|219780 pfam08286, Spc24, Spc24 subunit of Ndc80. Spc24 is a component of
the evolutionarily conserved kinetochore-associated
Ndc80 complex and is involved in chromosome segregation.
Length = 117
Score = 27.3 bits (61), Expect = 5.3
Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 12/66 (18%)
Query: 212 RLPKEILGRTKRFSNLTILLCDANLQTPTNHYCKNVLFHPPGANITNVNTYAVHPGVVDT 271
+ + + K + +L I +L++ + VL I N N V +D
Sbjct: 55 PVDDSNVLKLKLYRSLGI-----DLESDEDGENDKVL-------IRNDNKGDVQVLNLDN 102
Query: 272 ELSRHF 277
+LS F
Sbjct: 103 KLSPFF 108
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 28.0 bits (63), Expect = 5.8
Identities = 13/42 (30%), Positives = 16/42 (38%), Gaps = 3/42 (7%)
Query: 9 TADTRLDGKT-AIVTGSNTGIGKCTANELAKRGARVIMACRS 49
L GKT A++ G +T I A L G V R
Sbjct: 159 LERIDLKGKTVAVIGGGHTAID--AALNLLDLGKDVTWITRR 198
>gnl|CDD|223266 COG0188, GyrA, Type IIA topoisomerase (DNA gyrase/topo II,
topoisomerase IV), A subunit [DNA replication,
recombination, and repair].
Length = 804
Score = 28.4 bits (64), Expect = 6.3
Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 27/101 (26%)
Query: 15 DGKTAIVTGSNTGIGKCTANE---LAKRGARVIMACRSLEK-------AETAADD----- 59
D + ++T + G GK T + KRG + ++ + ++ A T +D
Sbjct: 699 DDEAKLLTVTERGYGKRTKISEYPVTKRGGKGVILIKGTKRNRGKVVAAITVDEDDEIML 758
Query: 60 -------IRTSLKDVKDAGEV-----VIRQLDLSSLKSVRK 88
IRT++ ++ G +I + + SV +
Sbjct: 759 ITSRGKLIRTAVSEISITGRNTQGVKLINLDEDEKVVSVAR 799
>gnl|CDD|176212 cd08250, Mgc45594_like, Mgc45594 gene product and other MDR family
members. Includes Human Mgc45594 gene product of
undetermined function. 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.
Length = 329
Score = 28.0 bits (63), Expect = 6.4
Identities = 19/40 (47%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 16 GKTAIVTGSNTGIGKCTANELAKR-GARVIMACRSLEKAE 54
G+T +VT + G G+ A +LAK G VI C S EKAE
Sbjct: 140 GETVLVTAAAGGTGQ-FAVQLAKLAGCHVIGTCSSDEKAE 178
>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 = 27.5 bits (61), Expect = 6.8
Identities = 18/83 (21%), Positives = 30/83 (36%), Gaps = 10/83 (12%)
Query: 103 LINNAGVMMCPR--QLTEDGYELQFATNHLGHYLFTLLLLPRIIKSAPARIINLSSLAHT 160
+++NA ++ R LT E N +G + R I +SS+A
Sbjct: 35 VVHNAAILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARELMKAKRLGRFILISSVAGL 94
Query: 161 WGDGSMHFEDINLEKGYSATGAY 183
+G GY+A+ A
Sbjct: 95 FGAPG--------LGGYAASKAA 109
>gnl|CDD|235941 PRK07118, PRK07118, ferredoxin; Validated.
Length = 280
Score = 28.0 bits (63), Expect = 7.2
Identities = 18/54 (33%), Positives = 21/54 (38%), Gaps = 17/54 (31%)
Query: 26 TGIGKCTAN------ELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
TG G C EL + ARV +AC S +K K VK EV
Sbjct: 171 TGCGACVKACPRNVIELIPKSARVFVACNSKDKG-----------KAVKKVCEV 213
>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 = 28.1 bits (63), Expect = 7.2
Identities = 28/83 (33%), Positives = 35/83 (42%), Gaps = 17/83 (20%)
Query: 21 VTGSNTG-IGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
VTG+ TG IG EL G V+ RS A ++ AG V R D
Sbjct: 5 VTGA-TGFIGSAVVRELVAAGHEVVGLARSDAGAAK-----------LEAAGAQVHRG-D 51
Query: 80 LSSLKSVRKCAQEILDNESAIHL 102
L L +RK A E ++ IHL
Sbjct: 52 LEDLDILRKAAAEA---DAVIHL 71
>gnl|CDD|109716 pfam00670, AdoHcyase_NAD, S-adenosyl-L-homocysteine hydrolase,
NAD binding domain.
Length = 162
Score = 27.3 bits (61), Expect = 7.6
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 7 KCTADTRLDGKTAIVTGSNTGIGKCTANELAKRGARVI 44
K D + GK A+V G +GK A L +GARVI
Sbjct: 14 KRATDVMIAGKVAVVCGYGD-VGKGCAASLKGQGARVI 50
>gnl|CDD|187543 cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
bacterial proteins, and includes the Staphylococcus
aureus capsular polysaccharide Cap5N, which may have a
role in the synthesis of UDP-N-acetyl-d-fucosamine. This
subgroup has the characteristic active site tetrad and
NAD-binding motif of the extended SDRs. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 303
Score = 27.7 bits (62), Expect = 8.0
Identities = 37/171 (21%), Positives = 60/171 (35%), Gaps = 33/171 (19%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
+VTG+N IG+ ++L RG V +A R+ E + V+ D
Sbjct: 3 LVTGANGFIGRALVDKLLSRGEEVRIAVRNAE---------------NAEPSVVLAELPD 47
Query: 80 LSSLKSVRKCAQEILDNESAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLFTLLL 139
+ S + L ++ +HL A + D N T L
Sbjct: 48 IDSFTDL------FLGVDAVVHL----AARVHVMNDQGADPLSDYRKVNTEL----TRRL 93
Query: 140 LPRIIKSAPARIINLSSL-AHTWGDGSMHFEDINLEKGYSATGAYGRSKLA 189
+ R + LSS+ + G F++ + + AYGRSKL
Sbjct: 94 ARAAARQGVKRFVFLSSVKVNGEGTVGAPFDETDPP---APQDAYGRSKLE 141
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 27.3 bits (61), Expect = 8.6
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 21 VTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEV 73
V G+ G+ EL RG +V R+ KA A + KD+ D ++
Sbjct: 3 VIGATGKTGRRLVKELLARGHQVTALSRNPSKA--PAPGVTPVQKDLFDLADL 53
>gnl|CDD|237292 PRK13182, racA, polar chromosome segregation protein; Reviewed.
Length = 175
Score = 27.3 bits (61), Expect = 8.9
Identities = 10/26 (38%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 121 YELQFATNHLGHYLFT---LLLLPRI 143
L N GHY+FT L LL +
Sbjct: 24 LNLPCEKNEYGHYIFTEEDLQLLEYV 49
>gnl|CDD|135642 PRK05884, PRK05884, short chain dehydrogenase; Provisional.
Length = 223
Score = 27.5 bits (61), Expect = 9.3
Identities = 17/68 (25%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAETAADDIRTSLKDVKDAGEVVIRQLD 79
+VTG +T +G+ A G +V + + E AA ++ D +V D
Sbjct: 4 LVTGGDTDLGRTIAEGFRNDGHKVTLVGARRDDLEVAAKEL--------DVDAIVCDNTD 55
Query: 80 LSSLKSVR 87
+SL+ R
Sbjct: 56 PASLEEAR 63
>gnl|CDD|181969 PRK09584, tppB, putative tripeptide transporter permease; Reviewed.
Length = 500
Score = 27.8 bits (62), Expect = 9.3
Identities = 9/40 (22%), Positives = 16/40 (40%)
Query: 98 SAIHLLINNAGVMMCPRQLTEDGYELQFATNHLGHYLFTL 137
S + +LI C R + + G + F + L T+
Sbjct: 186 SVVGMLITVVNFAFCQRWVKQYGSKPDFEPINYRKLLLTI 225
>gnl|CDD|131777 TIGR02730, carot_isom, carotene isomerase. Members of this
family, including sll0033 (crtH) of Synechocystis sp.
PCC 6803, catalyze a cis-trans isomerization of
carotenes to the all-trans lycopene, a reaction that
can also occur non-enzymatically in light through
photoisomerization [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 493
Score = 27.8 bits (62), Expect = 9.4
Identities = 14/27 (51%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 19 AIVTGSNTGIGKCTANELAKRGARVIM 45
AIV GS G G TA +LA +GA+V++
Sbjct: 3 AIVIGSGIG-GLVTATQLAVKGAKVLV 28
>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 = 27.6 bits (62), Expect = 9.7
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 20 IVTGSNTGIGKCTANELAKRGARVIMACRSLEKAE 54
+VTG+ I +L K G +V RSL K+
Sbjct: 3 LVTGATGFIASHIVEQLLKAGYKVRGTVRSLSKSA 37
>gnl|CDD|187581 cd05273, GME-like_SDR_e, Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME)-like, extended (e)
SDRs. This subgroup of NDP-sugar
epimerase/dehydratases are extended SDRs; they have the
characteristic active site tetrad, and an NAD-binding
motif: TGXXGXX[AG], which is a close match to the
canonical NAD-binding motif. Members include
Arabidopsis thaliana GDP-mannose-3',5'-epimerase (GME)
which catalyzes the epimerization of two positions of
GDP-alpha-D-mannose to form GDP-beta-L-galactose.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving
as a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton
relay involving the conserved Tyr and Lys, a water
molecule stabilized by Asn, and nicotinamide. Atypical
SDRs generally lack the catalytic residues
characteristic of the SDRs, and their glycine-rich
NAD(P)-binding motif is often different from the forms
normally seen in classical or extended SDRs. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 328
Score = 27.4 bits (61), Expect = 9.9
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 17 KTAIVTGSNTGIGKCTANELAKRGARVIMA-CRSLEKAETAADDIRTSLKDVK 68
+ A+VTG+ IG A L G V A +S E DD L D++
Sbjct: 1 QRALVTGAGGFIGSHLAERLKAEGHYVRGADWKSPEHMTQPTDDDEFHLVDLR 53
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
0.321 0.135 0.403
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: 16,316,981
Number of extensions: 1534465
Number of successful extensions: 2130
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1821
Number of HSP's successfully gapped: 348
Length of query: 330
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 233
Effective length of database: 6,635,264
Effective search space: 1546016512
Effective search space used: 1546016512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.3 bits)