RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7936
(222 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 = 115 bits (290), Expect = 2e-31
Identities = 51/96 (53%), Positives = 62/96 (64%), Gaps = 8/96 (8%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GKTVIITG NTGIGK TA+ L GA+VIMACRD+ K E A+EIR+ D
Sbjct: 1 GKTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRR--------DTLNH 52
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
EV+++ LDLAS KSIR A + E + +LINNA
Sbjct: 53 EVIVRHLDLASLKSIRAFAAEFLAEEDRLDVLINNA 88
Score = 87.9 bits (218), Expect = 5e-21
Identities = 36/86 (41%), Positives = 51/86 (59%), Gaps = 1/86 (1%)
Query: 117 NILFYSILFYAIPGKNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQ 176
N+LF L + G V V A+HPG+V+TELGR+ + TL L W ++KTP +
Sbjct: 169 NVLFTRELARRLQGTGVTVNALHPGVVRTELGRHTG-IHHLFLSTLLNPLFWPFVKTPRE 227
Query: 177 GAQTTLHCALDEGAAKETGLYYSDYK 202
GAQT+++ AL E +G Y+SD K
Sbjct: 228 GAQTSIYLALAEELEGVSGKYFSDCK 253
>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 = 106 bits (268), Expect = 3e-28
Identities = 42/96 (43%), Positives = 57/96 (59%), Gaps = 8/96 (8%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK V+ITG N+GIGK TA+ L GA VI+ACR+ EK E A+EI+K
Sbjct: 1 GKVVVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKET--------GNA 52
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+V + +LDL+S S+R A++ + ILINNA
Sbjct: 53 KVEVIQLDLSSLASVRQFAEEFLARFPRLDILINNA 88
Score = 78.4 bits (194), Expect = 1e-17
Identities = 30/78 (38%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 130 GKNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCALDEG 189
G V V A+HPG+V+TEL R L ++L + K+PEQGAQT L+ A
Sbjct: 184 GTGVTVNALHPGVVRTELLRRN-----GSFFLLYKLLRPFLKKSPEQGAQTALYAATSPE 238
Query: 190 AAKETGLYYSDYKVAKSR 207
+G Y+SD K+ S
Sbjct: 239 LEGVSGKYFSDCKIKMSS 256
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 81.6 bits (202), Expect = 1e-18
Identities = 31/97 (31%), Positives = 50/97 (51%), Gaps = 8/97 (8%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKP 72
G+ ++TG NTG+G TA L GA V++A R+++K + A+ I
Sbjct: 15 SGRVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITA--------ATPG 66
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+V +++LDL S S+R A + + +LINNA
Sbjct: 67 ADVTLQELDLTSLASVRAAADALRAAYPRIDLLINNA 103
Score = 43.5 bits (103), Expect = 3e-05
Identities = 25/72 (34%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 127 AIPGKNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCAL 186
A G A HPG+ TEL R + P A L +L ++PE GA TL A
Sbjct: 197 AAAGATTIAVAAHPGVSNTELARNLPRALRPVATVLAPLL----AQSPEMGALPTLRAAT 252
Query: 187 DEGAAKETGLYY 198
D G YY
Sbjct: 253 DPAVRG--GQYY 262
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 75.1 bits (185), Expect = 4e-16
Identities = 33/107 (30%), Positives = 49/107 (45%), Gaps = 14/107 (13%)
Query: 3 ASKAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHF 62
A + ++ L GKT I+TG +G+G T + L GA VI+ R + A + I
Sbjct: 15 AEEVLAGHDLSGKTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVAREALAGID--- 71
Query: 63 EVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V + LDLA +S+R A+ + + ILINNA
Sbjct: 72 -----------GVEVVMLDLADLESVRAFAERFLDSGRRIDILINNA 107
Score = 38.1 bits (89), Expect = 0.002
Identities = 24/86 (27%), Positives = 33/86 (38%), Gaps = 20/86 (23%)
Query: 130 GKNVNVYAVHPGIVKTELGRYM-----------DDTYFPGARTLGRVLMWWWMKTPEQGA 178
+ V ++VHPG + T L R++ D+ P KTP QGA
Sbjct: 201 DQGVRAFSVHPGGILTPLQRHLPREEQVALGWVDEHGNPIDPGF---------KTPAQGA 251
Query: 179 QTTLHCALDEGAAKETGLYYSDYKVA 204
T + A A GLY D +A
Sbjct: 252 ATQVWAATSPQLAGMGGLYCEDCDIA 277
>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 = 72.6 bits (178), Expect = 3e-15
Identities = 36/102 (35%), Positives = 54/102 (52%), Gaps = 8/102 (7%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK +IITG N+GIG TA++ GA VI+ACR++ +A S I + + A E
Sbjct: 1 GKVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVE----- 55
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILS 115
LDLAS +S++ A+ + +H+L+ NA L
Sbjct: 56 ---AMTLDLASLRSVQRFAEAFKAKNSPLHVLVCNAAVFALP 94
Score = 35.3 bits (81), Expect = 0.016
Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 15/97 (15%)
Query: 107 NNAVYCILSNNILFYSILFYAIPGKNVNVYAVHPG-IVKTELGR--YMDDTYFPGARTLG 163
N A C NILF + L + + + ++HPG ++ + + R ++ F AR
Sbjct: 171 NRAKLC----NILFSNELHRRLSPRGITSNSLHPGNMMYSSIHRNWWVYTLLFTLARP-- 224
Query: 164 RVLMWWWMKTPEQGAQTTLHCALDEGAAKETGLYYSD 200
+ K+ +QGA TT++CA G+Y+++
Sbjct: 225 ------FTKSMQQGAATTVYCATAPELEGLGGMYFNN 255
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 70.1 bits (172), Expect = 2e-14
Identities = 30/98 (30%), Positives = 48/98 (48%), Gaps = 8/98 (8%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ++TG + G+G A+ L GA+VI+ R+ K E + IR A
Sbjct: 12 LSGKRAVVTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAK----- 66
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ ++ LDL+S S+ + + +H+LINNA
Sbjct: 67 ---LSLRALDLSSLASVAALGEQLRAEGRPIHLLINNA 101
>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 = 68.5 bits (168), Expect = 5e-14
Identities = 32/95 (33%), Positives = 54/95 (56%), Gaps = 9/95 (9%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
KTV+ITG ++GIG+ TA+ GAK+I+ R E+ + A E+ F P +
Sbjct: 1 KTVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKF---------PVK 51
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
VL +LD++ +SI +++ + ++ IL+NNA
Sbjct: 52 VLPLQLDVSDRESIEAALENLPEEFRDIDILVNNA 86
>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 = 68.3 bits (167), Expect = 9e-14
Identities = 34/108 (31%), Positives = 48/108 (44%), Gaps = 12/108 (11%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
TV+ITG ++G+G A+ L G V+MACRD KAE A E+
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEV----------GMPKD 51
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA-VYCILSNNILF 120
+ DLAS S+R + +T + L+ NA VY + F
Sbjct: 52 SYSVLHCDLASLDSVRQFVDNFRRTGRPLDALVCNAAVYLPTAKEPRF 99
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 66.0 bits (162), Expect = 3e-13
Identities = 30/100 (30%), Positives = 48/100 (48%), Gaps = 10/100 (10%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
L GKT ++TG + GIG+ A L GAKV++ + E AE A+E+R
Sbjct: 1 MSLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAG------- 53
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE + D++ ++R + + + IL+NNA
Sbjct: 54 ---GEARVLVFDVSDEAAVRALIEAAVEAFGALDILVNNA 90
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 65.7 bits (161), Expect = 6e-13
Identities = 27/98 (27%), Positives = 47/98 (47%), Gaps = 9/98 (9%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
+ GKT +ITG ++GIG A+ L G +I+ R +K E A E+ V
Sbjct: 4 MKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDKTGV------- 56
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
EV + DL+ +++ ++ + + +L+NNA
Sbjct: 57 --EVEVIPADLSDPEALERLEDELKERGGPIDVLVNNA 92
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 65.8 bits (161), Expect = 8e-13
Identities = 34/98 (34%), Positives = 46/98 (46%), Gaps = 11/98 (11%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
TVIITG ++G+G A+ L G VIMACR+++KAE A E+ P
Sbjct: 7 GTVIITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQEL----------GIPPDS 56
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILI-NNAVY 111
I +DL S+R D + L+ N AVY
Sbjct: 57 YTIIHIDLGDLDSVRRFVDDFRALGKPLDALVCNAAVY 94
>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 = 64.5 bits (158), Expect = 1e-12
Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K ++TG + GIG+ A L GAKV + R E A T EI+ G
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIK----------ALGGN 50
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ D++ +++ + + V IL+NNA
Sbjct: 51 AAALEADVSDREAVEALVEKVEAEFGPVDILVNNA 85
>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 = 63.8 bits (156), Expect = 2e-12
Identities = 22/93 (23%), Positives = 43/93 (46%), Gaps = 11/93 (11%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVL 76
++TG ++GIG+ A+ L GAKV++A R+ E A+ G +
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEEALAELAAIEA-----------LGGNAV 49
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ D++ + + ++ + + IL+NNA
Sbjct: 50 AVQADVSDEEDVEALVEEALEEFGRLDILVNNA 82
Score = 32.3 bits (74), Expect = 0.12
Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 3/66 (4%)
Query: 130 GKNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCALDEG 189
+ V AV PG+V T + + + + TPE+ A+ + +
Sbjct: 166 PYGIRVNAVAPGLVDTPMLAKLGPEE-AEKELAAAIPLGRLG-TPEEVAEAVVF-LASDE 222
Query: 190 AAKETG 195
A+ TG
Sbjct: 223 ASYITG 228
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 64.6 bits (158), Expect = 3e-12
Identities = 31/99 (31%), Positives = 45/99 (45%), Gaps = 10/99 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK V+ITG ++GIG+ TA + GA V + R+ E + +EIR
Sbjct: 368 PLVGKVVLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIR----------A 417
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
K G DL ++ +DI +V L+NNA
Sbjct: 418 KGGTAHAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNA 456
>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 = 62.5 bits (152), Expect = 8e-12
Identities = 28/102 (27%), Positives = 48/102 (47%), Gaps = 12/102 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACR--DVEKAETTASEIRKHFEVATSE 68
L GK ++TG ++GIG+ A+ L GA+V++A R + E AE A+ I +
Sbjct: 2 DLSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAI---------K 52
Query: 69 DKKPGEVLIKKLDLAS-FKSIRDCAQDINQTEANVHILINNA 109
+ G D++ +S+ + + IL+NNA
Sbjct: 53 EAGGGRAAAVAADVSDDEESVEALVAAAEEEFGRIDILVNNA 94
Score = 34.0 bits (78), Expect = 0.035
Identities = 17/66 (25%), Positives = 28/66 (42%)
Query: 130 GKNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCALDEG 189
+ + V AV PG + T + ++ + L + + TPE+ A A DE
Sbjct: 176 PRGIRVNAVAPGYIDTPMTAALESAELEALKRLAARIPLGRLGTPEEVAAAVAFLASDEA 235
Query: 190 AAKETG 195
A+ TG
Sbjct: 236 ASYITG 241
>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 = 62.2 bits (151), Expect = 1e-11
Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 8/96 (8%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
G++ +ITG N+GIGK A + G V M CR+ +AE EI S ++
Sbjct: 1 GRSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEI-----ETESGNQN-- 53
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + +D++ K + + ++ + +H+LINNA
Sbjct: 54 -IFLHIVDMSDPKQVWEFVEEFKEEGKKLHVLINNA 88
Score = 34.9 bits (80), Expect = 0.022
Identities = 26/82 (31%), Positives = 37/82 (45%), Gaps = 12/82 (14%)
Query: 132 NVNVYAVHPGIVKTELGR-YMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCALDEGA 190
++ +HPG T R M D + AR R +++ EQGA T + AL A
Sbjct: 183 EIHFSVMHPGWADTPAVRNSMPDFH---ARFKDR------LRSEEQGADTVVWLALSSAA 233
Query: 191 AK-ETGLYYSDYKVAKSRNFPF 211
AK +G +Y D K S + P
Sbjct: 234 AKAPSGRFYQDRKPV-STHLPL 254
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 61.5 bits (150), Expect = 1e-11
Identities = 32/101 (31%), Positives = 49/101 (48%), Gaps = 12/101 (11%)
Query: 9 ASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSE 68
+ L GK +ITG ++GIG+ TA+ L GAKV++A R E+ E A EI
Sbjct: 1 MTTLKGKVALITGASSGIGEATARALAEAGAKVVLAARREERLEALADEIGA-------- 52
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G L LD+ ++ + + + + IL+NNA
Sbjct: 53 ----GAALALALDVTDRAAVEAAIEALPEEFGRIDILVNNA 89
>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 = 59.9 bits (146), Expect = 5e-11
Identities = 56/245 (22%), Positives = 84/245 (34%), Gaps = 79/245 (32%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRK------------- 60
K ++TG N GIG + L G VI+ RDVE+ + ++R
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAVEKLRAEGLSVRFHQLDVT 60
Query: 61 ---HFEVATSE-DKKPGEVLIKKLDL------ASFKSIRDCAQDINQTE----ANVH--I 104
E A ++K G LD+ +FK D Q N +
Sbjct: 61 DDASIEAAADFVEEKYG-----GLDILVNNAGIAFKGFDDSTPTREQARETMKTNFFGTV 115
Query: 105 LINNAVYCILSN----NILFYS----------------------ILFYAIPGKNVNVYAV 138
+ A+ +L I+ S IL + + V A
Sbjct: 116 DVTQALLPLLKKSPAGRIVNVSSGLGSLTSAYGVSKAALNALTRILAKELKETGIKVNAC 175
Query: 139 HPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCALDEGAAKETGLYY 198
PG VKT++G KTPE+GA+T ++ AL + TG ++
Sbjct: 176 CPGWVKTDMGGGKAP------------------KTPEEGAETPVYLALLPPDGEPTGKFF 217
Query: 199 SDYKV 203
SD KV
Sbjct: 218 SDKKV 222
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 60.5 bits (147), Expect = 5e-11
Identities = 33/96 (34%), Positives = 47/96 (48%), Gaps = 12/96 (12%)
Query: 18 IITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVL 76
IITG ++G+G TA+ L G V+MACRD KAE A +D
Sbjct: 1 IITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAK------SAGMPKDS----YT 50
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVHILI-NNAVY 111
+ LDLAS S+R + ++ + +L+ N AVY
Sbjct: 51 VMHLDLASLDSVRQFVDNFRRSGRPLDVLVCNAAVY 86
>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 = 59.5 bits (145), Expect = 8e-11
Identities = 32/98 (32%), Positives = 43/98 (43%), Gaps = 9/98 (9%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ITG TGIGK A+ +GA V +A R E E A EI AT
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISS----AT----- 51
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + D+ +++ + + + ILINNA
Sbjct: 52 GGRAHPIQCDVRDPEAVEAAVDETLKEFGKIDILINNA 89
>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 = 59.6 bits (145), Expect = 8e-11
Identities = 28/99 (28%), Positives = 49/99 (49%), Gaps = 13/99 (13%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K V+ITGC++GIG A L G +VI R+ +K E+ + + EV
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELLNDNLEV---------- 50
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCI 113
+LD+ +SI+ +++ + + +L+NNA Y +
Sbjct: 51 ---LELDVTDEESIKAAVKEVIERFGRIDVLVNNAGYGL 86
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 58.5 bits (142), Expect = 2e-10
Identities = 28/99 (28%), Positives = 39/99 (39%), Gaps = 8/99 (8%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
RL GK ++TG GIG A+ GA V +A D AE A+ I D
Sbjct: 4 RLAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIA--------RDV 55
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
VL D+ S+ + + +L+NNA
Sbjct: 56 AGARVLAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNA 94
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 58.4 bits (142), Expect = 2e-10
Identities = 25/102 (24%), Positives = 36/102 (35%), Gaps = 10/102 (9%)
Query: 8 SASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATS 67
AS L GK ++TG G+G A+ L GA V +A A+ +
Sbjct: 1 MASNLAGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALE-------- 52
Query: 68 EDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G DLA S++ + L+NNA
Sbjct: 53 --AAGGRAHAIAADLADPASVQRFFDAAAAALGGLDGLVNNA 92
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 58.3 bits (141), Expect = 2e-10
Identities = 29/100 (29%), Positives = 49/100 (49%), Gaps = 13/100 (13%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDV-EKAETTASEIRKHFEVATSED 69
RL+ K +ITG +TGIG+ +A L GA V+ D+ E T +I+ +
Sbjct: 3 RLENKVAVITGASTGIGQASAIALAQEGAYVL--AVDIAEAVSETVDKIKSN-------- 52
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ +D++ + ++D A +I + V +L NNA
Sbjct: 53 --GGKAKAYHVDISDEQQVKDFASEIKEQFGRVDVLFNNA 90
>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 = 58.3 bits (141), Expect = 3e-10
Identities = 35/98 (35%), Positives = 45/98 (45%), Gaps = 12/98 (12%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
TVIITG ++G+G A+ L G VIMACRD KAE A +
Sbjct: 5 TVIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSL----------GMPKDS 54
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILI-NNAVY 111
I LDL S S+R Q ++ + L+ N AVY
Sbjct: 55 YTIMHLDLGSLDSVRQFVQQFRESGRPLDALVCNAAVY 92
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 57.5 bits (140), Expect = 4e-10
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 11/99 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
RL+GK I+TG ++GIG+ A+ GA+V++ R+ E AE A+EI
Sbjct: 2 RLEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEIL----------- 50
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + D++ + + +V IL+NNA
Sbjct: 51 AGGRAIAVAADVSDEADVEAAVAAALERFGSVDILVNNA 89
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 57.3 bits (139), Expect = 4e-10
Identities = 23/95 (24%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
+ITG ++GIGK TA G + + R + E A+E+R +
Sbjct: 7 PRALITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELR----------STGVK 56
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+DL++ ++I ++ + +LINNA
Sbjct: 57 AAAYSIDLSNPEAIAPGIAELLEQFGCPDVLINNA 91
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 57.5 bits (139), Expect = 4e-10
Identities = 28/107 (26%), Positives = 44/107 (41%), Gaps = 11/107 (10%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
+L GKT +ITG GIG+ A+ GA +I+ + E A E+ T+
Sbjct: 2 GKLTGKTALITGALQGIGEGIARVFARHGANLILLDIS-PEIEKLADELCGRGHRCTA-- 58
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILSN 116
D+ S+ + + E + IL+NNA C L +
Sbjct: 59 --------VVADVRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGS 97
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 56.7 bits (137), Expect = 9e-10
Identities = 28/99 (28%), Positives = 43/99 (43%), Gaps = 10/99 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
R D K I+TG GIG+ A+ L GA V++A + E AE A +I
Sbjct: 3 RFDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQI----------VA 52
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + ++D++ S + A + L+NNA
Sbjct: 53 DGGTAIAVQVDVSDPDSAKAMADATVSAFGGIDYLVNNA 91
>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 = 56.4 bits (137), Expect = 1e-09
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 9/98 (9%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK VIITG ++GIG+ A L +GA+++++ R E+ E SE
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSEC-------LELGAP 53
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V+ LD++ + ++ + + ILINNA
Sbjct: 54 SPHVV--PLDMSDLEDAEQVVEEALKLFGGLDILINNA 89
>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 = 55.6 bits (134), Expect = 2e-09
Identities = 29/98 (29%), Positives = 51/98 (52%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ++TG ++GIG+ TA+ L GA V +A R V++ E A E+ + +
Sbjct: 1 LQGKVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADEL----------EAE 50
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ L+ +LD+ + + + + + IL+NNA
Sbjct: 51 GGKALVLELDVTDEQQVDAAVERTVEALGRLDILVNNA 88
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 55.8 bits (135), Expect = 2e-09
Identities = 29/99 (29%), Positives = 46/99 (46%), Gaps = 13/99 (13%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK V+ITG + GIG A+ G + + RD + E A+++R V
Sbjct: 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVD----- 58
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V + LDL+S ++ A + ++ IL+NNA
Sbjct: 59 ----VAVHALDLSSPEAREQLAAEA----GDIDILVNNA 89
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 54.8 bits (133), Expect = 3e-09
Identities = 30/100 (30%), Positives = 53/100 (53%), Gaps = 11/100 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMAC-RDVEKAETTASEIRKHFEVATSED 69
+L GK I+TG + GIG+ A+ L GAKV++A + E A+ EI+
Sbjct: 2 KLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIK---------- 51
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
++ G+ + K D++S + + + + I + + IL+NNA
Sbjct: 52 EEGGDAIAVKADVSSEEDVENLVEQIVEKFGKIDILVNNA 91
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 54.9 bits (133), Expect = 3e-09
Identities = 29/102 (28%), Positives = 45/102 (44%), Gaps = 16/102 (15%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK ++TG +GIG A L GAKV++A + E A A ++ K
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQ----------K 50
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEAN---VHILINNA 109
G+ + +D+ ++I I+ V IL+NNA
Sbjct: 51 AGGKAIGVAMDVTDEEAINAG---IDYAVETFGGVDILVNNA 89
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 54.8 bits (132), Expect = 4e-09
Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 28/109 (25%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHF-------- 62
RLDG+T +ITG + GIG A+ G+GA V++ RD + E+ + F
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGL 65
Query: 63 --EVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+V+ ED+ ++I D +D +HIL+NNA
Sbjct: 66 AADVSDDEDR---------------RAILDWVED---HWDGLHILVNNA 96
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 54.5 bits (132), Expect = 4e-09
Identities = 22/102 (21%), Positives = 42/102 (41%), Gaps = 10/102 (9%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L+G+ ++TG GIG+ A L GA+VI+ + A TA +
Sbjct: 3 DLEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAG-------- 54
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYC 112
G+ +++D+ +++ + + IL+ NA
Sbjct: 55 --GKARARQVDVRDRAALKAAVAAGVEDFGRLDILVANAGIF 94
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 54.6 bits (132), Expect = 5e-09
Identities = 27/102 (26%), Positives = 39/102 (38%), Gaps = 17/102 (16%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI--RKHFEVATS 67
L GK I+TG T IG A+ L GA+V + D + A+ + R F +AT
Sbjct: 2 IGLAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASLGERARF-IAT- 59
Query: 68 EDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
D+ +I + V IL+N A
Sbjct: 60 -------------DITDDAAIERAVATVVARFGRVDILVNLA 88
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 54.6 bits (132), Expect = 5e-09
Identities = 27/99 (27%), Positives = 40/99 (40%), Gaps = 13/99 (13%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
RL GK ++TG +GIG+ A+ GA+V++A +A A EI
Sbjct: 3 RLQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARARLAALEIGPA--------- 53
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ LD+ SI + + IL NNA
Sbjct: 54 ----AIAVSLDVTRQDSIDRIVAAAVERFGGIDILFNNA 88
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 54.2 bits (131), Expect = 6e-09
Identities = 33/103 (32%), Positives = 47/103 (45%), Gaps = 20/103 (19%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
L GK V ITG GIG TA+ L +GA+V + D A+ TA+E+
Sbjct: 1 DDLRGKVVAITGGARGIGLATARALAALGARVAIGDLDEALAKETAAEL----------- 49
Query: 70 KKPGEVLIKKLDL---ASFKSIRDCAQDINQTEANVHILINNA 109
G V+ LD+ ASF + D + + +L+NNA
Sbjct: 50 ---GLVVGGPLDVTDPASFAAFLDAVEA---DLGPIDVLVNNA 86
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 53.7 bits (130), Expect = 9e-09
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 11/100 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVE-KAETTASEIRKHFEVATSED 69
L+GK ++TG + GIG+ A+ L GA V++ E AE +EI
Sbjct: 2 SLEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIG---------- 51
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ L + D++ +S+ + V IL+NNA
Sbjct: 52 ALGGKALAVQGDVSDAESVERAVDEAKAEFGGVDILVNNA 91
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 53.4 bits (129), Expect = 1e-08
Identities = 31/99 (31%), Positives = 48/99 (48%), Gaps = 16/99 (16%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK VIITG + GIG+ A L GA++++A R+ + + A E+ H G
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADH----------GG 50
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEAN---VHILINNA 109
E L+ D++ + C + I A + IL+NNA
Sbjct: 51 EALVVPTDVSDAE---ACERLIEAAVARFGGIDILVNNA 86
>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 = 52.7 bits (127), Expect = 2e-08
Identities = 28/98 (28%), Positives = 41/98 (41%), Gaps = 14/98 (14%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L G TV+ITG +GIG A+ G VI+ R E+ E+
Sbjct: 3 LTGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKEL------------- 49
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ LD+ +S+ A+ + N+ ILINNA
Sbjct: 50 -PNIHTIVLDVGDAESVEALAEALLSEYPNLDILINNA 86
>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 = 52.6 bits (127), Expect = 2e-08
Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 11/94 (11%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACR-DVEKAETTASEIRKHFEVATSEDKKPGEV 75
++TG + GIG+ A L GAKVI+ R E AE E++ + +
Sbjct: 1 ALVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAY----------GVKA 50
Query: 76 LIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
L D++ + ++ ++I + + IL+NNA
Sbjct: 51 LGVVCDVSDREDVKAVVEEIEEELGPIDILVNNA 84
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 52.6 bits (127), Expect = 2e-08
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 12/99 (12%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L K V++TG + GIG+ A+ L GA++++ R+ EK E A+ +
Sbjct: 2 DLKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARL-----------P 50
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
PG DL S + +++LINNA
Sbjct: 51 YPGRHRWVVADLTSEAGREAVLARAREMGG-INVLINNA 88
>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 = 52.4 bits (126), Expect = 3e-08
Identities = 27/96 (28%), Positives = 37/96 (38%), Gaps = 10/96 (10%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GKT ++TG +GIG A+ L GA V++ E AE A G
Sbjct: 1 GKTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDA----------GG 50
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V+ D+ I D + IL+NNA
Sbjct: 51 SVIYLPADVTKEDEIADMIAAAAAEFGGLDILVNNA 86
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 52.4 bits (126), Expect = 3e-08
Identities = 26/99 (26%), Positives = 44/99 (44%), Gaps = 10/99 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK +++TG ++GIG+ A+ GA V+ R + + A I +
Sbjct: 37 DLTGKRILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRIT----------R 86
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ + DL+ ++ D+ + V ILINNA
Sbjct: 87 AGGDAMAVPCDLSDLDAVDALVADVEKRIGGVDILINNA 125
>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 = 52.0 bits (125), Expect = 4e-08
Identities = 31/101 (30%), Positives = 45/101 (44%), Gaps = 13/101 (12%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK IITG ++GIG TA +GA++ + RD E+ E T + +K
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSC-----LQAGVSEK 55
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVH---ILINNA 109
+L+ DL + I+ T A IL+NNA
Sbjct: 56 K--ILLVVADLTEEEGQDRI---ISTTLAKFGRLDILVNNA 91
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 51.6 bits (124), Expect = 4e-08
Identities = 30/96 (31%), Positives = 49/96 (51%), Gaps = 10/96 (10%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
K VIITG ++G+GK A+ GA V++ R EK E EI + PG
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQF----------PG 50
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+VL ++D+ + + ++ + I++ + LINNA
Sbjct: 51 QVLTVQMDVRNPEDVQKMVEQIDEKFGRIDALINNA 86
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 51.9 bits (125), Expect = 6e-08
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 10/107 (9%)
Query: 3 ASKAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHF 62
A GK V++TG +GIG+ TA GA+V+ + D AE TA IR
Sbjct: 304 ARVGRPRGPFSGKLVVVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAAG 363
Query: 63 EVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
VA + ++D++ ++ A+ + I++NNA
Sbjct: 364 AVAHAY----------RVDVSDADAMEAFAEWVRAEHGVPDIVVNNA 400
>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 = 51.3 bits (123), Expect = 6e-08
Identities = 28/98 (28%), Positives = 46/98 (46%), Gaps = 11/98 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
+ GK V++TG + GIG++ AQ GA+VI++ R E A E+
Sbjct: 4 VAGKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEEL-----------SA 52
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE + DL+S + I + + + +L+NNA
Sbjct: 53 YGECIAIPADLSSEEGIEALVARVAERSDRLDVLVNNA 90
>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 = 51.1 bits (123), Expect = 7e-08
Identities = 29/96 (30%), Positives = 41/96 (42%), Gaps = 10/96 (10%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK ++T ++GIG A+ L GA+V + R+ E E ASE+R
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRENLERAASELR----------AGGA 50
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
VL DL + I + V IL+NNA
Sbjct: 51 GVLAVVADLTDPEDIDRLVEKAGDAFGRVDILVNNA 86
>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 = 50.8 bits (122), Expect = 8e-08
Identities = 28/116 (24%), Positives = 49/116 (42%), Gaps = 14/116 (12%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
K ++ITG IGK + L GA++I+A + E E+ ++
Sbjct: 2 DKIILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKN--------- 52
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILSNNILFYSILFYAIP 129
V+ +LD+ S +SI++ + + + ILINNA + + F P
Sbjct: 53 RVIALELDITSKESIKELIESYLEKFGRIDILINNAYP-----SPKVWGSRFEEFP 103
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 50.4 bits (121), Expect = 1e-07
Identities = 28/98 (28%), Positives = 41/98 (41%), Gaps = 11/98 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK +ITG + GIG A+ L G KV + RD ++ E A+E+
Sbjct: 4 LKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNNK---------- 53
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G VL D+ ++ I + +LI NA
Sbjct: 54 -GNVLGLAADVRDEADVQRAVDAIVAAFGGLDVLIANA 90
>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 = 50.4 bits (121), Expect = 1e-07
Identities = 31/103 (30%), Positives = 46/103 (44%), Gaps = 9/103 (8%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK I+TG + GIG A+ L GA V + +AE A E+ K + V T
Sbjct: 5 SLKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAKKYGVKTK--- 61
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCI 113
K D++S +S+ + I + + ILI NA +
Sbjct: 62 ------AYKCDVSSQESVEKTFKQIQKDFGKIDILIANAGITV 98
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 51.0 bits (122), Expect = 2e-07
Identities = 29/98 (29%), Positives = 48/98 (48%), Gaps = 8/98 (8%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L + +TG GIG+ TA+ L GA V++A ++E AE A+EI F
Sbjct: 412 LARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQFGA------- 464
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + K+D+ ++++ D+ V I++NNA
Sbjct: 465 -GRAVALKMDVTDEQAVKAAFADVALAYGGVDIVVNNA 501
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 49.9 bits (120), Expect = 2e-07
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 10/102 (9%)
Query: 8 SASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATS 67
+ + V+ITG + G+G+ TA+ GAKV++ R E E A+EIR
Sbjct: 2 MLKPIGRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAAG----- 56
Query: 68 EDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE L D+A ++++ A + + +NNA
Sbjct: 57 -----GEALAVVADVADAEAVQAAADRAEEELGPIDTWVNNA 93
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 49.5 bits (119), Expect = 2e-07
Identities = 30/99 (30%), Positives = 44/99 (44%), Gaps = 22/99 (22%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRKHFEVATSEDK 70
+ GK V++TG N GIG+ + L GA KV A RD E V +
Sbjct: 4 IKGKVVLVTGANRGIGRAFVEQLLARGAAKVYAAARDPES-------------VTDLGPR 50
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V+ +LD+ S+ A+ ++V IL+NNA
Sbjct: 51 ----VVPLQLDVTDPASVAAAAEAA----SDVTILVNNA 81
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 49.8 bits (119), Expect = 2e-07
Identities = 29/99 (29%), Positives = 48/99 (48%), Gaps = 11/99 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
RL G+ I+TG +GIG+ TA+ GA+V++A RD E AE A+ I
Sbjct: 2 RLAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIAAG--------- 52
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G ++ D+ S +++ + + +L+NNA
Sbjct: 53 --GRAFARQGDVGSAEAVEALVDFVAARWGRLDVLVNNA 89
>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 = 49.8 bits (119), Expect = 3e-07
Identities = 28/98 (28%), Positives = 38/98 (38%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L K +ITG +G A+ L GAKV R+ EK + A EI
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEI----------TAL 52
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + D+ S+ ++I V ILIN A
Sbjct: 53 GGRAIALAADVLDRASLERAREEIVAQFGTVDILINGA 90
>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 = 49.4 bits (118), Expect = 3e-07
Identities = 35/125 (28%), Positives = 57/125 (45%), Gaps = 25/125 (20%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR-KHFEVATSED 69
L+GKT ++TG GIG + L G+GA+V R+ ++ + +E R K F+V S
Sbjct: 3 NLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWREKGFKVEGSV- 61
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANV-----HILINNAVYCILSNNILF---- 120
D++S R Q++ T A+ +IL+NNA I +
Sbjct: 62 ----------CDVSS----RSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEED 107
Query: 121 YSILF 125
YS++
Sbjct: 108 YSLIM 112
>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 = 49.3 bits (118), Expect = 3e-07
Identities = 27/151 (17%), Positives = 61/151 (40%), Gaps = 21/151 (13%)
Query: 15 KTVIITGCNTGIG-----KVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
K V++TG N+G+G ++ A+ +I+ACR++++AE + +
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASH----PDA 57
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQ-------TEANVHILINNAVYCILSNNILFYS 122
+ + ++ +DL++ S+ A+++ + N I+ N + I + + +
Sbjct: 58 RVVFDYVL--VDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPNPGIDWIGAIKEVLTN 115
Query: 123 ILFYAIPGKNVNVYAVHPGIVKTELGRYMDD 153
LF N G++ D
Sbjct: 116 PLFAV---TNPTYKIQAEGLLSQGDKATEDG 143
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 49.4 bits (118), Expect = 3e-07
Identities = 34/99 (34%), Positives = 54/99 (54%), Gaps = 12/99 (12%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L+GK ++TG ++G+G AQ L GAKV++A R VE+ + E+R E
Sbjct: 7 LEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRRVERLK----ELRAEIEAEG----- 57
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEAN-VHILINNA 109
G + LD+ ++SI+ A +TEA + IL+NN+
Sbjct: 58 -GAAHVVSLDVTDYQSIK-AAVAHAETEAGTIDILVNNS 94
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 49.3 bits (118), Expect = 4e-07
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 8/98 (8%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L+G+ ++TG ++GIG T + L GA V + RD E+ + + +R+ F
Sbjct: 6 LEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKF--------P 57
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+L + D+ + A + V +L+NNA
Sbjct: 58 GARLLAARCDVLDEADVAAFAAAVEARFGGVDMLVNNA 95
>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 = 48.7 bits (116), Expect = 4e-07
Identities = 26/93 (27%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVL 76
I+TG GIGK A TL GA V++A E AE A+ I+ + G+ +
Sbjct: 2 AIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQ----------QAGGQAI 51
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ ++ S + + + + IL+NNA
Sbjct: 52 GLECNVTSEQDLEAVVKATVSQFGGITILVNNA 84
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 48.4 bits (116), Expect = 6e-07
Identities = 27/99 (27%), Positives = 39/99 (39%), Gaps = 13/99 (13%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKP 72
KT +ITG ++G G+ AQ G +V+ R A E P
Sbjct: 3 SMKTWLITGVSSGFGRALAQAALAAGHRVVGTVRSEAA-------------RADFEALHP 49
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
L + LD+ F +I D T + +L+NNA Y
Sbjct: 50 DRALARLLDVTDFDAIDAVVADAEATFGPIDVLVNNAGY 88
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 48.4 bits (116), Expect = 6e-07
Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 10/99 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L K ++ITG G+G+ A+ L GAK+ + + EK E +E
Sbjct: 2 DLKDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGAL--------- 52
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
EV ++ + + I + ++ LINNA
Sbjct: 53 -GTEVRGYAANVTDEEDVEATFAQIAEDFGQLNGLINNA 90
>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 = 48.1 bits (115), Expect = 6e-07
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 10/93 (10%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVL 76
V+ITG ++GIG+ TA GAKV++A R E A E+R + GE +
Sbjct: 3 VVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVR----------ELGGEAI 52
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
D+A + A + + +NNA
Sbjct: 53 AVVADVADAAQVERAADTAVERFGRIDTWVNNA 85
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 48.2 bits (115), Expect = 7e-07
Identities = 30/101 (29%), Positives = 45/101 (44%), Gaps = 23/101 (22%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACR---DVEKAETTASEIRKHFEVATSEDKK 71
K+V+ITGC++GIG A L G +V+ ACR DV + + F
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAACRKPDDVARMNSLG------FTGIL----- 51
Query: 72 PGEVLIKKLDLASFKSI-RDCAQDINQTEANVHILINNAVY 111
LDL +S+ R + I T+ ++ L NNA +
Sbjct: 52 --------LDLDDPESVERAADEVIALTDNRLYGLFNNAGF 84
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 48.1 bits (115), Expect = 8e-07
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 9/98 (9%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
K I+TG ++G G +T L G VI R+ EK E S+ +
Sbjct: 3 KKIAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQL--------NLQQ 54
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
+ +++LD+ SI + Q + + + +L+NNA Y
Sbjct: 55 NIKVQQLDVTDQNSIHN-FQLVLKEIGRIDLLVNNAGY 91
>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 = 48.0 bits (115), Expect = 8e-07
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 6/100 (6%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK V+ITG ++GIGK A+ L GA VI+ R K E EI +
Sbjct: 1 GKHVLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEA------EANASGQ 54
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCI 113
+V DL+ ++ + + +++N A I
Sbjct: 55 KVSYISADLSDYEEVEQAFAQAVEKGGPPDLVVNCAGISI 94
>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 = 47.8 bits (114), Expect = 8e-07
Identities = 32/97 (32%), Positives = 45/97 (46%), Gaps = 18/97 (18%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRKHFEVATSEDKKP 72
KTV++TG N GIGK ++L GA KV A RD A A K
Sbjct: 3 DKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVRDPGSA-------------AHLVAKYG 49
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+V+ +LD+ +SI+ A +V ++INNA
Sbjct: 50 DKVVPLRLDVTDPESIKAAAAQAK----DVDVVINNA 82
Score = 26.6 bits (59), Expect = 9.1
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 130 GKNVNVYAVHPGIVKTELG 148
+ V +VHPG + T +
Sbjct: 167 AQGTLVLSVHPGPIDTRMA 185
>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 = 47.8 bits (114), Expect = 1e-06
Identities = 30/100 (30%), Positives = 47/100 (47%), Gaps = 16/100 (16%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEK-AETTASEIRKHFEVATSED 69
+ G T++ITG +GIG A+ +G VI+ R+ E+ AE A H EV
Sbjct: 2 KTTGNTILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKAENPEIHTEVC---- 57
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
D+A S R+ + + + N+++LINNA
Sbjct: 58 -----------DVADRDSRRELVEWLKKEYPNLNVLINNA 86
>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 = 47.8 bits (114), Expect = 1e-06
Identities = 26/98 (26%), Positives = 42/98 (42%), Gaps = 14/98 (14%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGA---KVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
V+ITGC++GIG A L + KV RD++K +
Sbjct: 1 TVVLITGCSSGIGLHLAVRLASDPSKRFKVYATMRDLKKKGRL---------WEAAGALA 51
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + +LD+ KS+ + + TE +V +L+ NA
Sbjct: 52 GGTLETLQLDVCDSKSVAAAVERV--TERHVDVLVCNA 87
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 47.8 bits (114), Expect = 1e-06
Identities = 31/99 (31%), Positives = 46/99 (46%), Gaps = 11/99 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
LDGK I+TG NTG+G+ A L GA +I+ ET R+ E E +
Sbjct: 12 SLDGKVAIVTGGNTGLGQGYAVALAKAGADIIITTHGTNWDET-----RRLIE---KEGR 63
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
K V ++DL +S ++ + + IL+NNA
Sbjct: 64 K---VTFVQVDLTKPESAEKVVKEALEEFGKIDILVNNA 99
>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 = 47.6 bits (113), Expect = 1e-06
Identities = 33/99 (33%), Positives = 47/99 (47%), Gaps = 15/99 (15%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKH-FEVATSEDK 70
LDGKT +ITG GIG+ AQ GA+V +A ++E A TA+EI ++
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAACAIS----- 55
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
LD+ SI C + ++ IL+NNA
Sbjct: 56 ---------LDVTDQASIDRCVAALVDRWGSIDILVNNA 85
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 47.6 bits (114), Expect = 1e-06
Identities = 33/98 (33%), Positives = 44/98 (44%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK +ITG +G A+ L GAKV + R+ EKAE +EI+
Sbjct: 8 LKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIK----------AA 57
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE L K D+ +S+ Q I + ILIN A
Sbjct: 58 GGEALAVKADVLDKESLEQARQQILEDFGPCDILINGA 95
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 47.4 bits (113), Expect = 1e-06
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK +ITG GIG+ A L G V + R E + A E+ + + V
Sbjct: 5 LQGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEV-EAYGV------- 56
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+V+I D++ ++ + + + ++ ILINNA
Sbjct: 57 --KVVIATADVSDYEEVTAAIEQLKNELGSIDILINNA 92
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 46.0 bits (110), Expect = 2e-06
Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 13/98 (13%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAK-VIMACR--DVEKAETTASEIRKHFEVATSEDKK 71
TV+ITG G+G A+ L GA+ +++ R A +E+
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEALGA-------- 52
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
EV + D+A ++ + + +++NA
Sbjct: 53 --EVTVAACDVADRDALAALLAALPAALGPLDGVVHNA 88
>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 = 47.0 bits (112), Expect = 2e-06
Identities = 28/98 (28%), Positives = 46/98 (46%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ++TG + GIG A L GA +++ R+ EKAE I +K+
Sbjct: 3 LKGKVALVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLI----------EKE 52
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
E D++ ++I+ + I + + IL+NNA
Sbjct: 53 GVEATAFTCDVSDEEAIKAAVEAIEEDFGKIDILVNNA 90
>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 = 47.1 bits (112), Expect = 2e-06
Identities = 27/99 (27%), Positives = 42/99 (42%), Gaps = 9/99 (9%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
R G+ ++TG + GIG A+ L G KV+ R V+K E A+E +
Sbjct: 3 RWRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQS---------A 53
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + DL++ + I I V + INNA
Sbjct: 54 GYPTLFPYQCDLSNEEQILSMFSAIRTQHQGVDVCINNA 92
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 46.8 bits (112), Expect = 2e-06
Identities = 20/50 (40%), Positives = 30/50 (60%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
RL+GK IITG ++GIG+ A+ GAKV++ R + + +EIR
Sbjct: 2 MRLNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIR 51
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 46.1 bits (110), Expect = 4e-06
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 13/100 (13%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
SRL GKT +ITG +GIG TA+ GA+V + RD E +E+
Sbjct: 2 SRLQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARAEL----------- 50
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
L+ + D + + AQ + + + + NA
Sbjct: 51 --GESALVIRADAGDVAAQKALAQALAEAFGRLDAVFINA 88
Score = 28.0 bits (63), Expect = 3.9
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 19/72 (26%)
Query: 130 GKNVNVYAVHPGIVKT----ELGRYMDDTYFPGART-------LGRVLMWWWMKTPEQGA 178
+ + V AV PG V+T +LG + + LGR TPE+ A
Sbjct: 170 PRGIRVNAVSPGPVQTPLYGKLG--LPEATLDAVAAQIQALVPLGR------FGTPEEIA 221
Query: 179 QTTLHCALDEGA 190
+ L+ A DE A
Sbjct: 222 KAVLYLASDESA 233
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 45.8 bits (109), Expect = 4e-06
Identities = 30/98 (30%), Positives = 48/98 (48%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ++TG + GIG+ A+ L GA VI++ R ++ + A I A +
Sbjct: 6 LTGKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVAAGGKAEALACH 65
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE+ +++D A F IR + + IL+NNA
Sbjct: 66 IGEM--EQID-ALFAHIR-------ERHGRLDILVNNA 93
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 45.9 bits (109), Expect = 4e-06
Identities = 18/50 (36%), Positives = 28/50 (56%)
Query: 9 ASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
A GK+V++TG ++GIG+ A L GA+V+ A R+ + A E
Sbjct: 4 AFDFSGKSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAGET 53
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 45.6 bits (109), Expect = 4e-06
Identities = 24/98 (24%), Positives = 36/98 (36%), Gaps = 19/98 (19%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
GKTV +TG GIG A GAKVI ++A T + F
Sbjct: 6 FSGKTVWVTGAAQGIGYAVALAFVEAGAKVI----GFDQAFLTQEDY--PFAT------- 52
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
LD++ ++ Q + + +L+N A
Sbjct: 53 ------FVLDVSDAAAVAQVCQRLLAETGPLDVLVNAA 84
>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 = 45.5 bits (108), Expect = 6e-06
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 6/64 (9%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRK-----HFEVA 65
RL GK I+TG G+G A+ L GAKV+++ E+ + A+E+ H +V
Sbjct: 2 RLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLSDILDEEGQAAAAELGDAARFFHLDV- 60
Query: 66 TSED 69
T ED
Sbjct: 61 TDED 64
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 45.4 bits (108), Expect = 6e-06
Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 11/101 (10%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMAC-RDVEKAETTASEIRKHFEVATSE 68
RLDGK ++TG G+G A+ GA ++ C R+ EK E A+E+
Sbjct: 2 GRLDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEAL------- 54
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + + DL+ + R ++ + L+N A
Sbjct: 55 ---GAKAVFVQADLSDVEDCRRVVAAADEAFGRLDALVNAA 92
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 45.4 bits (108), Expect = 7e-06
Identities = 24/96 (25%), Positives = 45/96 (46%), Gaps = 11/96 (11%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K +TG +GIG+ TA L GA++ + RD + T ++ R G
Sbjct: 1 KRCFVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADAR----------ALGGT 50
Query: 75 V-LIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V + LD++ + ++ A DI+ ++ +++N A
Sbjct: 51 VPEHRALDISDYDAVAAFAADIHAAHGSMDVVMNIA 86
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 45.0 bits (107), Expect = 7e-06
Identities = 28/96 (29%), Positives = 42/96 (43%), Gaps = 11/96 (11%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKV-IMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
+ I+T ++GIGK A L G + I D E A+ TA E+R H A
Sbjct: 3 QVAIVTASDSGIGKACALLLAQQGFDIGITWHSDEEGAKETAEEVRSHGVRAE------- 55
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
I++LDL+ + Q + +L+NNA
Sbjct: 56 ---IRQLDLSDLPEGAQALDKLIQRLGRIDVLVNNA 88
>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 = 44.9 bits (106), Expect = 8e-06
Identities = 39/143 (27%), Positives = 57/143 (39%), Gaps = 15/143 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L KT I+TG GIG T + GAKV + + E AE A++IR K
Sbjct: 1 LKDKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIR----------AK 50
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILSNNI-----LFYSILFY 126
G D+ S+ Q V +L+NNA + L+ ++
Sbjct: 51 GGNAQAFACDITDRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWERLIAI 110
Query: 127 AIPGKNVNVYAVHPGIVKTELGR 149
+ G +AV PG+V+ GR
Sbjct: 111 NLTGALHMHHAVLPGMVERGAGR 133
>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 = 45.1 bits (107), Expect = 8e-06
Identities = 27/99 (27%), Positives = 45/99 (45%), Gaps = 11/99 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACR-DVEKAETTASEIRKHFEVATSEDK 70
L GK ++TG ++GIGK A L GA V++ R + AE EI+
Sbjct: 1 LKGKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKEDAAEEVVEEIK----------A 50
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ + + D++ + + Q + + IL+NNA
Sbjct: 51 VGGKAIAVQADVSKEEDVVALFQSAIKEFGTLDILVNNA 89
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 45.2 bits (107), Expect = 8e-06
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 15/102 (14%)
Query: 8 SASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATS 67
+ R GK +ITG GIG+ A+ GAKV + AE A E+R+
Sbjct: 1 YSMRFKGKVALITGGTRGIGRAIAEAFLREGAKVAV---LYNSAENEAKELREK------ 51
Query: 68 EDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V K D+ + ++ + + + V +L+NNA
Sbjct: 52 ------GVFTIKCDVGNRDQVKKSKEVVEKEFGRVDVLVNNA 87
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 44.7 bits (106), Expect = 1e-05
Identities = 25/98 (25%), Positives = 42/98 (42%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L G+ ++TG G+G A+ L G GA V++ R+ E + +R A
Sbjct: 9 LAGQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAGGAA------ 62
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
E L D+A +++ I+ + IL+NN
Sbjct: 63 --EALA--FDIADEEAVAAAFARIDAEHGRLDILVNNV 96
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 44.9 bits (107), Expect = 1e-05
Identities = 30/99 (30%), Positives = 47/99 (47%), Gaps = 10/99 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GKT ++TG + G+G A+ L GA+V+++ R E+ E E H E
Sbjct: 9 DLSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELE----EAAAHLEALGI--- 61
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ L D+A I A++ + +V IL+NNA
Sbjct: 62 ---DALWIAADVADEADIERLAEETLERFGHVDILVNNA 97
>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 = 44.8 bits (106), Expect = 1e-05
Identities = 25/100 (25%), Positives = 44/100 (44%), Gaps = 16/100 (16%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDV--EKAETTASEIRKHFEVATSED 69
L+GK ++TG NTG+G+ A L GA ++ A R E + + R+ +
Sbjct: 3 LEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRSEPSETQQQVEALGRRFLSL----- 57
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
DL+ ++I+ + ++ IL+NNA
Sbjct: 58 ---------TADLSDIEAIKALVDSAVEEFGHIDILVNNA 88
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 44.8 bits (106), Expect = 1e-05
Identities = 24/102 (23%), Positives = 37/102 (36%), Gaps = 12/102 (11%)
Query: 8 SASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATS 67
L GK V ITG G+G+ TA L GA+V + R T +
Sbjct: 1 MEHSLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQTLPGVPADALRIGG 60
Query: 68 EDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+DL ++ R ++N+ + L+N A
Sbjct: 61 ------------IDLVDPQAARRAVDEVNRQFGRLDALVNIA 90
Score = 27.1 bits (60), Expect = 7.0
Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 11/61 (18%)
Query: 131 KNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQTTLHCALDEGA 190
+ + V AV P I+ T + P A R W+ TPEQ A DE
Sbjct: 175 RGITVNAVLPSIIDTP----PNRADMPDAD-FSR-----WV-TPEQIAAVIAFLLSDEAQ 223
Query: 191 A 191
A
Sbjct: 224 A 224
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 45.2 bits (108), Expect = 1e-05
Identities = 29/98 (29%), Positives = 45/98 (45%), Gaps = 11/98 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ++TG GIGK TA+ L GA V++A D E AE A+E+
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAEL-----------GG 468
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
P L D+ +++ ++ V I+++NA
Sbjct: 469 PDRALGVACDVTDEAAVQAAFEEAALAFGGVDIVVSNA 506
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 44.6 bits (106), Expect = 1e-05
Identities = 31/97 (31%), Positives = 42/97 (43%), Gaps = 16/97 (16%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K ++TG ++GIGK TA+ L G V A R V+K E AS
Sbjct: 4 KVALVTGASSGIGKATARRLAAQGYTVYGAARRVDKMEDLASL----------------G 47
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
V LD+ SI+ I E + +L+NNA Y
Sbjct: 48 VHPLSLDVTDEASIKAAVDTIIAEEGRIDVLVNNAGY 84
>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 = 44.6 bits (106), Expect = 1e-05
Identities = 30/110 (27%), Positives = 47/110 (42%), Gaps = 12/110 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVE--KAETTASEIRKHFEVATSE 68
+L GK +ITG ++GIG+ A GA V + E AE T I
Sbjct: 23 KLKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIE--------- 73
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILSNNI 118
++ + L+ DL RD +++ + + IL+NNA Y +I
Sbjct: 74 -EEGRKCLLIPGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQESI 122
>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 = 44.2 bits (105), Expect = 1e-05
Identities = 31/94 (32%), Positives = 50/94 (53%), Gaps = 10/94 (10%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEV 75
V+ITG +GIG++ A GAKV++ + + AE TA+ +R K G+V
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVR----------KAGGKV 50
Query: 76 LIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
K D++ + + + A+ I + +V ILINNA
Sbjct: 51 HYYKCDVSKREEVYEAAKKIKKEVGDVTILINNA 84
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 44.2 bits (105), Expect = 1e-05
Identities = 26/101 (25%), Positives = 45/101 (44%), Gaps = 14/101 (13%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKA--ETTASEIRKHFEVATSE 68
GK +ITG +G G A+ +G K+++A DV++ + +E+R
Sbjct: 3 DFAGKVAVITGAASGFGLAFARIGAALGMKLVLA--DVQQDALDRAVAELR--------- 51
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ EVL + D++ + A + VH+L NNA
Sbjct: 52 -AQGAEVLGVRTDVSDAAQVEALADAALERFGAVHLLFNNA 91
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 44.3 bits (104), Expect = 2e-05
Identities = 21/47 (44%), Positives = 27/47 (57%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
L GK +ITG +TGIGK A GA+V +A R ++ E A EI
Sbjct: 7 LHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEI 53
>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 = 44.2 bits (105), Expect = 2e-05
Identities = 28/100 (28%), Positives = 48/100 (48%), Gaps = 13/100 (13%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K V+ITGC++G G + A+ L +G V+ C + K A E+R+ S+ +
Sbjct: 1 KAVLITGCDSGFGNLLAKKLDSLGFTVLAGC--LTKNGPGAKELRRV----CSDRLR--- 51
Query: 75 VLIKKLDLASFKSIRDCAQDINQ--TEANVHILINNAVYC 112
+LD+ + I+ AQ + + E + L+NNA
Sbjct: 52 --TLQLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAGIL 89
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 44.0 bits (104), Expect = 2e-05
Identities = 24/98 (24%), Positives = 39/98 (39%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L G+ ++TG + GIG A+ L GA+VI+ RD K A ++ +
Sbjct: 8 LTGRRALVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLK----------GQ 57
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
D+ ++R + IL+NNA
Sbjct: 58 GLSAHALAFDVTDHDAVRAAIDAFEAEIGPIDILVNNA 95
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 44.2 bits (105), Expect = 2e-05
Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 29/103 (28%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK +I+TG ++GIG + L GA V+ A D
Sbjct: 7 LQGKIIIVTGGSSGIGLAIVKELLANGANVVNA------------------------DIH 42
Query: 72 PGEVLIKKL-----DLASFKSIRDCAQDINQTEANVHILINNA 109
G+ + D++S + + +I + + L+NNA
Sbjct: 43 GGDGQHENYQFVPTDVSSAEEVNHTVAEIIEKFGRIDGLVNNA 85
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 43.7 bits (103), Expect = 2e-05
Identities = 31/99 (31%), Positives = 44/99 (44%), Gaps = 10/99 (10%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
RLDGK IITG GIGK A T GA V+++ + + A EI+ +
Sbjct: 8 RLDGKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQ----------Q 57
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ + D+ S + + A V IL+NNA
Sbjct: 58 LGGQAFACRCDITSEQELSALADFALSKLGKVDILVNNA 96
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 43.5 bits (103), Expect = 2e-05
Identities = 25/110 (22%), Positives = 45/110 (40%), Gaps = 14/110 (12%)
Query: 1 MSASKAVS-ASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
M+ +K A L GK ++TG +GIG A+ GA+V + R + AE A +
Sbjct: 1 MTDTKQFDLAFDLSGKVAVVTGGASGIGHAIAELFAAKGARVALLDRSEDVAEVAAQLLG 60
Query: 60 KHFEVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + D++ +S+ + + IL+N+A
Sbjct: 61 GNAKGLV-------------CDVSDSQSVEAAVAAVISAFGRIDILVNSA 97
Score = 27.7 bits (62), Expect = 5.2
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 130 GKNVNVYAVHPGIVKTELGRY 150
+ V A+ P +V TELG+
Sbjct: 181 PYGITVNAISPTVVLTELGKK 201
>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 = 43.2 bits (102), Expect = 3e-05
Identities = 27/108 (25%), Positives = 47/108 (43%), Gaps = 13/108 (12%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L+GK I+TG GIG A L GA+V++A D A+ ++I
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQI------------- 47
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILSNNIL 119
G L ++D+ + + + + + +L+NNA L+ I+
Sbjct: 48 AGGALALRVDVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAII 95
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 43.7 bits (104), Expect = 3e-05
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKA----ETTASEIR 59
L GK ++TG GIG A+ L GA V+ C DV A A+ +
Sbjct: 208 LAGKVALVTGAARGIGAAIAEVLARDGAHVV--CLDVPAAGEALAAVANRVG 257
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 43.4 bits (103), Expect = 3e-05
Identities = 16/52 (30%), Positives = 26/52 (50%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASE 57
+ L GK V++TG GIG A+ L+ GAK+ + + + A+E
Sbjct: 1 GPPMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAE 52
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 42.3 bits (99), Expect = 4e-05
Identities = 23/54 (42%), Positives = 29/54 (53%)
Query: 5 KAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
+ V +L GK I+TG GIG+ TA L GAKVI+ D E + T EI
Sbjct: 7 EGVMKMKLAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVTDIDQESGQATVEEI 60
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 43.0 bits (101), Expect = 5e-05
Identities = 29/101 (28%), Positives = 48/101 (47%), Gaps = 10/101 (9%)
Query: 9 ASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSE 68
S L+GKT ++TG +GIGK A L GA V +A + + A A EI
Sbjct: 2 MSNLNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEIN--------- 52
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
K G+ + +D+ + ++ + + +V IL++NA
Sbjct: 53 -KAGGKAIGVAMDVTNEDAVNAGIDKVAERFGSVDILVSNA 92
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 42.8 bits (101), Expect = 5e-05
Identities = 25/100 (25%), Positives = 41/100 (41%), Gaps = 11/100 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAK-VIMACRDVEKAETTASEIRKHFEVATSED 69
GK ++TG + GIGK A L G + R + AE TA EI
Sbjct: 1 VFSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIE---------- 50
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ L K ++ + I++ I++ + + +NNA
Sbjct: 51 ALGRKALAVKANVGDVEKIKEMFAQIDEEFGRLDVFVNNA 90
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 42.4 bits (100), Expect = 6e-05
Identities = 20/50 (40%), Positives = 26/50 (52%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
GK ++TG GIG+ TA GAKV++A RD E T + IR
Sbjct: 3 MTFSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIR 52
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 42.5 bits (100), Expect = 6e-05
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 16/97 (16%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
V+ITGC++GIG+ A G +V R E E A+
Sbjct: 2 PVVLITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALAAA----------------G 45
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
+LD+ ++ A+++ + +LINNA Y
Sbjct: 46 FTAVQLDVNDGAALARLAEELEAEHGGLDVLINNAGY 82
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 42.8 bits (101), Expect = 6e-05
Identities = 20/50 (40%), Positives = 30/50 (60%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRK 60
L G V+ITG ++GIG+ TA+ GA++++A RD E + A E R
Sbjct: 4 PLHGAVVVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRA 53
>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 = 42.3 bits (100), Expect = 6e-05
Identities = 28/96 (29%), Positives = 42/96 (43%), Gaps = 16/96 (16%)
Query: 17 VIITGCNTGIGKVTAQTLYGIG-AKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEV 75
V+ITG + GIG + L G VI CRD A A+ H +
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAALGASH-----------SRL 49
Query: 76 LIKKLDLASFKSIRDCAQDINQT--EANVHILINNA 109
I +LD+ I + A+ + + +A + +LINNA
Sbjct: 50 HILELDVTD--EIAESAEAVAERLGDAGLDVLINNA 83
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 42.3 bits (100), Expect = 7e-05
Identities = 22/98 (22%), Positives = 37/98 (37%), Gaps = 8/98 (8%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GKT++ITG IG + + G VI A D E + K F+
Sbjct: 2 LKGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLS--- 58
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ +LD+ +S+ + + + +N A
Sbjct: 59 -----LVELDITDQESLEEFLSKSAEKYGKIDGAVNCA 91
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 42.2 bits (100), Expect = 8e-05
Identities = 27/105 (25%), Positives = 42/105 (40%), Gaps = 17/105 (16%)
Query: 7 VSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVAT 66
+ R GK V++TG GIG+ A GA+V++ V+++E EVA
Sbjct: 1 MMNQRFAGKVVVVTGAAQGIGRGVALRAAAEGARVVL----VDRSELVH-------EVAA 49
Query: 67 SEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEA---NVHILINN 108
GE L DL ++ + + +LINN
Sbjct: 50 ELRAAGGEALALTADLETYA---GAQAAMAAAVEAFGRIDVLINN 91
>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 = 42.1 bits (99), Expect = 9e-05
Identities = 26/99 (26%), Positives = 42/99 (42%), Gaps = 11/99 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
R +GK V++TG GIG+ A+ L G GA+V++ R E +EI
Sbjct: 1 RFEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDRS-ELVHEVLAEIL----------A 49
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ DL ++ + + + V +LINN
Sbjct: 50 AGDAAHVHTADLETYAGAQGVVRAAVERFGRVDVLINNV 88
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 41.7 bits (98), Expect = 1e-04
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 10/98 (10%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK ++ITG GIG + A L GA++I+ E+AE +++R+ A +
Sbjct: 7 LAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIKAHA---- 62
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
++ + + + I + + +LINNA
Sbjct: 63 ------APFNVTHKQEVEAAIEHIEKDIGPIDVLINNA 94
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 41.6 bits (98), Expect = 1e-04
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRD-VEKAETTASEIR 59
L GKT ++TG + GIG TA+ L G GA V++ R +A +EI
Sbjct: 4 LPGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIE 52
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 42.1 bits (99), Expect = 1e-04
Identities = 28/109 (25%), Positives = 43/109 (39%), Gaps = 15/109 (13%)
Query: 3 ASKAVSASRL--DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRK 60
AS A + S L + V ITG GIG+ A G ++++ RD E A+ A
Sbjct: 256 ASTAQAPSPLAESPRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLA----- 310
Query: 61 HFEVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
E E L + D+ ++ I + +L+NNA
Sbjct: 311 --EALG------DEHLSVQADITDEAAVESAFAQIQARWGRLDVLVNNA 351
Score = 39.4 bits (92), Expect = 8e-04
Identities = 24/97 (24%), Positives = 46/97 (47%), Gaps = 15/97 (15%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI-RKHFEVATSEDKKP 72
+ V++TG GIG+ Q G +V++A R+VE+A A + H +A
Sbjct: 5 SRVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGPDHHALA------- 57
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+D++ IR+ + +++ + +L+NNA
Sbjct: 58 -------MDVSDEAQIREGFEQLHREFGRIDVLVNNA 87
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 41.6 bits (98), Expect = 1e-04
Identities = 25/98 (25%), Positives = 40/98 (40%), Gaps = 17/98 (17%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
++++ITGC++GIG A+ L G +V CR E +E + F
Sbjct: 5 RSILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEAF------------ 52
Query: 75 VLIKKLDLASFKSIRDCAQD-INQTEANVHILINNAVY 111
+LD A +SI + + + L NN Y
Sbjct: 53 ----QLDYAEPESIAALVAQVLELSGGRLDALFNNGAY 86
>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 = 41.5 bits (98), Expect = 1e-04
Identities = 25/94 (26%), Positives = 41/94 (43%), Gaps = 12/94 (12%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAET-TASEIRKHFEVATSEDKKPGEV 75
V++TG GIG A+ L GA+V R+ E+ A R + AT
Sbjct: 1 VLVTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRRYGYPFAT--------- 51
Query: 76 LIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
KLD+A ++ + Q + + + +L+N A
Sbjct: 52 --YKLDVADSAAVDEVVQRLEREYGPIDVLVNVA 83
>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 = 41.6 bits (98), Expect = 1e-04
Identities = 18/49 (36%), Positives = 30/49 (61%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
RL+GK I+TG +G G+ A+ GA+V++A + + AE A++I
Sbjct: 1 MRLEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAERVAADI 49
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 41.6 bits (98), Expect = 1e-04
Identities = 27/101 (26%), Positives = 41/101 (40%), Gaps = 15/101 (14%)
Query: 9 ASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSE 68
+ RL G+ +ITG +GIG TA+ L GA V++ D E + A E+
Sbjct: 2 SQRLAGRVAVITGGGSGIGLATARRLAAEGATVVVGDIDPEAGKAAADEV---------- 51
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
L D+ ++ +T +V I NNA
Sbjct: 52 -----GGLFVPTDVTDEDAVNALFDTAAETYGSVDIAFNNA 87
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 41.2 bits (97), Expect = 1e-04
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 11/99 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM-ACRDVEKAETTASEIRKHFEVATSEDK 70
L K V++TG GIG+ A L G+ V++ A + E+ T ++++
Sbjct: 4 LKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKKRAEEMNETLKMVKEN--------- 54
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE + D+++ + A+ IL+NNA
Sbjct: 55 -GGEGIGVLADVSTREGCETLAKATIDRYGVADILVNNA 92
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 41.3 bits (97), Expect = 1e-04
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
RLD + ++TG G+G A GA V++A R + + A +IR
Sbjct: 7 RLDDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIR 55
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 41.3 bits (97), Expect = 2e-04
Identities = 24/97 (24%), Positives = 40/97 (41%), Gaps = 10/97 (10%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKP 72
D + ++ G ++GIG TA L G V + R VEK E +IR
Sbjct: 9 DRRPALVAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIR----------ADG 58
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE + LD+ S++ + + +L++ A
Sbjct: 59 GEAVAFPLDVTDPDSVKSFVAQAEEALGEIEVLVSGA 95
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 41.4 bits (98), Expect = 2e-04
Identities = 23/95 (24%), Positives = 42/95 (44%), Gaps = 18/95 (18%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K ++TG ++GIG+ TA+ L G +V R+ +A PG
Sbjct: 5 KVALVTGASSGIGRATAEKLARAGYRVFGTSRNPARAAP-----------------IPGV 47
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
L+ +LD+ S++ ++ + +L+NNA
Sbjct: 48 ELL-ELDVTDDASVQAAVDEVIARAGRIDVLVNNA 81
>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 = 41.1 bits (97), Expect = 2e-04
Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 11/99 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMA-CRDVEKAETTASEIRKHFEVATSEDK 70
L GK ++TG + GIG+ A+ L GA V++ AE +EI
Sbjct: 1 LAGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIE----------A 50
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ + + D++ + + V IL+NNA
Sbjct: 51 AGGKAIAVQADVSDPSQVARLFDAAEKAFGGVDILVNNA 89
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 41.2 bits (97), Expect = 2e-04
Identities = 23/98 (23%), Positives = 38/98 (38%), Gaps = 12/98 (12%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
LDG V++TG +GIG+ A+ GA+V + TA+ + AT
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAKVTAT----- 63
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
D+A + + + +L+NNA
Sbjct: 64 -------VADVADPAQVERVFDTAVERFGGLDVLVNNA 94
Score = 26.9 bits (60), Expect = 7.3
Identities = 16/69 (23%), Positives = 22/69 (31%), Gaps = 10/69 (14%)
Query: 131 KNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWW---------MKTPEQGAQTT 181
+ V A+ PGIV+ R + + +G M M PE A T
Sbjct: 181 LGIRVNAILPGIVRGPRMRRVIEARAQ-QLGIGLDEMEQEYLEKISLGRMVEPEDIAATA 239
Query: 182 LHCALDEGA 190
L A
Sbjct: 240 LFLASPAAR 248
>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 = 40.9 bits (96), Expect = 2e-04
Identities = 21/49 (42%), Positives = 31/49 (63%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
RLDGK IITG +GIG+ TA+ GA+V++A D + + A+E+
Sbjct: 1 RLDGKVAIITGGASGIGEATARLFAKHGARVVIADIDDDAGQAVAAELG 49
>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 = 40.7 bits (96), Expect = 2e-04
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 14/98 (14%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
G ++TG GIGK A+ L G VI+ R EK + A EI E+K
Sbjct: 1 GTWAVVTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEI---------EEKYGV 51
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHI--LINNA 109
E D F + D + I + + I L+NN
Sbjct: 52 ETKTIAAD---FSAGDDIYERIEKELEGLDIGILVNNV 86
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 40.7 bits (96), Expect = 2e-04
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
L GK V+++G G+G+ A GA V++A R E+ + A+EI
Sbjct: 3 LKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEID 50
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 40.7 bits (96), Expect = 2e-04
Identities = 15/52 (28%), Positives = 25/52 (48%)
Query: 8 SASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
+ GK V++ G +GI AQ GA V +A R EK + ++++
Sbjct: 3 TMFDFAGKNVVVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQ 54
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 40.6 bits (96), Expect = 2e-04
Identities = 22/100 (22%), Positives = 37/100 (37%), Gaps = 11/100 (11%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACR-DVEKAETTASEIRKHFEVATSED 69
L G+ ++TG G+G+ A L GA V++ R D E AE +
Sbjct: 3 SLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEAL-------- 54
Query: 70 KKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ D+ ++ + + IL+NNA
Sbjct: 55 --GRRAQAVQADVTDKAALEAAVAAAVERFGRIDILVNNA 92
>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 = 40.3 bits (95), Expect = 3e-04
Identities = 22/96 (22%), Positives = 36/96 (37%), Gaps = 14/96 (14%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
G ++TG +G+G T + L GAKV++ ET VA D
Sbjct: 2 GLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGET----------VAKLGDN--- 48
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+D+ S K ++ + I++N A
Sbjct: 49 -CRFVPVDVTSEKDVKAALALAKAKFGRLDIVVNCA 83
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 40.6 bits (95), Expect = 3e-04
Identities = 17/48 (35%), Positives = 25/48 (52%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
+T ++TG +GIGK A L GA V++ R+ +K A EI
Sbjct: 5 FQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIE 52
>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 = 40.4 bits (95), Expect = 3e-04
Identities = 28/110 (25%), Positives = 46/110 (41%), Gaps = 26/110 (23%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM---------ACRDVEKAETTASEIRKH 61
R DG+ V++TG G+G+ A GAKV++ + + A+ EI+
Sbjct: 2 RFDGRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAA 61
Query: 62 F--EVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
VA + + GE ++K + +F V IL+NNA
Sbjct: 62 GGKAVANYDSVEDGEKIVKTA-IDAF--------------GRVDILVNNA 96
>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 = 40.5 bits (95), Expect = 3e-04
Identities = 28/110 (25%), Positives = 42/110 (38%), Gaps = 22/110 (20%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKA------------ETTASEIR 59
L GK +TG + GIG+ A L GA V++A + + E TA EI
Sbjct: 1 LSGKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIE 60
Query: 60 KHFEVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ L +D+ +R + + IL+NNA
Sbjct: 61 ----------AAGGQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNA 100
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 40.1 bits (94), Expect = 4e-04
Identities = 25/99 (25%), Positives = 40/99 (40%), Gaps = 17/99 (17%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K ++TG GIG A+ L G +VI + A ++ G
Sbjct: 3 KIALVTGAKRGIGSAIARELLNDGYRVIAT-------------YFSGNDCAKDWFEEYGF 49
Query: 75 ----VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
V +K+LD+ + + +I + E V IL+NNA
Sbjct: 50 TEDQVRLKELDVTDTEECAEALAEIEEEEGPVDILVNNA 88
>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 = 39.7 bits (93), Expect = 4e-04
Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 7/82 (8%)
Query: 2 SASKAVSASRLD--GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
+A KA+ D GKT ++ G +G+ A L GA+V++ RD+E+A+ A +R
Sbjct: 14 AAGKALELMGKDLKGKTAVVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLR 73
Query: 60 KHF-----EVATSEDKKPGEVL 76
F V TS+D +
Sbjct: 74 ARFGEGVGAVETSDDAARAAAI 95
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 39.7 bits (93), Expect = 5e-04
Identities = 31/99 (31%), Positives = 48/99 (48%), Gaps = 11/99 (11%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACR-DVEKAETTASEIRKHFEVATSEDK 70
L+GK V+ITG +TG+G+ A AKV++ R D E+A A EI+ K
Sbjct: 5 LEGKVVVITGGSTGLGRAMAVRFGKEKAKVVINYRSDEEEANDVAEEIK----------K 54
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE + K D+ + + Q + + ++INNA
Sbjct: 55 AGGEAIAVKGDVTVESDVVNLIQTAVKEFGTLDVMINNA 93
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 39.5 bits (92), Expect = 5e-04
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
L KT+++TG + G+G+ A+ GA VI+ R +K E I
Sbjct: 4 LSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAI 50
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 39.5 bits (92), Expect = 7e-04
Identities = 33/101 (32%), Positives = 49/101 (48%), Gaps = 18/101 (17%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVI---MACRDVEKAETTASEIRKHFEVATSE 68
L+GK IITGCNTG+G+ A L GA ++ +A +A+ A + HF A
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIVGVGVAEAPETQAQVEALGRKFHFITAD-- 63
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
LI++ D+ S +Q + ++ ILINNA
Sbjct: 64 -------LIQQKDIDSI-----VSQAVEVM-GHIDILINNA 91
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 39.1 bits (92), Expect = 8e-04
Identities = 18/47 (38%), Positives = 24/47 (51%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
L + +++TG GIG+ A T GA VI+ R EK E EI
Sbjct: 10 LKDRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEI 56
>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 = 38.4 bits (90), Expect = 0.001
Identities = 25/95 (26%), Positives = 37/95 (38%), Gaps = 10/95 (10%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K IITG +GIG TA+ L GAKV + R+ +
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAILDRNENPGAAA----------ELQAINPKVK 50
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ D+ S++ + + + V ILINNA
Sbjct: 51 ATFVQCDVTSWEQLAAAFKKAIEKFGRVDILINNA 85
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 38.3 bits (90), Expect = 0.001
Identities = 22/99 (22%), Positives = 36/99 (36%), Gaps = 19/99 (19%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK ++TG GIG T L GA+V+ R + + + F A
Sbjct: 6 ELAGKRALVTGGTKGIGAATVARLLEAGARVVTTAR--SRPDDLPEGV--EFVAA----- 56
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
DL + + A+ + + V IL++
Sbjct: 57 ----------DLTTAEGCAAVARAVLERLGGVDILVHVL 85
>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 = 38.3 bits (89), Expect = 0.002
Identities = 25/106 (23%), Positives = 40/106 (37%), Gaps = 9/106 (8%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVA 65
S R K VI+TG + GIG+ + GAKV+ R + SE+ +
Sbjct: 1 MASGLRYADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNR----- 55
Query: 66 TSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
PG D+ + I+ + + L+NNA +
Sbjct: 56 ----AGPGSCKFVPCDVTKEEDIKTLISVTVERFGRIDCLVNNAGW 97
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 38.0 bits (89), Expect = 0.002
Identities = 22/98 (22%), Positives = 37/98 (37%), Gaps = 10/98 (10%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEK-AETTASEIRKHFEVATSEDKK 71
K +ITG IG A+TL+ G +V + A+ A+E+ +
Sbjct: 5 SAKVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAEL---------NALR 55
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
PG + DL ++ + + L+NNA
Sbjct: 56 PGSAAALQADLLDPDALPELVAACVAAFGRLDALVNNA 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 = 37.8 bits (88), Expect = 0.003
Identities = 27/97 (27%), Positives = 40/97 (41%), Gaps = 10/97 (10%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIM-ACRDVEKAETTASEIRKHFEVATSEDKKP 72
GK ++TG +GIG A+ L GA +++ D + E A K
Sbjct: 2 GKVALVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEA---------VRAGLAAKHG 52
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+VL DL+ +I D + V IL+NNA
Sbjct: 53 VKVLYHGADLSKPAAIEDMVAYAQRQFGGVDILVNNA 89
>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 = 37.2 bits (86), Expect = 0.003
Identities = 25/98 (25%), Positives = 44/98 (44%), Gaps = 7/98 (7%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L+ + +++TG + GIG+ A T GA VI+ R+ EK A I E +
Sbjct: 2 LNDRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHIN-------EEGGR 54
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ I L + ++ + AQ I + +++NA
Sbjct: 55 QPQWFILDLLTCTSENCQQLAQRIAVNYPRLDGVLHNA 92
>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 = 37.1 bits (86), Expect = 0.004
Identities = 23/100 (23%), Positives = 40/100 (40%), Gaps = 19/100 (19%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKP 72
DGK +IT GIG+ A GA VI A++I E E ++
Sbjct: 1 DGKVALITAAAQGIGRAIALAFAREGANVI------------ATDIN---EEKLKELERG 45
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYC 112
+ + LD+ + + A++ + + +L N A +
Sbjct: 46 PGITTRVLDVTDKEQVAALAKEEGR----IDVLFNCAGFV 81
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 36.9 bits (85), Expect = 0.004
Identities = 28/101 (27%), Positives = 44/101 (43%), Gaps = 11/101 (10%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDV-EKAETTASEIRKHFEVATSE 68
+L+GK I+TG GIGK L GAKV++ E AE +E+
Sbjct: 2 VQLNGKVAIVTGGAKGIGKAITVALAQEGAKVVINYNSSKEAAENLVNELG--------- 52
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
K+ +V + D++ + ++ V IL+NNA
Sbjct: 53 -KEGHDVYAVQADVSKVEDANRLVEEAVNHFGKVDILVNNA 92
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 36.9 bits (85), Expect = 0.005
Identities = 29/105 (27%), Positives = 47/105 (44%), Gaps = 17/105 (16%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKV-IMACRDVEKAETTASEIRKHFEVATSEDK 70
LDGK ++TG + GIG+ A L GA V I R+ + A+ T EI +
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREI----------ES 53
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQT------EANVHILINNA 109
G+ + + DL S ++ + + + + IL+NNA
Sbjct: 54 NGGKAFLIEADLNSIDGVKKLVEQLKNELQIRVGTSEIDILVNNA 98
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 36.4 bits (84), Expect = 0.006
Identities = 30/99 (30%), Positives = 45/99 (45%), Gaps = 15/99 (15%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L G+ ++TG + GIG+ A+ L+ GA V + VEK E A+E+
Sbjct: 4 LSGRKALVTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAEL------------- 50
Query: 72 PGE-VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
GE V I +L+ ++ Q V IL+NNA
Sbjct: 51 -GERVKIFPANLSDRDEVKALGQKAEADLEGVDILVNNA 88
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 36.6 bits (85), Expect = 0.006
Identities = 22/96 (22%), Positives = 43/96 (44%), Gaps = 10/96 (10%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
K ++TG GIG A+ L G KV + + E A+ A ++ K G
Sbjct: 2 SKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSKD----------GG 51
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + K D++ + + + T ++++++NNA
Sbjct: 52 KAIAVKADVSDRDQVFAAVRQVVDTFGDLNVVVNNA 87
>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 = 36.4 bits (84), Expect = 0.007
Identities = 24/97 (24%), Positives = 38/97 (39%), Gaps = 10/97 (10%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKP 72
D + ++TG +GIG A+ L G +V + R E TT E+R +
Sbjct: 2 DSEVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELR----------EAG 51
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
E + D+ S I + +L+NNA
Sbjct: 52 VEADGRTCDVRSVPEIEALVAAAVARYGPIDVLVNNA 88
>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 = 36.3 bits (84), Expect = 0.007
Identities = 28/98 (28%), Positives = 43/98 (43%), Gaps = 3/98 (3%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GKT+ ITG + GIGK A GA V++A + E I + A +
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTI---YTAAEEIEAA 57
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ L +D+ +R + + + IL+NNA
Sbjct: 58 GGKALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNA 95
>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 = 36.0 bits (83), Expect = 0.007
Identities = 25/107 (23%), Positives = 38/107 (35%), Gaps = 15/107 (14%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK I+TG GIGK G KV+ A D E+ A +
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFADIDEERGADFAEAEGPN------------ 48
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCILSNNILF 120
+ D+A ++ + + + +L+NNA S IL
Sbjct: 49 -LFFVHGDVADETLVKFVVYAMLEKLGRIDVLVNNA--ARGSKGILS 92
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 36.1 bits (84), Expect = 0.007
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 6/61 (9%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACR------DVEKAETTASEIRKHFEVA 65
L G+ V++TG GIG A+ GA V++ R D AE A+++R +VA
Sbjct: 4 LTGRVVLVTGGTRGIGAGIARAFLAAGATVVVCGRRAPETVDGRPAEFHAADVRDPDQVA 63
Query: 66 T 66
Sbjct: 64 A 64
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 36.2 bits (84), Expect = 0.008
Identities = 28/102 (27%), Positives = 43/102 (42%), Gaps = 14/102 (13%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM----ACRDVEKAETTASEIRKHFEVATS 67
LD + V+ITG + G+G+ A L GA VI+ R +A+ A+ I
Sbjct: 4 LDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAG----- 58
Query: 68 EDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ L D+ F + R + + IL+NNA
Sbjct: 59 -----GKALGLAFDVRDFAATRAALDAGVEEFGRLDILVNNA 95
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 35.9 bits (83), Expect = 0.008
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 4/65 (6%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
RL GK V I G + G+G A GA+V + R+ K + + K+ +
Sbjct: 2 RLKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSKYGNIHYV--- 58
Query: 71 KPGEV 75
G+V
Sbjct: 59 -VGDV 62
>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 = 35.9 bits (83), Expect = 0.008
Identities = 25/103 (24%), Positives = 42/103 (40%), Gaps = 18/103 (17%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
GK ++TG GIG+ T + L GA+V+ R ++ E
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSLVREC------------- 51
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVYCIL 114
PG + +DL+ + + + + V +L+NNA IL
Sbjct: 52 PGIEPV-CVDLSDWDATEEALGSVGP----VDLLVNNAAVAIL 89
>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 = 35.8 bits (83), Expect = 0.010
Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 25/101 (24%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEK-AETTASEIRKHFEVATSEDKKPGEV 75
++TG + GIGK A L GA V++ R + A A+EI + G+
Sbjct: 1 ALVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIE----------ELGGKA 50
Query: 76 LIKKLDLASFKSIRDCAQDINQTEANVH-------ILINNA 109
++ + D++ QD+ + A V +L++NA
Sbjct: 51 VVVRADVS-------QPQDVEEMFAAVKERFGRLDVLVSNA 84
>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 = 35.9 bits (83), Expect = 0.010
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMA-CRDVEKAETTASEI 58
+ V++TG + G+G A++ GA+V++ R E AE A+E
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEA 45
>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 = 35.8 bits (83), Expect = 0.011
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
G TV++ G G+G + AQ GA+VI+ R EK E
Sbjct: 135 GDTVLVLGA-GGVGLLAAQLAKAAGARVIVTDRSDEKLE 172
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 35.6 bits (83), Expect = 0.011
Identities = 26/107 (24%), Positives = 38/107 (35%), Gaps = 17/107 (15%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEK-------AETTASEIRKHF 62
L GKT+ ITG + GIG A GA +++A + E T A EI
Sbjct: 2 MSLSGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAA- 60
Query: 63 EVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G+ L D+ + + + I +NNA
Sbjct: 61 ---------GGQALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNA 98
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 35.4 bits (82), Expect = 0.012
Identities = 27/97 (27%), Positives = 40/97 (41%), Gaps = 18/97 (18%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
KT++ITG +G G+ A L G VI + A ++ A
Sbjct: 2 SKTILITGAGSGFGREVALRLARKGHNVIAGVQ-------IAPQVTALRAEAARRG---L 51
Query: 74 EVLIKKLDLASFKSIRDCAQDINQT-EANVHILINNA 109
+ ++KLDL A D Q E +V +L+NNA
Sbjct: 52 ALRVEKLDLT-------DAIDRAQAAEWDVDVLLNNA 81
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 35.6 bits (82), Expect = 0.012
Identities = 20/49 (40%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKV-IMACRDVEKAETTASEIRK 60
K V+ITG + GIG+ TA G V I RD AE TA +R
Sbjct: 1 MRKVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRA 49
>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 = 35.2 bits (81), Expect = 0.014
Identities = 14/45 (31%), Positives = 25/45 (55%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
K ++TG + GIG+ TA+ L+ G +V + RD + A++
Sbjct: 1 KAALVTGASRGIGEATARLLHAEGYRVGICARDEARLAAAAAQEL 45
>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 = 35.1 bits (81), Expect = 0.018
Identities = 21/93 (22%), Positives = 35/93 (37%), Gaps = 17/93 (18%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVL 76
VI+TG GIG+ A+ L GA VI D+ + +
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIAL--DLP---------------FVLLLEYGDPLR 43
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ LD+A ++R+ + + L+N A
Sbjct: 44 LTPLDVADAAAVREVCSRLLAEHGPIDALVNCA 76
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 34.8 bits (80), Expect = 0.021
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 2 SASKAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMA 44
S++ ++ + RL GK ++TG TGIG+ + + GAKV +
Sbjct: 6 SSASSLPSQRLLGKVALVTGGATGIGESIVRLFHKHGAKVCIV 48
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 34.9 bits (81), Expect = 0.022
Identities = 22/96 (22%), Positives = 33/96 (34%), Gaps = 11/96 (11%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKV-IMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
++TG GIG A+ L G + I D E+ T E+R
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELRAL----------GV 52
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
EV+ D+A + + L+NNA
Sbjct: 53 EVIFFPADVADLSAHEAMLDAAQAAWGRIDCLVNNA 88
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 34.6 bits (80), Expect = 0.023
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVI 42
KTV+ITG +GIG A+ GA+V
Sbjct: 5 TKTVLITGAASGIGLAQARAFLAQGAQVY 33
>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 = 34.7 bits (80), Expect = 0.024
Identities = 25/96 (26%), Positives = 43/96 (44%), Gaps = 11/96 (11%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
GK ++TG +GIG A+ L GA V++A D E AE VA + P
Sbjct: 1 GKVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEK----------VAEAAQGGPR 50
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + + D+ S ++ + + I+++NA
Sbjct: 51 ALGV-QCDVTSEAQVQSAFEQAVLEFGGLDIVVSNA 85
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 34.6 bits (80), Expect = 0.024
Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 14/95 (14%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKA--ETTASEIRKHFEVATSEDKKPGE 74
V+ITG +G+G+ A G ++ +A DV + E T +R+ G+
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRLALA--DVNEEGGEETLKLLRE----------AGGD 50
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
++ D+ + + AQ + + +++NNA
Sbjct: 51 GFYQRCDVRDYSQLTALAQACEEKWGGIDVIVNNA 85
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 34.5 bits (80), Expect = 0.024
Identities = 31/134 (23%), Positives = 46/134 (34%), Gaps = 26/134 (19%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L K VI+TG +GIG + L GA ++ R E A E+R
Sbjct: 4 NLKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPDDE-FAEELR----------A 52
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA---------------VYCILS 115
++DL RD + + L+NNA V +
Sbjct: 53 LQPRAEFVQVDLTDDAQCRDAVEQTVAKFGRIDGLVNNAGVNDGVGLEAGREAFVASLER 112
Query: 116 NNILFYSILFYAIP 129
N I +Y + Y +P
Sbjct: 113 NLIHYYVMAHYCLP 126
>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 = 34.4 bits (79), Expect = 0.031
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 14/95 (14%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K + ITG + G+G A+TL G +V++ R ++A + PG
Sbjct: 8 KRIFITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAAC-------------PGA 54
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ DL+S R A +N +I+NA
Sbjct: 55 AGVLIGDLSSLAETRKLADQVNAI-GRFDAVIHNA 88
Score = 27.5 bits (61), Expect = 6.4
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 115 SNNILFYSILFYAIPG--KNVNVYAVHPGIVKTELG 148
S++ L L A+ K+V+ AVHPG V T++G
Sbjct: 159 SDSKLHVLTLAAAVARRWKDVSSNAVHPGWVPTKMG 194
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 34.2 bits (79), Expect = 0.031
Identities = 16/55 (29%), Positives = 24/55 (43%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEV 64
L G+ +ITG +GIG+ + GA+V + R EK + H V
Sbjct: 2 GWLHGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQRFGDHVLV 56
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 34.3 bits (79), Expect = 0.033
Identities = 27/111 (24%), Positives = 43/111 (38%), Gaps = 27/111 (24%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM---------ACRDVEKAETTASEIRKHF 62
LDG+ VI+TG GIG+ A GA+V++ + A+ EI
Sbjct: 4 LDGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIV--- 60
Query: 63 EVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEAN----VHILINNA 109
GE + D+A + D A ++ + +L+NNA
Sbjct: 61 -------AAGGEAVANGDDIADW----DGAANLVDAAVETFGGLDVLVNNA 100
>gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate
dehydratase/shikimate dehydrogenase.
Length = 529
Score = 34.4 bits (79), Expect = 0.037
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 2 SASKAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
S S S S L GK ++ G G GK A GA+V++A R E+A+ A +
Sbjct: 367 SGSSPASGSPLAGKLFVVIGAG-GAGKALAYGAKEKGARVVIANRTYERAKELADAV 422
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 33.9 bits (78), Expect = 0.040
Identities = 13/49 (26%), Positives = 23/49 (46%)
Query: 18 IITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVAT 66
++ G ++GIG A+ GA+V +A R ++ A + V T
Sbjct: 1 LVVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGGGAPVRT 49
>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 = 34.0 bits (78), Expect = 0.044
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTA 55
T++ITG +GIG TA+ L G VI D+ +A+ A
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVIGI--DLREADVIA 38
>gnl|CDD|240659 cd12183, LDH_like_2, D-Lactate and related Dehydrogenases,
NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-hydroxyisocaproic acid dehydrogenase (D-HicDH) and
shares the 2-domain structure of formate dehydrogenase.
D-2-hydroxyisocaproate dehydrogenase-like (HicDH)
proteins are NAD-dependent members of the
hydroxycarboxylate dehydrogenase family, and share the
Rossmann fold typical of many NAD binding proteins.
HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. 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.
Length = 328
Score = 33.6 bits (78), Expect = 0.054
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 3/32 (9%)
Query: 12 LDGKTVIITGCNTG-IGKVTAQTLYGIGAKVI 42
L GKTV + G TG IG+ A+ L G G +V+
Sbjct: 142 LHGKTVGVIG--TGKIGQAFARILKGFGCRVL 171
>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 = 33.7 bits (77), Expect = 0.059
Identities = 25/101 (24%), Positives = 42/101 (41%), Gaps = 3/101 (2%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM--ACRDVEKAETTASEIRKHFEVATSED 69
L+GK ITG G G+ A L GA +I C + T R+ +
Sbjct: 1 LEGKVAFITGAARGQGRAHAVRLAAEGADIIAIDLCAPLSDYPTYPLATREDLDETARLV 60
Query: 70 KKPG-EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ G +VL +K D+ +R +D + + +++ NA
Sbjct: 61 EALGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANA 101
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 33.2 bits (76), Expect = 0.069
Identities = 18/95 (18%), Positives = 31/95 (32%), Gaps = 12/95 (12%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
+T ++TG GIG+ A+ G +V+ D A +
Sbjct: 3 RTALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADAL------------GDAR 50
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ DL S+ + V +L+ NA
Sbjct: 51 FVPVACDLTDAASLAAALANAAAERGPVDVLVANA 85
>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 = 33.1 bits (76), Expect = 0.070
Identities = 21/96 (21%), Positives = 39/96 (40%), Gaps = 16/96 (16%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K ++TG + GIG A+ L G +V + R+ E ++ E + + P
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALSAS-GGDVEAVPYDARDP-- 57
Query: 75 VLIKKLDLASF-KSIRDCAQDINQTEANVHILINNA 109
D + ++RD I+ +L++NA
Sbjct: 58 -----EDARALVDALRDRFGRID-------VLVHNA 81
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 33.0 bits (76), Expect = 0.072
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
K ++I G + I + A+ GA++ +A RDVE+ E A ++R
Sbjct: 1 MKKILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLR 46
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 33.1 bits (76), Expect = 0.076
Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMAC-RDVEKAETTASEI 58
++ +TV++TG + G+G A+ GA+V++ + + AE A E+
Sbjct: 2 QISEQTVLVTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALADEL 50
>gnl|CDD|240631 cd12154, FDH_GDH_like, Formate/glycerate dehydrogenases, D-specific
2-hydroxy acid dehydrogenases and related
dehydrogenases. The formate/glycerate dehydrogenase
like family contains a diverse group of enzymes such as
formate dehydrogenase (FDH), glycerate dehydrogenase
(GDH), D-lactate dehydrogenase, L-alanine dehydrogenase,
and S-Adenosylhomocysteine hydrolase, that share a
common 2-domain structure. Despite often low sequence
identity, these proteins typically have a characteristic
arrangement of 2 similar domains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD(P) binding
domain is inserted within the linear sequence of the
mostly N-terminal catalytic domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD(P) is bound, primarily to
the C-terminal portion of the 2nd (internal) domain.
While many members of this family are dimeric, alanine
DH is hexameric and phosphoglycerate DH is tetrameric.
2-hydroxyacid dehydrogenases are enzymes that 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 dehydrogenase (FDH) catalyzes the NAD+-dependent
oxidation of formate ion to carbon dioxide with the
concomitant reduction of NAD+ to NADH. FDHs of this
family contain no metal ions or prosthetic groups.
Catalysis occurs though direct transfer of a hydride ion
to NAD+ without the stages of acid-base catalysis
typically found in related dehydrogenases.
Length = 310
Score = 33.0 bits (75), Expect = 0.085
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFE 63
A + GKTV++ G +GK AQ L G+GA+V++ +VE E K+ E
Sbjct: 152 LGGAPDVAGKTVVVVGAGV-VGKEAAQMLRGLGAQVLITDINVEALEQLEELGGKNVE 208
>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 = 32.8 bits (75), Expect = 0.090
Identities = 21/96 (21%), Positives = 38/96 (39%), Gaps = 11/96 (11%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG- 73
+ ++TG GIG Q L G +V C E+ + E G
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERA------EAWLQ----EQGALGF 50
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ + + D++SF+S + + + +L+NNA
Sbjct: 51 DFRVVEGDVSSFESCKAAVAKVEAELGPIDVLVNNA 86
>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 = 32.8 bits (75), Expect = 0.091
Identities = 28/99 (28%), Positives = 45/99 (45%), Gaps = 18/99 (18%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
K ++TG GIGK A+ L G V +A + E A+ TA EI ++ G+
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEI----------NQAGGK 50
Query: 75 VLIKKLDLAS----FKSIRDCAQDINQTEANVHILINNA 109
+ KLD++ F +I A+ +++NNA
Sbjct: 51 AVAYKLDVSDKDQVFSAIDQAAEKFGG----FDVMVNNA 85
>gnl|CDD|240625 cd05300, 2-Hacid_dh_1, Putative D-isomer specific 2-hydroxyacid
dehydrogenase. 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 subdomains 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. Formate dehydrogenase (FDH) catalyzes the
NAD+-dependent oxidation of formate ion to carbon
dioxide with the concomitant reduction of NAD+ to NADH.
FDHs of this family contain no metal ions or prosthetic
groups. Catalysis occurs though direct transfer of the
hydride ion to NAD+ without the stages of acid-base
catalysis typically found in related dehydrogenases.
FDHs are found in all methylotrophic microorganisms in
energy production and in the stress responses of plants.
Length = 313
Score = 32.9 bits (76), Expect = 0.10
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 11 RLDGKTVIITGCNTG-IGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR 59
L GKTV+I G G IG+ A+ G +VI R A E+
Sbjct: 131 ELAGKTVLIVG--LGDIGREIARRAKAFGMRVIGVRRSGRPAPPVVDEVY 178
>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 = 32.7 bits (75), Expect = 0.11
Identities = 21/97 (21%), Positives = 40/97 (41%), Gaps = 11/97 (11%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEK-AETTASEIRKHFEVATSEDKKP 72
K IITG GIG+ A+ L G +++A ++E+ A++T EI +
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEI----------SEAG 51
Query: 73 GEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ D+ + + + +++NNA
Sbjct: 52 YNAVAVGADVTDKDDVEALIDQAVEKFGSFDVMVNNA 88
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 32.5 bits (74), Expect = 0.14
Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 4/67 (5%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEV----ATSEDKKP 72
V++T + GIG A+ L GA+V+++ R+ E E E++++ EV A DK
Sbjct: 3 VLVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEYGEVYAVKADLSDKDD 62
Query: 73 GEVLIKK 79
+ L+K+
Sbjct: 63 LKNLVKE 69
>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
Length = 275
Score = 32.3 bits (74), Expect = 0.14
Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 15/96 (15%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKH-FEVATSEDKKPG 73
+ V++ G GIG+ A+ + G G KV++A + E E A +R+ F+V+T E
Sbjct: 3 EVVVVIGAG-GIGQAIARRV-GAGKKVLLADYNEENLEAAAKTLREAGFDVSTQE----- 55
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+D++S +S++ A QT V L++ A
Sbjct: 56 ------VDVSSRESVKALAA-TAQTLGPVTGLVHTA 84
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 32.5 bits (74), Expect = 0.14
Identities = 23/98 (23%), Positives = 36/98 (36%), Gaps = 21/98 (21%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L K I+TG + GIGK L G+ VI D+++ + +F+V S
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINF--DIKEPSYNDVD---YFKVDVS---N 55
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+V + + IL+NNA
Sbjct: 56 KEQV-------------IKGIDYVISKYGRIDILVNNA 80
>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 = 32.4 bits (74), Expect = 0.14
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVE-KAETTASEIRK 60
L GK ++TG + GIG+ A L GA V + R + + TA EI
Sbjct: 1 LSGKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEA 50
>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 = 32.4 bits (74), Expect = 0.15
Identities = 20/98 (20%), Positives = 37/98 (37%), Gaps = 17/98 (17%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGAKV-IMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
I+TG + GIG+ A L G + I D ++A +E+
Sbjct: 3 VAIVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLAA----------GRR 52
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEAN---VHILINNA 109
+ + D+ + D ++Q + + L+NNA
Sbjct: 53 AIYFQADIG---ELSDHEALLDQAWEDFGRLDCLVNNA 87
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 32.5 bits (75), Expect = 0.15
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMA 44
D ++ITG NTG GK T TL +G +MA
Sbjct: 326 DKTVLVITGPNTG-GK-TV-TLKTLGLAALMA 354
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 31.9 bits (73), Expect = 0.19
Identities = 20/98 (20%), Positives = 36/98 (36%), Gaps = 13/98 (13%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
K ITG + G G+ + G +V+ RD +A +K
Sbjct: 3 EKVWFITGASRGFGRAWTEAALERGDRVVATARDTAT-------------LADLAEKYGD 49
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
+L LD+ ++ + + + I++NNA Y
Sbjct: 50 RLLPLALDVTDRAAVFAAVETAVEHFGRLDIVVNNAGY 87
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 31.8 bits (73), Expect = 0.19
Identities = 20/93 (21%), Positives = 36/93 (38%), Gaps = 11/93 (11%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVL 76
V ITG ++GIG+ A+ GA + + R + + A+ + K V
Sbjct: 5 VFITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLP-----------KAARVS 53
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
+ D+ ++ A D ++I NA
Sbjct: 54 VYAADVRDADALAAAAADFIAAHGLPDVVIANA 86
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 32.0 bits (73), Expect = 0.21
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVI 42
L GKTV +TG + +G+ + L+ GAKV+
Sbjct: 176 LKGKTVAVTGASGTLGQALLKELHQQGAKVV 206
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 31.6 bits (71), Expect = 0.23
Identities = 34/105 (32%), Positives = 47/105 (44%), Gaps = 17/105 (16%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKV-IMACRDVEKAETTASEIRKH----FEVAT 66
L GK ++TG + GIG+ A+ L GA V I E+AE T EI+ + F +
Sbjct: 2 LKGKVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQSNGGSAFSIGA 61
Query: 67 SEDKKPG-EVLIKKLDLASFKSIRDCAQDINQT-EANVHILINNA 109
+ + G E L LD + N+T ILINNA
Sbjct: 62 NLESLHGVEALYSSLD----------NELQNRTGSTKFDILINNA 96
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 31.7 bits (72), Expect = 0.23
Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 15/94 (15%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE-V 75
V++TG G G+ + G KVI R E+ + E+ G+ +
Sbjct: 3 VLVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDEL--------------GDNL 48
Query: 76 LIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
I +LD+ + +I + + N+ +L+NNA
Sbjct: 49 YIAQLDVRNRAAIEEMLASLPAEWRNIDVLVNNA 82
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 31.7 bits (72), Expect = 0.23
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 5/51 (9%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDV---EKAETTASEIR 59
L GK ++TG G+G+ A L +GA V++ DV A EIR
Sbjct: 10 LSGKVAVVTGAAAGLGRAEALGLARLGATVVV--NDVASALDASDVLDEIR 58
>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 = 31.5 bits (72), Expect = 0.24
Identities = 20/95 (21%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
++TG IG+ A+ L G +V++ ++E A ++ +
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVHYN---RSEAEAQRLK-----DELNALRNSA 52
Query: 75 VLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
VL++ DL+ F + D + +L+NNA
Sbjct: 53 VLVQA-DLSDFAACADLVAAAFRAFGRCDVLVNNA 86
>gnl|CDD|176220 cd08259, Zn_ADH5, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. This group contains proteins that
share the characteristic catalytic and structural
zinc-binding sites of the zinc-dependent alcohol
dehydrogenase family. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine
(His-51), the ribose of NAD, a serine (Ser-48), then the
alcohol, which allows the transfer of a hydride to NAD+,
creating NADH and a zinc-bound aldehyde or ketone. In
yeast and some bacteria, the active site zinc binds an
aldehyde, polarizing it, and leading to the reverse
reaction.
Length = 332
Score = 31.9 bits (73), Expect = 0.25
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 2 SASKAVSASRL----DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
AV A + G TV++TG G+G Q +GA+VI R EK +
Sbjct: 147 VVGTAVHALKRAGVKKGDTVLVTGAGGGVGIHAIQLAKALGARVIAVTRSPEKLK 201
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase;
Validated.
Length = 253
Score = 31.4 bits (71), Expect = 0.26
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAET 53
L+GK ++TGC+TG+G+ A L G I+ VE ET
Sbjct: 8 LEGKVAVVTGCDTGLGQGMALGLAEAGCD-IVGINIVEPTET 48
>gnl|CDD|240636 cd12159, 2-Hacid_dh_2, 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 = 303
Score = 31.5 bits (72), Expect = 0.26
Identities = 34/120 (28%), Positives = 47/120 (39%), Gaps = 29/120 (24%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACR---DVEKAETTASEIR--------K 60
L G TV I G GIG+ L GAKVI R VE A+ T R
Sbjct: 123 LRGSTVAIVGAG-GIGRALIPLLAPFGAKVIAVNRSGRPVEGADETVPADRLDEVWPDAD 181
Query: 61 HFEVA---TSEDKKPGEVLIKKLDLASFKSIRDCAQDIN-------QTEANVHILINNAV 110
H +A T E + L+ D A+ +++ A +N T+A V L + +
Sbjct: 182 HVVLAAPLTPETRH----LV---DAAALAAMKPHAWLVNVARGPLVDTDALVDALRSGEI 234
>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 = 31.1 bits (71), Expect = 0.31
Identities = 23/99 (23%), Positives = 41/99 (41%), Gaps = 19/99 (19%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGAKVIMAC--RDVEKAETTASEIRKHFEVATSEDKKPG 73
+I+TG + GIG+ A+ L G+ ++ R E + E+R +
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELR--------PGLR-- 50
Query: 74 EVLIKKLDL---ASFKSIRDCAQDINQTEANVHILINNA 109
V K DL A + + + + ++ +LINNA
Sbjct: 51 -VTTVKADLSDAAGVEQLLEAIRKLDGERD---LLINNA 85
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 31.2 bits (71), Expect = 0.33
Identities = 23/99 (23%), Positives = 38/99 (38%), Gaps = 12/99 (12%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L GK +ITG + GIG A+ GA ++ + E + + R+
Sbjct: 8 LKGKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYREL---------- 57
Query: 72 PG-EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G E D+ ++ I + + IL+NNA
Sbjct: 58 -GIEAHGYVCDVTDEDGVQAMVSQIEKEVGVIDILVNNA 95
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 30.9 bits (70), Expect = 0.37
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 16/66 (24%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACR----------------DVEKAETTASEI 58
+TV++TG GIG + L +G +VI R D+E+ T ++I
Sbjct: 4 RTVLVTGATKGIGLALSLRLANLGHQVIGIARSAIDDFPGELFACDLADIEQTAATLAQI 63
Query: 59 RKHFEV 64
+ V
Sbjct: 64 NEIHPV 69
>gnl|CDD|240662 cd12186, LDH, D-Lactate dehydrogenase and D-2-Hydroxyisocaproic
acid dehydrogenase (D-HicDH), NAD-binding and catalytic
domains. D-Lactate dehydrogenase (LDH) catalyzes the
interconversion of pyruvate and lactate, and is a member
of the 2-hydroxyacid dehydrogenases family. LDH is
homologous to D-2-hydroxyisocaproic acid
dehydrogenase(D-HicDH) and shares the 2 domain structure
of formate dehydrogenase. D-HicDH is a NAD-dependent
member of the hydroxycarboxylate dehydrogenase family,
and shares the Rossmann fold typical of many NAD binding
proteins. HicDH from Lactobacillus casei forms a monomer
and catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. 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.
Length = 329
Score = 31.0 bits (71), Expect = 0.38
Identities = 15/28 (53%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 16 TVIITGCNTG-IGKVTAQTLYGIGAKVI 42
TV I G TG IG A+ G GAKVI
Sbjct: 147 TVGIIG--TGRIGSAAAKIFKGFGAKVI 172
>gnl|CDD|240622 cd05198, formate_dh_like, Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxy acid
dehydrogenase family. Formate dehydrogenase, D-specific
2-hydroxy acid dehydrogenase, Phosphoglycerate
Dehydrogenase, Lactate dehydrogenase, Thermostable
Phosphite Dehydrogenase, and Hydroxy(phenyl)pyruvate
reductase, among others, share a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. 2-hydroxyacid
dehydrogenases are enzymes that 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.
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. Formate dehydrogenase
(FDH) catalyzes the NAD+-dependent oxidation of formate
ion to carbon dioxide with the concomitant reduction of
NAD+ to NADH. FDHs of this family contain no metal ions
or prosthetic groups. Catalysis occurs though direct
transfer of hydride ion to NAD+ without the stages of
acid-base catalysis typically found in related
dehydrogenases. FDHs are found in all methylotrophic
microorganisms in energy production and in the stress
responses of plants. 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,
among others. While many members of this family are
dimeric, alanine DH is hexameric and phosphoglycerate DH
is tetrameric.
Length = 302
Score = 31.1 bits (71), Expect = 0.41
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 12 LDGKTVIITGCNTG-IGKVTAQTLYGIGAKVI 42
L+GKTV I G G IG+ A+ L G KV+
Sbjct: 138 LEGKTVGIVG--LGRIGQRVAKRLQAFGMKVL 167
>gnl|CDD|216527 pfam01488, Shikimate_DH, Shikimate / quinate 5-dehydrogenase.
This family contains both shikimate and quinate
dehydrogenases. Shikimate 5-dehydrogenase catalyzes the
conversion of shikimate to 5-dehydroshikimate. This
reaction is part of the shikimate pathway which is
involved in the biosynthesis of aromatic amino acids.
Quinate 5-dehydrogenase catalyzes the conversion of
quinate to 5-dehydroquinate. This reaction is part of
the quinate pathway where quinic acid is exploited as a
source of carbon in prokaryotes and microbial
eukaryotes. Both the shikimate and quinate pathways
share two common pathway metabolites 3-dehydroquinate
and dehydroshikimate.
Length = 133
Score = 30.0 bits (68), Expect = 0.46
Identities = 19/61 (31%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM-ACRDVEKAETTASEIRKHFEVATSE 68
L GK V++ G + ++ A+ L GAK I A R +EKA+ A E E +
Sbjct: 8 GDLKGKKVLLIG-AGEMARLAAKHLLSKGAKKITIANRTLEKAKELAEEFPVGGEALPLD 66
Query: 69 D 69
+
Sbjct: 67 E 67
>gnl|CDD|201784 pfam01418, HTH_6, Helix-turn-helix domain, rpiR family. This
domain contains a helix-turn-helix motif. The best
characterized member of this family is Escherichia coli
rpiR, a regulator of the expression of rpiB gene.
Length = 77
Score = 28.8 bits (65), Expect = 0.46
Identities = 12/48 (25%), Positives = 23/48 (47%)
Query: 55 ASEIRKHFEVATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANV 102
+I+ + T +KK + ++ D A SI + A+ +EA+V
Sbjct: 4 LEKIQSLYSKLTKSEKKIADYILASPDNAIHLSIAELAKAAGVSEASV 51
>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 = 30.8 bits (70), Expect = 0.48
Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 14/57 (24%)
Query: 123 ILFYAIPGKNVNVYAVHPGIVKTELGRYMDDTYFPGARTLGRVLMWWWMKTPEQGAQ 179
L Y + + + V ++PG + T L M ++ + EQ A+
Sbjct: 160 SLRYDVKKRGIRVTVINPGFIDTPLTANMFTMP--------------FLMSVEQAAK 202
Score = 29.6 bits (67), Expect = 1.2
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIR---KHFEVAT 66
V+ITG ++GIG+ A+ G V +A R ++ + +E+ EV
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNPSVEVEI 53
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 30.8 bits (70), Expect = 0.53
Identities = 25/99 (25%), Positives = 40/99 (40%), Gaps = 9/99 (9%)
Query: 12 LDGKTVIITGC-NTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDK 70
L GK V++T TGIG TA+ GA+V+++ + TA E+
Sbjct: 15 LAGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAELG------- 67
Query: 71 KPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G V D+ S + + + +L+NNA
Sbjct: 68 -LGRVEAVVCDVTSEAQVDALIDAAVERLGRLDVLVNNA 105
>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 = 30.6 bits (69), Expect = 0.53
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACR-DVEKAETTASEIR 59
V++TG + GIG+ A L G ++ + AE+ S I+
Sbjct: 1 VLVTGASRGIGRAIANRLAADGFEICVHYHSGRSDAESVVSAIQ 44
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 30.5 bits (69), Expect = 0.57
Identities = 18/53 (33%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMAC---RDVEKAETTASEIRK 60
LDG+ +TG +GIG+ A L GA V A R + TA I
Sbjct: 5 DLDGQVAFVTGAGSGIGQRIAIGLAQAGADV--ALFDLRTDDGLAETAEHIEA 55
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 30.3 bits (68), Expect = 0.60
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEK 50
G+ +ITG +GIG T GA+V++ DV+K
Sbjct: 4 FPGRGAVITGGASGIGLATGTEFARRGARVVLG--DVDK 40
>gnl|CDD|223991 COG1063, Tdh, Threonine dehydrogenase and related Zn-dependent
dehydrogenases [Amino acid transport and metabolism /
General function prediction only].
Length = 350
Score = 30.4 bits (69), Expect = 0.67
Identities = 16/76 (21%), Positives = 28/76 (36%), Gaps = 2/76 (2%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVA 65
A A+ G TV++ G IG + +GA V++ + A E +V
Sbjct: 161 AERAAVRPGGTVVVVGAGP-IGLLAIALAKLLGASVVIVVDRSPERLELAKE-AGGADVV 218
Query: 66 TSEDKKPGEVLIKKLD 81
+ + I +L
Sbjct: 219 VNPSEDDAGAEILELT 234
>gnl|CDD|240620 cd01619, LDH_like, D-Lactate and related Dehydrogenases,
NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH) and
shares the 2 domain structure of formate dehydrogenase.
D-HicDH is a NAD-dependent member of the
hydroxycarboxylate dehydrogenase family, and shares the
Rossmann fold typical of many NAD binding proteins.
D-HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. Similar to the structurally
distinct L-HicDH, D-HicDH exhibits low side-chain R
specificity, accepting a wide range of 2-oxocarboxylic
acid side chains. (R)-2-hydroxyglutarate dehydrogenase
(HGDH) catalyzes the NAD-dependent reduction of
2-oxoglutarate to (R)-2-hydroxyglutarate.
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.
Length = 323
Score = 30.3 bits (69), Expect = 0.72
Identities = 26/102 (25%), Positives = 38/102 (37%), Gaps = 22/102 (21%)
Query: 5 KAVSASRLDGKTVIITGCNTG-IGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFE 63
V L+ +TV + G TG IG+ AQ G G KVI D + K +
Sbjct: 134 AGVIGRELEDQTVGVVG--TGKIGRAVAQRAKGFGMKVI--AYDPFRNPELE---DKGVK 186
Query: 64 VATSEDKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHIL 105
+ E+ L K D+ S + T N H++
Sbjct: 187 YVSLEE------LFKNSDIISLH--------VPLTPENHHMI 214
>gnl|CDD|135642 PRK05884, PRK05884, short chain dehydrogenase; Provisional.
Length = 223
Score = 30.2 bits (68), Expect = 0.74
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
V++TG +T +G+ A+ G KV + + E A E+
Sbjct: 3 VLVTGGDTDLGRTIAEGFRNDGHKVTLVGARRDDLEVAAKEL 44
>gnl|CDD|237079 PRK12367, PRK12367, short chain dehydrogenase; Provisional.
Length = 245
Score = 30.0 bits (68), Expect = 0.79
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 1 MSASKAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVI 42
M + ++ S GK + ITG + +GK + GAKVI
Sbjct: 1 MPQADPMAQSTWQGKRIGITGASGALGKALTKAFRAKGAKVI 42
>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 = 29.9 bits (68), Expect = 0.83
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 128 IPGKNVNVYAVHPGIVKTELGRYMDDTYFPGA 159
G +N AV PG+V+ L Y D +FPG
Sbjct: 143 PRGIRIN--AVSPGVVEESLEAYGD--FFPGF 170
>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 = 29.8 bits (67), Expect = 0.83
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDV-----EKAETTASEIRKHFEVAT 66
K V+ITG +G+G TA L GAK+ + D+ E A+ EI EV
Sbjct: 4 KVVLITGGGSGLGLATAVRLAKEGAKLSLV--DLNEEGLEAAKAALLEIAPDAEVLL 58
>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 = 30.0 bits (68), Expect = 0.85
Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 1/66 (1%)
Query: 10 SRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
L G+ V++TG + G+G+ Q GA V+ +AE V +
Sbjct: 129 GPLLGRRVLVTGASGGVGRFAVQLAALAGAHVVAVVGSPARAEGLRELGAAE-VVVGGSE 187
Query: 70 KKPGEV 75
V
Sbjct: 188 LSGAPV 193
>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 = 29.4 bits (67), Expect = 0.90
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGAKVIMAC-RDVEKAETTASEIRK 60
T ++TG G+G A+ L GA+ ++ R + + +
Sbjct: 2 TYLVTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAE 47
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 29.6 bits (67), Expect = 1.1
Identities = 20/96 (20%), Positives = 38/96 (39%), Gaps = 8/96 (8%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
+ ++ G +G L G +V +A + EKA A EI + + G
Sbjct: 2 NQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEI--------NAEYGEG 53
Query: 74 EVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
D S +S+ ++ +++ V +L+ NA
Sbjct: 54 MAYGFGADATSEQSVLALSRGVDEIFGRVDLLVYNA 89
>gnl|CDD|213210 cd03243, ABC_MutS_homologs, ATP-binding cassette domain of MutS
homologs. The MutS protein initiates DNA mismatch
repair by recognizing mispaired and unpaired bases
embedded in duplex DNA and activating endo- and
exonucleases to remove the mismatch. Members of the
MutS family also possess a conserved ATPase activity
that belongs to the ATP binding cassette (ABC)
superfamily. MutS homologs (MSH) have been identified
in most prokaryotic and all eukaryotic organisms
examined. Prokaryotes have two homologs (MutS1 and
MutS2), whereas seven MSH proteins (MSH1 to MSH7) have
been identified in eukaryotes. The homodimer MutS1 and
heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily
involved in mitotic mismatch repair, whereas MSH4-MSH5
is involved in resolution of Holliday junctions during
meiosis. All members of the MutS family contain the
highly conserved Walker A/B ATPase domain, and many
share a common mechanism of action. MutS1, MSH2-MSH3,
MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding
clamps, and recognition of specific DNA structures or
lesions results in ADP/ATP exchange.
Length = 202
Score = 29.1 bits (66), Expect = 1.2
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 3/32 (9%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMA 44
G+ ++ITG N G GK T L IG V++A
Sbjct: 28 SGRLLLITGPNMG-GKSTY--LRSIGLAVLLA 56
>gnl|CDD|215107 PLN00220, PLN00220, tubulin beta chain; Provisional.
Length = 447
Score = 29.8 bits (67), Expect = 1.2
Identities = 31/118 (26%), Positives = 49/118 (41%), Gaps = 16/118 (13%)
Query: 24 TGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATS----EDKKPGEVLIKK 79
+G G A+ Y GA++I + DV + E + + F+V S G +LI K
Sbjct: 95 SGAGNNWAKGHYTEGAELIDSVLDVVRKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISK 154
Query: 80 ----------LDLASFKS--IRDCAQDINQTEANVHILINNAVYCILSNNILFYSILF 125
L + F S + D + +VH L+ NA C++ +N Y I F
Sbjct: 155 IREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICF 212
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 29.4 bits (66), Expect = 1.3
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 12/98 (12%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPG 73
G ++TG GIGK A L G +++ R+ +K + +V+ S K
Sbjct: 53 GSWALVTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLK----------DVSDSIQSKYS 102
Query: 74 EVLIKKLDLASFKSIRDCAQDINQT--EANVHILINNA 109
+ IK + + I + + I +T +V +LINN
Sbjct: 103 KTQIKTVVVDFSGDIDEGVKRIKETIEGLDVGVLINNV 140
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 29.6 bits (67), Expect = 1.3
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
G+TV++ G G+G Q +GA V+ EK E
Sbjct: 143 GETVLVHGAAGGVGSAAIQLAKALGATVVAVVSSSEKLE 181
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 29.5 bits (67), Expect = 1.3
Identities = 18/60 (30%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 14 GKTVIITGCNTGIGKVTAQ--TLYGIGAKVIMACRDVEKAETTASEIRKH--FEVATSED 69
G VI G N+ +G+ Q L GI K I RD E ++ V T E+
Sbjct: 147 GDWVIQNGANSAVGQAVIQLAKLLGI--KTINVVRDRPDLEELKERLKALGADHVLTEEE 204
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 29.6 bits (67), Expect = 1.3
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
G+TV++TG G+G Q +GAKVI KA+
Sbjct: 163 GETVLVTGAGGGVGIHAIQVAKALGAKVIAVTSSESKAK 201
>gnl|CDD|113491 pfam04723, GRDA, Glycine reductase complex selenoprotein A.
Found in clostridia, this protein contains one active
site selenocysteine and catalyzes the reductive
deamination of glycine, which is coupled to the
esterification of orthophosphate resulting in the
formation of ATP. A member of this family may also
exist in Treponema denticola.
Length = 150
Score = 28.7 bits (64), Expect = 1.3
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 10 SRLDGKTVIITGCNTGI-GKVTAQTLYGIGAKVIMA 44
S GK VII G GI G + L IGA+V +
Sbjct: 1 SIFQGKKVIIIGDRDGIPGPAIEECLKSIGAEVAFS 36
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 29.1 bits (65), Expect = 1.7
Identities = 18/56 (32%), Positives = 25/56 (44%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATS 67
L GK T + GIG A+ L GA VI+ R+ E + +I+ V S
Sbjct: 6 LSGKLAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESNVDVS 61
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 28.9 bits (65), Expect = 1.8
Identities = 25/99 (25%), Positives = 35/99 (35%), Gaps = 16/99 (16%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGE 74
+ VIITG + G+G+ A L G VI R K T +E
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVISISRTENKELTKLAEQYN------------SN 49
Query: 75 VLIKKLDLASFKSI----RDCAQDINQTEANVHILINNA 109
+ LDL + + I + + LINNA
Sbjct: 50 LTFHSLDLQDVHELETNFNEILSSIQEDNVSSIHLINNA 88
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 328
Score = 29.1 bits (66), Expect = 1.8
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
G +V+IT ++ +G Q GA VI R EK +
Sbjct: 145 GDSVLITAASSSVGLAAIQIANAAGATVIATTRTSEKRD 183
>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 = 29.3 bits (66), Expect = 1.8
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 1/54 (1%)
Query: 3 ASKAVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAK-VIMACRDVEKAETTA 55
A + +A T +ITG G+G + A+ L GA+ +++ R A
Sbjct: 139 ALELAAAPGGLDGTYLITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAA 192
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 29.1 bits (66), Expect = 1.8
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI 58
K++ ITG +GIG+ TA G +V + A+E+
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAEL 45
>gnl|CDD|133445 cd01076, NAD_bind_1_Glu_DH, NAD(P) binding domain of glutamate
dehydrogenase, subgroup 1. Amino acid dehydrogenase
(DH) is a widely distributed family of enzymes that
catalyzes the oxidative deamination of an amino acid to
its keto acid and ammonia with concomitant reduction of
NADP+. Glutamate DH is a multidomain enzyme that
catalyzes the reaction from glutamate to
2-oxyoglutarate and ammonia in the presence of NAD or
NADP. It is present in all organisms. Enzymes involved
in ammonia assimilation are typically NADP+-dependent,
while those involved in glutamate catabolism are
generally NAD+-dependent. 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 = 227
Score = 28.7 bits (65), Expect = 1.8
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVI 42
L G V I G +G A+ L+ GAKV+
Sbjct: 29 LAGARVAIQGFGN-VGSHAARFLHEAGAKVV 58
>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 = 29.1 bits (66), Expect = 1.9
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 12 LDGKTVIITGCNTG-IGKVTAQTLYGIGAKVIMACRDVEKAE 52
L GKTV I G G IG+ A+ L G +VI R ++ E
Sbjct: 135 LRGKTVGILG--YGHIGREIARLLKAFGMRVIGVSRSPKEDE 174
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 29.1 bits (65), Expect = 1.9
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIM 43
RL G+ +ITG ++GIG+ TA GA + +
Sbjct: 52 RLQGRKALITGADSGIGRATAIAFAREGADIAL 84
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 28.6 bits (64), Expect = 2.1
Identities = 22/98 (22%), Positives = 35/98 (35%), Gaps = 9/98 (9%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKK 71
L K I+TG + GIG A+ L G V A A E+ +
Sbjct: 3 LSNKVAIVTGASRGIGAAIARRLAADGFAV---------AVNYAGSAAAADELVAEIEAA 53
Query: 72 PGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNA 109
G + + D+A ++ + +L+NNA
Sbjct: 54 GGRAIAVQADVADAAAVTRLFDAAETAFGRIDVLVNNA 91
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 28.8 bits (65), Expect = 2.1
Identities = 27/103 (26%), Positives = 48/103 (46%), Gaps = 9/103 (8%)
Query: 9 ASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSE 68
+ +L GK +ITG ++GIG+ A GA + + D A+E ++ E E
Sbjct: 41 SGKLKGKVALITGGDSGIGRAVAVLFAKEGADIAIVYLD---EHEDANETKQRVE---KE 94
Query: 69 DKKPGEVLIKKLDLASFKSIRDCAQDINQTEANVHILINNAVY 111
K +LI D++ +D ++ + + IL+NNA +
Sbjct: 95 GVKC--LLIPG-DVSDEAFCKDAVEETVRELGRLDILVNNAAF 134
>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 = 28.7 bits (64), Expect = 2.1
Identities = 19/96 (19%), Positives = 37/96 (38%), Gaps = 12/96 (12%)
Query: 18 IITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSEDKKPGEVLI 77
++TG IG A L+ G +V++ A +T A ++P +
Sbjct: 5 VVTGAAKRIGSSIAVALHQEGYRVVLHYHRSAAAASTL--------AAELNARRPNSAVT 56
Query: 78 KKLDLASFKSIRDCAQDINQTE----ANVHILINNA 109
+ DL++ ++ + I +L+NNA
Sbjct: 57 CQADLSNSATLFSRCEAIIDACFRAFGRCDVLVNNA 92
>gnl|CDD|237634 PRK14179, PRK14179, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 284
Score = 28.6 bits (64), Expect = 2.2
Identities = 21/74 (28%), Positives = 29/74 (39%), Gaps = 10/74 (13%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEI--------RKHFE 63
L+GK ++ G + +GK AQ L A V + A + R HF
Sbjct: 156 LEGKHAVVIGRSNIVGKPMAQLLLDKNATVTLTHSRTRNLAEVARKADILVVAIGRGHF- 214
Query: 64 VATSEDKKPGEVLI 77
T E K G V+I
Sbjct: 215 -VTKEFVKEGAVVI 227
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 28.7 bits (64), Expect = 2.2
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 16 TVIITGCNTGIGKVTAQTLYGIGAKVIMAC 45
V+ITG +GIGK A G +VI AC
Sbjct: 3 AVLITGATSGIGKQLALDYAKQGWQVI-AC 31
>gnl|CDD|235465 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase;
Provisional.
Length = 352
Score = 28.6 bits (65), Expect = 2.3
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 17 VII--TGCNTGIGKVTAQTLYGIGAKVI 42
VI+ G GI K TA+ L G K I
Sbjct: 189 VIVKEVGF--GISKETAKRLADAGVKAI 214
>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 = 28.7 bits (64), Expect = 2.4
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 12 LDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRK 60
L K ++T GIG A+ L GA V+++ R + + + ++
Sbjct: 8 LANKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQG 56
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 28.5 bits (64), Expect = 2.7
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
+T +I G + G+G L G +V R ++
Sbjct: 2 RTALIIGASRGLGLGLVDRLLERGWQVTATVRGPQQDT 39
>gnl|CDD|200546 cd10920, CE4_WbmS, Catalytic domain of a putative polysaccharide
deacetylase WbmS from Bordetella bronchiseptica and
similar proteins. This family is represented by a
putative polysaccharide deacetylase encoded by the
O-antigen-related gene wbmS in Bordetella
bronchiseptica. Although its precise function remains
unknown, it has been suggested that WbmS might be
involved in the biosynthesis of O-antigen, an important
component of the gram-negative bacterial outer membrane,
and may also play a role in sugar phosphate transfer.
Structural superposition and sequence comparison show
that WbmS consists of a conserved domain similar to the
7-stranded barrel catalytic domain of polysaccharide
deacetylases (DACs) from the carbohydrate esterase 4
(CE4) superfamily, which removes N-linked acetyl groups
from cell wall polysaccharides.
Length = 233
Score = 28.3 bits (63), Expect = 2.8
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 110 VYCILSNNILFYSILFYAIPGKNVNVYAVHPG--IVKTELGRYMDD 153
+ C+ ++ F F+ PG + V+ HP + TE +D
Sbjct: 157 IACLYKLDLKFSQASFFEQPG--IKVFNFHPIHIYLNTESLERYED 200
>gnl|CDD|215072 PLN00141, PLN00141, Tic62-NAD(P)-related group II protein;
Provisional.
Length = 251
Score = 28.3 bits (63), Expect = 3.1
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASE 57
KTV + G GK + L G V RDV+KA+T+ +
Sbjct: 18 KTVFVAGATGRTGKRIVEQLLAKGFAVKAGVRDVDKAKTSLPQ 60
>gnl|CDD|234740 PRK00377, cbiT, cobalt-precorrin-6Y C(15)-methyltransferase;
Provisional.
Length = 198
Score = 27.8 bits (62), Expect = 3.4
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 1/56 (1%)
Query: 6 AVSASRL-DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRK 60
A+S RL G ++ GC TG V A L G KV +D + T K
Sbjct: 32 ALSKLRLRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEK 87
>gnl|CDD|130194 TIGR01124, ilvA_2Cterm, threonine ammonia-lyase, biosynthetic, long
form. This model describes a form of threonine
ammonia-lyase, a pyridoxal-phosphate dependent enzyme,
with two copies of the threonine dehydratase C-terminal
domain (pfam00585). Members with known function
participate in isoleucine biosynthesis and are inhibited
by isoleucine. Alternate name: threonine deaminase,
threonine dehydratase. Forms scoring between the trusted
and noise cutoff tend to branch with this subgroup of
threonine ammonia-lyase phylogenetically but have only a
single copy of the C-terminal domain [Amino acid
biosynthesis, Pyruvate family].
Length = 499
Score = 28.5 bits (64), Expect = 3.4
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKH 61
A SA+RL K +I+ T KV A + G G +V++ + + A+ A E+ +
Sbjct: 81 AFSAARLGLKALIVMPETTPDIKVDA--VRGFGGEVVLHGANFDDAKAKAIELSQE 134
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 28.0 bits (62), Expect = 3.5
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 7 VSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVA 65
V + RL + ++TG ++GIG+ A GA V ++ VE E A +++K E
Sbjct: 42 VGSGRLKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVE--EEDAQDVKKIIEEC 98
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 28.1 bits (63), Expect = 3.5
Identities = 21/71 (29%), Positives = 28/71 (39%), Gaps = 4/71 (5%)
Query: 15 KTVIITGCNTGIGKVTAQTLYGIGA-KVIMACRDVEKAETTASEIRKHFEVAT--SEDKK 71
+++ G G+G V A L G +V +A R EK A I E + D
Sbjct: 2 MKILVIGAG-GVGSVVAHKLAQNGDGEVTIADRSKEKCARIAELIGGKVEALQVDAADVD 60
Query: 72 PGEVLIKKLDL 82
LIK DL
Sbjct: 61 ALVALIKDFDL 71
>gnl|CDD|223210 COG0132, BioD, Dethiobiotin synthetase [Coenzyme metabolism].
Length = 223
Score = 28.0 bits (63), Expect = 3.6
Identities = 12/33 (36%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 15 KTVIITGCNTGIGKVT-----AQTLYGIGAKVI 42
K +TG +TG+GK AQ L G V
Sbjct: 3 KRFFVTGTDTGVGKTVVSAALAQALKQQGYSVA 35
>gnl|CDD|224756 COG1843, FlgD, Flagellar hook capping protein [Cell motility and
secretion].
Length = 222
Score = 27.8 bits (62), Expect = 3.6
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 1 MSASKAVSASRLDGKTVIITGCNTGIGKVTAQTLY 35
M++S+ + AS L GKTV++
Sbjct: 83 MTSSQTLQASNLIGKTVMVAD-GKVTLVDGTVKFV 116
>gnl|CDD|234592 PRK00045, hemA, glutamyl-tRNA reductase; Reviewed.
Length = 423
Score = 28.2 bits (64), Expect = 3.8
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 12 LDGKTVIITGCNTG-IGKVTAQTLYGIGAK-VIMACRDVEKAETTASEI 58
L GK V++ G G +G++ A+ L G + + +A R +E+AE A E
Sbjct: 180 LSGKKVLVIG--AGEMGELVAKHLAEKGVRKITVANRTLERAEELAEEF 226
>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 = 28.0 bits (63), Expect = 3.9
Identities = 14/39 (35%), Positives = 18/39 (46%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
G+TV+I G +GIG Q GA+V EK
Sbjct: 140 GETVLIHGGASGIGTTAIQLAKAFGARVFTTAGSDEKCA 178
>gnl|CDD|239205 cd02811, IDI-2_FMN, Isopentenyl-diphosphate:dimethylallyl
diphosphate isomerase type 2 (IDI-2) FMN-binding domain.
Two types of IDIs have been characterized at present.
The long known IDI-1 is only dependent on divalent
metals for activity, whereas IDI-2 requires a metal, FMN
and NADPH. IDI-2 catalyzes the interconversion of
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP) in the mevalonate pathway.
Length = 326
Score = 27.8 bits (63), Expect = 4.0
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 17 VII--TGCNTGIGKVTAQTLYGIGAKVI 42
VI+ G GI + TA+ L G K I
Sbjct: 181 VIVKEVGF--GISRETAKRLADAGVKAI 206
>gnl|CDD|221484 pfam12242, Eno-Rase_NADH_b, NAD(P)H binding domain of
trans-2-enoyl-CoA reductase. This family carries the
region of the enzyme trans-2-enoyl-CoA reductase,
EC:1.3.1.44, which binds NAD(P)H. The activity of the
enzyme was characterized in Euglena where an unusual
fatty acid synthesis path-way in the mitochondria
performs a malonyl-CoA independent synthesis of fatty
acids leading to accumulation of wax esters, which
serve as the sink for electrons stemming from
glycolytic ATP synthesis and pyruvate oxidation. The
full enzyme catalyzes the reduction of enoyl-CoA to
acyl-CoA. The binding site is conserved as GA/CSpGYG,
where p is any polar residue.
Length = 78
Score = 26.2 bits (58), Expect = 4.1
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 15 KTVIITGCNTGIGKVTAQTL-YGIGAKVIMACRD 47
K V++ G ++G G + L +G GA + +
Sbjct: 40 KKVLVIGASSGYGLASRIALAFGAGADTLGVFFE 73
>gnl|CDD|181834 PRK09414, PRK09414, glutamate dehydrogenase; Provisional.
Length = 445
Score = 28.2 bits (64), Expect = 4.1
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 12 LDGKTVIITGCNTGIGKV---TAQTLYGIGAKVIMACRD 47
+GK V+++G G V + +GAKV+ C D
Sbjct: 230 FEGKRVVVSGS----GNVAIYAIEKAQQLGAKVV-TCSD 263
>gnl|CDD|235952 PRK07187, PRK07187, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 721
Score = 28.1 bits (63), Expect = 4.2
Identities = 27/97 (27%), Positives = 38/97 (39%), Gaps = 19/97 (19%)
Query: 77 IKKLDLASFKSIRDCAQDINQTEANVH-----------ILINNAVY-----CILSNNILF 120
I+ LD S S CA I + A H L N +Y + ++ F
Sbjct: 434 IRALDRVSRVSDLSCAPSIEKGNAANHAVGLGAMNLHGFLATNHIYYDSKEAVDFTDLFF 493
Query: 121 YSILFYAIPGKNVNVYAVHPGIVKT-ELGRYMDDTYF 156
Y++ +YA K N A G EL +Y D +YF
Sbjct: 494 YTMAYYAF--KASNQLAKEKGAFAGFELSKYADGSYF 528
>gnl|CDD|217244 pfam02826, 2-Hacid_dh_C, D-isomer specific 2-hydroxyacid
dehydrogenase, NAD binding domain. This domain is
inserted into the catalytic domain, the large
dehydrogenase and D-lactate dehydrogenase families in
SCOP. N-terminal portion of which is represented by
family pfam00389.
Length = 175
Score = 27.4 bits (62), Expect = 4.3
Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 5 KAVSASRLDGKTVIITGCNTG-IGKVTAQTLYGIGAKVI 42
A+ L GKTV I G G IG+ A+ L G KVI
Sbjct: 26 DALLGRELSGKTVGIIG--LGRIGRAVARRLKAFGMKVI 62
>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 = 27.7 bits (62), Expect = 4.5
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 11 RLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASE 57
L G+ +ITG +G+G+ + GAKV + R EK ++
Sbjct: 1 WLKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEKVAELRAD 47
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 27.8 bits (62), Expect = 4.5
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 19 ITGCNTGIGKVTAQTLYGIGAKVIMA-CRDVEKAETTASEI 58
ITG G+G+ A+ + GAKV + D + A+EI
Sbjct: 4 ITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEI 44
>gnl|CDD|223411 COG0334, GdhA, Glutamate dehydrogenase/leucine dehydrogenase [Amino
acid transport and metabolism].
Length = 411
Score = 28.0 bits (63), Expect = 4.7
Identities = 27/114 (23%), Positives = 39/114 (34%), Gaps = 25/114 (21%)
Query: 12 LDGKTVIITGC-NTGIGKVTAQTLYGIGAKVIMACRDV------EKAETTASEIRKHFEV 64
L+G V + G N G A+ L+ +GAKV+ A D E + +
Sbjct: 205 LEGARVAVQGFGNVGQ--YAAEKLHELGAKVV-AVSDSKGGIYDEDGLDVEALLELKERR 261
Query: 65 ATSEDKKPGEVLIKKLDLASFKSIRDCAQDI-------NQ-TEANVHILINNAV 110
+ + E + + L DC DI N TE N L V
Sbjct: 262 GSVAEYAGAEYITNEELLEV-----DC--DILIPCALENVITEDNADQLKAKIV 308
>gnl|CDD|130197 TIGR01127, ilvA_1Cterm, threonine ammonia-lyase, medium form. A
form of threonine dehydratase with two copies of the
C-terminal domain pfam00585 is described by TIGR01124.
This model describes a phylogenetically distinct form
with a single copy of pfam00585. This form branches with
the catabolic threonine dehydratase of E. coli; many
members are designated as catabolic for this reason.
However, the catabolic form lacks any pfam00585 domain.
Many members of this model are found in species with
other Ile biosynthetic enzymes [Amino acid biosynthesis,
Pyruvate family].
Length = 380
Score = 27.8 bits (62), Expect = 5.3
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRK 60
A +A + K VI+ + KV A YG A+VI+ D ++A A+ + +
Sbjct: 64 AYAAKKFGIKAVIVMPESAPPSKVKATKSYG--AEVILHGDDYDEAYAFATSLAE 116
>gnl|CDD|132245 TIGR03201, dearomat_had, 6-hydroxycyclohex-1-ene-1-carbonyl-CoA
dehydrogenase. Members of this protein family are
6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase, an
enzyme in the anaerobic metabolism of aromatic enzymes
by way of benzoyl-CoA, as seen in Thauera aromatica,
Geobacter metallireducens, and Azoarcus sp. The
experimentally characterized form from T. aromatica uses
only NAD+, not NADP+. Note that Rhodopseudomonas
palustris uses a different pathway to perform a similar
degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA.
Length = 349
Score = 27.6 bits (61), Expect = 5.3
Identities = 18/47 (38%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 6 AVSASRLDGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
AV A G VI+ G G+G QT +GA V+ D EK E
Sbjct: 159 AVQAGLKKGDLVIVIGAG-GVGGYMVQTAKAMGAAVVAIDIDPEKLE 204
>gnl|CDD|176459 cd03586, PolY_Pol_IV_kappa, DNA Polymerase IV/Kappa. Pol IV, also
known as Pol kappa, DinB, and Dpo4, is a translesion
synthesis (TLS) polymerase. Translesion synthesis is a
process that allows the bypass of a variety of DNA
lesions. TLS polymerases lack proofreading activity and
have low fidelity and low processivity. They use
damaged DNA as templates and insert nucleotides opposite
the lesions. Known primarily as Pol IV in prokaryotes
and Pol kappa in eukaryotes, this polymerase has a
propensity for generating frameshift mutations. The
eukaryotic Pol kappa differs from Pol IV and Dpo4 by an
N-terminal extension of ~75 residues known as the
"N-clasp" region. The structure of Pol kappa shows DNA
that is almost totally encircled by Pol kappa, with the
N-clasp region augmenting the interactions between DNA
and the polymerase. Pol kappa is more resistant than Pol
eta and Pol iota to bulky guanine adducts and is
efficient at catalyzing the incorporation of dCTP.
Bacterial pol IV has a higher error rate than other
Y-family polymerases.
Length = 334
Score = 27.5 bits (62), Expect = 5.5
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 5/39 (12%)
Query: 25 GIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFE 63
G+GKVTA+ L +G I D+ A+ ++K F
Sbjct: 178 GVGKVTAEKLKELG---IKTIGDL--AKLDVELLKKLFG 211
>gnl|CDD|176210 cd08248, RTN4I1, Human Reticulon 4 Interacting Protein 1. Human
Reticulon 4 Interacting Protein 1 is a member of the
medium chain dehydrogenase/ reductase (MDR) family.
Riticulons are endoplasmic reticulum associated proteins
involved in membrane trafficking and neuroendocrine
secretion. The MDR/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 350
Score = 27.6 bits (62), Expect = 5.6
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMAC 45
GK V+I G + G+G Q L GA V C
Sbjct: 163 GKRVLILGGSGGVGTFAIQLLKAWGAHVTTTC 194
>gnl|CDD|240656 cd12179, 2-Hacid_dh_14, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
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 = 306
Score = 27.6 bits (62), Expect = 5.9
Identities = 19/40 (47%), Positives = 20/40 (50%), Gaps = 5/40 (12%)
Query: 12 LDGKTVIITGC-NTGIGKVTAQTLYGIGAKVIMACRDVEK 50
L GKTV I G N G K A+ L G G KVI D K
Sbjct: 136 LMGKTVGIIGYGNMG--KAFAKRLSGFGCKVI--AYDKYK 171
>gnl|CDD|197777 smart00534, MUTSac, ATPase domain of DNA mismatch repair MUTS
family.
Length = 185
Score = 27.1 bits (61), Expect = 6.6
Identities = 15/28 (53%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 17 VIITGCNTGIGKVTAQTLYGIGAKVIMA 44
VIITG N G GK T L + VIMA
Sbjct: 2 VIITGPNMG-GKST--YLRQVALIVIMA 26
>gnl|CDD|218507 pfam05221, AdoHcyase, S-adenosyl-L-homocysteine hydrolase.
Length = 430
Score = 27.4 bits (61), Expect = 6.6
Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 4/56 (7%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
GK ++ G +GK A +L G GA+VI+ D A A E ++V T E+
Sbjct: 210 GKVAVVCGYGD-VGKGCAASLRGQGARVIVTEIDPICALQAAME---GYQVVTLEE 261
>gnl|CDD|223466 COG0389, DinP, Nucleotidyltransferase/DNA polymerase involved in
DNA repair [DNA replication, recombination, and repair].
Length = 354
Score = 27.3 bits (61), Expect = 7.3
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 25 GIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHF 62
G+GKVTA+ L +G I D+ AET ++K F
Sbjct: 183 GVGKVTAEKLRRLG---ISTIGDL--AETDLDALKKRF 215
>gnl|CDD|213572 TIGR00936, ahcY, adenosylhomocysteinase. This enzyme hydrolyzes
adenosylhomocysteine as part of a cycle for the
regeneration of the methyl donor S-adenosylmethionine.
Species that lack this enzyme are likely to have
adenosylhomocysteine nucleosidase (EC 3.2.2.9), an
enzyme which also acts as 5'-methyladenosine
nucleosidase (see TIGR01704) [Energy metabolism, Amino
acids and amines].
Length = 407
Score = 27.4 bits (61), Expect = 7.9
Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 11/70 (15%)
Query: 12 LDGKTVIITG---CNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSE 68
+ GKTV++ G C GI A G+GA+VI+ D +A A + F V T E
Sbjct: 194 IAGKTVVVAGYGWCGKGI----AMRARGMGARVIVTEVDPIRALEAAMD---GFRVMTME 246
Query: 69 DK-KPGEVLI 77
+ K G++ I
Sbjct: 247 EAAKIGDIFI 256
>gnl|CDD|176216 cd08254, hydroxyacyl_CoA_DH, 6-hydroxycyclohex-1-ene-1-carboxyl-CoA
dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase,
and other MDR family members. This group contains
enzymes of the zinc-dependent alcohol dehydrogenase
family, including members (aka MDR) identified as
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase and
N-benzyl-3-pyrrolidinol dehydrogenase.
6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase
catalyzes the conversion of
6-Hydroxycyclohex-1-enecarbonyl-CoA and NAD+ to
6-Ketoxycyclohex-1-ene-1-carboxyl-CoA,NADH, and H+. This
group displays the characteristic catalytic and
structural zinc sites of the zinc-dependent alcohol
dehydrogenases. 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 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,
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 = 338
Score = 27.2 bits (61), Expect = 8.1
Identities = 23/82 (28%), Positives = 31/82 (37%), Gaps = 8/82 (9%)
Query: 13 DGKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKH--FEVATSEDK 70
G+TV++ G G+G Q +GA VI EK E ++ EV S D
Sbjct: 165 PGETVLVIGLG-GLGLNAVQIAKAMGAAVIAVDIKEEKLE----LAKELGADEVLNSLDD 219
Query: 71 KPGEVLIKKLDLASFKSIRDCA 92
P + L F I D
Sbjct: 220 SPKDKKAAGLGG-GFDVIFDFV 240
>gnl|CDD|109716 pfam00670, AdoHcyase_NAD, S-adenosyl-L-homocysteine hydrolase,
NAD binding domain.
Length = 162
Score = 26.5 bits (59), Expect = 9.0
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 14 GKTVIITGCNTG-IGKVTAQTLYGIGAKVIMACRDVEKAETTASEIRKHFEVATSED 69
GK ++ C G +GK A +L G GA+VI+ D A A E F+V T E+
Sbjct: 23 GKVAVV--CGYGDVGKGCAASLKGQGARVIVTEIDPICALQAAME---GFQVVTLEE 74
>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 = 26.6 bits (60), Expect = 9.6
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 14 GKTVIITGCNTGIGKVTAQTLYGIGAKVIMACRDVEKAE 52
G+TV+I G +G+G Q +GA+VI EK E
Sbjct: 140 GETVLIHGGASGVGTAAIQLAKALGARVIATAGSEEKLE 178
>gnl|CDD|181371 PRK08306, PRK08306, dipicolinate synthase subunit A; Reviewed.
Length = 296
Score = 26.7 bits (60), Expect = 10.0
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 26 IGKVTAQTLYGIGAKVIMACRD 47
G A+TL +GA V + R
Sbjct: 163 TGMTLARTLKALGANVTVGARK 184
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.134 0.396
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,709,140
Number of extensions: 985977
Number of successful extensions: 1565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1451
Number of HSP's successfully gapped: 337
Length of query: 222
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 129
Effective length of database: 6,812,680
Effective search space: 878835720
Effective search space used: 878835720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.6 bits)