RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4557
(958 letters)
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 241 bits (617), Expect = 3e-73
Identities = 95/243 (39%), Positives = 138/243 (56%), Gaps = 4/243 (1%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK 771
TL KV +TG+SSGIGE + L GAKVV ARR +RLE L + G+ +
Sbjct: 2 TTLKGKVALITGASSGIGEATARALAEAGAKVVLAARREERLEALA--DEIGAGAALALA 59
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
LDVT V+ + + E G IDILVNNAG+ +++ L++W+ MI+ N+KG+L+
Sbjct: 60 LDVTDRAAVEAAIEALPEEFGRIDILVNNAGLALGDPLDEADLDDWDRMIDTNVKGLLNG 119
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+LP M+ R+ GHI+N+ S AG P+ G AVY TK + S LRQE++ I+V
Sbjct: 120 TRAVLPGMV-ERKSGHIINLGSIAGRYPYPGGAVYGATKAAVRAFSLGLRQELAGTGIRV 178
Query: 892 TCIQAGDVKTELLSHSTDRDVVDKYD-ISKAVPVLTTKEISQSIIFALLQPSHSAVNSIL 950
T I G V+T S ++ D + K LT ++I+++++FA QP H +N I
Sbjct: 179 TVISPGLVETTEFSTVRFEGDDERADKVYKGGTALTPEDIAEAVLFAATQPQHVNINEIE 238
Query: 951 IEP 953
I P
Sbjct: 239 IMP 241
>gnl|CDD|187546 cd05235, SDR_e1, extended (e) SDRs, subgroup 1. This family
consists of an SDR module of multidomain proteins
identified as putative polyketide sythases fatty acid
synthases (FAS), and nonribosomal peptide synthases,
among others. However, unlike the usual ketoreductase
modules of FAS and polyketide synthase, these domains
are related to the extended SDRs, and have canonical
NAD(P)-binding motifs and an active site tetrad.
Extended SDRs are distinct from classical SDRs. In
addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 290
Score = 239 bits (611), Expect = 6e-72
Identities = 108/291 (37%), Positives = 161/291 (55%), Gaps = 3/291 (1%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKC-TLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNY 379
VLLTG TG+LG +LL++ L ++C VR + L+RL D + +Y ++L
Sbjct: 1 TVLLTGATGFLGAYLLRELLKRKNVSKIYCLVRAKDEEAALERLIDNLKEYGLNLWDELE 60
Query: 380 TDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKN 439
R+ +V DLS LGL + D+Y L+ E+D+IIH A VN + PY L +NVL TK
Sbjct: 61 LSRIKVVVGDLSKPNLGL-SDDDYQELAEEVDVIIHNGANVNWVYPYEELKPANVLGTKE 119
Query: 440 LIEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDFMTT-TSGYGQSKIVSEYLV 498
L++ + K+K H+VST S++ + N +D D + +GY QSK V+E L+
Sbjct: 120 LLKLAATGKLKPLHFVSTLSVFSAEEYNALDDEESDDMLESQNGLPNGYIQSKWVAEKLL 179
Query: 499 LNAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDIDWYLEFTPVDF 558
A GLPV+I+R GNI G E N D +LK +LG P L+ +PVD+
Sbjct: 180 REAANRGLPVAIIRPGNIFGDSETGIGNTDDFFWRLLKGCLQLGIYPISGAPLDLSPVDW 239
Query: 559 LTKSLVQLTTNVNNANKIYNFINTNPIHIKTLVSVLNTYGYNIKTVPYEKW 609
+ +++V+L N +N IY+ +N I + L+ L GY+IK V YE+W
Sbjct: 240 VARAIVKLALNESNEFSIYHLLNPPLISLNDLLDALEEKGYSIKEVSYEEW 290
>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 = 207 bits (529), Expect = 5e-61
Identities = 97/242 (40%), Positives = 129/242 (53%), Gaps = 4/242 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG+SSGIGE + L GA V ARR+DRLE L L+ G +V +LD
Sbjct: 1 LQGKVALVTGASSGIGEATARALAAEGAAVAIAARRVDRLEALADELEAEGGKALVLELD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT E V V + LG +DILVNNAG+M +E +W MI+ N+ G+++
Sbjct: 61 VTDEQQVDAAVERTVEALGRLDILVNNAGIMLLGPVEDADTTDWTRMIDTNLLGLMYTTH 120
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
LP L R G I+NISS AG AVY TK+ + S LRQEV++R ++V
Sbjct: 121 AALPHHL-LRNKGTIVNISSVAGRVAVRNSAVYNATKFGVNAFSEGLRQEVTERGVRVVV 179
Query: 894 IQAGDVKTELLSHSTD--RDVVDKYDISKAVPVLTTKEISQSIIFALLQPSHSAVNSILI 951
I+ G V TEL H T + IS L ++I+ ++ +A+ P H VN ILI
Sbjct: 180 IEPGTVDTELRDHITHTITKEAYEERISTIRK-LQAEDIAAAVRYAVTAPHHVTVNEILI 238
Query: 952 EP 953
P
Sbjct: 239 RP 240
>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 = 198 bits (505), Expect = 8e-58
Identities = 75/228 (32%), Positives = 127/228 (55%), Gaps = 7/228 (3%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
VTG+SSGIG + + L GAKVV R + L L +++ G+ + + DV+ E
Sbjct: 1 ALVTGASSGIGRAIARRLAREGAKVVLADRNEEALAEL-AAIEALGGNAVAVQADVSDEE 59
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
DV+ +V E L E G +DILVNNAG+ +E+ E+W+ +++VN+ GV LP
Sbjct: 60 DVEALVEEALEEFGRLDILVNNAGIARPGPLEELTDEDWDRVLDVNLTGVFLLTRAALPH 119
Query: 839 MLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGD 898
M + G I+NISS AG+RP G A Y +K +EG++ +L E++ I+V + G
Sbjct: 120 MKK-QGGGRIVNISSVAGLRPLPGQAAYAASKAALEGLTRSLALELAPYGIRVNAVAPGL 178
Query: 899 VKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIFALLQPSH 943
V T +L+ + + +++ A+P + T +E++++++F +
Sbjct: 179 VDTPMLAKLGPEE--AEKELAAAIPLGRLGTPEEVAEAVVFLASDEAS 224
>gnl|CDD|233557 TIGR01746, Thioester-redct, thioester reductase domain. This model
includes the terminal domain from the fungal alpha
aminoadipate reductase enzyme (also known as
aminoadipate semialdehyde dehydrogenase) which is
involved in the biosynthesis of lysine , as well as the
reductase-containing component of the myxochelin
biosynthetic gene cluster, MxcG. The mechanism of
reduction involves activation of the substrate by
adenylation and transfer to a covalently-linked
pantetheine cofactor as a thioester. This thioester is
then reduced to give an aldehyde (thus releasing the
product) and a regenerated pantetheine thiol. (In
myxochelin biosynthesis this aldehyde is further reduced
to an alcohol or converted to an amine by an
aminotransferase.) This is a fundamentally different
reaction than beta-ketoreductase domains of polyketide
synthases which act at a carbonyl two carbons removed
from the thioester and forms an alcohol as a product.
This domain is invariably found at the C-terminus of the
proteins which contain it (presumably because it results
in the release of the product). The majority of hits to
this model are non-ribosomal peptide synthetases in
which this domain is similarly located proximal to a
thiolation domain (pfam00550). In some cases this domain
is found at the end of a polyketide synthetase enzyme,
but is unlike ketoreductase domains which are found
before the thiolase domains. Exceptions to this observed
relationship with the thiolase domain include three
proteins which consist of stand-alone reductase domains
(GP|466833 from M. leprae, GP|435954 from Anabaena and
OMNI|NTL02SC1199 from Strep. coelicolor) and one protein
(OMNI|NTL01NS2636 from Nostoc) which contains N-terminal
homology with a small group of hypothetical proteins but
no evidence of a thiolation domain next to the putative
reductase domain. Below the noise cutoff to this model
are proteins containing more distantly related
ketoreductase and dehydratase/epimerase domains. It has
been suggested that a NADP-binding motif can be found in
the N-terminal portion of this domain that may form a
Rossman-type fold.
Length = 367
Score = 199 bits (509), Expect = 1e-56
Identities = 108/376 (28%), Positives = 175/376 (46%), Gaps = 28/376 (7%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVD-TKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNY 379
VLLTG TG+LG +LL++ L T+ + C VR + ++RL + + Y L +
Sbjct: 1 TVLLTGATGFLGAYLLEELLRRSTQAKVICLVRAASEEHAMERLREALRSY--RLWHEDL 58
Query: 380 T-DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATK 438
+R+ +V DLS LGL + E+ L+ +D I+H A VN + PY+ L +NVL T+
Sbjct: 59 ARERIEVVAGDLSEPRLGL-SDAEWERLAENVDTIVHNGALVNWVYPYSELRGANVLGTR 117
Query: 439 NLIEFSFLNKIKSFHYVSTDSIY-PSTSENFQEDYTVADFDDFMT----TTSGYGQSKIV 493
++ + + K HYVST S+ ED D +T GY QSK V
Sbjct: 118 EVLRLAASGRAKPLHYVSTISVGAAIDLSTVTED------DATVTPPPGLAGGYAQSKWV 171
Query: 494 SEYLVLNAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDIDWYLE- 552
+E LV A GLPV+IVR G I G+ N D+ ++K LG P E
Sbjct: 172 AELLVREASDRGLPVTIVRPGRILGNSYTGAINSSDILWRMVKGCLALGAYPQSPELTED 231
Query: 553 FTPVDFLTKSLVQLTTNVNNA--NKIYNFINTNPIHIKTLVSVLNTYGYNIKTVPYEKWF 610
TPVDF+ +++V L++ + +++ +N P+ + + L GYN++ V +++W
Sbjct: 232 LTPVDFVARAIVVLSSRPAASAGGPVFHVVNPEPVSLDEFLDWLERAGYNLRLVSFDEWL 291
Query: 611 HKLNKRELSE---------PLIQILRNKGKEYLTVNNSYCQRNTLALLKSCDETYPETND 661
+L + ++ PL+ L +E + R+T L+ P
Sbjct: 292 QRLEDSDGAKRDPRRYPLLPLLHFLGAGFEEPEFDTRNLDSRSTAEALEGDGIREPSITA 351
Query: 662 HTVRQFLDNLRNSNLL 677
+ +L L+ L
Sbjct: 352 PLLHLYLQYLKEIGFL 367
>gnl|CDD|225857 COG3320, COG3320, Putative dehydrogenase domain of multifunctional
non-ribosomal peptide synthetases and related enzymes
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 382
Score = 187 bits (477), Expect = 3e-52
Identities = 102/363 (28%), Positives = 152/363 (41%), Gaps = 26/363 (7%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
NVLLTG TG+LG +LL + L + + C VR ++ L RLE Y +L
Sbjct: 2 NVLLTGATGFLGAYLLLELLDRSDAKVICLVRAQSDEAALARLEKTFDLYRHWDEL--SA 59
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKNL 440
DR+ +V DL+ LGL + + L+ +D+IIH AA VN + PY+ L +NVL T +
Sbjct: 60 DRVEVVAGDLAEPDLGLSERT-WQELAENVDLIIHNAALVNHVFPYSELRGANVLGTAEV 118
Query: 441 IEFSFLNKIKSFHYVST----DSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEY 496
+ + K K HYVS+ ++ Y S D + GYG+SK V+E
Sbjct: 119 LRLAATGKPKPLHYVSSISVGETEYYSNFTV-DFDEISPTRNVGQGLAGGYGRSKWVAEK 177
Query: 497 LVLNAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDIDWYLEFTPV 556
LV AG GLPV+I R G I G N D ++ + +LG APD ++ L+ PV
Sbjct: 178 LVREAGDRGLPVTIFRPGYITGDSRTGALNTRDFLTRLVLGLLQLGIAPDSEYSLDMLPV 237
Query: 557 DFLTKSLVQLTTNVNNANKIYNFINTNPIHIKTLVSVLNTYGYNIKTVPYEKWFHKLNKR 616
D + +++V + V A I + I L + T+ I Y W L
Sbjct: 238 DHVARAVVAPSVQV--AEAIAALGAHSDIRFNQL--HMLTHPDEIGLDEYVDWLISL-DI 292
Query: 617 ELSEPLIQILRN----------KGKEYLTVNNSYCQ-RNTLALLKSCDETYPETNDHTVR 665
+ +L N + + + LK + T
Sbjct: 293 AGYPEWLMVLDNSAPALDERQRRASLLPLLAWTNVDLTAPAFPLKGSMPPT--LSFRTAV 350
Query: 666 QFL 668
Sbjct: 351 ALA 353
>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 = 179 bits (456), Expect = 6e-51
Identities = 86/241 (35%), Positives = 137/241 (56%), Gaps = 7/241 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL-QNAPGSIIVKKLDVT 775
K + +TG+SSGIGE + GAK++ RR +RL+ L L P ++ +LDV+
Sbjct: 1 KTVLITGASSGIGEATARRFAKAGAKLILTGRRAERLQELADELGAKFPVKVLPLQLDVS 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAG-VMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
++ + + E IDILVNNAG + ++ LE+W MI+ N+KG+L+
Sbjct: 61 DRESIEAALENLPEEFRDIDILVNNAGLALGLDPAQEADLEDWETMIDTNVKGLLNVTRL 120
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
ILP M+ +R GHI+N+ S AG P+AG VY TK + S LR+++ I+VT I
Sbjct: 121 ILPIMI-ARNQGHIINLGSIAGRYPYAGGNVYCATKAAVRQFSLNLRKDLIGTGIRVTNI 179
Query: 895 QAGDVKTE--LLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQPSHSAVNSILIE 952
+ G V+TE L+ D++ DK + + V LT ++I+++I++ +P+H +N I I
Sbjct: 180 EPGLVETEFSLVRFHGDKEKADK--VYEGVEPLTPEDIAETILWVASRPAHVNINDIEIM 237
Query: 953 P 953
P
Sbjct: 238 P 238
>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 = 173 bits (441), Expect = 6e-49
Identities = 75/195 (38%), Positives = 107/195 (54%), Gaps = 4/195 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
KV+ +TG SSGIG L L G +V+A AR D+LE+L L ++ V +LDVT
Sbjct: 1 KVVLITGCSSGIGLALALALAAQGYRVIATARNPDKLESLGELL---NDNLEVLELDVTD 57
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
E +K V+EV+ G ID+LVNNAG F +E+ +EE + VN+ G L L
Sbjct: 58 EESIKAAVKEVIERFGRIDVLVNNAGYGLFGPLEETSIEEVRELFEVNVFGPLRVTRAFL 117
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
P M + G I+N+SS AG+ P L Y +K +E +S +LR E++ IKVT I+
Sbjct: 118 PLMR-KQGSGRIVNVSSVAGLVPTPFLGPYCASKAALEALSESLRLELAPFGIKVTIIEP 176
Query: 897 GDVKTELLSHSTDRD 911
G V+T ++
Sbjct: 177 GPVRTGFADNAAGSA 191
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 170 bits (434), Expect = 8e-48
Identities = 79/226 (34%), Positives = 122/226 (53%), Gaps = 6/226 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPG-SIIVKKL 772
+ K +TG+SSGIG +L K L G ++ VARR D+LE L L++ G + V
Sbjct: 4 MKGKTALITGASSGIGAELAKQLARRGYNLILVARREDKLEALAKELEDKTGVEVEVIPA 63
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D++ ++++ E+ G ID+LVNNAG F + L+E MI +NI +
Sbjct: 64 DLSDPEALERLEDELKERGGPIDVLVNNAGFGTFGPFLELSLDEEEEMIQLNILALTRLT 123
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+LP M+ R GHI+NI S AG+ P +AVY+ TK F+ S ALR+E+ +KVT
Sbjct: 124 KAVLPGMV-ERGAGHIINIGSAAGLIPTPYMAVYSATKAFVLSFSEALREELKGTGVKVT 182
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFAL 938
+ G +TE D D Y +S VL+ ++++++ + AL
Sbjct: 183 AVCPGPTRTEF----FDAKGSDVYLLSPGELVLSPEDVAEAALKAL 224
>gnl|CDD|219687 pfam07993, NAD_binding_4, Male sterility protein. This family
represents the C-terminal region of the male sterility
protein in a number of arabidopsis and drosophila. A
sequence-related jojoba acyl CoA reductase is also
included.
Length = 245
Score = 165 bits (420), Expect = 4e-46
Identities = 87/248 (35%), Positives = 124/248 (50%), Gaps = 11/248 (4%)
Query: 324 LTGVTGYLGIHLLQKFLVDTKC-TLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTDR 382
LTG TG+LG LL+K L T ++C VR ++ L+RL +LKY + L +R
Sbjct: 1 LTGATGFLGKVLLEKLLRSTPEVKIYCLVRAKDGESALERLRQELLKYGLFDRLK-ALER 59
Query: 383 LILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKNLIE 442
+I V DLS LGL + +++ L+ E+D+IIH AA VN + PY+ L +NVL T+ ++
Sbjct: 60 IIPVAGDLSEPNLGL-SDEDFQELAEEVDVIIHNAATVNFVEPYSDLRATNVLGTREVLR 118
Query: 443 FSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDF---MTTTSGYGQSKIVSEYLVL 499
+ K FH+VST + +E D D+ +GY QSK ++E LV
Sbjct: 119 LAKQMKKLPFHHVSTAYVNGERGGLLEEKPYKLDEDEPALLGGLPNGYTQSKWLAEQLVR 178
Query: 500 NAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDI----DWYLEFTP 555
A GLPV I R I G N D L LG PDI D L+ P
Sbjct: 179 EAAG-GLPVVIYRPSIITGESRTGWINGDDFGPRGLLGGAGLGVLPDILGDPDARLDLVP 237
Query: 556 VDFLTKSL 563
VD++ ++
Sbjct: 238 VDYVANAI 245
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 165 bits (420), Expect = 4e-46
Identities = 67/212 (31%), Positives = 107/212 (50%), Gaps = 5/212 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR-IDRLENLKTSLQNAPGSIIVKKL 772
L KV VTG+S GIG + + L GA VV E L + G + +
Sbjct: 3 LEGKVALVTGASRGIGRAIAERLAAQGANVVINYASSEAGAEALVAEIGALGGKALAVQG 62
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV+ V++ V E AE G +DILVNNAG+ L+ + K E+W+ +I+ N+ GV +
Sbjct: 63 DVSDAESVERAVDEAKAEFGGVDILVNNAGITRDNLLMRMKEEDWDRVIDTNLTGVFNLT 122
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ M+ +R G I+NISS G+ G A Y +K + G + +L +E++ R I V
Sbjct: 123 KAVARPMM-KQRSGRIINISSVVGLMGNPGQANYAASKAGVIGFTKSLARELASRGITVN 181
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAVPV 924
+ G ++T++ + DV + I +P+
Sbjct: 182 AVAPGFIETDMTDALPE-DVKEA--ILAQIPL 210
>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 = 163 bits (415), Expect = 2e-45
Identities = 71/246 (28%), Positives = 117/246 (47%), Gaps = 12/246 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRL---ENLKTSLQNAPGSIIVK 770
L+ KV VTG+SSGIG + + L GA+VV ARR + + G
Sbjct: 3 LSGKVALVTGASSGIGRAIARALAREGARVVVAARRSEEEAAEALAAAIKEAGGGRAAAV 62
Query: 771 KLDVT-IENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKGV 828
DV+ E V+ +V E G IDILVNNAG+ +E+ E+W+ +I+VN+ G
Sbjct: 63 AADVSDDEESVEALVAAAEEEFGRIDILVNNAGIAGPDAPLEELTEEDWDRVIDVNLLGA 122
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
LP M + I+NISS AG+ G A Y +K + G++ AL E++ R
Sbjct: 123 FLLTRAALPLM----KKQRIVNISSVAGLGGPPGQAAYAASKAALIGLTKALALELAPRG 178
Query: 889 IKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIFALLQPSHSA 945
I+V + G + T + + ++ ++ +P + T +E++ ++ F + S
Sbjct: 179 IRVNAVAPGYIDTPMTAALESAELEALKRLAARIPLGRLGTPEEVAAAVAFLASDEAASY 238
Query: 946 VNSILI 951
+ +
Sbjct: 239 ITGQTL 244
>gnl|CDD|234212 TIGR03443, alpha_am_amid, L-aminoadipate-semialdehyde dehydrogenase.
Members of this protein family are
L-aminoadipate-semialdehyde dehydrogenase (EC 1.2.1.31),
product of the LYS2 gene. It is also called
alpha-aminoadipate reductase. In fungi, lysine is
synthesized via aminoadipate. Currently, all members of
this family are fungal.
Length = 1389
Score = 174 bits (443), Expect = 2e-44
Identities = 129/475 (27%), Positives = 229/475 (48%), Gaps = 52/475 (10%)
Query: 176 LKSSGKLNKEELPKLDSIAQIEL----------DESMFQSQKNIAKIWCKIL--NLYTLD 223
L +GK++K LP D+ AQ+ DE ++++ I +W ++L T+
Sbjct: 811 LNPNGKVDKPALPFPDT-AQLAAVAKNRSASAADEEFTETEREIRDLWLELLPNRPATIS 869
Query: 224 KDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLENKSN------- 276
D++FF++GGHS+ A I ++ ++L++ L + +F PT++ A ++
Sbjct: 870 PDDSFFDLGGHSILATRMIFELRKKLNVELPLGLIFKSPTIKGFAKEVDRLKKGEELADE 929
Query: 277 ETLKLDLIHEIDVNSY----KSLDENLNVRVQCFWKSVQLNSNKLKYGNVLLTGVTGYLG 332
+++ + Y K+L ++L + +L+++ V LTG TG+LG
Sbjct: 930 GDSEIEEEETVLELDYAKDAKTLVDSLPKS---YPSRKELDASTPI--TVFLTGATGFLG 984
Query: 333 IHLLQKFL-----VDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTDRLILVK 387
+L+ L + K +F VR + L+RL Y + + + R+ +V
Sbjct: 985 SFILRDLLTRRSNSNFK--VFAHVRAKSEEAGLERLRKTGTTYGIWDE--EWASRIEVVL 1040
Query: 388 SDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKNLIEFSFLN 447
DLS E GL + +++ L+ E+D+IIH A V+ + PY+ L +NV+ T N++
Sbjct: 1041 GDLSKEKFGL-SDEKWSDLTNEVDVIIHNGALVHWVYPYSKLRDANVIGTINVLNLCAEG 1099
Query: 448 KIKSFHYVSTDSI-----YPSTSENFQED--YTVADFDDFMTT----TSGYGQSKIVSEY 496
K K F +VS+ S Y + S+ + + + DD M + +GYGQSK V+EY
Sbjct: 1100 KAKQFSFVSSTSALDTEYYVNLSDELVQAGGAGIPESDDLMGSSKGLGTGYGQSKWVAEY 1159
Query: 497 LVLNAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDIDWYLEFTPV 556
++ AG+ GL IVR G + G + N D L +LK +LG P+I+ + PV
Sbjct: 1160 IIREAGKRGLRGCIVRPGYVTGDSKTGATNTDDFLLRMLKGCIQLGLIPNINNTVNMVPV 1219
Query: 557 DFLTKSLVQLTTNVNNANKIYNF-INTNP-IHIKTLVSVLNTYGYNIKTVPYEKW 609
D + + +V N +++ + +P I + L TYGY+++ V Y W
Sbjct: 1220 DHVARVVVAAALNPPKESELAVAHVTGHPRIRFNDFLGTLKTYGYDVEIVDYVHW 1274
Score = 68.9 bits (169), Expect = 1e-11
Identities = 46/146 (31%), Positives = 77/146 (52%), Gaps = 20/146 (13%)
Query: 13 GALHYMFRNQAKRTPDKIAVV--------DHDGRSITFKQLDEWTDIVGTYLINQGCIVG 64
GA+H +F + A++ PD+ VV RS T+KQ++E ++I+ YL+ G G
Sbjct: 236 GAIHDIFADNAEKHPDRTCVVETPSFLDPSSKTRSFTYKQINEASNILAHYLLKTGIKRG 295
Query: 65 STVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPS--IVITKG--- 119
V + R ++ ++ + + KAG + ++ +YPPA L AKP IVI K
Sbjct: 296 DVVMIYAYRGVDLVVAVMGVLKAGATFSVIDPAYPPARQTIYLSVAKPRALIVIEKAGTL 355
Query: 120 -----EYMDR-LE-RTSVPKVKLEND 138
+Y+D+ LE RT +P + L++D
Sbjct: 356 DQLVRDYIDKELELRTEIPALALQDD 381
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 161 bits (410), Expect = 3e-44
Identities = 68/205 (33%), Positives = 102/205 (49%), Gaps = 8/205 (3%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
K +TG SSG G L + + G +VV R + + P + + LDVT
Sbjct: 4 MKTWLITGVSSGFGRALAQAALAAGHRVVGTVRSEAARADFEAL---HPDRALARLLDVT 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+ + VV + A G ID+LVNNAG + +E+ L E VN+ G + +
Sbjct: 61 DFDAIDAVVADAEATFGPIDVLVNNAGYGHEGAIEESPLAEMRRQFEVNVFGAVAMTKAV 120
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
LP M +RR GHI+NI+S G+ G+ Y G+K+ +EGIS +L +EV+ I VT ++
Sbjct: 121 LPGM-RARRRGHIVNITSMGGLITMPGIGYYCGSKFALEGISESLAKEVAPFGIHVTAVE 179
Query: 896 AGDVKTELLSHS---TDRDVVDKYD 917
G +T+ S T R + YD
Sbjct: 180 PGSFRTDWAGRSMVRTPR-SIADYD 203
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 159 bits (404), Expect = 4e-44
Identities = 77/242 (31%), Positives = 119/242 (49%), Gaps = 12/242 (4%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK 771
+L KV +TG S GIG + + L+ G KV AR LE L N + +
Sbjct: 2 MSLKGKVALITGGSKGIGFAIAEALLAEGYKVAITARDQKELEEAAAELNNKGNVLGLAA 61
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DV E DV++ V ++A G +D+L+ NAGV +F +E+ EEW +I+ N+ G +
Sbjct: 62 -DVRDEADVQRAVDAIVAAFGGLDVLIANAGVGHFAPVEELTPEEWRLVIDTNLTGAFYT 120
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
I +P++ R G+I+NISS AG FAG A Y +K+ + G S A ++ IKV
Sbjct: 121 IKAAVPAL--KRGGGYIINISSLAGTNFFAGGAAYNASKFGLVGFSEAAMLDLRQYGIKV 178
Query: 892 TCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQPSHSAVNSILI 951
+ I G V T H+ D + I ++I+Q ++ L P + + I +
Sbjct: 179 STIMPGSVATHFNGHTPSEK--DAWKIQP-------EDIAQLVLDLLKMPPRTLPSKIEV 229
Query: 952 EP 953
P
Sbjct: 230 RP 231
>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 = 160 bits (406), Expect = 5e-44
Identities = 68/191 (35%), Positives = 105/191 (54%), Gaps = 2/191 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTS-LQNAPGSIIVKKL 772
L KV+ +TG+SSGIGE+L L LGA++V ARR +RLE +K+ L+ S V L
Sbjct: 1 LQGKVVIITGASSGIGEELAYHLARLGARLVLSARREERLEEVKSECLELGAPSPHVVPL 60
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D++ D ++VV E L G +DIL+NNAG+ +L ++ ++ VN G +
Sbjct: 61 DMSDLEDAEQVVEEALKLFGGLDILINNAGISMRSLFHDTSIDVDRKIMEVNYFGPVALT 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
LP ++ R G I+ +SS AG Y +K+ ++G +LR E+S+ NI VT
Sbjct: 121 KAALPHLI-ERSQGSIVVVSSIAGKIGVPFRTAYAASKHALQGFFDSLRAELSEPNISVT 179
Query: 893 CIQAGDVKTEL 903
+ G + T +
Sbjct: 180 VVCPGLIDTNI 190
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 158 bits (401), Expect = 3e-43
Identities = 74/189 (39%), Positives = 98/189 (51%), Gaps = 11/189 (5%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV VTG+SSGIG+ + L G V ARR+D++E+L A + LDVT
Sbjct: 3 KKVALVTGASSGIGKATARRLAAQGYTVYGAARRVDKMEDL------ASLGVHPLSLDVT 56
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
E +K V ++AE G ID+LVNNAG + +E ++E VN+ G +
Sbjct: 57 DEASIKAAVDTIIAEEGRIDVLVNNAGYGSYGAIEDVPIDEARRQFEVNLFGAARLTQLV 116
Query: 836 LPSMLHSRRPGHILNISSNAG--VRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
LP M R G I+NISS G P A Y TK+ +EG S ALR EV+ I V
Sbjct: 117 LPHMRAQRS-GRIINISSMGGKIYTPLG--AWYHATKFALEGFSDALRLEVAPFGIDVVV 173
Query: 894 IQAGDVKTE 902
I+ G +KTE
Sbjct: 174 IEPGGIKTE 182
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 155 bits (394), Expect = 1e-42
Identities = 69/212 (32%), Positives = 107/212 (50%), Gaps = 4/212 (1%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
+L K VTG+S GIG + L GAKVV + E L L+ A G V
Sbjct: 2 SLQGKTALVTGASRGIGRAIALRLAADGAKVVIYDSNEEAAEALAAELRAAGGEARVLVF 61
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV+ E V+ ++ + G +DILVNNAG+ L+ + E+W+ +I+VN+ G + +
Sbjct: 62 DVSDEAAVRALIEAAVEAFGALDILVNNAGITRDALLPRMSEEDWDRVIDVNLTGTFNVV 121
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
LP M+ +R G I+NISS +GV G Y+ K + G + AL E++ R I V
Sbjct: 122 RAALPPMIKARY-GRIVNISSVSGVTGNPGQTNYSAAKAGVIGFTKALALELASRGITVN 180
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAVPV 924
+ G + T++ + K +I K +P+
Sbjct: 181 AVAPGFIDTDMTEGLPEE---VKAEILKEIPL 209
>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 = 153 bits (389), Expect = 5e-42
Identities = 71/211 (33%), Positives = 111/211 (52%), Gaps = 10/211 (4%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
KV VTG+S GIG + L GAKV R + ++ G+ + DV+
Sbjct: 1 KVALVTGASRGIGRAIALRLAAEGAKVAVTDRSEEAAAETVEEIKALGGNAAALEADVSD 60
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
V+ +V +V AE G +DILVNNAG+ L+ + E+W+A+INVN+ GV + ++
Sbjct: 61 REAVEALVEKVEAEFGPVDILVNNAGITRDNLLMRMSEEDWDAVINVNLTGVFNVTQAVI 120
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
+M+ RR G I+NISS G+ G A Y +K + G + +L +E++ R I V +
Sbjct: 121 RAMI-KRRSGRIINISSVVGLIGNPGQANYAASKAGVIGFTKSLAKELASRGITVNAVAP 179
Query: 897 GDVKTELLSHSTDR---DVVDKYDISKAVPV 924
G + T++ TD V +K I K +P+
Sbjct: 180 GFIDTDM----TDALPEKVKEK--ILKQIPL 204
>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 = 152 bits (385), Expect = 1e-41
Identities = 60/190 (31%), Positives = 101/190 (53%), Gaps = 5/190 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQ----NAPGSIIVKKL 772
K + +TG SSGIG+ L K+LV GA V+ VAR +LE ++ + +
Sbjct: 2 KHVLITGGSSGIGKALAKELVKEGANVIIVARSESKLEEAVEEIEAEANASGQKVSYISA 61
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D++ +V++ + + + G D++VN AG+ L E EE+ ++VN G L+
Sbjct: 62 DLSDYEEVEQAFAQAVEKGGPPDLVVNCAGISIPGLFEDLTAEEFERGMDVNYFGSLNVA 121
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+LP M +RPGHI+ +SS A + G + Y +K+ + G++ +LRQE+ NI+V+
Sbjct: 122 HAVLPLMK-EQRPGHIVFVSSQAALVGIYGYSAYCPSKFALRGLAESLRQELKPYNIRVS 180
Query: 893 CIQAGDVKTE 902
+ D T
Sbjct: 181 VVYPPDTDTP 190
>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 = 150 bits (380), Expect = 7e-41
Identities = 69/220 (31%), Positives = 113/220 (51%), Gaps = 12/220 (5%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+ +TG+SSGIG L ++ G V ARR DRL+ LK L N S+ V+ LDVT E
Sbjct: 1 VLITGASSGIGRALAREFAKAGYNVALAARRTDRLDELKAELLNPNPSVEVEILDVTDEE 60
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
+ V+ E+ AELG +D+++ NAGV T + + + I+ N+ G + LP
Sbjct: 61 RNQLVIAELEAELGGLDLVIINAGVGKGTSLGDLSFKAFRETIDTNLLGAAAILEAALPQ 120
Query: 839 MLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGD 898
++ GH++ ISS A +R G A Y+ +K + ++ +LR +V R I+VT I G
Sbjct: 121 FR-AKGRGHLVLISSVAALRGLPGAAAYSASKAALSSLAESLRYDVKKRGIRVTVINPGF 179
Query: 899 VKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFAL 938
+ T L T + +++ ++ ++ I A+
Sbjct: 180 IDTPL----TAN-------MFTMPFLMSVEQAAKRIYKAI 208
>gnl|CDD|182531 PRK10538, PRK10538, malonic semialdehyde reductase; Provisional.
Length = 248
Score = 148 bits (376), Expect = 3e-40
Identities = 78/241 (32%), Positives = 134/241 (55%), Gaps = 12/241 (4%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
++ VTG+++G GE + + + G KV+A RR +RL+ LK L + + + +LDV
Sbjct: 2 IVLVTGATAGFGECITRRFIQQGHKVIATGRRQERLQELKDELGDN---LYIAQLDVRNR 58
Query: 778 NDVKKVVREVLAELGHIDILVNNAGV-MYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+++++ + AE +ID+LVNNAG+ + K +E+W MI+ N KG+++ +L
Sbjct: 59 AAIEEMLASLPAEWRNIDVLVNNAGLALGLEPAHKASVEDWETMIDTNNKGLVYMTRAVL 118
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
P M+ R GHI+NI S AG P+AG VY TK F+ S LR ++ ++VT I+
Sbjct: 119 PGMV-ERNHGHIINIGSTAGSWPYAGGNVYGATKAFVRQFSLNLRTDLHGTAVRVTDIEP 177
Query: 897 GDVKTELLSH---STDRDVVDK-YDISKAVPVLTTKEISQSIIFALLQPSHSAVNSILIE 952
G V S+ D +K Y + A LT +++S+++ + P+H +N++ +
Sbjct: 178 GLVGGTEFSNVRFKGDDGKAEKTYQNTVA---LTPEDVSEAVWWVATLPAHVNINTLEMM 234
Query: 953 P 953
P
Sbjct: 235 P 235
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 146 bits (370), Expect = 2e-39
Identities = 70/202 (34%), Positives = 109/202 (53%), Gaps = 8/202 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVV-AVARRIDRLENLKTSLQNAPGSIIVKKL 772
L KV VTG+S GIG + + L GAKVV A + + L ++ G I K
Sbjct: 3 LMGKVAIVTGASGGIGRAIAELLAKEGAKVVIAYDINEEAAQELLEEIKEEGGDAIAVKA 62
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV+ E DV+ +V +++ + G IDILVNNAG+ F L+ EEW+ +I+VN+ GV+
Sbjct: 63 DVSSEEDVENLVEQIVEKFGKIDILVNNAGISNFGLVTDMTDEEWDRVIDVNLTGVMLLT 122
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGL---AVYTGTKYFIEGISGALRQEVSDRNI 889
LP M+ R+ G I+NISS + G +Y+ +K + + AL +E++ I
Sbjct: 123 RYALPYMI-KRKSGVIVNISS---IWGLIGASCEVLYSASKGAVNAFTKALAKELAPSGI 178
Query: 890 KVTCIQAGDVKTELLSHSTDRD 911
+V + G + TE+ S ++ D
Sbjct: 179 RVNAVAPGAIDTEMWSSFSEED 200
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 146 bits (370), Expect = 4e-39
Identities = 66/229 (28%), Positives = 108/229 (47%), Gaps = 16/229 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRI-DRLENLKTSLQNAPGSIIVKKL 772
L KV+ +TG + GIG + L LGA+V I D E L G ++ L
Sbjct: 3 LRGKVVAITGGARGIGLATARALAALGARVA-----IGDLDEALAKETAAELGLVVGGPL 57
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DVT + V A+LG ID+LVNNAGVM +++VN+ GV+
Sbjct: 58 DVTDPASFAAFLDAVEADLGPIDVLVNNAGVMPVGPFLDEPDAVTRRILDVNVYGVILGS 117
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
P M+ R GH++N++S AG P G+A Y +K+ + G + A R E+ + V+
Sbjct: 118 KLAAPRMVPRGR-GHVVNVASLAGKIPVPGMATYCASKHAVVGFTDAARLELRGTGVHVS 176
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQP 941
+ V TEL++ + +K + ++++ +I+ + +P
Sbjct: 177 VVLPSFVNTELIAGTGG---------AKGFKNVEPEDVAAAIVGTVAKP 216
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 154 bits (391), Expect = 7e-39
Identities = 156/659 (23%), Positives = 260/659 (39%), Gaps = 114/659 (17%)
Query: 321 NVLLTGVTGYLGIHLLQKFL-VDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNY 379
+TG TG++G L+ + L + T+ VR L RLE + +
Sbjct: 2 RYFVTGGTGFIGRRLVSRLLDRRREATVHVLVRRQS----LSRLEALAAYWG-------- 49
Query: 380 TDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKN 439
DR++ + DL+ LGL D ++ +ID ++H AA +L A +NV T+N
Sbjct: 50 ADRVVPLVGDLTEPGLGLSEAD--IAELGDIDHVVHLAAIYDLTADEEAQRAANVDGTRN 107
Query: 440 LIEFSFLNKIKSFHYVSTDSI-----YPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVS 494
++E + + +FH+VS SI Y F+ED DFD+ + Y ++K +
Sbjct: 108 VVELAERLQAATFHHVS--SIAVAGDYEGV---FRED----DFDEGQGLPTPYHRTKFEA 158
Query: 495 EYLVLNAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDIDW----- 549
E LV GLP + R + G + +D Y K + +L P W
Sbjct: 159 EKLVREEC--GLPWRVYRPAVVVGDSRTGEMDKIDGPYYFFKVLAKLAKLP--SWLPMVG 214
Query: 550 ----YLEFTPVDFLTKSLVQLTTNVNNANKIYNFINTNPIHIKTLVSVLNTYGYNIKTVP 605
PVD++ +L L + ++ + P + + N + P
Sbjct: 215 PDGGRTNIVPVDYVADALDHLMHKDGRDGQTFHLTDPKPQ---RVGDIYNAFARAAGAPP 271
Query: 606 YEKWFHKLNKRELSEPLIQ-----------ILRNKG--KEYLTVNN---SYCQRNTLALL 649
+ F L ++ PL+ + G E L N ++ R T A L
Sbjct: 272 DARLFGFL-PGFVAAPLLAALGPVRRLRNAVATQLGIPPEVLDFVNYPTTFDSRETRAAL 330
Query: 650 KSCDETYPETNDHTVR------QFLDNLRNSNLLPNVPLENNNSTEYTDTNKQGISISNA 703
K P + R + LD R PL
Sbjct: 331 KGSGIEVPRLASYAPRLWDYWERHLDPDRARRRDLRGPLVG------------------- 371
Query: 704 GTVNIVFGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA 763
KV+ +TG+SSGIG + GA V VAR + L+ L ++
Sbjct: 372 -------------KVVLITGASSGIGRATAIKVAEAGATVFLVARNGEALDELVAEIRAK 418
Query: 764 PGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAG-VMYFTLMEKY-KLEEWNAMI 821
G+ D+T V V+++LAE GH+D LVNNAG + ++ + ++ +
Sbjct: 419 GGTAHAYTCDLTDSAAVDHTVKDILAEHGHVDYLVNNAGRSIRRSVENSTDRFHDYERTM 478
Query: 822 NVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAG-LAVYTGTKYFIEGISGAL 880
VN G + I +LP M RR GH++N+SS GV+ A + Y +K ++ S
Sbjct: 479 AVNYFGAVRLILGLLPHMR-ERRFGHVVNVSS-IGVQTNAPRFSAYVASKAALDAFSDVA 536
Query: 881 RQEVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALL 939
E I T I V+T +++ + +Y+ VP ++ +E + ++ A++
Sbjct: 537 ASETLSDGITFTTIHMPLVRTPMIAPT------KRYN---NVPTISPEEAADMVVRAIV 586
>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 = 142 bits (360), Expect = 4e-38
Identities = 68/184 (36%), Positives = 100/184 (54%), Gaps = 2/184 (1%)
Query: 720 FVTGSSSGIGEQLVKDLVTLGAKVVAVARRID-RLENLKTSLQNAPGSIIVKKLDVTIEN 778
VTG+S GIG + L GAKV+ R + E + L+ + DV+
Sbjct: 2 LVTGASRGIGRAIALKLAKEGAKVIITYRSSEEGAEEVVEELKAYGVKALGVVCDVSDRE 61
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
DVK VV E+ ELG IDILVNNAG+ L+ + K E+W+A+I+ N+ GV + +L
Sbjct: 62 DVKAVVEEIEEELGPIDILVNNAGITRDNLLMRMKEEDWDAVIDTNLTGVFNLTQAVLRI 121
Query: 839 MLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGD 898
M+ R G I+NISS G+ AG A Y +K + G + +L +E++ RNI V + G
Sbjct: 122 MIKQRS-GRIINISSVVGLMGNAGQANYAASKAGVIGFTKSLAKELASRNITVNAVAPGF 180
Query: 899 VKTE 902
+ T+
Sbjct: 181 IDTD 184
>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 = 142 bits (360), Expect = 5e-38
Identities = 71/246 (28%), Positives = 123/246 (50%), Gaps = 6/246 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA-PGSIIVKKL 772
+V VTG+S GIG + + LV G KVV ARR+D++E L Q+A ++ +
Sbjct: 4 WRGRVALVTGASVGIGAAVARALVQHGMKVVGCARRVDKIEALAAECQSAGYPTLFPYQC 63
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D++ E + + + + +D+ +NNAG+ + K E W M +VN+ + C
Sbjct: 64 DLSNEEQILSMFSAIRTQHQGVDVCINNAGLARPEPLLSGKTEGWKEMFDVNVLALSICT 123
Query: 833 GNILPSMLHSRRP-GHILNISSNAGVR--PFAGLAVYTGTKYFIEGISGALRQEV--SDR 887
SM GHI+NI+S +G R P + Y TK+ + ++ LRQE+ +
Sbjct: 124 REAYQSMKERNVDDGHIININSMSGHRVPPVSVFHFYAATKHAVTALTEGLRQELREAKT 183
Query: 888 NIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQPSHSAVN 947
+I+ T I G V+TE D D +++P L ++++ ++++ L P H ++
Sbjct: 184 HIRATSISPGLVETEFAFKLHDNDPEKAAATYESIPCLKPEDVANAVLYVLSTPPHVQIH 243
Query: 948 SILIEP 953
IL+ P
Sbjct: 244 DILLRP 249
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 139 bits (353), Expect = 5e-37
Identities = 66/230 (28%), Positives = 111/230 (48%), Gaps = 13/230 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +V VTG++ GIG + L GA+V+ V D ++ A G +++D
Sbjct: 4 LEGRVALVTGAARGIGRAIAVRLAADGAEVIVVDICGDDAAATAELVEAAGGKARARQVD 63
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V +K V + + G +DILV NAG+ T + E+W +I+VN+ G
Sbjct: 64 VRDRAALKAAVAAGVEDFGRLDILVANAGIFPLTPFAEMDDEQWERVIDVNLTGTFLLTQ 123
Query: 834 NILPSMLHSRRPGHILNISSNAGVR-PFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
LP+++ + G I+ SS AG R + GLA Y +K + G + AL E++ RNI V
Sbjct: 124 AALPALIRAGG-GRIVLTSSVAGPRVGYPGLAHYAASKAGLVGFTRALALELAARNITVN 182
Query: 893 CIQAGDVKTELLSHSTDRDVVDKY---DISKAVPV---LTTKEISQSIIF 936
+ G V T + ++ D I+ A+P+ ++I+ +++F
Sbjct: 183 SVHPGGVDTPMA-----GNLGDAQWAEAIAAAIPLGRLGEPEDIAAAVLF 227
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 138 bits (349), Expect = 2e-36
Identities = 70/229 (30%), Positives = 116/229 (50%), Gaps = 10/229 (4%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV+ +TG+S GIG L L GA++V AR RL +L L + G +V DV+
Sbjct: 1 GKVVIITGASEGIGRALAVRLARAGAQLVLAARNETRLASLAQELADHGGEALVVPTDVS 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGV-MYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
++++ +A G IDILVNNAG+ M+ E L + ++ VN G ++C
Sbjct: 61 DAEACERLIEAAVARFGGIDILVNNAGITMWSRFDELTDLSVFERVMRVNYLGAVYCTHA 120
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
LP + SR G I+ +SS AG+ + Y +K+ + G +LR E++D + VT +
Sbjct: 121 ALPHLKASR--GQIVVVSSLAGLTGVPTRSGYAASKHALHGFFDSLRIELADDGVAVTVV 178
Query: 895 QAGDVKTELLSHSTDRD----VVDKYDISKAVPVLTTKEISQSIIFALL 939
G V T++ + D D SK +++ +E +++I+ A+
Sbjct: 179 CPGFVATDIRKRALDGDGKPLGKSPMQESK---IMSAEECAEAILPAIA 224
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 137 bits (347), Expect = 3e-36
Identities = 60/226 (26%), Positives = 104/226 (46%), Gaps = 2/226 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
LA K VTG++ G+G + L GA V L +L+ A G D
Sbjct: 5 LAGKRALVTGAARGLGAAFAEALAEAGATVAFNDGLAAEARELAAALEAAGGRAHAIAAD 64
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+ V++ A LG +D LVNNAG+ + ++ W+A++NVN++G +
Sbjct: 65 LADPASVQRFFDAAAAALGGLDGLVNNAGITNSKSATELDIDTWDAVMNVNVRGTFLMLR 124
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
LP + S R G I+N++S+ + L Y +K + G++ +L +E+ R I V
Sbjct: 125 AALPHLRDSGR-GRIVNLASDTALWGAPKLGAYVASKGAVIGMTRSLARELGGRGITVNA 183
Query: 894 IQAGDVKTELLSHSTDRDVVDKYDISKAVPVL-TTKEISQSIIFAL 938
I G TE ++ + Y +A+ L +++ +++F L
Sbjct: 184 IAPGLTATEATAYVPADERHAYYLKGRALERLQVPDDVAGAVLFLL 229
>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 = 135 bits (343), Expect = 9e-36
Identities = 62/210 (29%), Positives = 91/210 (43%), Gaps = 9/210 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVA-VARRIDRLENLKTSLQNAPGSIIVKKL 772
LA KV VTG+S GIG + K L GA VV A E + ++ A G I +
Sbjct: 1 LAGKVALVTGASRGIGRAIAKRLARDGASVVVNYASSKAAAEEVVAEIEAAGGKAIAVQA 60
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV+ + V ++ G +DILVNNAGVM + + EE++ M VN KG +
Sbjct: 61 DVSDPSQVARLFDAAEKAFGGVDILVNNAGVMLKKPIAETSEEEFDRMFTVNTKGAFFVL 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ R G I+NISS+ Y G+K +E + L +E+ R I V
Sbjct: 121 QEAAKRL---RDGGRIINISSSLTAAYTPNYGAYAGSKAAVEAFTRVLAKELGGRGITVN 177
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAV 922
+ G V T++ + +
Sbjct: 178 AVAPGPVDTDMF-----YAGKTEEAVEGYA 202
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 136 bits (344), Expect = 1e-35
Identities = 68/195 (34%), Positives = 98/195 (50%), Gaps = 4/195 (2%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV F+TG+S G G + + G +VVA AR L +L + ++ LDVT
Sbjct: 3 EKVWFITGASRGFGRAWTEAALERGDRVVATARDTATLADLA---EKYGDRLLPLALDVT 59
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
V V + G +DI+VNNAG F ++E+ E A I+ N G L +
Sbjct: 60 DRAAVFAAVETAVEHFGRLDIVVNNAGYGLFGMIEEVTESEARAQIDTNFFGALWVTQAV 119
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
LP L +R GHI+ ISS G+ F +Y +K+ +EG+S AL QEV++ IKVT ++
Sbjct: 120 LP-YLREQRSGHIIQISSIGGISAFPMSGIYHASKWALEGMSEALAQEVAEFGIKVTLVE 178
Query: 896 AGDVKTELLSHSTDR 910
G T+ S R
Sbjct: 179 PGGYSTDWAGTSAKR 193
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 133 bits (338), Expect = 8e-35
Identities = 70/208 (33%), Positives = 111/208 (53%), Gaps = 10/208 (4%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+KV VTG+SSGIG + L G +V +R R + PG +++ LDVT
Sbjct: 4 SKVALVTGASSGIGRATAEKLARAGYRVFGTSRNPARAAPI-------PGVELLE-LDVT 55
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+ V+ V EV+A G ID+LVNNAGV E+ + + A+ + N+ G+L +
Sbjct: 56 DDASVQAAVDEVIARAGRIDVLVNNAGVGLAGAAEESSIAQAQALFDTNVFGILRMTRAV 115
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
LP M ++ G I+NISS G P +A+Y +K+ +EG S +L EV I+V+ ++
Sbjct: 116 LPHM-RAQGSGRIINISSVLGFLPAPYMALYAASKHAVEGYSESLDHEVRQFGIRVSLVE 174
Query: 896 AGDVKTELLSHSTDRD-VVDKYDISKAV 922
KT +++ + D + +YD +AV
Sbjct: 175 PAYTKTNFDANAPEPDSPLAEYDRERAV 202
>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 = 133 bits (336), Expect = 1e-34
Identities = 67/232 (28%), Positives = 112/232 (48%), Gaps = 13/232 (5%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K VTG++SGIG + + L GA VV + E +A GS+I DVT
Sbjct: 2 KTALVTGAASGIGLAIARALAAAGANVVVNDFGEEGAEAAAKVAGDAGGSVIYLPADVTK 61
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
E+++ ++ AE G +DILVNNAG+ + +E++ E+W+ +I V + H I L
Sbjct: 62 EDEIADMIAAAAAEFGGLDILVNNAGIQHVAPIEEFPPEDWDRIIAVMLTSAFHTIRAAL 121
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
P M G I+NI+S G+ + Y K+ + G++ L EV++ I V I
Sbjct: 122 PHMKKQGW-GRIINIASAHGLVASPFKSAYVAAKHGLIGLTKVLALEVAEHGITVNAICP 180
Query: 897 GDVKTELL---------SHSTDRDVVDKYDISKAVP---VLTTKEISQSIIF 936
G V+T L+ + + V + + K P +T E++++ ++
Sbjct: 181 GYVRTPLVEKQIADQAKTRGIPEEQVIREVMLKGQPTKRFVTVDEVAETALY 232
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 131 bits (332), Expect = 3e-34
Identities = 63/194 (32%), Positives = 94/194 (48%), Gaps = 3/194 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG+SSGIGE + + GA+VV R + E + + +I V D
Sbjct: 3 LEGKVAIVTGASSGIGEGIARRFAAEGARVVVTDRNEEAAERVAAEILAGGRAIAV-AAD 61
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGVLHCI 832
V+ E DV+ V L G +DILVNNAG + + E++ + VN+K
Sbjct: 62 VSDEADVEAAVAAALERFGSVDILVNNAGTTHRNGPLLDVDEAEFDRIFAVNVKSPYLWT 121
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+P+M G I+N++S AG+RP GL Y +K + ++ AL E+ I+V
Sbjct: 122 QAAVPAMRG-EGGGAIVNVASTAGLRPRPGLGWYNASKGAVITLTKALAAELGPDKIRVN 180
Query: 893 CIQAGDVKTELLSH 906
+ V+T LL
Sbjct: 181 AVAPVVVETGLLEA 194
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 131 bits (331), Expect = 3e-34
Identities = 62/190 (32%), Positives = 102/190 (53%), Gaps = 1/190 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K +TG+ GIG + L G V +AR + L+ + ++ +++ D
Sbjct: 5 LQGKNALITGAGRGIGRAVAIALAKEGVNVGLLARTEENLKAVAEEVEAYGVKVVIATAD 64
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V+ +V + ++ ELG IDIL+NNAG+ F + EW +I VN+ GV +
Sbjct: 65 VSDYEEVTAAIEQLKNELGSIDILINNAGISKFGKFLELDPAEWEKIIQVNLMGVYYATR 124
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+LPSM+ R+ G I+NISS AG + A + Y+ +K+ + G++ +L QEV NI+VT
Sbjct: 125 AVLPSMI-ERQSGDIINISSTAGQKGAAVTSAYSASKFGVLGLTESLMQEVRKHNIRVTA 183
Query: 894 IQAGDVKTEL 903
+ V T++
Sbjct: 184 LTPSTVATDM 193
>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
Length = 241
Score = 131 bits (331), Expect = 3e-34
Identities = 66/228 (28%), Positives = 107/228 (46%), Gaps = 10/228 (4%)
Query: 720 FVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEND 779
+TG+SSGIG+ G + VAR D LE L L++ +D++
Sbjct: 10 LITGASSGIGKATALAFAKAGWDLALVARSQDALEALAAELRSTGVKAAAYSIDLSNPEA 69
Query: 780 VKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPSM 839
+ + E+L + G D+L+NNAG+ Y + + L +W +I +N+ V C +LP M
Sbjct: 70 IAPGIAELLEQFGCPDVLINNAGMAYTGPLLEMPLSDWQWVIQLNLTSVFQCCSAVLPGM 129
Query: 840 LHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGDV 899
+R G I+N+SS A F Y +K + + L +E I+V I G V
Sbjct: 130 -RARGGGLIINVSSIAARNAFPQWGAYCVSKAALAAFTKCLAEEERSHGIRVCTITLGAV 188
Query: 900 KTELLSHSTDRDVVD-KYDISKAVPVLTTKEISQSIIFALLQPSHSAV 946
T L D + V +D S +L+ ++++Q+I+ P SAV
Sbjct: 189 NTPLW----DTETVQADFDRSA---MLSPEQVAQTILHLAQLPP-SAV 228
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 131 bits (331), Expect = 4e-34
Identities = 60/191 (31%), Positives = 100/191 (52%), Gaps = 2/191 (1%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVAR-RIDRLENLKTSLQNAPGSIIVKK 771
+L +V VTG++ G+G + L GA VV R + E L +++ +
Sbjct: 3 SLMGRVALVTGAARGLGRAIALRLARAGADVVVHYRSDEEAAEELVEAVEALGRRAQAVQ 62
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DVT + ++ V + G IDILVNNAG+ + +EW+ +I+VN+ GV H
Sbjct: 63 ADVTDKAALEAAVAAAVERFGRIDILVNNAGIFEDKPLADMSDDEWDEVIDVNLSGVFHL 122
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ ++P M +R G I+NISS AG+ + G + Y K + G++ AL +E+++ I V
Sbjct: 123 LRAVVPPMRK-QRGGRIVNISSVAGLPGWPGRSNYAAAKAGLVGLTKALARELAEYGITV 181
Query: 892 TCIQAGDVKTE 902
+ GD+ T+
Sbjct: 182 NMVAPGDIDTD 192
>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 = 130 bits (328), Expect = 5e-34
Identities = 71/237 (29%), Positives = 112/237 (47%), Gaps = 15/237 (6%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K VTG+S GIGE + L G +V AR RL ++ DV
Sbjct: 1 KAALVTGASRGIGEATARLLHAEGYRVGICARDEARLAAA---AAQELEGVLGLAGDVRD 57
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
E DV++ V + G +D LVNNAGV +E+ EEW +++ N+ G +CI
Sbjct: 58 EADVRRAVDAMEEAFGGLDALVNNAGVGVMKPVEELTPEEWRLVLDTNLTGAFYCIHKAA 117
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
P++L R G I+N+ S AG F G A Y +K+ + G+S A ++ + NI+V +
Sbjct: 118 PALL-RRGGGTIVNVGSLAGKNAFKGGAAYNASKFGLLGLSEAAMLDLREANIRVVNVMP 176
Query: 897 GDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQPSHSAVNSILIEP 953
G V T + L ++++Q+++FAL P+ + V+ I + P
Sbjct: 177 GSVDTGFAGSPEGQAW-----------KLAPEDVAQAVLFALEMPARALVSRIELRP 222
>gnl|CDD|237100 PRK12429, PRK12429, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 258
Score = 127 bits (322), Expect = 7e-33
Identities = 61/191 (31%), Positives = 92/191 (48%), Gaps = 1/191 (0%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
L KV VTG++SGIG ++ L GAKVV + +LQ A G I +
Sbjct: 1 MLKGKVALVTGAASGIGLEIALALAKEGAKVVIADLNDEAAAAAAEALQKAGGKAIGVAM 60
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DVT E + + + G +DILVNNAG+ + +E + E+W MI + + G
Sbjct: 61 DVTDEEAINAGIDYAVETFGGVDILVNNAGIQHVAPIEDFPTEKWKKMIAIMLDGAFLTT 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
LP M ++ G I+N++S G+ AG A Y K+ + G++ + E + + V
Sbjct: 121 KAALPIM-KAQGGGRIINMASVHGLVGSAGKAAYVSAKHGLIGLTKVVALEGATHGVTVN 179
Query: 893 CIQAGDVKTEL 903
I G V T L
Sbjct: 180 AICPGYVDTPL 190
>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 = 127 bits (321), Expect = 8e-33
Identities = 67/195 (34%), Positives = 103/195 (52%), Gaps = 9/195 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG+ SG GE + + GA+VV D E + + I + D
Sbjct: 3 LEGKVAIVTGAGSGFGEGIARRFAQEGARVVIADINADGAER---VAADIGEAAIAIQAD 59
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYF-TLMEKYKLEEWNAMINVNIKGVLHCI 832
VT DV+ +V L++ G +DILVNNAG+ + M + EE++ + VN+K +
Sbjct: 60 VTKRADVEAMVEAALSKFGRLDILVNNAGITHRNKPMLEVDEEEFDRVFAVNVKSIYLSA 119
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
++P M + G I+NI+S AG+RP GL Y +K ++ + A+ E++ RNI+V
Sbjct: 120 QALVPHMEE-QGGGVIINIASTAGLRPRPGLTWYNASKGWVVTATKAMAVELAPRNIRVN 178
Query: 893 CIQ--AGDVKTELLS 905
C+ AG+ T LLS
Sbjct: 179 CLCPVAGE--TPLLS 191
>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 = 125 bits (317), Expect = 2e-32
Identities = 72/233 (30%), Positives = 110/233 (47%), Gaps = 15/233 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVAR-RIDRLENLKTSLQNAPGSIIVKKL 772
L KV VTG+SSGIG+ + L T GA VV R + D E + ++ G I +
Sbjct: 1 LKGKVALVTGASSGIGKAIAIRLATAGANVVVNYRSKEDAAEEVVEEIKAVGGKAIAVQA 60
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV+ E DV + + + E G +DILVNNAG+ + LE+WN +I+VN+ G C
Sbjct: 61 DVSKEEDVVALFQSAIKEFGTLDILVNNAGLQGDASSHEMTLEDWNKVIDVNLTGQFLCA 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ S+ G I+N+SS P+ G Y +K ++ ++ L QE + + I+V
Sbjct: 121 REAIKRFRKSKIKGKIINMSSVHEKIPWPGHVNYAASKGGVKMMTKTLAQEYAPKGIRVN 180
Query: 893 CIQAGDVKTE--------------LLSHSTDRDVVDKYDISKAVPVLTTKEIS 931
I G + T LLS + + +I+ A L + E S
Sbjct: 181 AIAPGAINTPINAEAWDDPEQRADLLSLIPMGRIGEPEEIAAAAAWLASDEAS 233
>gnl|CDD|171821 PRK12937, PRK12937, short chain dehydrogenase; Provisional.
Length = 245
Score = 125 bits (316), Expect = 3e-32
Identities = 70/240 (29%), Positives = 112/240 (46%), Gaps = 10/240 (4%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSIIVKK 771
TL+NKV VTG+S GIG + + L G V V A + L ++ A G I +
Sbjct: 2 TLSNKVAIVTGASRGIGAAIARRLAADGFAVAVNYAGSAAAADELVAEIEAAGGRAIAVQ 61
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DV V ++ G ID+LVNNAGVM + + LE+++ I N++G
Sbjct: 62 ADVADAAAVTRLFDAAETAFGRIDVLVNNAGVMPLGTIADFDLEDFDRTIATNLRGAFVV 121
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ + + G I+N+S++ P G Y +K +EG+ L E+ R I V
Sbjct: 122 LREAARHL---GQGGRIINLSTSVIALPLPGYGPYAASKAAVEGLVHVLANELRGRGITV 178
Query: 892 TCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIFALLQPSHSAVNS 948
+ G V TEL + + +D+ ++ P+ T +EI+ ++ F L P + VN
Sbjct: 179 NAVAPGPVATELFFNGKSAEQIDQ--LAGLAPLERLGTPEEIAAAVAF-LAGPDGAWVNG 235
>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 = 123 bits (312), Expect = 1e-31
Identities = 53/150 (35%), Positives = 76/150 (50%), Gaps = 1/150 (0%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
VTG++ GIG + + L GA+V AV R ++L L L+ KLDV V
Sbjct: 3 VTGAAQGIGYAVARALAEAGARVAAVDRNFEQLLELVADLRRYGYPFATYKLDVADSAAV 62
Query: 781 KKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPSML 840
+VV+ + E G ID+LVN AG++ ++ E+W A VN GV + + P M
Sbjct: 63 DEVVQRLEREYGPIDVLVNVAGILRLGAIDSLSDEDWQATFAVNTFGVFNVSQAVSPRMK 122
Query: 841 HSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
RR G I+ + SNA P G+A Y +K
Sbjct: 123 -RRRSGAIVTVGSNAANVPRMGMAAYAASK 151
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 120 bits (304), Expect = 2e-31
Identities = 37/170 (21%), Positives = 68/170 (40%), Gaps = 8/170 (4%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR---IDRLENLKTSLQNAPGSIIVKKLD 773
+ +TG + G+G L + L GA+ + + R L L+ + V D
Sbjct: 1 GTVLITGGTGGLGLALARWLAAEGARHLVLVSRRGPAPGAAELVAELEALGAEVTVAACD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V + + ++ + A LG +D +V+NAGV+ +E+ E + ++ + G +
Sbjct: 61 VADRDALAALLAALPAALGPLDGVVHNAGVLDDGPLEELTPERFERVLAPKVTGAWNLHE 120
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQE 883
G + SS AGV G A Y ++ ++ R E
Sbjct: 121 LTRD-----LDLGAFVLFSSVAGVLGSPGQANYAAANAALDALAEHRRAE 165
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 121 bits (306), Expect = 1e-30
Identities = 52/190 (27%), Positives = 84/190 (44%), Gaps = 3/190 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L + VTG +SGIG + + GA+V L L A + V D
Sbjct: 9 LDGLRVLVTGGASGIGRAIAEAFAEAGARVHVCDVSEAALAATAARLPGAKVTATV--AD 66
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTL-MEKYKLEEWNAMINVNIKGVLHCI 832
V V++V + G +D+LVNNAG+ T +++ E+W + VN+ G +
Sbjct: 67 VADPAQVERVFDTAVERFGGLDVLVNNAGIAGPTGGIDEITPEQWEQTLAVNLNGQFYFA 126
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+P + S G I+ +SS AG + G Y +K+ + G+ +L E+ I+V
Sbjct: 127 RAAVPLLKASGHGGVIIALSSVAGRLGYPGRTPYAASKWAVVGLVKSLAIELGPLGIRVN 186
Query: 893 CIQAGDVKTE 902
I G V+
Sbjct: 187 AILPGIVRGP 196
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 119 bits (301), Expect = 3e-30
Identities = 61/232 (26%), Positives = 115/232 (49%), Gaps = 13/232 (5%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
T + KV VTG ++GIG GAKVV R E ++ A G +
Sbjct: 4 TFSGKVALVTGGAAGIGRATALAFAREGAKVVVADRDAAGGEETVALIREAGGEALFVAC 63
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKL-----EEWNAMINVNIKG 827
DVT + +VK +V + +A G +D NNAG+ +E+ +L E++A++ VN+KG
Sbjct: 64 DVTRDAEVKALVEQTIAAYGRLDYAFNNAGIE----IEQGRLAEGSEAEFDAIMGVNVKG 119
Query: 828 VLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDR 887
V C+ +P ML ++ G I+N +S AG+ +++Y +K+ + G++ + E + +
Sbjct: 120 VWLCMKYQIPLML-AQGGGAIVNTASVAGLGAAPKMSIYAASKHAVIGLTKSAAIEYAKK 178
Query: 888 NIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPV---LTTKEISQSIIF 936
I+V + + T++ + + D + PV +E++ ++++
Sbjct: 179 GIRVNAVCPAVIDTDMFRRAYEADPRKAEFAAAMHPVGRIGKVEEVASAVLY 230
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 119 bits (301), Expect = 6e-30
Identities = 69/203 (33%), Positives = 102/203 (50%), Gaps = 8/203 (3%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K F+TG+SSG G + + L+ G +V A RR D L++LK + V +LDVT
Sbjct: 3 KTWFITGASSGFGRGMTERLLARGDRVAATVRRPDALDDLKARY---GDRLWVLQLDVTD 59
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
V+ VV A LG ID++V+NAG F E+ + I+ N+ G + I L
Sbjct: 60 SAAVRAVVDRAFAALGRIDVVVSNAGYGLFGAAEELSDAQIRRQIDTNLIGSIQVIRAAL 119
Query: 837 PSMLHSRRP--GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
P H RR G I+ +SS G + G ++Y TK+ IEG A+ QEV+ I+ T +
Sbjct: 120 P---HLRRQGGGRIVQVSSEGGQIAYPGFSLYHATKWGIEGFVEAVAQEVAPFGIEFTIV 176
Query: 895 QAGDVKTELLSHSTDRDVVDKYD 917
+ G +T + +D YD
Sbjct: 177 EPGPARTNFGAGLDRGAPLDAYD 199
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 119 bits (301), Expect = 8e-30
Identities = 68/189 (35%), Positives = 101/189 (53%), Gaps = 4/189 (2%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKT--SLQNAPGSIIVKKL 772
K+ VTG+SSG G +L G V+A R ++ ENL + + N +I V++L
Sbjct: 2 NKKIAIVTGASSGFGLLTTLELAKKGYLVIATMRNPEKQENLLSQATQLNLQQNIKVQQL 61
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DVT +N + + VL E+G ID+LVNNAG +E+ +EE+ N+ G +
Sbjct: 62 DVTDQNSIH-NFQLVLKEIGRIDLLVNNAGYANGGFVEEIPVEEYRKQFETNVFGAISVT 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+LP M ++ G I+NISS +G F GL+ Y +KY +EG S +LR E+ I V
Sbjct: 121 QAVLPYM-RKQKSGKIINISSISGRVGFPGLSPYVSSKYALEGFSESLRLELKPFGIDVA 179
Query: 893 CIQAGDVKT 901
I+ G T
Sbjct: 180 LIEPGSYNT 188
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 118 bits (298), Expect = 1e-29
Identities = 56/180 (31%), Positives = 94/180 (52%), Gaps = 7/180 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +K + +TG+S GIG+ L + L GA+++ V R ++LE L L PG D
Sbjct: 3 LKDKRVLLTGASGGIGQALAEALAAAGARLLLVGRNAEKLEALAARLPY-PGRHRWVVAD 61
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+T E + V+ E+G I++L+NNAGV +F L+E E ++ +N+ +
Sbjct: 62 LTSEAGREAVLARA-REMGGINVLINNAGVNHFALLEDQDPEAIERLLALNLTAPMQLTR 120
Query: 834 NILPSMLHSRRPGH--ILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+LP R ++N+ S G + G A Y +K+ + G S ALR+E++D ++V
Sbjct: 121 ALLP---LLRAQPSAMVVNVGSTFGSIGYPGYASYCASKFALRGFSEALRRELADTGVRV 177
>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 = 116 bits (294), Expect = 3e-29
Identities = 65/227 (28%), Positives = 101/227 (44%), Gaps = 13/227 (5%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
++ +TG SGIG L + GAKVV + E +++ A G + K DV+
Sbjct: 1 IVLITGGGSGIGRLLALEFAKRGAKVVILDINEKGAEETANNVRKAGGKVHYYKCDVSKR 60
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+V + +++ E+G + IL+NNAGV+ L+E EE VN L
Sbjct: 61 EEVYEAAKKIKKEVGDVTILINNAGVVSGKKLLE-LPDEEIEKTFEVNTLAHFWTTKAFL 119
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV---SDRNIKVTC 893
P ML R GHI+ I+S AG+ AGLA Y +K G +LR E+ IK T
Sbjct: 120 PDML-ERNHGHIVTIASVAGLISPAGLADYCASKAAAVGFHESLRLELKAYGKPGIKTTL 178
Query: 894 IQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQ 940
+ + T + P+L + +++ I+ A+L
Sbjct: 179 VCPYFINTGMFQGVKTP-------RPLLAPILEPEYVAEKIVRAILT 218
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 117 bits (296), Expect = 3e-29
Identities = 59/201 (29%), Positives = 106/201 (52%), Gaps = 5/201 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK-LDVT 775
K FVTG++SGIG L GA++ R D L + G++ + LD++
Sbjct: 1 KRCFVTGAASGIGRATALRLAAQGAELFLTDRDADGLAQTVADARALGGTVPEHRALDIS 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+ V ++ A G +D+++N AG+ + +++ E+W M++VN+ G +H I
Sbjct: 61 DYDAVAAFAADIHAAHGSMDVVMNIAGISAWGTVDRLTHEQWRRMVDVNLMGPIHVIETF 120
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
+P M+ + R GH++N+SS AG+ A Y+ +K+ + G+S LR +++ I V+ +
Sbjct: 121 VPPMVAAGRGGHLVNVSSAAGLVALPWHAAYSASKFGLRGLSEVLRFDLARHGIGVSVVV 180
Query: 896 AGDVKTELLS----HSTDRDV 912
G VKT L++ DR+
Sbjct: 181 PGAVKTPLVNTVEIAGVDRED 201
>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 = 116 bits (293), Expect = 3e-29
Identities = 59/227 (25%), Positives = 102/227 (44%), Gaps = 6/227 (2%)
Query: 720 FVTGSSSGIGEQLVKDLVTLGAKVVAVARR-IDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
VTG S GIG+ + L GA VV R+ D + ++ G +V + DV+
Sbjct: 2 LVTGGSRGIGKAIALRLAERGADVVINYRKSKDAAAEVAAEIEELGGKAVVVRADVSQPQ 61
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
DV+++ V G +D+LV+NA F + + W+A +N N+K ++HC
Sbjct: 62 DVEEMFAAVKERFGRLDVLVSNAAAGAFRPLSELTPAHWDAKMNTNLKALVHCAQQAAKL 121
Query: 839 MLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGD 898
M R G I+ ISS +R K +E + L E+ R I+V + G
Sbjct: 122 M-RERGGGRIVAISSLGSIRALPNYLAVGTAKAALEALVRYLAVELGPRGIRVNAVSPGV 180
Query: 899 VKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIFALLQPS 942
+ T+ L+H +R+ + + P V T ++++ ++ F +
Sbjct: 181 IDTDALAHFPNREDL-LEAAAANTPAGRVGTPQDVADAVGFLCSDAA 226
>gnl|CDD|235631 PRK05866, PRK05866, short chain dehydrogenase; Provisional.
Length = 293
Score = 117 bits (296), Expect = 4e-29
Identities = 69/234 (29%), Positives = 112/234 (47%), Gaps = 21/234 (8%)
Query: 711 GNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVK 770
L K I +TG+SSGIGE + GA VVAVARR D L+ + + A G +
Sbjct: 35 PVDLTGKRILLTGASSGIGEAAAEQFARRGATVVAVARREDLLDAVADRITRAGGDAMAV 94
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAG-VMYFTLMEKYKLEEWNAM---INVNIK 826
D++ + V +V +V +G +DIL+NNAG + L E L+ W+ + + +N
Sbjct: 95 PCDLSDLDAVDALVADVEKRIGGVDILINNAGRSIRRPLAE--SLDRWHDVERTMVLNYY 152
Query: 827 GVLHCIGNILPSMLHSRRPGHILNISS---NAGVRPFAGLAVYTGTKYFIEGISGALRQE 883
L I + P ML R GHI+N+++ + P +VY +K + +S + E
Sbjct: 153 APLRLIRGLAPGML-ERGDGHIINVATWGVLSEASPL--FSVYNASKAALSAVSRVIETE 209
Query: 884 VSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFA 937
DR + T + V T +++ + YD +P LT E ++ ++ A
Sbjct: 210 WGDRGVHSTTLYYPLVATPMIAPTKA------YD---GLPALTADEAAEWMVTA 254
>gnl|CDD|187587 cd05326, secoisolariciresinol-DH_like_SDR_c, secoisolariciresinol
dehydrogenase (secoisolariciresinol-DH)-like, classical
(c) SDRs. Podophyllum secoisolariciresinol-DH is a homo
tetrameric, classical SDR that catalyzes the
NAD-dependent conversion of (-)-secoisolariciresinol to
(-)-matairesinol via a (-)-lactol intermediate.
(-)-Matairesinol is an intermediate to various
8'-lignans, including the cancer-preventive mammalian
lignan, and those involved in vascular plant defense.
This subgroup also includes rice momilactone A synthase
which catalyzes the conversion of
3beta-hydroxy-9betaH-pimara-7,15-dien-19,6beta-olide
into momilactone A, Arabidopsis ABA2 which during
abscisic acid (ABA) biosynthesis, catalyzes the
conversion of xanthoxin to abscisic aldehyde and, maize
Tasselseed2 which participate in the maize sex
determination pathway. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 116 bits (293), Expect = 4e-29
Identities = 59/201 (29%), Positives = 101/201 (50%), Gaps = 5/201 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV +TG +SGIGE + GA+VV D + + L + S + D
Sbjct: 2 LDGKVAIITGGASGIGEATARLFAKHGARVVIADIDDDAGQAVAAELGDPDISFV--HCD 59
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM--YFTLMEKYKLEEWNAMINVNIKGVLHC 831
VT+E DV+ V +A G +DI+ NNAGV+ + + LEE+ +++VN+ G
Sbjct: 60 VTVEADVRAAVDTAVARFGRLDIMFNNAGVLGAPCYSILETSLEEFERVLDVNVYGAFLG 119
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ M+ +++ G I++++S AGV G YT +K+ + G++ + E+ + I+V
Sbjct: 120 TKHAARVMIPAKK-GSIVSVASVAGVVGGLGPHAYTASKHAVLGLTRSAATELGEHGIRV 178
Query: 892 TCIQAGDVKTELLSHSTDRDV 912
C+ V T LL+ +
Sbjct: 179 NCVSPYGVATPLLTAGFGVED 199
>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 = 116 bits (293), Expect = 5e-29
Identities = 60/220 (27%), Positives = 104/220 (47%), Gaps = 21/220 (9%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLK---------------- 757
L KV F+TG++ G G L GA ++A ID L
Sbjct: 1 LEGKVAFITGAARGQGRAHAVRLAAEGADIIA----IDLCAPLSDYPTYPLATREDLDET 56
Query: 758 TSLQNAPG-SIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEE 816
L A G ++ +K DV +V+ VV + + + G +D++V NAGV+ + + E+
Sbjct: 57 ARLVEALGRKVLARKADVRDLAEVRAVVEDGVEQFGRLDVVVANAGVLSYGRSWELSEEQ 116
Query: 817 WNAMINVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGI 876
W+ ++++N+ GV ++P M+ G I+ SS AG++ GLA Y K+ + G+
Sbjct: 117 WDTVLDINLTGVWRTCKAVVPHMIERGNGGSIIITSSVAGLKALPGLAHYAAAKHGLVGL 176
Query: 877 SGALRQEVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKY 916
+ L E+++ I+V I V T +++ R+ KY
Sbjct: 177 TKTLANELAEYGIRVNSIHPYSVDTPMIAPEAMREAFLKY 216
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 116 bits (292), Expect = 6e-29
Identities = 59/192 (30%), Positives = 88/192 (45%), Gaps = 6/192 (3%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA-PGSIIVKK 771
L+ KV VTG +SGIG + + GA+V + DR E++ G+
Sbjct: 12 DLSGKVAVVTGGASGIGHAIAELFAAKGARVALL----DRSEDVAEVAAQLLGGNAKGLV 67
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DV+ V+ V V++ G IDILVN+AGV E E+W+ I++N+KG
Sbjct: 68 CDVSDSQSVEAAVAAVISAFGRIDILVNSAGVALLAPAEDVSEEDWDKTIDINLKGSFLM 127
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ M+ + G I+N++S AGV Y +K + G++ L E I V
Sbjct: 128 AQAVGRHMI-AAGGGKIVNLASQAGVVALERHVAYCASKAGVVGMTKVLALEWGPYGITV 186
Query: 892 TCIQAGDVKTEL 903
I V TEL
Sbjct: 187 NAISPTVVLTEL 198
>gnl|CDD|235633 PRK05872, PRK05872, short chain dehydrogenase; Provisional.
Length = 296
Score = 117 bits (295), Expect = 6e-29
Identities = 59/202 (29%), Positives = 97/202 (48%), Gaps = 4/202 (1%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIV 769
+LA KV+ VTG++ GIG +L + L GAK+ V L L L ++
Sbjct: 3 PMTSLAGKVVVVTGAARGIGAELARRLHARGAKLALVDLEEAELAALAAEL-GGDDRVLT 61
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
DVT ++ E + G ID++V NAG+ + + + + +I+VN+ GV
Sbjct: 62 VVADVTDLAAMQAAAEEAVERFGGIDVVVANAGIASGGSVAQVDPDAFRRVIDVNLLGVF 121
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
H + LP+++ R G++L +SS A G+A Y +K +E + ALR EV+ +
Sbjct: 122 HTVRATLPALIERR--GYVLQVSSLAAFAAAPGMAAYCASKAGVEAFANALRLEVAHHGV 179
Query: 890 KVTCIQAGDVKTELLSHSTDRD 911
V + T+L+ D D
Sbjct: 180 TVGSAYLSWIDTDLVRD-ADAD 200
>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 = 114 bits (288), Expect = 9e-29
Identities = 53/194 (27%), Positives = 91/194 (46%), Gaps = 5/194 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
KV VTG+S GIG ++ + L G +V R + L L S + D
Sbjct: 1 KVALVTGASRGIGIEIARALARDGYRVSLGLRNPEDLAALSASGGDV----EAVPYDARD 56
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
D + +V + G ID+LV+NAG+ T + + E A ++N+ +L
Sbjct: 57 PEDARALVDALRDRFGRIDVLVHNAGIGRPTTLREGSDAELEAHFSINVIAPAELTRALL 116
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
P++ + G ++ ++S +G R AG A Y+ +K+ + ++ ALRQE D ++V+ +
Sbjct: 117 PALREAGS-GRVVFLNSLSGKRVLAGNAGYSASKFALRALAHALRQEGWDHGVRVSAVCP 175
Query: 897 GDVKTELLSHSTDR 910
G V T + T
Sbjct: 176 GFVDTPMAQGLTLV 189
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 115 bits (289), Expect = 9e-29
Identities = 59/191 (30%), Positives = 86/191 (45%), Gaps = 3/191 (1%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
V+ +TG+SSGIG GAKVV AR + L L ++ G I DV
Sbjct: 2 VVVITGASSGIGRATALAFAERGAKVVLAARSAEALHELAREVRELGGEAIAVVADVADA 61
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILP 837
V++ + G ID VNNAGV F E EE+ + +VN G ++ LP
Sbjct: 62 AQVERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPEEFRRVFDVNYLGHVYGTLAALP 121
Query: 838 SMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV--SDRNIKVTCIQ 895
+ R G ++N+ S G R A Y+ +K+ + G + +LR E+ I VT +Q
Sbjct: 122 HLR-RRGGGALINVGSLLGYRSAPLQAAYSASKHAVRGFTESLRAELAHDGAPISVTLVQ 180
Query: 896 AGDVKTELLSH 906
+ T H
Sbjct: 181 PTAMNTPFFGH 191
>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 = 115 bits (289), Expect = 1e-28
Identities = 61/210 (29%), Positives = 94/210 (44%), Gaps = 2/210 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG+S GIG + L GA +V +R ++ E + ++ D
Sbjct: 3 LKGKVALVTGASRGIGFGIASGLAEAGANIVINSRNEEKAEEAQQLIEKEGVEATAFTCD 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V+ E +K V + + G IDILVNNAG++ E++ EW +I+VN+ GV
Sbjct: 63 VSDEEAIKAAVEAIEEDFGKIDILVNNAGIIRRHPAEEFPEAEWRDVIDVNLNGVFFVSQ 122
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+ M+ G I+NI S + Y +K + G++ AL E + I+V
Sbjct: 123 AVARHMIKQGH-GKIINICSLLSELGGPPVPAYAASKGGVAGLTKALATEWARHGIQVNA 181
Query: 894 IQAGDVKTELLSHSTDRDVVDKYDISKAVP 923
I G TE+ + DI K +P
Sbjct: 182 IAPGYFATEMTEAVVADPEFND-DILKRIP 210
>gnl|CDD|235924 PRK07063, PRK07063, short chain dehydrogenase; Provisional.
Length = 260
Score = 114 bits (288), Expect = 3e-28
Identities = 57/200 (28%), Positives = 89/200 (44%), Gaps = 11/200 (5%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQN--APGSI 767
N LA KV VTG++ GIG + + GA V E ++ A +
Sbjct: 1 MMNRLAGKVALVTGAAQGIGAAIARAFAREGAAVALADLDAALAERAAAAIARDVAGARV 60
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYF----TLMEKYKLEEWNAMINV 823
+ DVT V V G +D+LVNNAG+ F + + E+W V
Sbjct: 61 LAVPADVTDAASVAAAVAAAEEAFGPLDVLVNNAGINVFADPLAMTD----EDWRRCFAV 116
Query: 824 NIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQE 883
++ G + +LP M+ R G I+NI+S + G Y K+ + G++ AL E
Sbjct: 117 DLDGAWNGCRAVLPGMV-ERGRGSIVNIASTHAFKIIPGCFPYPVAKHGLLGLTRALGIE 175
Query: 884 VSDRNIKVTCIQAGDVKTEL 903
+ RN++V I G ++T+L
Sbjct: 176 YAARNVRVNAIAPGYIETQL 195
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 114 bits (286), Expect = 3e-28
Identities = 57/206 (27%), Positives = 99/206 (48%), Gaps = 4/206 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVA----RRIDRLENLKTSLQNAPGSIIV 769
L ++ + +TG S G+G + L GA V+ + R + + ++ A G +
Sbjct: 4 LDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAGGKALG 63
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
DV + + + E G +DILVNNAG+ + +EEW+ +I+VN+ G
Sbjct: 64 LAFDVRDFAATRAALDAGVEEFGRLDILVNNAGIATDAAFAELSIEEWDDVIDVNLDGFF 123
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
+ LP M+ +RR G I+NI+S AGVR G Y +K + G++ L E++ R I
Sbjct: 124 NVTQAALPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASKAGLIGLTKTLANELAPRGI 183
Query: 890 KVTCIQAGDVKTELLSHSTDRDVVDK 915
V + G + T + ++ + +
Sbjct: 184 TVNAVAPGAINTPMADNAAPTEHLLN 209
>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 = 113 bits (286), Expect = 3e-28
Identities = 60/201 (29%), Positives = 89/201 (44%), Gaps = 19/201 (9%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENL--KTSLQ--NAPGSIIVKKL 772
KV +TG +SGIG K L+ GAKV +DR EN LQ N +
Sbjct: 1 KVAIITGGASGIGLATAKLLLKKGAKVAI----LDRNENPGAAAELQAINPKVKATFVQC 56
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGV-----MYFTLMEKYKLEEWNAMINVNIKG 827
DVT + ++ + + G +DIL+NNAG+ F W I+VN+ G
Sbjct: 57 DVTSWEQLAAAFKKAIEKFGRVDILINNAGILDEKSYLFAGKLP---PPWEKTIDVNLTG 113
Query: 828 VLHCIGNILPSMLHS--RRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQE-V 884
V++ L M + + G I+NI S AG+ P VY+ +K+ + G + +L
Sbjct: 114 VINTTYLALHYMDKNKGGKGGVIVNIGSVAGLYPAPQFPVYSASKHGVVGFTRSLADLLE 173
Query: 885 SDRNIKVTCIQAGDVKTELLS 905
++V I G T LL
Sbjct: 174 YKTGVRVNAICPGFTNTPLLP 194
>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 = 112 bits (283), Expect = 7e-28
Identities = 63/209 (30%), Positives = 99/209 (47%), Gaps = 5/209 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVA-VARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
++ VTG GIG + + L G +V A +R E V + DV+
Sbjct: 1 RIALVTGGMGGIGTAICQRLAKDGYRVAANCGPNEERAEAWLQEQGALGFDFRVVEGDVS 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
K V +V AELG ID+LVNNAG+ +K E+W+A+I+ N+ V + +
Sbjct: 61 SFESCKAAVAKVEAELGPIDVLVNNAGITRDATFKKMTYEQWSAVIDTNLNSVFNVTQPV 120
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
+ M R G I+NISS G + G Y+ K + G + AL QE + + + V I
Sbjct: 121 IDGMR-ERGWGRIINISSVNGQKGQFGQTNYSAAKAGMIGFTKALAQEGATKGVTVNTIS 179
Query: 896 AGDVKTELLSHSTDRDVVDKYDISKAVPV 924
G + T+++ + DV++ I +PV
Sbjct: 180 PGYIATDMVM-AMREDVLNS--IVAQIPV 205
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 115 bits (290), Expect = 8e-28
Identities = 60/197 (30%), Positives = 87/197 (44%), Gaps = 7/197 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
+ +V+ +TG+S+G+G + GAKVV +AR + LE L ++ A G + D
Sbjct: 6 IGRQVVVITGASAGVGRATARAFARRGAKVVLLARGEEGLEALAAEIRAAGGEALAVVAD 65
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V V+ ELG ID VNNA V F E EE+ + V GV+H G
Sbjct: 66 VADAEAVQAAADRAEEELGPIDTWVNNAMVTVFGPFEDVTPEEFRRVTEVTYLGVVH--G 123
Query: 834 NI--LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV-SDR-NI 889
+ L M R G I+ + S R + Y K+ I G + +LR E+ D +
Sbjct: 124 TLAALRHMR-PRDRGAIIQVGSALAYRSIPLQSAYCAAKHAIRGFTDSLRCELLHDGSPV 182
Query: 890 KVTCIQAGDVKTELLSH 906
VT +Q V T
Sbjct: 183 SVTMVQPPAVNTPQFDW 199
>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 = 111 bits (279), Expect = 2e-27
Identities = 58/195 (29%), Positives = 88/195 (45%), Gaps = 9/195 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L + +TG +SGIG L + + G V+ RR +RL K L N LD
Sbjct: 3 LTGNTVLITGGTSGIGLALARKFLEAGNTVIITGRREERLAEAKKELPNIHT----IVLD 58
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMY---FTLMEKYKLEEWNAMINVNIKGVLH 830
V V+ + +L+E ++DIL+NNAG+ L++ + I+ N+ G +
Sbjct: 59 VGDAESVEALAEALLSEYPNLDILINNAGIQRPIDLRDPASD-LDKADTEIDTNLIGPIR 117
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
I LP L + I+N+SS P A VY TK + + ALR ++ D ++
Sbjct: 118 LIKAFLP-HLKKQPEATIVNVSSGLAFVPMAANPVYCATKAALHSYTLALRHQLKDTGVE 176
Query: 891 VTCIQAGDVKTELLS 905
V I V TEL
Sbjct: 177 VVEIVPPAVDTELHE 191
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 111 bits (280), Expect = 2e-27
Identities = 62/200 (31%), Positives = 100/200 (50%), Gaps = 7/200 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG+SSG+G + + L GAKVV +RR++RL+ L+ ++ G+ V LD
Sbjct: 7 LEGKVALVTGASSGLGARFAQVLAQAGAKVVLASRRVERLKELRAEIEAEGGAAHVVSLD 66
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT +K V E G IDILVNN+GV + +++ + + N +G
Sbjct: 67 VTDYQSIKAAVAHAETEAGTIDILVNNSGVSTTQKLVDVTPADFDFVFDTNTRGAFFVAQ 126
Query: 834 NILPSML-------HSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSD 886
+ M+ +++ G I+NI+S AG+R + +Y +K + ++ A+ E
Sbjct: 127 EVAKRMIARAKGAGNTKPGGRIINIASVAGLRVLPQIGLYCMSKAAVVHMTRAMALEWGR 186
Query: 887 RNIKVTCIQAGDVKTELLSH 906
I V I G + TE+ H
Sbjct: 187 HGINVNAICPGYIDTEINHH 206
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 111 bits (280), Expect = 3e-27
Identities = 61/193 (31%), Positives = 92/193 (47%), Gaps = 19/193 (9%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K+I VTG SSGIG +VK+L+ GA VV ++ V D
Sbjct: 7 LQGKIIIVTGGSSGIGLAIVKELLANGANVVNA--------DIHGGDGQHENYQFV-PTD 57
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLM-------EKYKLEE--WNAMINVN 824
V+ +V V E++ + G ID LVNNAG+ L+ KY+L E ++ M N+N
Sbjct: 58 VSSAEEVNHTVAEIIEKFGRIDGLVNNAGINIPRLLVDEKDPAGKYELNEAAFDKMFNIN 117
Query: 825 IKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV 884
KGV + M+ + G I+N+SS AG+ G + Y TK + + + +E+
Sbjct: 118 QKGVFLMSQAVARQMV-KQHDGVIVNMSSEAGLEGSEGQSCYAATKAALNSFTRSWAKEL 176
Query: 885 SDRNIKVTCIQAG 897
NI+V + G
Sbjct: 177 GKHNIRVVGVAPG 189
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 111 bits (280), Expect = 3e-27
Identities = 50/146 (34%), Positives = 79/146 (54%), Gaps = 6/146 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L+ K VTG S G+G Q+ + L GA+VV AR+ + LE L+ + D
Sbjct: 10 LSGKTALVTGGSRGLGLQIAEALGEAGARVVLSARKAEELEEAAAHLEALGIDALWIAAD 69
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL---H 830
V E D++++ E L GH+DILVNNAG + E + +E W+ ++N+N++G+
Sbjct: 70 VADEADIERLAEETLERFGHVDILVNNAGATWGAPAEDHPVEAWDKVMNLNVRGLFLLSQ 129
Query: 831 CIGNILPSMLHSRRPGHILNISSNAG 856
+ SM+ R G I+N++S AG
Sbjct: 130 AVAKR--SMI-PRGYGRIINVASVAG 152
>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 = 110 bits (278), Expect = 3e-27
Identities = 58/188 (30%), Positives = 97/188 (51%), Gaps = 9/188 (4%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL-QNAPGSIIVKKLDVTIEND 779
VTG++ GIG+ ++L G V+ ++R ++L+ + + + D + +D
Sbjct: 6 VTGATDGIGKAYAEELAKRGFNVILISRTQEKLDAVAKEIEEKYGVETKTIAADFSAGDD 65
Query: 780 VKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLE----EWNAMINVNIKGVLHCIGNI 835
+ + + + L L I ILVNN G+ + + +Y LE E +INVN+ L I
Sbjct: 66 IYERIEKELEGL-DIGILVNNVGISHS--IPEYFLETPEDELQDIINVNVMATLKMTRLI 122
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
LP M+ R+ G I+NISS AG+ P LA Y+ +K F++ S AL +E + I V +
Sbjct: 123 LPGMV-KRKKGAIVNISSFAGLIPTPLLATYSASKAFLDFFSRALYEEYKSQGIDVQSLL 181
Query: 896 AGDVKTEL 903
V T++
Sbjct: 182 PYLVATKM 189
>gnl|CDD|187573 cd05263, MupV_like_SDR_e, Pseudomonas fluorescens MupV-like,
extended (e) SDRs. This subgroup of extended SDR family
domains have the characteristic active site tetrad and a
well-conserved NAD(P)-binding motif. This subgroup is
not well characterized, its members are annotated as
having a variety of putative functions. One
characterized member is Pseudomonas fluorescens MupV a
protein involved in the biosynthesis of Mupirocin, a
polyketide-derived antibiotic. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 111 bits (280), Expect = 5e-27
Identities = 64/281 (22%), Positives = 129/281 (45%), Gaps = 21/281 (7%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTD 381
V +TG TG+LG HL+++ L++ + VR +R+E+ L+ D
Sbjct: 1 VFVTGGTGFLGRHLVKR-LLENGFKVLVLVRSESLGEAHERIEEAGLE----------AD 49
Query: 382 RLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKNLI 441
R+ +++ DL+ LGL + L+ ++D +IH AA + P +++N+ T++++
Sbjct: 50 RVRVLEGDLTQPNLGL-SAAASRELAGKVDHVIHCAASYDFQAPNEDAWRTNIDGTEHVL 108
Query: 442 EFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNA 501
E + I+ FHYVST Y + N + + + + + Y QSK +E LV A
Sbjct: 109 ELAARLDIQRFHYVST--AY--VAGNREGNIRETELNPGQNFKNPYEQSKAEAEQLVRAA 164
Query: 502 GQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITRLGYAP----DIDWYLEFTPVD 557
+P+++ R + G + +D +L + +LG + L PVD
Sbjct: 165 ATQ-IPLTVYRPSIVVGDSKTGRIEKIDGLYELLNLLAKLGRWLPMPGNKGARLNLVPVD 223
Query: 558 FLTKSLVQLTTNVNNANKIYNFINTNPIHIKTLVSVLNTYG 598
++ ++V L+ +I++ + P ++ + + +
Sbjct: 224 YVADAIVYLSKKPEANGQIFHLTDPTPQTLREIADLFKSAF 264
Score = 33.5 bits (77), Expect = 0.43
Identities = 25/117 (21%), Positives = 43/117 (36%), Gaps = 16/117 (13%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+FVTG + +G LVK L+ G KV+ + R E+L + + + + +E
Sbjct: 1 VFVTGGTGFLGRHLVKRLLENGFKVLVLVRS----ESLGEAHERIEEAGLEADRVRVLEG 56
Query: 779 DVKKVV-----REVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
D+ + G +D +++ A F NI G H
Sbjct: 57 DLTQPNLGLSAAASRELAGKVDHVIHCAASYDFQAPN-------EDAWRTNIDGTEH 106
>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 = 110 bits (277), Expect = 5e-27
Identities = 54/191 (28%), Positives = 88/191 (46%), Gaps = 9/191 (4%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV VT +SSGIG + + L GA+V AR + LE + L+ ++ D+T
Sbjct: 1 GKVALVTAASSGIGLAIARALAREGARVAICARNRENLERAASELRAGGAGVLAVVADLT 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAG----VMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
D+ ++V + G +DILVNNAG + L E+W ++ + V+
Sbjct: 61 DPEDIDRLVEKAGDAFGRVDILVNNAGGPPPGPFAEL----TDEDWLEAFDLKLLSVIRI 116
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ +LP M R G I+NISS P L + + + G+ L +E++ + V
Sbjct: 117 VRAVLPGMK-ERGWGRIVNISSLTVKEPEPNLVLSNVARAGLIGLVKTLSRELAPDGVTV 175
Query: 892 TCIQAGDVKTE 902
+ G + TE
Sbjct: 176 NSVLPGYIDTE 186
>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 = 110 bits (276), Expect = 6e-27
Identities = 66/233 (28%), Positives = 101/233 (43%), Gaps = 18/233 (7%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVAR---RIDRLENLKT---------SLQ 761
L+ KV FVTG+S GIG + L GA VV A+ D ++
Sbjct: 1 LSGKVAFVTGASRGIGRAIALRLAKAGATVVVAAKTASEGDNGSAKSLPGTIEETAEEIE 60
Query: 762 NAPGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMI 821
A G + +DV E+ V+ +V + + G +DILVNNAG ++ +L+E + ++ M
Sbjct: 61 AAGGQALPIVVDVRDEDQVRALVEATVDQFGRLDILVNNAGAIWLSLVEDTPAKRFDLMQ 120
Query: 822 NVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALR 881
VN++G LP M+ + + GHILNIS +RP G Y K + ++ L
Sbjct: 121 RVNLRGTYLLSQAALPHMVKAGQ-GHILNISPPLSLRPARGDVAYAAGKAGMSRLTLGLA 179
Query: 882 QEVSDRNIKVTC-----IQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKE 929
E+ I V TEL S +S AV + ++
Sbjct: 180 AELRRHGIAVNSLWPSTAIETPAATELSGGSDPARARSPEILSDAVLAILSRP 232
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 109 bits (274), Expect = 8e-27
Identities = 51/192 (26%), Positives = 86/192 (44%), Gaps = 5/192 (2%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGS-IIVK 770
++L KV+ +TG G+G L GA+V + R L +L P + +
Sbjct: 3 HSLQGKVVAITGGFGGLGRATAAWLAARGARVALIGRGAAPLSQ---TLPGVPADALRIG 59
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
+D+ ++ V EV + G +D LVN AG + + + W+ M VN+K L+
Sbjct: 60 GIDLVDPQAARRAVDEVNRQFGRLDALVNIAGAFVWGTIADGDADTWDRMYGVNVKTTLN 119
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
LP++ S G I+NI + A ++ G+ Y K + ++ AL E+ DR I
Sbjct: 120 ASKAALPALTASGG-GRIVNIGAGAALKAGPGMGAYAAAKAGVARLTEALAAELLDRGIT 178
Query: 891 VTCIQAGDVKTE 902
V + + T
Sbjct: 179 VNAVLPSIIDTP 190
>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 = 109 bits (274), Expect = 1e-26
Identities = 61/194 (31%), Positives = 91/194 (46%), Gaps = 10/194 (5%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENL--KTSLQNAPGSIIV 769
N L KV VTG + G+G + LV GAKVV D L+ + + +
Sbjct: 1 NRLKGKVAIVTGGARGLGLAHARLLVAEGAKVVLS----DILDEEGQAAAAELGDAARFF 56
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
LDVT E+ VV G +D+LVNNAG++ +E LEEW ++++N+ GV
Sbjct: 57 H-LDVTDEDGWTAVVDTAREAFGRLDVLVNNAGILTGGTVETTTLEEWRRLLDINLTGVF 115
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGI--SGALRQEVSDR 887
++P M + G I+N+SS G+ LA Y +K + G+ S AL
Sbjct: 116 LGTRAVIPPMKEAGG-GSIINMSSIEGLVGDPALAAYNASKGAVRGLTKSAALECATQGY 174
Query: 888 NIKVTCIQAGDVKT 901
I+V + G + T
Sbjct: 175 GIRVNSVHPGYIYT 188
>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 = 109 bits (274), Expect = 2e-26
Identities = 57/195 (29%), Positives = 103/195 (52%), Gaps = 9/195 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLEN-----LKTSLQNAPGSII 768
L+ KV +TGSSSGIG LGA++ R +RLE L+ + ++
Sbjct: 1 LSGKVAIITGSSSGIGAGTAILFARLGARLALTGRDAERLEETRQSCLQAGVSEKKILLV 60
Query: 769 VKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGV 828
V D+T E +++ LA+ G +DILVNNAG++ E +EE++ ++N+N++ V
Sbjct: 61 VA--DLTEEEGQDRIISTTLAKFGRLDILVNNAGILAKGGGEDQDIEEYDKVMNLNLRAV 118
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
++ +P ++ ++ G I+N+SS AG R F G+ Y +K ++ + E++ +
Sbjct: 119 IYLTKLAVPHLIKTK--GEIVNVSSVAGGRSFPGVLYYCISKAALDQFTRCTALELAPKG 176
Query: 889 IKVTCIQAGDVKTEL 903
++V + G + T
Sbjct: 177 VRVNSVSPGVIVTGF 191
>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 = 109 bits (274), Expect = 2e-26
Identities = 53/189 (28%), Positives = 94/189 (49%), Gaps = 1/189 (0%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDR-LENLKTSLQNAPGSIIVKKLDV 774
+KV +TG++ GIG + + L G +V ++ ++ + A + + DV
Sbjct: 2 SKVAIITGAAQGIGRAIAERLAADGFNIVLADLNLEEAAKSTIQEISEAGYNAVAVGADV 61
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
T ++DV+ ++ + + + G D++VNNAG+ T + E+ + VN+ GVL I
Sbjct: 62 TDKDDVEALIDQAVEKFGSFDVMVNNAGIAPITPLLTITEEDLKKVYAVNVFGVLFGIQA 121
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
G I+N SS AGV+ F L Y+ +K+ + G++ QE++ + I V
Sbjct: 122 AARQFKKLGHGGKIINASSIAGVQGFPNLGAYSASKFAVRGLTQTAAQELAPKGITVNAY 181
Query: 895 QAGDVKTEL 903
G VKTE+
Sbjct: 182 APGIVKTEM 190
>gnl|CDD|236190 PRK08220, PRK08220, 2,3-dihydroxybenzoate-2,3-dehydrogenase;
Validated.
Length = 252
Score = 108 bits (273), Expect = 2e-26
Identities = 46/162 (28%), Positives = 74/162 (45%), Gaps = 10/162 (6%)
Query: 709 VFGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSII 768
+ + K ++VTG++ GIG + V GAKV+ D+ + A
Sbjct: 1 MNAMDFSGKTVWVTGAAQGIGYAVALAFVEAGAKVIGF----DQAFLTQEDYPFAT---- 52
Query: 769 VKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGV 828
LDV+ V +V + +LAE G +D+LVN AG++ + E+W VN G
Sbjct: 53 -FVLDVSDAAAVAQVCQRLLAETGPLDVLVNAAGILRMGATDSLSDEDWQQTFAVNAGGA 111
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
+ ++P +R G I+ + SNA P G+A Y +K
Sbjct: 112 FNLFRAVMPQF-RRQRSGAIVTVGSNAAHVPRIGMAAYGASK 152
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 108 bits (272), Expect = 3e-26
Identities = 62/219 (28%), Positives = 102/219 (46%), Gaps = 12/219 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K +TG+ GIGE + + GA ++ + +E L L D
Sbjct: 4 LTGKTALITGALQGIGEGIARVFARHGANLILLDIS-PEIEKLADELCGRGHRCTAVVAD 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V V ++ + G IDILVNNAGV E+ + I++NIKGV +
Sbjct: 63 VRDPASVAAAIKRAKEKEGRIDILVNNAGVCRLGSFLDMSDEDRDFHIDINIKGVWNVTK 122
Query: 834 NILPSMLHSRRPGHILNISSNAG-VRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+LP M+ +R+ G I+ +SS G + G Y TK I G++ +L E + I+V
Sbjct: 123 AVLPEMI-ARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLAVEYAQSGIRVN 181
Query: 893 CIQAGDVKT---ELLSHSTDRD----VVDKYDISKAVPV 924
I G V+T E ++ ++ + V+ +++KA+P+
Sbjct: 182 AICPGYVRTPMAESIARQSNPEDPESVLT--EMAKAIPL 218
>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 = 107 bits (269), Expect = 5e-26
Identities = 58/190 (30%), Positives = 93/190 (48%), Gaps = 8/190 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
A K VTG+ GIG VK L GA+VVAV+R L++L ++ PG I +D
Sbjct: 5 FAGKRALVTGAGKGIGRATVKALAKAGARVVAVSRTQADLDSL---VRECPG-IEPVCVD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
++ + D E L +G +D+LVNNA V + E ++ +VN++ V+H
Sbjct: 61 LS-DWDA---TEEALGSVGPVDLLVNNAAVAILQPFLEVTKEAFDRSFDVNVRAVIHVSQ 116
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+ M+ PG I+N+SS A R VY TK ++ ++ + E+ I+V
Sbjct: 117 IVARGMIARGVPGSIVNVSSQASQRALTNHTVYCSTKAALDMLTKVMALELGPHKIRVNS 176
Query: 894 IQAGDVKTEL 903
+ V T++
Sbjct: 177 VNPTVVMTDM 186
>gnl|CDD|187585 cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl
reductase (PTCR)-like, classical (c) SDRs. PTCR is a
classical SDR which catalyzes the NADPH-dependent
reduction of ketones on steroids and prostaglandins.
Unlike most SDRs, PTCR functions as a monomer. This
subgroup also includes human carbonyl reductase 1 (CBR1)
and CBR3. CBR1 is an NADPH-dependent SDR with broad
substrate specificity and may be responsible for the in
vivo reduction of quinones, prostaglandins, and other
carbonyl-containing compounds. In addition it includes
poppy NADPH-dependent salutaridine reductase which
catalyzes the stereospecific reduction of salutaridine
to 7(S)-salutaridinol in the biosynthesis of morphine,
and Arabidopsis SDR1,a menthone reductase, which
catalyzes the reduction of menthone to neomenthol, a
compound with antimicrobial activity; SDR1 can also
carry out neomenthol oxidation. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 225
Score = 106 bits (267), Expect = 7e-26
Identities = 55/198 (27%), Positives = 91/198 (45%), Gaps = 7/198 (3%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGA-KVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV VTG++ GIG ++V+ L G V+ AR ++R + L+ S+ +LDVT
Sbjct: 1 KVALVTGANRGIGFEIVRQLAKSGPGTVILTARDVERGQAAVEKLRAEGLSVRFHQLDVT 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTL-MEKYKLEEWNAMINVNIKGVLHCIGN 834
+ ++ V + G +DILVNNAG+ + E+ + N G +
Sbjct: 61 DDASIEAAADFVEEKYGGLDILVNNAGIAFKGFDDSTPTREQARETMKTNFFGTVDVTQA 120
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
+LP +L G I+N+SS G A Y +K + ++ L +E+ + IKV
Sbjct: 121 LLP-LLKKSPAGRIVNVSSGLGSLTSA----YGVSKAALNALTRILAKELKETGIKVNAC 175
Query: 895 QAGDVKTELLSHSTDRDV 912
G VKT++ +
Sbjct: 176 CPGWVKTDMGGGKAPKTP 193
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 106 bits (268), Expect = 7e-26
Identities = 58/196 (29%), Positives = 93/196 (47%), Gaps = 4/196 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA-PG-SIIVKKLDV 774
+ I +TG+SSG+G + ++ G + ARR DRLE LK L PG + V LDV
Sbjct: 3 QKILITGASSGLGAGMAREFAAKGRDLALCARRTDRLEELKAELLARYPGIKVAVAALDV 62
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
+ V +V E ELG +D ++ NAG+ + K A N L
Sbjct: 63 NDHDQVFEVFAEFRDELGGLDRVIVNAGIGKGARLGTGKFWANKATAETNFVAALAQCEA 122
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAG-LAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+ + + GH++ ISS + VR G A Y +K + + LR E++ IKV+
Sbjct: 123 AM-EIFREQGSGHLVLISSVSAVRGLPGVKAAYAASKAGVASLGEGLRAELAKTPIKVST 181
Query: 894 IQAGDVKTELLSHSTD 909
I+ G +++E+ + +
Sbjct: 182 IEPGYIRSEMNAKAKS 197
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 107 bits (269), Expect = 8e-26
Identities = 62/189 (32%), Positives = 96/189 (50%), Gaps = 6/189 (3%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+KV VTG+ GIG + K LV G KV V + + L G I K DV+
Sbjct: 2 SKVALVTGAGQGIGFAIAKRLVEDGFKVAIVDYNEETAQAAADKLSKDGGKAIAVKADVS 61
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+ V VR+V+ G ++++VNNAGV T +E E+++ + N+N+ GV I I
Sbjct: 62 DRDQVFAAVRQVVDTFGDLNVVVNNAGVAPTTPIETITEEQFDKVYNINVGGV---IWGI 118
Query: 836 LPSMLHSRRPGH---ILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ ++ GH I+N +S AGV LAVY+ TK+ + G++ ++++ I V
Sbjct: 119 QAAQEAFKKLGHGGKIINATSQAGVVGNPELAVYSSTKFAVRGLTQTAARDLASEGITVN 178
Query: 893 CIQAGDVKT 901
G VKT
Sbjct: 179 AYAPGIVKT 187
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 112 bits (281), Expect = 8e-26
Identities = 57/227 (25%), Positives = 108/227 (47%), Gaps = 12/227 (5%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
+V+ VTG++ GIG + G +VV R ++R SL ++ +DV+
Sbjct: 6 RVVLVTGAAGGIGRAACQRFARAGDQVVVADRNVERARERADSLGPDHHAL---AMDVSD 62
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGV----MYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
E +++ ++ E G ID+LVNNAGV M TL LEE+ + +N+ G
Sbjct: 63 EAQIREGFEQLHREFGRIDVLVNNAGVTDPTMTATL--DTTLEEFARLQAINLTGAYLVA 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
L M+ I+N++S AG+ Y+ +K + ++ +L E + + I+V
Sbjct: 121 REALRLMIEQGHGAAIVNVASGAGLVALPKRTAYSASKAAVISLTRSLACEWAAKGIRVN 180
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIF 936
+ G V+T++++ +D + +P + +EI++++ F
Sbjct: 181 AVLPGYVRTQMVAELERAGKLDPSAVRSRIPLGRLGRPEEIAEAVFF 227
Score = 89.5 bits (222), Expect = 2e-18
Identities = 57/240 (23%), Positives = 107/240 (44%), Gaps = 17/240 (7%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
+ +V+ +TG + GIG + G +++ + R + + L +L + + D+
Sbjct: 268 SPRVVAITGGARGIGRAVADRFAAAGDRLLIIDRDAEGAKKLAEALG---DEHLSVQADI 324
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
T E V+ ++ A G +D+LVNNAG+ F + E++ + +VN+ G C
Sbjct: 325 TDEAAVESAFAQIQARWGRLDVLVNNAGIAEVFKPSLEQSAEDFTRVYDVNLSGAFACAR 384
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
M + G I+N+ S A + Y +K + +S +L E + I+V
Sbjct: 385 AAARLM---SQGGVIVNLGSIASLLALPPRNAYCASKAAVTMLSRSLACEWAPAGIRVNT 441
Query: 894 IQAGDVKT---ELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIFALLQPSHSAVN 947
+ G ++T L S D I + +P+ +E++++I F L P+ S VN
Sbjct: 442 VAPGYIETPAVLALKASGRADFD---SIRRRIPLGRLGDPEEVAEAIAF-LASPAASYVN 497
>gnl|CDD|180576 PRK06463, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 255
Score = 107 bits (268), Expect = 9e-26
Identities = 65/202 (32%), Positives = 101/202 (50%), Gaps = 10/202 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSIIVKKL 772
KV +TG + GIG + + + GAKV V + + L+ G +K
Sbjct: 5 FKGKVALITGGTRGIGRAIAEAFLREGAKVAVLYNSAENEAKELREK-----GVFTIK-C 58
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV + VKK V E G +D+LVNNAG+MY E++ E++N MI +N+ G ++
Sbjct: 59 DVGNRDQVKKSKEVVEKEFGRVDVLVNNAGIMYLMPFEEFDEEKYNKMIKINLNGAIYTT 118
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFA-GLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
LP + S+ G I+NI+SNAG+ A G Y TK I ++ L E+ I+V
Sbjct: 119 YEFLPLLKLSKN-GAIVNIASNAGIGTAAEGTTFYAITKAGIIILTRRLAFELGKYGIRV 177
Query: 892 TCIQAGDVKTEL-LSHSTDRDV 912
+ G V+T++ LS + +
Sbjct: 178 NAVAPGWVETDMTLSGKSQEEA 199
>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 = 106 bits (267), Expect = 1e-25
Identities = 54/186 (29%), Positives = 87/186 (46%), Gaps = 8/186 (4%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+ VTG++ GIG + + L+ GA V+A+ D L + + LDV
Sbjct: 1 VIVTGAAQGIGRAVARHLLQAGATVIAL----DLPFV---LLLEYGDPLRLTPLDVADAA 53
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
V++V +LAE G ID LVN AGV+ + E+W VN+ GV + + + P
Sbjct: 54 AVREVCSRLLAEHGPIDALVNCAGVLRPGATDPLSTEDWEQTFAVNVTGVFNLLQAVAPH 113
Query: 839 MLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGD 898
M RR G I+ ++SNA P +A Y +K + +S L E++ ++ + G
Sbjct: 114 MK-DRRTGAIVTVASNAAHVPRISMAAYGASKAALASLSKCLGLELAPYGVRCNVVSPGS 172
Query: 899 VKTELL 904
T +
Sbjct: 173 TDTAMQ 178
>gnl|CDD|235693 PRK06077, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 252
Score = 106 bits (267), Expect = 1e-25
Identities = 68/246 (27%), Positives = 118/246 (47%), Gaps = 33/246 (13%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL---QNAPGSIIVK 770
L +KV+ VTGS GIG + L G+ VV A++ R E + +L + G I
Sbjct: 4 LKDKVVVVTGSGRGIGRAIAVRLAKEGSLVVVNAKK--RAEEMNETLKMVKENGGEGIGV 61
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFT--------LMEKYKLEEWNAMIN 822
DV+ + + + + G DILVNNAG+ F+ L++K I+
Sbjct: 62 LADVSTREGCETLAKATIDRYGVADILVNNAGLGLFSPFLNVDDKLIDK--------HIS 113
Query: 823 VNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
+ K V++C + M R G I+NI+S AG+RP GL++Y K + ++ L
Sbjct: 114 TDFKSVIYCSQELAKEM---REGGAIVNIASVAGIRPAYGLSIYGAMKAAVINLTKYLAL 170
Query: 883 EVSDRNIKVTCIQAGDVKTEL------LSHSTDRDVVDKYDISKAVPVLTTKEISQSIIF 936
E++ + I+V I G VKT+L + ++++ +K+ + +L +E+++ +
Sbjct: 171 ELAPK-IRVNAIAPGFVKTKLGESLFKVLGMSEKEFAEKFTLMGK--ILDPEEVAEFVAA 227
Query: 937 ALLQPS 942
L S
Sbjct: 228 ILKIES 233
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 106 bits (265), Expect = 2e-25
Identities = 63/226 (27%), Positives = 111/226 (49%), Gaps = 8/226 (3%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVAR-RIDRLENLKTSLQNAPGSIIVKKLD 773
K+ VTG+ GIG + ++L+ G +V+A D ++ + +K+LD
Sbjct: 1 MKKIALVTGAKRGIGSAIARELLNDGYRVIATYFSGNDCAKDWFEEYGFTEDQVRLKELD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT + + + E+ E G +DILVNNAG+ ++ ++ +EWN +IN N+ V +
Sbjct: 61 VTDTEECAEALAEIEEEEGPVDILVNNAGITRDSVFKRMSHQEWNDVINTNLNSVFNVTQ 120
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+ +M + G I+NISS G++ G Y+ K + G + AL E + I V C
Sbjct: 121 PLFAAM-CEQGYGRIINISSVNGLKGQFGQTNYSAAKAGMIGFTKALASEGARYGITVNC 179
Query: 894 IQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIF 936
I G + T ++ +V+ I +P+ T +EI+ ++ F
Sbjct: 180 IAPGYIATPMVEQMGP-EVLQS--IVNQIPMKRLGTPEEIAAAVAF 222
>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 = 106 bits (267), Expect = 2e-25
Identities = 58/206 (28%), Positives = 94/206 (45%), Gaps = 38/206 (18%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQ-NAPGSIIVKK---- 771
K + +TG SG G L K L +LG V+A L N PG+ +++
Sbjct: 1 KAVLITGCDSGFGNLLAKKLDSLGFTVLA------------GCLTKNGPGAKELRRVCSD 48
Query: 772 ------LDVTIENDVKKVVREVLAELGHIDI--LVNNAGVMYF------TLMEKYKLEEW 817
LDVT +K+ + V +G + LVNNAG++ F M+ Y+
Sbjct: 49 RLRTLQLDVTKPEQIKRAAQWVKEHVGEKGLWGLVNNAGILGFGGDEELLPMDDYR---- 104
Query: 818 NAMINVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGIS 877
+ VN+ G + LP + ++ G ++N+SS G PF Y +K +E S
Sbjct: 105 -KCMEVNLFGTVEVTKAFLPLLRRAK--GRVVNVSSMGGRVPFPAGGAYCASKAAVEAFS 161
Query: 878 GALRQEVSDRNIKVTCIQAGDVKTEL 903
+LR+E+ +KV+ I+ G+ KT +
Sbjct: 162 DSLRRELQPWGVKVSIIEPGNFKTGI 187
>gnl|CDD|184025 PRK13394, PRK13394, 3-hydroxybutyrate dehydrogenase; Provisional.
Length = 262
Score = 106 bits (265), Expect = 3e-25
Identities = 51/198 (25%), Positives = 87/198 (43%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK 771
+ L K VTG++SGIG+++ +L GA V D + + A G I
Sbjct: 3 SNLNGKTAVVTGAASGIGKEIALELARAGAAVAIADLNQDGANAVADEINKAGGKAIGVA 62
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
+DVT E+ V + +V G +DILV+NAG+ +E Y +W M +++ G
Sbjct: 63 MDVTNEDAVNAGIDKVAERFGSVDILVSNAGIQIVNPIENYSFADWKKMQAIHVDGAFLT 122
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
L M R G ++ + S + Y K+ + G++ L +E + N++
Sbjct: 123 TKAALKHMYKDDRGGVVIYMGSVHSHEASPLKSAYVTAKHGLLGLARVLAKEGAKHNVRS 182
Query: 892 TCIQAGDVKTELLSHSTD 909
+ G V+T L+
Sbjct: 183 HVVCPGFVRTPLVDKQIP 200
>gnl|CDD|181297 PRK08217, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 105 bits (264), Expect = 3e-25
Identities = 62/239 (25%), Positives = 117/239 (48%), Gaps = 20/239 (8%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +KVI +TG + G+G + + L GAK+ + ++LE + +
Sbjct: 3 LKDKVIVITGGAQGLGRAMAEYLAQKGAKLALIDLNQEKLEEAVAECGALGTEVRGYAAN 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYK---------LEEWNAMINVN 824
VT E DV+ ++ + G ++ L+NNAG++ L+ K K LE++ ++I+VN
Sbjct: 63 VTDEEDVEATFAQIAEDFGQLNGLINNAGILRDGLLVKAKDGKVTSKMSLEQFQSVIDVN 122
Query: 825 IKGVLHCIGNILPSMLHSRRPGHILNISS--NAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
+ GV C M+ S G I+NISS AG G Y+ +K + ++ +
Sbjct: 123 LTGVFLCGREAAAKMIESGSKGVIINISSIARAGN---MGQTNYSASKAGVAAMTVTWAK 179
Query: 883 EVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIFAL 938
E++ I+V I G ++TE+ + + + +++ + K +PV +EI+ ++ F +
Sbjct: 180 ELARYGIRVAAIAPGVIETEMTA-AMKPEALER--LEKMIPVGRLGEPEEIAHTVRFII 235
>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 = 104 bits (263), Expect = 7e-25
Identities = 59/252 (23%), Positives = 108/252 (42%), Gaps = 31/252 (12%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL-QNAPGSII-VKKLDV 774
KV+ +TG++SGIG++ ++L GA V+ R ++ E + + + + V +LD+
Sbjct: 2 KVVVITGANSGIGKETARELAKRGAHVIIACRNEEKGEEAAAEIKKETGNAKVEVIQLDL 61
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLME-KYKLEEWNAMINVNIKGVLHCIG 833
+ V++ E LA +DIL+NNAG+M K E VN G
Sbjct: 62 SSLASVRQFAEEFLARFPRLDILINNAGIMAPPRRLTKDGFE---LQFAVNYLGHFLLTN 118
Query: 834 NILPSMLHSRRPGHILNISSNA--------------GVRPFAGLAVYTGTK----YFIEG 875
+LP + S P I+N+SS A + ++ Y +K F
Sbjct: 119 LLLPVLKAS-APSRIVNVSSIAHRAGPIDFNDLDLENNKEYSPYKAYGQSKLANILFTR- 176
Query: 876 ISGALRQEVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSII 935
L + + + V + G V+TELL + ++ K + + + ++ +Q+ +
Sbjct: 177 ---ELARRLEGTGVTVNALHPGVVRTELLRRNGSFFLLYK--LLRPFLKKSPEQGAQTAL 231
Query: 936 FALLQPSHSAVN 947
+A P V+
Sbjct: 232 YAATSPELEGVS 243
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 104 bits (260), Expect = 7e-25
Identities = 71/237 (29%), Positives = 120/237 (50%), Gaps = 16/237 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L+ + VTG+S GIGE++ + L GA V R+++LE L L VK
Sbjct: 4 LSGRKALVTGASGGIGEEIARLLHAQGAIVGLHGTRVEKLEALAAELGER-----VKIFP 58
Query: 774 VTIEN--DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
+ + +VK + ++ A+L +DILVNNAG+ L + E+W++++ VN+
Sbjct: 59 ANLSDRDEVKALGQKAEADLEGVDILVNNAGITKDGLFVRMSDEDWDSVLEVNLTATFRL 118
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ M+ RR G I+NI+S GV G A Y +K + G S +L QE++ RN+ V
Sbjct: 119 TRELTHPMMR-RRYGRIINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQEIATRNVTV 177
Query: 892 TCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIFALLQPSHSA 945
C+ G +++ + D+ K I A+P+ T E++ ++ + L S +A
Sbjct: 178 NCVAPGFIESAMTGKLNDK---QKEAIMGAIPMKRMGTGAEVASAVAY--LASSEAA 229
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 104 bits (261), Expect = 8e-25
Identities = 59/192 (30%), Positives = 100/192 (52%), Gaps = 8/192 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG ++G+G+ L GA ++ + + + ++ + ++D
Sbjct: 13 LDGKVAIVTGGNTGLGQGYAVALAKAGADII-ITTHGTNWDETRRLIEKEGRKVTFVQVD 71
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+T +KVV+E L E G IDILVNNAG + + +YK E+WNA++++N+ V H
Sbjct: 72 LTKPESAEKVVKEALEEFGKIDILVNNAGTIRRAPLLEYKDEDWNAVMDINLNSVYHLSQ 131
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAG---LAVYTGTKYFIEGISGALRQEVSDRNIK 890
+ M + G I+NI+S + F G + YT +K+ + G++ A E++ NI+
Sbjct: 132 AVAKVMA-KQGSGKIINIAS---MLSFQGGKFVPAYTASKHGVAGLTKAFANELAAYNIQ 187
Query: 891 VTCIQAGDVKTE 902
V I G +KT
Sbjct: 188 VNAIAPGYIKTA 199
>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 = 103 bits (260), Expect = 9e-25
Identities = 68/249 (27%), Positives = 123/249 (49%), Gaps = 26/249 (10%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGS-IIVKKLDV 774
+K+I +TG++ IG+ K L++ GA+++ LE LK L N + +I +LD+
Sbjct: 2 DKIILITGAAGLIGKAFCKALLSAGARLILADINAPALEQLKEELTNLYKNRVIALELDI 61
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGV---MYFTLMEKYKLEEWNAMINVNIKGVLHC 831
T + +K+++ L + G IDIL+NNA ++ + E++ E+WN ++NVN+ G C
Sbjct: 62 TSKESIKELIESYLEKFGRIDILINNAYPSPKVWGSRFEEFPYEQWNEVLNVNLGGAFLC 121
Query: 832 IGNILPSMLHSRRPGHILNISSNAGV-----RPFAGL-----AVYTGTKYFIEGISGALR 881
+ + G I+NI+S GV R + Y+ K I ++ L
Sbjct: 122 SQAFIKLFKKQGK-GSIINIASIYGVIAPDFRIYENTQMYSPVEYSVIKAGIIHLTKYLA 180
Query: 882 QEVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIFAL 938
+ +D I+V I G + ++ + ++KY +K P +L +++ +IIF L
Sbjct: 181 KYYADTGIRVNAISPGGIL-----NNQPSEFLEKY--TKKCPLKRMLNPEDLRGAIIF-L 232
Query: 939 LQPSHSAVN 947
L + S V
Sbjct: 233 LSDASSYVT 241
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 103 bits (260), Expect = 1e-24
Identities = 63/208 (30%), Positives = 95/208 (45%), Gaps = 17/208 (8%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K IF+TG++SGIG G +V A L L L G+ LDVT
Sbjct: 2 KSIFITGAASGIGRATALLFAAEGWRVGAYDINEAGLAALAAEL--GAGNAWTGALDVT- 58
Query: 777 ENDVKKVVREVLAEL-----GHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
D + LA+ G +D+L NNAG++ E LE + +I++N+KGVL+
Sbjct: 59 --D-RAAWDAALADFAAATGGRLDVLFNNAGILRGGPFEDIPLEAHDRVIDINVKGVLNG 115
Query: 832 IGNILPSMLHSRRPG-HILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
LP PG ++N SS + + GLAVY+ TK+ + G++ AL E I+
Sbjct: 116 AHAALP--YLKATPGARVINTSSASAIYGQPGLAVYSATKFAVRGLTEALDLEWRRHGIR 173
Query: 891 VTCIQAGDVKTELLSHST---DRDVVDK 915
V + V T +L ++ D +
Sbjct: 174 VADVMPLFVDTAMLDGTSNEVDAGSTKR 201
>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 = 103 bits (259), Expect = 1e-24
Identities = 51/190 (26%), Positives = 83/190 (43%), Gaps = 1/190 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA-PGSIIVKKL 772
L KV F+TG +GIG+ + K LGA V R+ + LE + +A G +
Sbjct: 1 LKGKVAFITGGGTGIGKAIAKAFAELGASVAIAGRKPEVLEAAAEEISSATGGRAHPIQC 60
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV V+ V E L E G IDIL+NNA + E + +I++++ G +
Sbjct: 61 DVRDPEAVEAAVDETLKEFGKIDILINNAAGNFLAPAESLSPNGFKTVIDIDLNGTFNTT 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ ++ ++ G ILNIS+ K ++ ++ +L E I+V
Sbjct: 121 KAVGKRLIEAKHGGSILNISATYAYTGSPFQVHSAAAKAGVDALTRSLAVEWGPYGIRVN 180
Query: 893 CIQAGDVKTE 902
I G + T
Sbjct: 181 AIAPGPIPTT 190
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 103 bits (258), Expect = 2e-24
Identities = 64/246 (26%), Positives = 108/246 (43%), Gaps = 12/246 (4%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
LA +V VTG+ SGIG K GA+VV R + E + ++ A G ++
Sbjct: 2 RLAGRVAIVTGAGSGIGRATAKLFAREGARVVVADRDAEAAERVAAAIA-AGGRAFARQG 60
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
DV V+ +V V A G +D+LVNNAG + +W+A++ VN+ GV
Sbjct: 61 DVGSAEAVEALVDFVAARWGRLDVLVNNAGFGCGGTVVTTDEADWDAVMRVNVGGVFLWA 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+P M + G I+N +S + G A Y +K I ++ A+ + + I+V
Sbjct: 121 KYAIPIM-QRQGGGSIVNTASQLALAGGRGRAAYVASKGAIASLTRAMALDHATDGIRVN 179
Query: 893 CIQAGDVKTELLSHS----TDRDVVDKYDISKAVPVL----TTKEISQSIIFALLQPSHS 944
+ G + T D + + + +A + T +E++Q+ +F S
Sbjct: 180 AVAPGTIDTPYFRRIFARHADPEALR--EALRARHPMNRFGTAEEVAQAALFLASDESSF 237
Query: 945 AVNSIL 950
A + L
Sbjct: 238 ATGTTL 243
>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 = 101 bits (253), Expect = 7e-24
Identities = 60/202 (29%), Positives = 90/202 (44%), Gaps = 25/202 (12%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVV----------AVARRIDRLENLKTSLQNA 763
L KV VTG+ +GIG L GA+VV AV +I
Sbjct: 1 LEGKVAIVTGAGAGIGAACAARLAREGARVVVADIDGGAAQAVVAQI------------- 47
Query: 764 PGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFT-LMEKYKLEEWNAMIN 822
G + ++DVT E V + + E G +D+LVNNAG M+ T + L W+ +
Sbjct: 48 AGGALALRVDVTDEQQVAALFERAVEEFGGLDLLVNNAGAMHLTPAIIDTDLAVWDQTMA 107
Query: 823 VNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
+N++G C + P M+ +R G I+N+SS AG G Y +K I ++ L
Sbjct: 108 INLRGTFLCCRHAAPRMI-ARGGGSIVNLSSIAGQSGDPGYGAYGASKAAIRNLTRTLAA 166
Query: 883 EVSDRNIKVTCIQAGDVKTELL 904
E+ I+ + G + T LL
Sbjct: 167 ELRHAGIRCNALAPGLIDTPLL 188
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 100 bits (251), Expect = 8e-24
Identities = 57/190 (30%), Positives = 88/190 (46%), Gaps = 6/190 (3%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K IF+TG++SGIG + G V D L L L +++ LDVT
Sbjct: 1 KAIFITGAASGIGRETALLFARNGWFVGLYDIDEDGLAALAAEL--GAENVVAGALDVTD 58
Query: 777 ENDVKKVVREVLAELG-HIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+ + A G +D L NNAGV E L + M+++N+KGVL+
Sbjct: 59 RAAWAAALADFAAATGGRLDALFNNAGVGRGGPFEDVPLAAHDRMVDINVKGVLNGAYAA 118
Query: 836 LPSMLHSRRPG-HILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
LP PG ++N +S++ + LAVY+ TK+ + G++ AL E + I+V +
Sbjct: 119 LP--YLKATPGARVINTASSSAIYGQPDLAVYSATKFAVRGLTEALDVEWARHGIRVADV 176
Query: 895 QAGDVKTELL 904
V T +L
Sbjct: 177 WPWFVDTPIL 186
>gnl|CDD|213323 cd12115, A_NRPS_Sfm_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Saframycin A gene
cluster from Streptomyces lavendulae. The adenylation
(A) domain of NRPS recognizes a specific amino acid or
hydroxy acid and activates it as an (amino) acyl
adenylate by hydrolysis of ATP. The activated acyl
moiety then forms a thioester to the enzyme-bound
cofactor phosphopantetheine of a peptidyl carrier
protein domain. NRPSs are large multifunctional enzymes
which synthesize many therapeutically useful peptides in
bacteria and fungi via a template-directed, nucleic acid
independent nonribosomal mechanism. These natural
products include antibiotics, immunosuppressants, plant
and animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and in some
cases, modification of a single amino acid residue of
the final peptide product. The modules can be subdivided
into domains that catalyze specific biochemical
reactions. This family includes the saframycin A gene
cluster from Streptomyces lavendulae which implicates
the NRPS system for assembling the unusual tetrapeptidyl
skeleton in an iterative manner. It also includes
saframycin Mx1 produced by Myxococcus xanthus NRPS.
Length = 449
Score = 105 bits (264), Expect = 9e-24
Identities = 39/103 (37%), Positives = 60/103 (58%), Gaps = 1/103 (0%)
Query: 15 LHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERC 74
LH + QA+RTPD IAVV D S+T+ +L+ + + L G S VGV + R
Sbjct: 1 LHELVEAQAERTPDAIAVVCGD-ESLTYAELNRRANRLAARLRAAGVGPESRVGVCLRRS 59
Query: 75 LEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVIT 117
+ ++ +A+ KAG Y+PL+ +YPP L +L+DA +V+T
Sbjct: 60 PDLVVALLAVLKAGAAYVPLDPAYPPERLAYILEDAGARLVLT 102
>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 = 100 bits (251), Expect = 2e-23
Identities = 55/190 (28%), Positives = 92/190 (48%), Gaps = 3/190 (1%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVA-RRIDRLENLKTSLQNAPG-SIIVKKLD 773
KV VTGS+SGIG + + L GA +V +E ++ L G ++ D
Sbjct: 2 GKVALVTGSTSGIGLGIARALAAAGANIVLNGFGDAAEIEAVRAGLAAKHGVKVLYHGAD 61
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
++ ++ +V + G +DILVNNAG+ + +E + E+W+A+I +N+ V H
Sbjct: 62 LSKPAAIEDMVAYAQRQFGGVDILVNNAGIQHVAPIEDFPTEKWDAIIALNLSAVFHTTR 121
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
LP M + G I+NI+S G+ A + Y K+ + G++ + E + +
Sbjct: 122 LALPHM-KKQGWGRIINIASVHGLVASANKSAYVAAKHGVVGLTKVVALETAGTGVTCNA 180
Query: 894 IQAGDVKTEL 903
I G V T L
Sbjct: 181 ICPGWVLTPL 190
>gnl|CDD|236040 PRK07523, PRK07523, gluconate 5-dehydrogenase; Provisional.
Length = 255
Score = 99.8 bits (249), Expect = 3e-23
Identities = 56/159 (35%), Positives = 83/159 (52%), Gaps = 5/159 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L + VTGSS GIG L + L GA+V+ R +L SL+ S D
Sbjct: 8 LTGRRALVTGSSQGIGYALAEGLAQAGAEVILNGRDPAKLAAAAESLKGQGLSAHALAFD 67
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT + V+ + AE+G IDILVNNAG+ + T +E + + + ++ NI V + +G
Sbjct: 68 VTDHDAVRAAIDAFEAEIGPIDILVNNAGMQFRTPLEDFPADAFERLLRTNISSVFY-VG 126
Query: 834 NILPSMLHSRRPGHILNISS--NAGVRPFAGLAVYTGTK 870
+ + +R G I+NI+S +A RP G+A YT TK
Sbjct: 127 QAVARHMIARGAGKIINIASVQSALARP--GIAPYTATK 163
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 99.0 bits (247), Expect = 4e-23
Identities = 63/243 (25%), Positives = 105/243 (43%), Gaps = 32/243 (13%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K + VTG+SSGIG L GA+VVA AR L+ L + + +LDV
Sbjct: 10 KSVLVTGASSGIGRACAVALAQRGARVVAAARNAAALDRLAG--ETGCEPL---RLDVGD 64
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEK---YKLEEWNAMINVNIKGVLHCIG 833
+ +R LA G D LVN AG+ +E E ++ ++ VN +G
Sbjct: 65 D----AAIRAALAAAGAFDGLVNCAGI---ASLESALDMTAEGFDRVMAVNARGAALVAR 117
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
++ +M+ + R G I+N+SS A + Y +K ++ I+ L E+ I+V
Sbjct: 118 HVARAMIAAGRGGSIVNVSSQAALVGLPDHLAYCASKAALDAITRVLCVELGPHGIRVNS 177
Query: 894 IQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---------TTKEISQSIIFALLQPSHS 944
+ T + + + D K+ P+L +++ I+F LL + S
Sbjct: 178 VNPTVTLTPMAAEAWS-------DPQKSGPMLAAIPLGRFAEVDDVAAPILF-LLSDAAS 229
Query: 945 AVN 947
V+
Sbjct: 230 MVS 232
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 99.1 bits (247), Expect = 5e-23
Identities = 54/172 (31%), Positives = 88/172 (51%), Gaps = 22/172 (12%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVK--K 771
L +KV VTG S GIG+ +V L G+ V+ + P V K
Sbjct: 4 LKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINFDIK-------------EPSYNDVDYFK 50
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
+DV+ + V K + V+++ G IDILVNNAG+ + + + +EW+ +INVN+ G+
Sbjct: 51 VDVSNKEQVIKGIDYVISKYGRIDILVNNAGIESYGAIHAVEEDEWDRIINVNVNGIFLM 110
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFA---GLAVYTGTKYFIEGISGAL 880
+P ML + G I+NI+S V+ FA A Y +K+ + G++ ++
Sbjct: 111 SKYTIPYMLKQDK-GVIINIAS---VQSFAVTRNAAAYVTSKHAVLGLTRSI 158
>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 = 98.7 bits (246), Expect = 7e-23
Identities = 56/187 (29%), Positives = 88/187 (47%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
KV VTG + GIG+ + + L G V + + + A G + KLDV+
Sbjct: 1 KVALVTGGAQGIGKGIAERLAKDGFAVAVADLNEETAKETAKEINQAGGKAVAYKLDVSD 60
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
++ V + + + G D++VNNAGV T + + EE + NVN+KGVL I
Sbjct: 61 KDQVFSAIDQAAEKFGGFDVMVNNAGVAPITPILEITEEELKKVYNVNVKGVLFGIQAAA 120
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
G I+N +S AG L+ Y+ TK+ + G++ QE++ + I V
Sbjct: 121 RQFKKQGHGGKIINAASIAGHEGNPILSAYSSTKFAVRGLTQTAAQELAPKGITVNAYCP 180
Query: 897 GDVKTEL 903
G VKT +
Sbjct: 181 GIVKTPM 187
>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 = 98.8 bits (246), Expect = 7e-23
Identities = 60/190 (31%), Positives = 99/190 (52%), Gaps = 4/190 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
LANKV VT S+ GIG + + L GA VV +R+ ++ +LQ S+
Sbjct: 8 LANKVALVTASTDGIGLAIARRLAQDGAHVVVSSRKQQNVDRAVATLQGEGLSVTGTVCH 67
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGV--MYFTLMEKYKLEEWNAMINVNIKGVLHC 831
V D +++V + G +DILV+NA V + +++ + E W+ +++VN+K
Sbjct: 68 VGKAEDRERLVATAVNLHGGVDILVSNAAVNPFFGNILDSTE-EVWDKILDVNVKATALM 126
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
++P M R G ++ +SS A PF GL Y +K + G++ L E++ RNI+V
Sbjct: 127 TKAVVPEM-EKRGGGSVVIVSSVAAFHPFPGLGPYNVSKTALLGLTKNLAPELAPRNIRV 185
Query: 892 TCIQAGDVKT 901
C+ G +KT
Sbjct: 186 NCLAPGLIKT 195
>gnl|CDD|213296 cd05930, A_NRPS, The adenylation domain of nonribosomal peptide
synthetases (NRPS). The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
bond to the enzyme-bound cofactor phosphopantetheine of
a peptidyl carrier protein domain. NRPSs are large
multifunctional enzymes which synthesize many
therapeutically useful peptides in bacteria and fungi
via a template-directed, nucleic acid independent
nonribosomal mechanism. These natural products include
antibiotics, immunosuppressants, plant and animal
toxins, and enzyme inhibitors. NRPS has a distinct
modular structure in which each module is responsible
for the recognition, activation, and in some cases,
modification of a single amino acid residue of the final
peptide product. The modules can be subdivided into
domains that catalyze specific biochemical reactions.
Length = 445
Score = 102 bits (256), Expect = 8e-23
Identities = 30/94 (31%), Positives = 56/94 (59%), Gaps = 1/94 (1%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
PD +AVV +S+T+++L+E + + YL +G G V + +ER E ++ +A+ K
Sbjct: 1 PDAVAVVF-GDQSLTYRELNERANRLAHYLRARGVGPGDLVAICLERSPEMVVAILAVLK 59
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVITKGE 120
AG Y+PL+ +YP L +L+D+ +++T +
Sbjct: 60 AGAAYVPLDPAYPAERLAYMLEDSGAKLLLTDPD 93
>gnl|CDD|181113 PRK07775, PRK07775, short chain dehydrogenase; Provisional.
Length = 274
Score = 99.1 bits (247), Expect = 9e-23
Identities = 49/181 (27%), Positives = 87/181 (48%), Gaps = 1/181 (0%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
V G+SSGIG +L G V ARR+++ E L ++ G + LDVT + V
Sbjct: 15 VAGASSGIGAATAIELAAAGFPVALGARRVEKCEELVDKIRADGGEAVAFPLDVTDPDSV 74
Query: 781 KKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPSML 840
K V + LG I++LV+ AG YF + + E++ + + +++ G +LP M+
Sbjct: 75 KSFVAQAEEALGEIEVLVSGAGDTYFGKLHEISTEQFESQVQIHLVGANRLATAVLPGMI 134
Query: 841 HSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGDVK 900
RR G ++ + S+ +R + Y K +E + L+ E+ ++ + + G
Sbjct: 135 -ERRRGDLIFVGSDVALRQRPHMGAYGAAKAGLEAMVTNLQMELEGTGVRASIVHPGPTL 193
Query: 901 T 901
T
Sbjct: 194 T 194
>gnl|CDD|235925 PRK07067, PRK07067, sorbitol dehydrogenase; Provisional.
Length = 257
Score = 98.2 bits (245), Expect = 1e-22
Identities = 62/205 (30%), Positives = 99/205 (48%), Gaps = 17/205 (8%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV +TG++SGIGE + + + GA+VV + R +L+ P +I V LD
Sbjct: 4 LQGKVALLTGAASGIGEAVAERYLAEGARVVIADIKPARAR--LAALEIGPAAIAVS-LD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTL--MEKYKLEEWNAMINVNIKGVLHC 831
VT ++ + ++V + G IDIL NNA + F + + + ++ + VN+KG+
Sbjct: 61 VTRQDSIDRIVAAAVERFGGIDILFNNAAL--FDMAPILDISRDSYDRLFAVNVKGLFFL 118
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGI--SGALRQEVSDRNI 889
+ + M+ R G I+N++S AG R A ++ Y TK + S AL + I
Sbjct: 119 MQAVARHMVEQGRGGKIINMASQAGRRGEALVSHYCATKAAVISYTQSAAL--ALIRHGI 176
Query: 890 KVTCIQAGDVKTELLSHSTDRDVVD 914
V I G V T + D VD
Sbjct: 177 NVNAIAPGVVDTPMW------DQVD 195
>gnl|CDD|236094 PRK07774, PRK07774, short chain dehydrogenase; Provisional.
Length = 250
Score = 97.9 bits (244), Expect = 1e-22
Identities = 63/215 (29%), Positives = 98/215 (45%), Gaps = 13/215 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
+KV VTG++ GIG+ + L GA VV + E + + G+ I ++D
Sbjct: 4 FDDKVAIVTGAAGGIGQAYAEALAREGASVVVADINAEGAERVAKQIVADGGTAIAVQVD 63
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNA---GVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
V+ + K + ++ G ID LVNNA G M L+ + + ++VN+ G L
Sbjct: 64 VSDPDSAKAMADATVSAFGGIDYLVNNAAIYGGMKLDLLITVPWDYYKKFMSVNLDGALV 123
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRP--FAGLAVYTGTKYFIEGISGALRQEVSDRN 888
C + M R G I+N SS A F GLA K + G++ L +E+ N
Sbjct: 124 CTRAVYKHMA-KRGGGAIVNQSSTAAWLYSNFYGLA-----KVGLNGLTQQLARELGGMN 177
Query: 889 IKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP 923
I+V I G + TE T ++ V D+ K +P
Sbjct: 178 IRVNAIAPGPIDTEATRTVTPKEFVA--DMVKGIP 210
>gnl|CDD|181077 PRK07677, PRK07677, short chain dehydrogenase; Provisional.
Length = 252
Score = 97.4 bits (243), Expect = 2e-22
Identities = 51/175 (29%), Positives = 84/175 (48%), Gaps = 17/175 (9%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV+ +TG SSG+G+ + K GA VV R ++LE K ++ PG ++ ++DV
Sbjct: 1 EKVVIITGGSSGMGKAMAKRFAEEGANVVITGRTKEKLEEAKLEIEQFPGQVLTVQMDVR 60
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
DV+K+V ++ + G ID L+NNA + E + WN++I++ + G +C +
Sbjct: 61 NPEDVQKMVEQIDEKFGRIDALINNAAGNFICPAEDLSVNGWNSVIDIVLNGTFYCSQAV 120
Query: 836 LPSMLHSRRPGHILNI------SSNAGVRPFAG-----------LAVYTGTKYFI 873
+ G+I+N+ + GV A LAV G KY I
Sbjct: 121 GKYWIEKGIKGNIINMVATYAWDAGPGVIHSAAAKAGVLAMTRTLAVEWGRKYGI 175
>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 = 96.8 bits (241), Expect = 2e-22
Identities = 56/189 (29%), Positives = 95/189 (50%), Gaps = 11/189 (5%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
KV +T ++ GIG + GA V+A D E L+ PG I + LDVT
Sbjct: 3 KVALITAAAQGIGRAIALAFAREGANVIAT----DINEEKLKELERGPG-ITTRVLDVT- 56
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
K+ V + E G ID+L N AG ++ + + ++W+ +N+N++ + I +L
Sbjct: 57 ---DKEQVAALAKEEGRIDVLFNCAGFVHHGSILDCEDDDWDFAMNLNVRSMYLMIKAVL 113
Query: 837 PSMLHSRRPGHILNISSNAG-VRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
P ML +R+ G I+N+SS A ++ VY+ TK + G++ ++ + + + I+ I
Sbjct: 114 PKML-ARKDGSIINMSSVASSIKGVPNRFVYSTTKAAVIGLTKSVAADFAQQGIRCNAIC 172
Query: 896 AGDVKTELL 904
G V T L
Sbjct: 173 PGTVDTPSL 181
>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 = 97.0 bits (242), Expect = 2e-22
Identities = 60/229 (26%), Positives = 103/229 (44%), Gaps = 10/229 (4%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLG--AKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
VI +TG+S GIG L ++L+ G + VV +AR + L+ LK L+ + K D++
Sbjct: 1 VIILTGASRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELRPGL-RVTTVKADLS 59
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
V++++ + G D+L+NNAG + + +E L+E ++N+ +
Sbjct: 60 DAAGVEQLLEAIRKLDGERDLLINNAGSLGPVSKIEFIDLDELQKYFDLNLTSPVCLTST 119
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
+L + ++N+SS A V PF G +Y +K + L E D ++V
Sbjct: 120 LLRAFKKRGLKKTVVNVSSGAAVNPFKGWGLYCSSKAARDMFFRVLAAEEPD--VRVLSY 177
Query: 895 QAGDVKT----ELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALL 939
G V T E+ S D + ++ K L E S + LL
Sbjct: 178 APGVVDTDMQREIRETSADPETRSRFRSLKEKGELLDPEQSAEKLANLL 226
>gnl|CDD|132368 TIGR03325, BphB_TodD, cis-2,3-dihydrobiphenyl-2,3-diol
dehydrogenase. Members of this family occur as the BphD
protein of biphenyl catabolism and as the TodD protein
of toluene catabolism. Members catalyze the second step
in each pathway and proved interchangeable when tested;
the first and fourth enzymes in each pathway confer
metabolic specificity. In the context of biphenyl
degradation, the enzyme acts as
cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (EC
1.3.1.56), while in toluene degradation it acts as
cis-toluene dihydrodiol dehydrogenase.
Length = 262
Score = 97.2 bits (242), Expect = 2e-22
Identities = 55/195 (28%), Positives = 101/195 (51%), Gaps = 11/195 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +V+ VTG +SG+G +V V GA+V + + L+ L+ + +++ + D
Sbjct: 3 LKGEVVLVTGGASGLGRAIVDRFVAEGARVAVLDKSAAGLQELEAA---HGDAVVGVEGD 59
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM-YFT----LMEKYKLEEWNAMINVNIKGV 828
V +D K+ V +A G ID L+ NAG+ Y T + + E ++ + ++N+KG
Sbjct: 60 VRSLDDHKEAVARCVAAFGKIDCLIPNAGIWDYSTALVDIPDDRIDEAFDEVFHINVKGY 119
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
L + LP+++ SR G ++ SNAG P G +YT K+ + G+ L E++
Sbjct: 120 LLAVKAALPALVASR--GSVIFTISNAGFYPNGGGPLYTAAKHAVVGLVKELAFELAPY- 176
Query: 889 IKVTCIQAGDVKTEL 903
++V + G + ++L
Sbjct: 177 VRVNGVAPGGMSSDL 191
>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 = 96.8 bits (241), Expect = 3e-22
Identities = 57/194 (29%), Positives = 95/194 (48%), Gaps = 12/194 (6%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR-IDRLENLKTSLQNAPGSIIVKK 771
+L KV VTG+++G+G+ + L GA +V R + +L S+
Sbjct: 2 SLEGKVALVTGANTGLGQGIAVGLAEAGADIVGAGRSEPSETQQQVEALGRRFLSL---T 58
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
D++ +K +V + E GHIDILVNNAG++ E++ ++W+ ++NVN+K V
Sbjct: 59 ADLSDIEAIKALVDSAVEEFGHIDILVNNAGIIRRADAEEFSEKDWDDVMNVNLKSVFFL 118
Query: 832 IGNILPSMLHSRRPGHILNISS----NAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDR 887
L R G I+NI+S G+R + YT +K+ + G++ L E + +
Sbjct: 119 TQAAAKHFLKQGRGGKIINIASMLSFQGGIR----VPSYTASKHAVAGLTKLLANEWAAK 174
Query: 888 NIKVTCIQAGDVKT 901
I V I G + T
Sbjct: 175 GINVNAIAPGYMAT 188
>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 = 96.5 bits (240), Expect = 5e-22
Identities = 66/192 (34%), Positives = 98/192 (51%), Gaps = 6/192 (3%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA-PGSIIVKKLD 773
A+KV+ VTG S GIG +V+ V GAKVV AR + L++ L A PGS D
Sbjct: 8 ADKVVIVTGGSRGIGRGIVRAFVENGAKVVFCARGEAAGQALESELNRAGPGSCKFVPCD 67
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMY--FTLMEKYKLEEWNAMINVNIKGVLHC 831
VT E D+K ++ + G ID LVNNAG + ++ +E+ ++N+N+
Sbjct: 68 VTKEEDIKTLISVTVERFGRIDCLVNNAG-WHPPHQTTDETSAQEFRDLLNLNLISYFLA 126
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
LP + S+ G+I+N+SS G A Y TK I ++ AL + S ++V
Sbjct: 127 SKYALPHLRKSQ--GNIINLSSLVGSIGQKQAAPYVATKGAITAMTKALAVDESRYGVRV 184
Query: 892 TCIQAGDVKTEL 903
CI G++ T L
Sbjct: 185 NCISPGNIWTPL 196
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 95.9 bits (239), Expect = 5e-22
Identities = 59/234 (25%), Positives = 105/234 (44%), Gaps = 14/234 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAV-ARRIDRLENLKTSLQNAPGSIIVKKL 772
+ KV VTGSS GIG+ + L G + AR E ++ + K
Sbjct: 2 FSGKVALVTGSSRGIGKAIALRLAEEGYDIAVNYARSRKAAEETAEEIEALGRKALAVKA 61
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNA--GVMYFTLMEKYKLEE--WNAMINVNIKGV 828
+V +K++ ++ E G +D+ VNNA GV+ ME LEE W+ +N+N K +
Sbjct: 62 NVGDVEKIKEMFAQIDEEFGRLDVFVNNAASGVLR-PAME---LEESHWDWTMNINAKAL 117
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
L C M G I+++SS +R +K +E ++ L E++ +
Sbjct: 118 LFCAQEAAKLME-KVGGGKIISLSSLGSIRYLENYTTVGVSKAALEALTRYLAVELAPKG 176
Query: 889 IKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIFALL 939
I V + G V T+ L H +R+ + + D P ++ ++++ +++F
Sbjct: 177 IAVNAVSGGAVDTDALKHFPNREELLE-DARAKTPAGRMVEPEDVANAVLFLCS 229
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 96.4 bits (240), Expect = 6e-22
Identities = 65/202 (32%), Positives = 101/202 (50%), Gaps = 17/202 (8%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV VTG ++GIGE +V+ GAKV V + D +N+ SL P D
Sbjct: 16 LLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDLQDDLGQNVCDSLGGEPNVCFFH-CD 74
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM--YFTLMEKYKLEEWNAMINVNIKGVLHC 831
VT+E+DV + V + + G +DI+VNNAG+ + +L E+ + +VN+KGV
Sbjct: 75 VTVEDDVSRAVDFTVDKFGTLDIMVNNAGLTGPPCPDIRNVELSEFEKVFDVNVKGVFL- 133
Query: 832 IGNILPSMLHSRR------PGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVS 885
M H+ R G I+++ S A G YTG+K+ + G++ ++ E+
Sbjct: 134 ------GMKHAARIMIPLKKGSIVSLCSVASAIGGLGPHAYTGSKHAVLGLTRSVAAELG 187
Query: 886 DRNIKVTCIQAGDVKTEL-LSH 906
I+V C+ V T L L+H
Sbjct: 188 KHGIRVNCVSPYAVPTALALAH 209
>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 = 95.6 bits (238), Expect = 9e-22
Identities = 57/193 (29%), Positives = 89/193 (46%), Gaps = 13/193 (6%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGA------KVVAVARRIDRLENLKTSLQN-APGSIIV 769
V+ +TG SSGIG L V L + KV A R + + L + A G++
Sbjct: 1 TVVLITGCSSGIGLHLA---VRLASDPSKRFKVYATMRDLKKKGRLWEAAGALAGGTLET 57
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
+LDV V V V H+D+LV NAGV +E + ++ +VN+ G +
Sbjct: 58 LQLDVCDSKSVAAAVERVTE--RHVDVLVCNAGVGLLGPLEALSEDAMASVFDVNVFGTV 115
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
+ LP M R G IL SS G++ VY +K+ +EG+ +L ++ N+
Sbjct: 116 RMLQAFLPDM-KRRGSGRILVTSSVGGLQGLPFNDVYCASKFALEGLCESLAVQLLPFNV 174
Query: 890 KVTCIQAGDVKTE 902
++ I+ G V T
Sbjct: 175 HLSLIECGPVHTA 187
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 95.2 bits (237), Expect = 1e-21
Identities = 62/194 (31%), Positives = 96/194 (49%), Gaps = 10/194 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQN---APGSIIVK 770
L +V FVTG+ SGIG+++ L GA V R D + L + ++ A I
Sbjct: 6 LDGQVAFVTGAGSGIGQRIAIGLAQAGADVALFDLRTD--DGLAETAEHIEAAGRRAIQI 63
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGV-L 829
DVT + D++ V AELG + + VN AG+ E+ + E+W ++++N+ GV L
Sbjct: 64 AADVTSKADLRAAVARTEAELGALTLAVNAAGIANANPAEEMEEEQWQTVMDINLTGVFL 123
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGL--AVYTGTKYFIEGISGALRQEVSDR 887
C +ML + G I+NI+S +G+ GL A Y +K + +S +L E R
Sbjct: 124 SCQAEA-RAMLENGG-GSIVNIASMSGIIVNRGLLQAHYNASKAGVIHLSKSLAMEWVGR 181
Query: 888 NIKVTCIQAGDVKT 901
I+V I G T
Sbjct: 182 GIRVNSISPGYTAT 195
>gnl|CDD|213325 cd12117, A_NRPS_Srf_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Bacillus subtilis
termination module Surfactin (SrfA-C). The adenylation
(A) domain of NRPS recognizes a specific amino acid or
hydroxy acid and activates it as an (amino) acyl
adenylate by hydrolysis of ATP. The activated acyl
moiety then forms a thioester to the enzyme-bound
cofactor phosphopantetheine of a peptidyl carrier
protein domain. NRPSs are large multifunctional enzymes
which synthesize many therapeutically useful peptides in
bacteria and fungi via a template-directed, nucleic acid
independent nonribosomal mechanism. These natural
products include antibiotics, immunosuppressants, plant
and animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and, in
some cases, modification of a single amino acid residue
of the final peptide product. The modules can be
subdivided into domains that catalyze specific
biochemical reactions. This family includes the
adenylation domain of the Bacillus subtilis termination
module (Surfactin domain, SrfA-C) which recognizes a
specific amino acid building block, which is then
activated and transferred to the terminal thiol of the
4'-phosphopantetheine (Ppan) arm of the downstream
peptidyl carrier protein (PCP) domain.
Length = 474
Score = 99.2 bits (248), Expect = 1e-21
Identities = 32/100 (32%), Positives = 55/100 (55%), Gaps = 1/100 (1%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
PD IA+V + RS+T+ +L+E + + L +G G V +L+ER E ++ +AI K
Sbjct: 1 PDAIALV-YGDRSLTYAELNERANRLARRLRARGVGPGDVVALLLERSPELVVAILAILK 59
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
AG Y+PL+ +YP L +L+D+ +++T
Sbjct: 60 AGAAYVPLDPAYPAERLAFMLEDSGARVLLTDESLAPLAR 99
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 94.7 bits (235), Expect = 2e-21
Identities = 60/194 (30%), Positives = 94/194 (48%), Gaps = 2/194 (1%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVA-VARRIDRLENLKTSLQNAPGSIIVKK 771
L KV VTG + GIG+ + L GAKVV + ENL L + +
Sbjct: 3 QLNGKVAIVTGGAKGIGKAITVALAQEGAKVVINYNSSKEAAENLVNELGKEGHDVYAVQ 62
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DV+ D ++V E + G +DILVNNAG+ +K E+W +I+VN+ V +
Sbjct: 63 ADVSKVEDANRLVEEAVNHFGKVDILVNNAGITRDRTFKKLNREDWERVIDVNLSSVFNT 122
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+LP + + G I++ISS G G Y+ K + G + +L E++ N+ V
Sbjct: 123 TSAVLPYITEAEE-GRIISISSIIGQAGGFGQTNYSAAKAGMLGFTKSLALELAKTNVTV 181
Query: 892 TCIQAGDVKTELLS 905
I G + TE+++
Sbjct: 182 NAICPGFIDTEMVA 195
>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 = 94.6 bits (235), Expect = 2e-21
Identities = 58/191 (30%), Positives = 84/191 (43%), Gaps = 1/191 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +K VTG GIG + GAKV + E + ++ G+ D
Sbjct: 1 LKDKTAIVTGGGGGIGGATCRRFAEEGAKVAVFDLNREAAEKVAADIRAKGGNAQAFACD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+T + V V LG +D+LVNNAG F K + W +I +N+ G LH
Sbjct: 61 ITDRDSVDTAVAAAEQALGPVDVLVNNAGWDKFGPFTKTEPPLWERLIAINLTGALHMHH 120
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+LP M+ R G I+NI+S+A +G AVY K + S + +E + I V
Sbjct: 121 AVLPGMVE-RGAGRIVNIASDAARVGSSGEAVYAACKGGLVAFSKTMAREHARHGITVNV 179
Query: 894 IQAGDVKTELL 904
+ G T LL
Sbjct: 180 VCPGPTDTALL 190
>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 = 93.2 bits (232), Expect = 6e-21
Identities = 54/196 (27%), Positives = 98/196 (50%), Gaps = 11/196 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +V +TG SG+G LV+ V GAKV + R +++ L+ +A ++ + D
Sbjct: 2 LKGEVALITGGGSGLGRALVERFVAEGAKVAVLDRSAEKVAELRADFGDA---VVGVEGD 58
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKY---KLEE-WNAMINVNIKGV 828
V D ++ V + G +D + NAG+ Y T + KL+E ++ + ++N+KG
Sbjct: 59 VRSLADNERAVARCVERFGKLDCFIGNAGIWDYSTSLVDIPEEKLDEAFDELFHINVKGY 118
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
+ LP++ + G ++ SNAG P G +YT +K+ + G+ L E++
Sbjct: 119 ILGAKAALPALYATE--GSVIFTVSNAGFYPGGGGPLYTASKHAVVGLVKQLAYELAPH- 175
Query: 889 IKVTCIQAGDVKTELL 904
I+V + G + T+L
Sbjct: 176 IRVNGVAPGGMVTDLR 191
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 92.3 bits (230), Expect = 7e-21
Identities = 60/241 (24%), Positives = 116/241 (48%), Gaps = 24/241 (9%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
+TG+S GIG + ++L ++ R +RL+ L L A +D+T
Sbjct: 4 PTALITGASRGIGAAIARELAP-THTLLLGGRPAERLDELAAELPGATPFP----VDLTD 58
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ + +LG +D+LV+NAGV + + ++EW A + VN+ +L
Sbjct: 59 PEAI----AAAVEQLGRLDVLVHNAGVADLGPVAESTVDEWRATLEVNVVAPAELTRLLL 114
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
P+ L + GH++ I+S AG+R G Y +K+ + ++ ALR+E N++VT +
Sbjct: 115 PA-LRAAH-GHVVFINSGAGLRANPGWGSYAASKFALRALADALREEEPG-NVRVTSVHP 171
Query: 897 GDVKTELLSHSTDRDVVDK----YDISKAVPVLTTKEISQSIIFALLQPSHSAVNSILIE 952
G T++ R +V + YD + L + +++++ FA+ P + + +++
Sbjct: 172 GRTDTDMQ-----RGLVAQEGGEYDPER---YLRPETVAKAVRFAVDAPPDAHITEVVVR 223
Query: 953 P 953
P
Sbjct: 224 P 224
>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 = 92.1 bits (229), Expect = 1e-20
Identities = 55/231 (23%), Positives = 103/231 (44%), Gaps = 18/231 (7%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVA-VARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+V+ VTG+S G+G + + GA+VV R + E + I + DV
Sbjct: 1 QVVLVTGASRGLGAAIARSFAREGARVVVNYYRSTESAEAVAAEAG---ERAIAIQADVR 57
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMY-FTLMEKYKLE--EW---NAMINVNIKGVL 829
+ V+ ++ E G +D +VNNA + + F ++ + +W + +KG L
Sbjct: 58 DRDQVQAMIEEAKNHFGPVDTIVNNALIDFPFDPDQRKTFDTIDWEDYQQQLEGAVKGAL 117
Query: 830 HCIGNILPSMLHSRRPGHILNISSN---AGVRPFAGLAVYTGTKYFIEGISGALRQEVSD 886
+ + +LP R G ++NI +N V P+ YT K + G + + +E+
Sbjct: 118 NLLQAVLPDF-KERGSGRVINIGTNLFQNPVVPYHD---YTTAKAALLGFTRNMAKELGP 173
Query: 887 RNIKVTCIQAGDVKTELLSHSTDRDVVDKY-DISKAVPVLTTKEISQSIIF 936
I V + G +K S +T ++V D + V T ++I+ +++F
Sbjct: 174 YGITVNMVSGGLLKVTDASAATPKEVFDAIAQTTPLGKVTTPQDIADAVLF 224
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 91.9 bits (229), Expect = 1e-20
Identities = 53/195 (27%), Positives = 89/195 (45%), Gaps = 14/195 (7%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGA-KVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
+ KV+ VTG++ GIG V+ L+ GA KV A AR + + +L P ++ +L
Sbjct: 4 IKGKVVLVTGANRGIGRAFVEQLLARGAAKVYAAARDPESVTDL------GPR-VVPLQL 56
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGVLHC 831
DVT V + ILVNNAG+ +L+ + + A + N G L
Sbjct: 57 DVTDPAS----VAAAAEAASDVTILVNNAGIFRTGSLLLEGDEDALRAEMETNYFGPLAM 112
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
P +L + G I+N+ S F L Y+ +K ++ ALR E++ + +V
Sbjct: 113 ARAFAP-VLAANGGGAIVNVLSVLSWVNFPNLGTYSASKAAAWSLTQALRAELAPQGTRV 171
Query: 892 TCIQAGDVKTELLSH 906
+ G + T++ +
Sbjct: 172 LGVHPGPIDTDMAAG 186
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 91.6 bits (228), Expect = 1e-20
Identities = 55/188 (29%), Positives = 90/188 (47%), Gaps = 19/188 (10%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
K + +TG++SGIG + + GA+V V D+ + S G+ +LD++
Sbjct: 5 TKTVLITGAASGIGLAQARAFLAQGAQVYGV----DKQDKPDLS-----GNFHFLQLDLS 55
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVM--YFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+D++ + V +DIL N AG++ Y L++ LEEW + + N+
Sbjct: 56 --DDLEPLFDWV----PSVDILCNTAGILDDYKPLLDT-SLEEWQHIFDTNLTSTFLLTR 108
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
LP ML R+ G I+N+ S A G A YT +K+ + G + L + + I+V
Sbjct: 109 AYLPQML-ERKSGIIINMCSIASFVAGGGGAAYTASKHALAGFTKQLALDYAKDGIQVFG 167
Query: 894 IQAGDVKT 901
I G VKT
Sbjct: 168 IAPGAVKT 175
>gnl|CDD|235702 PRK06124, PRK06124, gluconate 5-dehydrogenase; Provisional.
Length = 256
Score = 91.7 bits (228), Expect = 2e-20
Identities = 58/198 (29%), Positives = 84/198 (42%), Gaps = 19/198 (9%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
LA +V VTGS+ G+G ++ + L GA V+ R LE +L+ A G+ D
Sbjct: 9 LAGQVALVTGSARGLGFEIARALAGAGAHVLVNGRNAATLEAAVAALRAAGGAAEALAFD 68
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+ E V + AE G +DILVNN G + + A++
Sbjct: 69 IADEEAVAAAFARIDAEHGRLDILVNNVGARDRRPLAELDDAAIRALLET---------- 118
Query: 834 NILPSMLHSR-------RPGH--ILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV 884
+++ +L SR R G+ I+ I+S AG AG AVY K + G+ AL E
Sbjct: 119 DLVAPILLSRLAAQRMKRQGYGRIIAITSIAGQVARAGDAVYPAAKQGLTGLMRALAAEF 178
Query: 885 SDRNIKVTCIQAGDVKTE 902
I I G TE
Sbjct: 179 GPHGITSNAIAPGYFATE 196
>gnl|CDD|181585 PRK08936, PRK08936, glucose-1-dehydrogenase; Provisional.
Length = 261
Score = 92.1 bits (229), Expect = 2e-20
Identities = 55/190 (28%), Positives = 93/190 (48%), Gaps = 3/190 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKT--SLQNAPGSIIVKK 771
L KV+ +TG S+G+G + AKVV + R D E ++ A G I K
Sbjct: 5 LEGKVVVITGGSTGLGRAMAVRFGKEKAKVV-INYRSDEEEANDVAEEIKKAGGEAIAVK 63
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DVT+E+DV +++ + E G +D+++NNAG+ + LE+WN +IN N+ G
Sbjct: 64 GDVTVESDVVNLIQTAVKEFGTLDVMINNAGIENAVPSHEMSLEDWNKVINTNLTGAFLG 123
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+ + G+I+N+SS P+ Y +K ++ ++ L E + + I+V
Sbjct: 124 SREAIKYFVEHDIKGNIINMSSVHEQIPWPLFVHYAASKGGVKLMTETLAMEYAPKGIRV 183
Query: 892 TCIQAGDVKT 901
I G + T
Sbjct: 184 NNIGPGAINT 193
>gnl|CDD|235628 PRK05855, PRK05855, short chain dehydrogenase; Validated.
Length = 582
Score = 96.2 bits (240), Expect = 2e-20
Identities = 58/192 (30%), Positives = 87/192 (45%), Gaps = 4/192 (2%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIV 769
F L VTG+ SGIG + GA+VVA E ++ A
Sbjct: 313 FSGKLV----VVTGAGSGIGRETALAFAREGAEVVASDIDEAAAERTAELIRAAGAVAHA 368
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
++DV+ + ++ V AE G DI+VNNAG+ E+W+ +++VN+ GV+
Sbjct: 369 YRVDVSDADAMEAFAEWVRAEHGVPDIVVNNAGIGMAGGFLDTSAEDWDRVLDVNLWGVI 428
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
H M+ GHI+N++S A P L Y +K + +S LR E++ I
Sbjct: 429 HGCRLFGRQMVERGTGGHIVNVASAAAYAPSRSLPAYATSKAAVLMLSECLRAELAAAGI 488
Query: 890 KVTCIQAGDVKT 901
VT I G V T
Sbjct: 489 GVTAICPGFVDT 500
>gnl|CDD|235739 PRK06200, PRK06200, 2,3-dihydroxy-2,3-dihydrophenylpropionate
dehydrogenase; Provisional.
Length = 263
Score = 91.9 bits (229), Expect = 2e-20
Identities = 56/195 (28%), Positives = 96/195 (49%), Gaps = 11/195 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +V +TG SGIG LV+ + GA+V + R ++L +L+ + ++V + D
Sbjct: 4 LHGQVALITGGGSGIGRALVERFLAEGARVAVLERSAEKLASLRQRFGDH---VLVVEGD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNA----MINVNIKGV 828
VT D ++ V + + G +D V NAG+ Y T + E + + NVN+KG
Sbjct: 61 VTSYADNQRAVDQTVDAFGKLDCFVGNAGIWDYNTSLVDIPAETLDTAFDEIFNVNVKGY 120
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
L LP++ S G ++ SN+ P G +YT +K+ + G+ L E++ +
Sbjct: 121 LLGAKAALPALKASG--GSMIFTLSNSSFYPGGGGPLYTASKHAVVGLVRQLAYELAPK- 177
Query: 889 IKVTCIQAGDVKTEL 903
I+V + G T+L
Sbjct: 178 IRVNGVAPGGTVTDL 192
>gnl|CDD|187547 cd05236, FAR-N_SDR_e, fatty acyl CoA reductases (FARs), extended
(e) SDRs. SDRs are Rossmann-fold NAD(P)H-binding
proteins, many of which may function as fatty acyl CoA
reductases (FAR), acting on medium and long chain fatty
acids, and have been reported to be involved in diverse
processes such as biosynthesis of insect pheromones,
plant cuticular wax production, and mammalian wax
biosynthesis. In Arabidopsis thaliana, proteins with
this particular architecture have also been identified
as the MALE STERILITY 2 (MS2) gene product, which is
implicated in male gametogenesis. Mutations in MS2
inhibit the synthesis of exine (sporopollenin),
rendering plants unable to reduce pollen wall fatty
acids to corresponding alcohols. This N-terminal domain
shares the catalytic triad (but not the upstream Asn)
and characteristic NADP-binding motif of the extended
SDR family. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 320
Score = 93.1 bits (232), Expect = 2e-20
Identities = 80/320 (25%), Positives = 136/320 (42%), Gaps = 49/320 (15%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKC----TLFCPVRETPNKTLLQRLEDIM---LKYHMS 373
+VL+TG TG+LG LL+K L C ++ +R ++ +RL +++ L
Sbjct: 2 SVLITGATGFLGKVLLEKLL--RSCPDIGKIYLLIRGKSGQSAEERLRELLKDKLFDRGR 59
Query: 374 LDLNNYTDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSN 433
+ +++ ++ DLS LGL ++D +L E+++IIH AA V + N
Sbjct: 60 NLNPLFESKIVPIEGDLSEPNLGLSDED-LQTLIEEVNIIIHCAATVTFDERLDEALSIN 118
Query: 434 VLATKNLIEFSF-LNKIKSFHYVST-----------DSIYPSTSENFQEDYTVAD-FDDF 480
VL T L+E + K+K+F +VST + +YP + ++ + + DD
Sbjct: 119 VLGTLRLLELAKRCKKLKAFVHVSTAYVNGDRQLIEEKVYP-PPADPEKLIDILELMDDL 177
Query: 481 MTTTSG----------YGQSKIVSEYLVLNAGQMGLPVSIVRCGNIGGSLEF------KN 524
+ Y +K ++E LVL LP+ IVR +G +L+ N
Sbjct: 178 ELERATPKLLGGHPNTYTFTKALAERLVLKERG-NLPLVIVRPSIVGATLKEPFPGWIDN 236
Query: 525 WNLVD-LNLYILKAITRLGYAPDIDWYLEFTPVDF----LTKSLVQLTTNVNNANKIYNF 579
+N D L L K I R A D + + PVD L + ++Y+
Sbjct: 237 FNGPDGLFLAYGKGILRTMNA-DPNAVADIIPVDVVANALLAAAAYSGVRKPRELEVYHC 295
Query: 580 I--NTNPIHIKTLVSVLNTY 597
+ NP ++N Y
Sbjct: 296 GSSDVNPFTWGEAEELINQY 315
>gnl|CDD|213324 cd12116, A_NRPS_Ta1_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including salinosporamide A
polyketide synthase. The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
to the enzyme-bound cofactor phosphopantetheine of a
peptidyl carrier protein domain. NRPSs are large
multifunctional enzymes which synthesize many
therapeutically useful peptides in bacteria and fungi
via a template-directed, nucleic acid independent
nonribosomal mechanism. These natural products include
antibiotics, immunosuppressants, plant and animal
toxins, and enzyme inhibitors. NRPS has a distinct
modular structure in which each module is responsible
for the recognition, activation, and in some cases,
modification of a single amino acid residue of the final
peptide product. The modules can be subdivided into
domains that catalyze specific biochemical reactions.
This family includes the myxovirescin (TA) antibiotic
biosynthetic gene in Myxococcus xanthus; TA production
plays a role in predation. It also includes the
salinosporamide A polyketide synthase which is involved
in the biosynthesis of salinosporamide A, a marine
microbial metabolite whose chlorine atom is crucial for
potent proteasome inhibition and anticancer activity.
Length = 438
Score = 94.9 bits (237), Expect = 2e-20
Identities = 37/99 (37%), Positives = 62/99 (62%), Gaps = 4/99 (4%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
PD IA+ D D R++++ +LDE ++ + L G G VGVL+ER + + +AI K
Sbjct: 1 PDAIALRDDD-RTLSYAELDERSNQLAARLRALGVGPGDRVGVLLERSADLVAALLAILK 59
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVITKGE---YM 122
AG Y+PL+ SYP L+ +L+DA+P++++T + Y+
Sbjct: 60 AGAAYVPLDPSYPAERLQYMLEDAEPALLLTDPDDLAYV 98
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 91.6 bits (228), Expect = 2e-20
Identities = 51/188 (27%), Positives = 91/188 (48%), Gaps = 3/188 (1%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRID-RLENLKTSLQNAPGSIIVKKLDVTIE 777
+ +TG++SG+G + G ++ A+A + E L+ A G ++ DV
Sbjct: 3 VMITGAASGLGRAIALRWAREGWRL-ALADVNEEGGEETLKLLREAGGDGFYQRCDVRDY 61
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILP 837
+ + + + + G ID++VNNAGV E+ LE+W+ I +N+ GV+ LP
Sbjct: 62 SQLTALAQACEEKWGGIDVIVNNAGVASGGFFEELSLEDWDWQIAINLMGVVKGCKAFLP 121
Query: 838 SMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAG 897
+ ++ G I+NI+S AG+ ++ Y K + +S L E++D I V +
Sbjct: 122 -LFKRQKSGRIVNIASMAGLMQGPAMSSYNVAKAGVVALSETLLVELADDEIGVHVVCPS 180
Query: 898 DVKTELLS 905
+T LL
Sbjct: 181 FFQTNLLD 188
>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 = 91.4 bits (227), Expect = 3e-20
Identities = 51/203 (25%), Positives = 88/203 (43%), Gaps = 13/203 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L NKV +TG + +G + + L GAKV A+ R ++ + + + G I D
Sbjct: 3 LKNKVAVITGGTGVLGGAMARALAQAGAKVAALGRNQEKGDKVAKEITALGGRAIALAAD 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMY---FTLMEKYKLEEWNAMINVNIKGVLH 830
V +++ E++A+ G +DIL+N AG + T E Y+ E +++ +G
Sbjct: 63 VLDRASLERAREEIVAQFGTVDILINGAGGNHPDATTDPEHYEPETEQNFFDLDEEGWEF 122
Query: 831 CI-----GNILPSMLHSR-----RPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGAL 880
G+ LPS + + + G I+NISS P + Y+ K + + L
Sbjct: 123 VFDLNLNGSFLPSQVFGKDMLEQKGGSIINISSMNAFSPLTKVPAYSAAKAAVSNFTQWL 182
Query: 881 RQEVSDRNIKVTCIQAGDVKTEL 903
E + ++V I G T
Sbjct: 183 AVEFATTGVRVNAIAPGFFVTPQ 205
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 91.0 bits (226), Expect = 4e-20
Identities = 57/196 (29%), Positives = 95/196 (48%), Gaps = 12/196 (6%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
V+ +TG SSGIG L G +V A AR+ + +E L + A +LDV
Sbjct: 2 PVVLITGCSSGIGRALADAFKAAGYEVWATARKAEDVEALAAAGFTA------VQLDVND 55
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ ++ E+ AE G +D+L+NNAG + +E N+ V+ +
Sbjct: 56 GAALARLAEELEAEHGGLDVLINNAGYGAMGPLLDGGVEAMRRQFETNVFAVVGVTRALF 115
Query: 837 PSMLHSRRPGHILNISSNAGV--RPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
P + SR G ++NI S +GV PFAG Y +K + +S ALR E++ ++V +
Sbjct: 116 PLLRRSR--GLVVNIGSVSGVLVTPFAG--AYCASKAAVHALSDALRLELAPFGVQVMEV 171
Query: 895 QAGDVKTELLSHSTDR 910
Q G + ++ S+++
Sbjct: 172 QPGAIASQFASNASRE 187
>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 = 90.2 bits (224), Expect = 5e-20
Identities = 59/213 (27%), Positives = 95/213 (44%), Gaps = 16/213 (7%)
Query: 711 GNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVK 770
GNT I +TG +SGIG L K + LG V+ R +RL K I +
Sbjct: 5 GNT-----ILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKAENPE----IHTE 55
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMY---FTLMEKYKLEEWNAMINVNIKG 827
DV + +++V + E ++++L+NNAG+ T E L++ I N+
Sbjct: 56 VCDVADRDSRRELVEWLKKEYPNLNVLINNAGIQRNEDLTGAEDL-LDDAEQEIATNLLA 114
Query: 828 VLHCIGNILPSMLHSRRP-GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSD 886
+ +LP +L R+P I+N+SS P A VY TK I + ALR+++ D
Sbjct: 115 PIRLTALLLPHLL--RQPEATIINVSSGLAFVPMASTPVYCATKAAIHSYTLALREQLKD 172
Query: 887 RNIKVTCIQAGDVKTELLSHSTDRDVVDKYDIS 919
+++V + V T + + IS
Sbjct: 173 TSVEVIELAPPLVDTTEGNTQARGKMPLSAFIS 205
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 89.8 bits (223), Expect = 7e-20
Identities = 55/217 (25%), Positives = 108/217 (49%), Gaps = 8/217 (3%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
++A K++ VTG S GIG + + + GA+V+ AR+ + + L +A G I
Sbjct: 3 SVAGKIVLVTGGSRGIGRMIAQGFLEAGARVIISARKAEACADAAEEL-SAYGECIAIPA 61
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D++ E ++ +V V +D+LVNNAG + +E + W+ ++++N+K V
Sbjct: 62 DLSSEEGIEALVARVAERSDRLDVLVNNAGATWGAPLEAFPESGWDKVMDINVKSVFFLT 121
Query: 833 GNILPSMLHSR---RPGHILNISSNAGVRPFAGLAVYT--GTKYFIEGISGALRQEVSDR 887
+LP + + P ++NI S AG+ +GL Y+ +K + ++ L +E++
Sbjct: 122 QALLPLLRAAATAENPARVINIGSIAGIV-VSGLENYSYGASKAAVHQLTRKLAKELAGE 180
Query: 888 NIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPV 924
+I V I G +++ + + D K++P+
Sbjct: 181 HITVNAIAPGRFPSKMTAFLLN-DPAALEAEEKSIPL 216
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 89.3 bits (221), Expect = 9e-20
Identities = 67/217 (30%), Positives = 110/217 (50%), Gaps = 15/217 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVA-----VARRIDRLENLKTSLQNAPG-SI 767
++ ++ +VTG GIG + + L G KVVA RR+ LE+ Q A G
Sbjct: 1 MSQRIAYVTGGMGGIGTSICQRLHKDGFKVVAGCGPNSPRRVKWLED-----QKALGFDF 55
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKG 827
I + +V + K +V AE+G ID+LVNNAG+ + K E+W A+I+ N+
Sbjct: 56 IASEGNVGDWDSTKAAFDKVKAEVGEIDVLVNNAGITRDVVFRKMTREDWTAVIDTNLTS 115
Query: 828 VLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDR 887
+ + ++ M+ R G I+NISS G + G Y+ K I G + +L QEV+ +
Sbjct: 116 LFNVTKQVIDGMV-ERGWGRIINISSVNGQKGQFGQTNYSTAKAGIHGFTMSLAQEVATK 174
Query: 888 NIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPV 924
+ V + G + T+++ + DV++K I +PV
Sbjct: 175 GVTVNTVSPGYIGTDMVK-AIRPDVLEK--IVATIPV 208
>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 = 89.0 bits (221), Expect = 1e-19
Identities = 55/210 (26%), Positives = 105/210 (50%), Gaps = 13/210 (6%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGA-KVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
+K + VTG++ GIG+ V+ L+ GA KV A R +L + ++ +LDV
Sbjct: 3 DKTVLVTGANRGIGKAFVESLLAHGAKKVYAAVRDPGSAAHL---VAKYGDKVVPLRLDV 59
Query: 775 T-IENDVKKVVREVLAELGHIDILVNNAGVMYF-TLMEKYKLEEWNAMINVNIKGVLHCI 832
T E+ ++ A+ +D+++NNAGV+ TL+E+ LE ++VN+ G+L
Sbjct: 60 TDPES-----IKAAAAQAKDVDVVINNAGVLKPATLLEEGALEALKQEMDVNVFGLLRLA 114
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
P +L + G I+N++S A ++ F + Y+ +K ++ LR E++ + V
Sbjct: 115 QAFAP-VLKANGGGAIVNLNSVASLKNFPAMGTYSASKSAAYSLTQGLRAELAAQGTLVL 173
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISKAV 922
+ G + T + + + +++AV
Sbjct: 174 SVHPGPIDTRMAAGA-GGPKESPETVAEAV 202
>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 = 89.3 bits (222), Expect = 1e-19
Identities = 59/211 (27%), Positives = 96/211 (45%), Gaps = 11/211 (5%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVK-- 770
+L KV VTG S GIG + + L GA V + R E L G VK
Sbjct: 5 SLKGKVAIVTGGSRGIGLAIARALAEAGADVAIIYNSAPRAEEKAEELAKKYG---VKTK 61
Query: 771 --KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGV 828
K DV+ + V+K +++ + G IDIL+ NAG+ Y E+WN +I+VN+ GV
Sbjct: 62 AYKCDVSSQESVEKTFKQIQKDFGKIDILIANAGITVHKPALDYTYEQWNKVIDVNLNGV 121
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGL--AVYTGTKYFIEGISGALRQEVSD 886
+C + G ++ +S +G A Y +K + ++ +L E +
Sbjct: 122 FNCAQAAAKIFKKQGK-GSLIITASMSGTIVNRPQPQAAYNASKAAVIHLAKSLAVEWAK 180
Query: 887 RNIKVTCIQAGDVKTELLSHSTDRDVVDKYD 917
I+V I G + T+L D+++ K++
Sbjct: 181 YFIRVNSISPGYIDTDLTDF-VDKELRKKWE 210
>gnl|CDD|223395 COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases
II [Lipid metabolism / Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 534
Score = 92.9 bits (231), Expect = 2e-19
Identities = 34/122 (27%), Positives = 58/122 (47%), Gaps = 1/122 (0%)
Query: 7 SDYDAEGALHYMFRNQAKRTPDKIAVVDHD-GRSITFKQLDEWTDIVGTYLINQGCIVGS 65
AE L + A+R PD+ A++ G +T+++LD + + L G G
Sbjct: 5 MRMTAELTLASLLERAARRNPDRPALIFLGRGGRLTYRELDRRANRLAAALQALGVKPGD 64
Query: 66 TVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
V +L+ E+ I+++A +AG +PL P L +L+DA ++IT E+ L
Sbjct: 65 RVAILLPNSPEFLIAFLAALRAGAVAVPLNPRLTPRELAYILNDAGAKVLITSAEFAALL 124
Query: 126 ER 127
E
Sbjct: 125 EA 126
>gnl|CDD|135631 PRK05867, PRK05867, short chain dehydrogenase; Provisional.
Length = 253
Score = 88.9 bits (220), Expect = 2e-19
Identities = 59/193 (30%), Positives = 100/193 (51%), Gaps = 2/193 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K +TG+S+GIG+++ V GA+V AR +D LE L + + G ++ D
Sbjct: 7 LHGKRALITGASTGIGKRVALAYVEAGAQVAIAARHLDALEKLADEIGTSGGKVVPVCCD 66
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V+ V ++ +V AELG IDI V NAG++ T M LEE+ + N N+ GV
Sbjct: 67 VSQHQQVTSMLDQVTAELGGIDIAVCNAGIITVTPMLDMPLEEFQRLQNTNVTGVFLTAQ 126
Query: 834 NILPSMLHSRRPGHILNISSNAG--VRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+M+ + G I+N +S +G + ++ Y +K + ++ A+ E++ I+V
Sbjct: 127 AAAKAMVKQGQGGVIINTASMSGHIINVPQQVSHYCASKAAVIHLTKAMAVELAPHKIRV 186
Query: 892 TCIQAGDVKTELL 904
+ G + TEL+
Sbjct: 187 NSVSPGYILTELV 199
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 89.2 bits (221), Expect = 2e-19
Identities = 54/193 (27%), Positives = 99/193 (51%), Gaps = 12/193 (6%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDR------LENLKTSLQNAPGSIIVKKLDV 774
+TG +SGIG + GA+VV +D+ + +L+ + G + DV
Sbjct: 11 ITGGASGIGLATGTEFARRGARVVLG--DVDKPGLRQAVNHLRAEGFDVHGVMC----DV 64
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
+V + E LGH+D++ +NAG++ + + ++W +I+V++ G +H +
Sbjct: 65 RHREEVTHLADEAFRLLGHVDVVFSNAGIVVGGPIVEMTHDDWRWVIDVDLWGSIHTVEA 124
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
LP +L GH++ +S AG+ P AGL Y KY + G++ L +EV+ I V+ +
Sbjct: 125 FLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYGVVGLAETLAREVTADGIGVSVL 184
Query: 895 QAGDVKTELLSHS 907
V+T L+++S
Sbjct: 185 CPMVVETNLVANS 197
>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 = 87.6 bits (217), Expect = 5e-19
Identities = 52/191 (27%), Positives = 90/191 (47%), Gaps = 7/191 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
KV+ VTG++ GIG + + L GA+V+ V R + + + + A + V D
Sbjct: 2 FEGKVVVVTGAAQGIGRGVAERLAGEGARVLLVDRS-ELVHEVLAEILAAGDAAHVHTAD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNA-GVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
+ + VVR + G +D+L+NN G ++ E Y+ E+ A I ++ L C
Sbjct: 61 LETYAGAQGVVRAAVERFGRVDVLINNVGGTIWAKPYEHYEEEQIEAEIRRSLFPTLWCC 120
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAV-YTGTKYFIEGISGALRQEVSDRNIKV 891
+LP ML R+ G I+N+SS A R + Y+ K + ++ +L E + I+V
Sbjct: 121 RAVLPHML-ERQQGVIVNVSSIA-TR--GIYRIPYSAAKGGVNALTASLAFEHARDGIRV 176
Query: 892 TCIQAGDVKTE 902
+ G +
Sbjct: 177 NAVAPGGTEAP 187
>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 = 87.3 bits (216), Expect = 5e-19
Identities = 52/189 (27%), Positives = 85/189 (44%), Gaps = 3/189 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K +TGS+ GIG + V GA+V ++ + A +I LD
Sbjct: 1 LDGKTALITGSARGIGRAFAQAYVREGARVAIADINLEAARATAAEIGPAACAI---SLD 57
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT + + + V ++ G IDILVNNA + + E ++ + +N+ G L +
Sbjct: 58 VTDQASIDRCVAALVDRWGSIDILVNNAALFDLAPIVDITRESYDRLFAINVSGTLFMMQ 117
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
+ +M+ R G I+N++S AG R A + VY TK + ++ + + I V
Sbjct: 118 AVARAMIAQGRGGKIINMASQAGRRGEALVGVYCATKAAVISLTQSAGLNLIRHGINVNA 177
Query: 894 IQAGDVKTE 902
I G V E
Sbjct: 178 IAPGVVDGE 186
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 91.8 bits (229), Expect = 5e-19
Identities = 47/157 (29%), Positives = 65/157 (41%), Gaps = 1/157 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
LA KV VTG++ GIG+ K L GA VV + E L ++ V D
Sbjct: 420 LAGKVALVTGAAGGIGKATAKRLAAEGACVVLADLDEEAAEAAAAELGGPDRALGV-ACD 478
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT E V+ E G +DI+V+NAG+ +E+ E+W +VN G
Sbjct: 479 VTDEAAVQAAFEEAALAFGGVDIVVSNAGIAISGPIEETSDEDWRRSFDVNATGHFLVAR 538
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
+ M G I+ I+S V P Y K
Sbjct: 539 EAVRIMKAQGLGGSIVFIASKNAVNPGPNFGAYGAAK 575
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 88.1 bits (219), Expect = 5e-19
Identities = 49/177 (27%), Positives = 86/177 (48%), Gaps = 5/177 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
A KV +TG++SG G + LG K+V + D L+ L+ ++ + D
Sbjct: 4 FAGKVAVITGAASGFGLAFARIGAALGMKLVLADVQQDALDRAVAELRAQGAEVLGVRTD 63
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V+ V+ + L G + +L NNAGV L+ + L +W ++ VN+ GV+H +
Sbjct: 64 VSDAAQVEALADAALERFGAVHLLFNNAGVGAGGLVWENSLADWEWVLGVNLWGVIHGVR 123
Query: 834 NILPSMLHSRRP-----GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVS 885
P ML + GHI+N +S AG+ + +Y +K+ + ++ L Q++S
Sbjct: 124 AFTPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTETLYQDLS 180
>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 = 87.2 bits (216), Expect = 7e-19
Identities = 54/187 (28%), Positives = 88/187 (47%), Gaps = 1/187 (0%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
++V VTG++SGIG + + L G +V AR + L L+ A + DV
Sbjct: 3 SEVALVTGATSGIGLAIARRLGKEGLRVFVCARGEEGLATTVKELREAGVEADGRTCDVR 62
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+++ +V +A G ID+LVNNAG + E W ++ N+ GV +
Sbjct: 63 SVPEIEALVAAAVARYGPIDVLVNNAGRSGGGATAELADELWLDVVETNLTGVFRVTKEV 122
Query: 836 LPSMLHSRRP-GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
L + R G I+NI+S G + A Y+ +K+ + G + AL E++ I V +
Sbjct: 123 LKAGGMLERGTGRIINIASTGGKQGVVHAAPYSASKHGVVGFTKALGLELARTGITVNAV 182
Query: 895 QAGDVKT 901
G V+T
Sbjct: 183 CPGFVET 189
>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 = 87.0 bits (216), Expect = 7e-19
Identities = 61/221 (27%), Positives = 99/221 (44%), Gaps = 22/221 (9%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVK--KLD 773
V VTG +SG+G V+ L+ GAKVV + E A + +D
Sbjct: 2 GLVAVVTGGASGLGLATVERLLAQGAKVVILDLPNSPGE------TVAKLGDNCRFVPVD 55
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMY------FTLMEKYKLEEWNAMINVNIKG 827
VT E DVK + A+ G +DI+VN AG+ + + LE + +INVN+ G
Sbjct: 56 VTSEKDVKAALALAKAKFGRLDIVVNCAGIAVAAKTYNKKGQQPHSLELFQRVINVNLIG 115
Query: 828 VLHCIGNILPSM-----LHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
+ I +M G I+N +S A G A Y+ +K I G++ + +
Sbjct: 116 TFNVIRLAAGAMGKNEPDQGGERGVIINTASVAAFEGQIGQAAYSASKGGIVGMTLPIAR 175
Query: 883 EVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP 923
+++ + I+V I G T LL+ ++ + ++K VP
Sbjct: 176 DLAPQGIRVVTIAPGLFDTPLLAGLPEK---VRDFLAKQVP 213
>gnl|CDD|187662 cd09761, A3DFK9-like_SDR_c, Clostridium thermocellum A3DFK9-like, a
putative carbohydrate or polyalcohol metabolizing SDR,
classical (c) SDRs. This subgroup includes a putative
carbohydrate or polyalcohol metabolizing SDR (A3DFK9)
from Clostridium thermocellum. Its members have a
TGXXXGXG classical-SDR glycine-rich NAD-binding motif,
and some have a canonical SDR active site tetrad (A3DFK9
lacks the upstream Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 86.5 bits (214), Expect = 9e-19
Identities = 57/186 (30%), Positives = 86/186 (46%), Gaps = 6/186 (3%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV VTG GIG+Q+ D + G KVV ID + P V DV
Sbjct: 1 GKVAIVTGGGHGIGKQICLDFLEAGDKVVFA--DIDEERGADFAEAEGPNLFFVH-GDVA 57
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
E VK VV +L +LG ID+LVNNA ++ LEEW+ +++VN+ G
Sbjct: 58 DETLVKFVVYAMLEKLGRIDVLVNNAARGSKGILSSLLLEEWDRILSVNLTGPYELSRYC 117
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
++ ++ G I+NI+S + Y +K + ++ AL + +I+V CI
Sbjct: 118 RDELIKNK--GRIINIASTRAFQSEPDSEAYAASKGGLVALTHALAMSLG-PDIRVNCIS 174
Query: 896 AGDVKT 901
G + T
Sbjct: 175 PGWINT 180
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 86.5 bits (215), Expect = 1e-18
Identities = 56/208 (26%), Positives = 88/208 (42%), Gaps = 41/208 (19%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK 771
LA K VTG + GIG V L+ GA+VV AR + + P +
Sbjct: 5 LELAGKRALVTGGTKGIGAATVARLLEAGARVVTTAR---------SRPDDLPEGVEFVA 55
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVM------YFTLMEKYKLEEWNAMINVNI 825
D+T V R VL LG +DILV+ G + L + EEW +N+N+
Sbjct: 56 ADLTTAEGCAAVARAVLERLGGVDILVHVLGGSSAPAGGFAALTD----EEWQDELNLNL 111
Query: 826 KGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPF-----------AGLAVYTGTKYFIE 874
+ +LP M+ +R G I++++S P A L+ Y
Sbjct: 112 LAAVRLDRALLPGMI-ARGSGVIIHVTSIQRRLPLPESTTAYAAAKAALSTY-------- 162
Query: 875 GISGALRQEVSDRNIKVTCIQAGDVKTE 902
S +L +EV+ + ++V + G ++TE
Sbjct: 163 --SKSLSKEVAPKGVRVNTVSPGWIETE 188
>gnl|CDD|237108 PRK12467, PRK12467, peptide synthase; Provisional.
Length = 3956
Score = 91.8 bits (228), Expect = 1e-18
Identities = 34/136 (25%), Positives = 69/136 (50%), Gaps = 3/136 (2%)
Query: 5 NLSDYD-AEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIV 63
N + A +H + QA++ P++ A+V + +++ +L+ + + LI G
Sbjct: 503 NAPATEYAPDCVHQLIEAQARQHPERPALV-FGEQVLSYAELNRQANRLAHVLIAAGVGP 561
Query: 64 GSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMD 123
VG+ +ER +E + +A+ KAGG Y+PL+ YP L +LDD+ +++T+ +
Sbjct: 562 DVLVGIAVERSIEMVVGLLAVLKAGGAYVPLDPEYPQDRLAYMLDDSGVRLLLTQSHLLA 621
Query: 124 RLER-TSVPKVKLEND 138
+L + + L+
Sbjct: 622 QLPVPAGLRSLCLDEP 637
Score = 80.6 bits (199), Expect = 4e-15
Identities = 35/118 (29%), Positives = 62/118 (52%), Gaps = 1/118 (0%)
Query: 8 DYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTV 67
Y +H + +QA TP+ +A+V + +T+ +L+ + + LI G V
Sbjct: 1569 GYPLARLVHQLIEDQAAATPEAVALV-FGEQELTYGELNRRANRLAHRLIALGVGPEVLV 1627
Query: 68 GVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
G+ +ER LE + +AI KAGG Y+PL+ YP L +++D+ +++T+ RL
Sbjct: 1628 GIAVERSLEMVVGLLAILKAGGAYVPLDPEYPRERLAYMIEDSGIELLLTQSHLQARL 1685
Score = 69.4 bits (170), Expect = 7e-12
Identities = 31/94 (32%), Positives = 55/94 (58%)
Query: 176 LKSSGKLNKEELPKLDSIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGHS 235
L +GK++++ LP D+ E + ++ +A IW +L + + +NFFE+GG S
Sbjct: 3577 LGPNGKVDRKALPDPDAKGSREYVAPRSEVEQQLAAIWADVLGVEQVGVTDNFFELGGDS 3636
Query: 236 LTAALCISKMNEELSLNLSIKDLFAHPTVQEMAA 269
L A +S++ + L L LS++DL + PT+ E+A
Sbjct: 3637 LLALQVLSRIRQSLGLKLSLRDLMSAPTIAELAG 3670
Score = 69.0 bits (169), Expect = 1e-11
Identities = 36/122 (29%), Positives = 69/122 (56%), Gaps = 5/122 (4%)
Query: 6 LSDYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGS 65
+ Y +E +H + Q RTP+ A+V D + +++ +L+ + + LI G VG
Sbjct: 3088 AAAYPSERLVHQLIEAQVARTPEAPALVFGD-QQLSYAELNRRANRLAHRLIAIG--VGP 3144
Query: 66 T--VGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMD 123
VGV +ER +E ++ +A+ KAGG Y+PL+ YP L +++D+ +++T+ ++
Sbjct: 3145 DVLVGVAVERSVEMIVALLAVLKAGGAYVPLDPEYPRERLAYMIEDSGVKLLLTQAHLLE 3204
Query: 124 RL 125
+L
Sbjct: 3205 QL 3206
Score = 67.9 bits (166), Expect = 2e-11
Identities = 33/97 (34%), Positives = 55/97 (56%), Gaps = 1/97 (1%)
Query: 176 LKSSGKLNKEELPKLDSIA-QIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGH 234
L +GKL+++ LPK D+ A Q + +K +A IW +L + + +NFFE+GGH
Sbjct: 1001 LTPNGKLDRKALPKPDASAVQATFVAPQTELEKRLAAIWADVLKVERVGLTDNFFELGGH 1060
Query: 235 SLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALL 271
SL A IS++ + L + + ++ LF H T+ A +
Sbjct: 1061 SLLATQVISRVRQRLGIQVPLRTLFEHQTLAGFAQAV 1097
Score = 63.6 bits (155), Expect = 5e-10
Identities = 32/95 (33%), Positives = 52/95 (54%), Gaps = 2/95 (2%)
Query: 176 LKSSGKLNKEELPKLD-SIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGH 234
L +GKL+++ LP D S Q + ++ +A IW +L L + +NFFE+GG
Sbjct: 2068 LTPNGKLDRKALPAPDASELQQAYVAPQSELEQRLAAIWQDVLGLEQVGLHDNFFELGGD 2127
Query: 235 SLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAA 269
S+ + +S+ + + + KDLF H TVQ +AA
Sbjct: 2128 SIISIQVVSRARQA-GIRFTPKDLFQHQTVQSLAA 2161
>gnl|CDD|215954 pfam00501, AMP-binding, AMP-binding enzyme.
Length = 412
Score = 88.6 bits (220), Expect = 2e-18
Identities = 34/141 (24%), Positives = 65/141 (46%), Gaps = 1/141 (0%)
Query: 41 TFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPP 100
T+++LDE + + L G G V +L+ EW ++ +A+ KAG Y+PL+ S P
Sbjct: 1 TYRELDERANRLAAALRALGVGPGDRVAILLPNSPEWVVAILAVLKAGAAYVPLDPSLPA 60
Query: 101 ALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKLENDFLSKMISENEKFHNHVPIAEEY 160
L +L+D++ ++IT E + +L + + L + E + +A
Sbjct: 61 ERLAYILEDSEAKVLITDDELLPKLLEVLLKLLVLLALIIVGDDGEGLDLLDDELLAGAS 120
Query: 161 RKNLVQNFESLHLS-ILKSSG 180
+ + L+ I+ +SG
Sbjct: 121 AEPPAPPVDPDDLAYIIYTSG 141
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 85.0 bits (211), Expect = 4e-18
Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 11/183 (6%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K I +TG+ SG G ++ L G V+A + ++ L+ ++ V+KLD+T
Sbjct: 3 KTILITGAGSGFGREVALRLARKGHNVIAGVQIAPQVTALRAEAARRGLALRVEKLDLTD 62
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
D + A +D+L+NNAG+ + +E + N+ G L +
Sbjct: 63 AIDRAQ------AAEWDVDVLLNNAGIGEAGAVVDIPVELVRELFETNVFGPLELTQGFV 116
Query: 837 PSMLHSRRPGHILNISSNAG--VRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
M+ +R G ++ SS AG PF G Y +K+ +E I+ A+ E+ I+V +
Sbjct: 117 RKMV-ARGKGKVVFTSSMAGLITGPFTG--AYCASKHALEAIAEAMHAELKPFGIQVATV 173
Query: 895 QAG 897
G
Sbjct: 174 NPG 176
>gnl|CDD|236216 PRK08277, PRK08277, D-mannonate oxidoreductase; Provisional.
Length = 278
Score = 85.0 bits (211), Expect = 5e-18
Identities = 51/204 (25%), Positives = 90/204 (44%), Gaps = 26/204 (12%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV +TG +G + K+L GAKV + R ++ E + ++ A G + K D
Sbjct: 8 LKGKVAVITGGGGVLGGAMAKELARAGAKVAILDRNQEKAEAVVAEIKAAGGEALAVKAD 67
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAG---VMYFTLMEKYKL------------EEWN 818
V + +++ +++L + G DIL+N AG T E ++L E +
Sbjct: 68 VLDKESLEQARQQILEDFGPCDILINGAGGNHPKATTDNEFHELIEPTKTFFDLDEEGFE 127
Query: 819 AMINVNIKGVLHCIGNILPSM-----LHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFI 873
+ ++N+ +G +LP+ + R+ G+I+NISS P + Y+ K I
Sbjct: 128 FVFDLNL------LGTLLPTQVFAKDMVGRKGGNIINISSMNAFTPLTKVPAYSAAKAAI 181
Query: 874 EGISGALRQEVSDRNIKVTCIQAG 897
+ L + I+V I G
Sbjct: 182 SNFTQWLAVHFAKVGIRVNAIAPG 205
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 84.2 bits (209), Expect = 7e-18
Identities = 54/195 (27%), Positives = 94/195 (48%), Gaps = 15/195 (7%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+F+TG+SSGIG+ L ++ GA + VARR D L+ L + V DV +
Sbjct: 5 VFITGASSGIGQALAREYARQGATLGLVARRTDALQAFAARLPK-AARVSVYAADVRDAD 63
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYK-LEEWNAMINVNIKGVLHCIGNILP 837
+ + +A G D+++ NAG+ TL E+ + L + +++ N G++ +
Sbjct: 64 ALAAAAADFIAAHGLPDVVIANAGISVGTLTEEREDLAVFREVMDTNYFGMVATFQPFIA 123
Query: 838 SMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGA------LRQEVSDRNIKV 891
M + R G ++ I+S AGVR G Y+ +K + A LR E+ ++V
Sbjct: 124 PM-RAARRGTLVGIASVAGVRGLPGAGAYSASK------AAAIKYLESLRVELRPAGVRV 176
Query: 892 TCIQAGDVKTELLSH 906
I G ++T + +H
Sbjct: 177 VTIAPGYIRTPMTAH 191
>gnl|CDD|180993 PRK07478, PRK07478, short chain dehydrogenase; Provisional.
Length = 254
Score = 83.8 bits (208), Expect = 7e-18
Identities = 59/200 (29%), Positives = 87/200 (43%), Gaps = 15/200 (7%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK 771
L KV +TG+SSGIG K GAKVV ARR L+ L ++ G +
Sbjct: 2 MRLNGKVAIITGASSGIGRAAAKLFAREGAKVVVGARRQAELDQLVAEIRAEGGEAVALA 61
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVM----YFTLMEKYKLEEWNAMINVNIKG 827
DV E K +V + G +DI NNAG + M LE W + N+
Sbjct: 62 GDVRDEAYAKALVALAVERFGGLDIAFNNAGTLGEMGPVAEMS---LEGWRETLATNLTS 118
Query: 828 VLHCIGNILPSMLHSRRPGHILNISS----NAGVRPFAGLAVYTGTKYFIEGISGALRQE 883
+ +P+ML +R G ++ S+ AG F G+A Y +K + G++ L E
Sbjct: 119 AFLGAKHQIPAML-ARGGGSLIFTSTFVGHTAG---FPGMAAYAASKAGLIGLTQVLAAE 174
Query: 884 VSDRNIKVTCIQAGDVKTEL 903
+ I+V + G T +
Sbjct: 175 YGAQGIRVNALLPGGTDTPM 194
>gnl|CDD|236116 PRK07856, PRK07856, short chain dehydrogenase; Provisional.
Length = 252
Score = 83.8 bits (208), Expect = 8e-18
Identities = 54/211 (25%), Positives = 90/211 (42%), Gaps = 12/211 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +V+ VTG + GIG + + + GA VV RR ++ P D
Sbjct: 4 LTGRVVLVTGGTRGIGAGIARAFLAAGATVVVCGRRAP------ETVDGRPAEFH--AAD 55
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V + V +V ++ G +D+LVNNAG + L + ++ +N+ L
Sbjct: 56 VRDPDQVAALVDAIVERHGRLDVLVNNAGGSPYALAAEASPRFHEKIVELNLLAPLLVAQ 115
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
M G I+NI S +G RP G A Y K + ++ +L E + + ++V
Sbjct: 116 AANAVMQQQPGGGSIVNIGSVSGRRPSPGTAAYGAAKAGLLNLTRSLAVEWAPK-VRVNA 174
Query: 894 IQAGDVKTELL-SHSTDRDVVDKYDISKAVP 923
+ G V+TE H D + + ++ VP
Sbjct: 175 VVVGLVRTEQSELHYGDAEGIAA--VAATVP 203
>gnl|CDD|237187 PRK12743, PRK12743, oxidoreductase; Provisional.
Length = 256
Score = 83.5 bits (207), Expect = 1e-17
Identities = 50/202 (24%), Positives = 90/202 (44%), Gaps = 7/202 (3%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTS--LQNAPGSIIVKKL 772
+V VT S SGIG+ L G + + D +T+ +++ +++L
Sbjct: 1 MAQVAIVTASDSGIGKACALLLAQQGFDI-GITWHSDEEGAKETAEEVRSHGVRAEIRQL 59
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D++ + + + +++ LG ID+LVNNAG M +EW + V++ G C
Sbjct: 60 DLSDLPEGAQALDKLIQRLGRIDVLVNNAGAMTKAPFLDMDFDEWRKIFTVDVDGAFLCS 119
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
M+ + G I+NI+S P G + YT K+ + G++ A+ E+ + I V
Sbjct: 120 QIAARHMVKQGQGGRIINITSVHEHTPLPGASAYTAAKHALGGLTKAMALELVEHGILVN 179
Query: 893 CIQAGDVKTELLSHSTDRDVVD 914
+ G + T + D D
Sbjct: 180 AVAPGAIATPM----NGMDDSD 197
>gnl|CDD|180818 PRK07062, PRK07062, short chain dehydrogenase; Provisional.
Length = 265
Score = 83.6 bits (207), Expect = 1e-17
Identities = 41/142 (28%), Positives = 64/142 (45%), Gaps = 3/142 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA--PGSIIVKK 771
L +V VTG SSGIG V+ L+ GA V R +RL + + L+ ++ +
Sbjct: 6 LEGRVAVVTGGSSGIGLATVELLLEAGASVAICGRDEERLASAEARLREKFPGARLLAAR 65
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DV E DV V A G +D+LVNNAG + + W + + V++
Sbjct: 66 CDVLDEADVAAFAAAVEARFGGVDMLVNNAGQGRVSTFADTTDDAWRDELELKYFSVINP 125
Query: 832 IGNILPSMLHSRRPGHILNISS 853
LP +L + I+ ++S
Sbjct: 126 TRAFLP-LLRASAAASIVCVNS 146
>gnl|CDD|180411 PRK06123, PRK06123, short chain dehydrogenase; Provisional.
Length = 248
Score = 82.9 bits (205), Expect = 2e-17
Identities = 65/236 (27%), Positives = 112/236 (47%), Gaps = 18/236 (7%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLG-AKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
KV+ +TG+S GIG G A + R D E + +++ G + D
Sbjct: 1 MRKVMIITGASRGIGAATALLAAERGYAVCLNYLRNRDAAEAVVQAIRRQGGEALAVAAD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNA-----MINVNIKGV 828
V E DV ++ V ELG +D LVNNAG+ L + +LE+ +A + N+ G
Sbjct: 61 VADEADVLRLFEAVDRELGRLDALVNNAGI----LEAQMRLEQMDAARLTRIFATNVVGS 116
Query: 829 LHCIGNILPSM--LHSRRPGHILNISSNAGVRPFAGLAV-YTGTKYFIEGISGALRQEVS 885
C + M H R G I+N+SS A G + Y +K I+ ++ L +EV+
Sbjct: 117 FLCAREAVKRMSTRHGGRGGAIVNVSSMAARLGSPGEYIDYAASKGAIDTMTIGLAKEVA 176
Query: 886 DRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIFAL 938
I+V ++ G + TE+ + + VD+ + +P+ T +E++++I++ L
Sbjct: 177 AEGIRVNAVRPGVIYTEIHASGGEPGRVDR--VKAGIPMGRGGTAEEVARAILWLL 230
>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
Length = 254
Score = 82.9 bits (205), Expect = 2e-17
Identities = 53/191 (27%), Positives = 91/191 (47%), Gaps = 1/191 (0%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
+LA K I +TGS+ GIG L L GA+++ +R E L+
Sbjct: 6 SLAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVAKLRQEGIKAHAAPF 65
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
+VT + +V+ + + ++G ID+L+NNAG+ ++ +EWN +I VN V
Sbjct: 66 NVTHKQEVEAAIEHIEKDIGPIDVLINNAGIQRRHPFTEFPEQEWNDVIAVNQTAVFLVS 125
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ M+ R+ G I+NI S + Y +K ++ ++ + E++ NI+V
Sbjct: 126 QAVARYMV-KRQAGKIINICSMQSELGRDTITPYAASKGAVKMLTRGMCVELARHNIQVN 184
Query: 893 CIQAGDVKTEL 903
I G KTE+
Sbjct: 185 GIAPGYFKTEM 195
>gnl|CDD|213285 cd05918, A_NRPS_SidN3_like, The adenylation (A) domain of
siderophore-synthesizing nonribosomal peptide
synthetases (NRPS). The adenylation (A) domain of NRPS
recognizes a specific amino acid or hydroxy acid and
activates it as an (amino) acyl adenylate by hydrolysis
of ATP. The activated acyl moiety then forms a thioester
to the enzyme-bound cofactor phosphopantetheine of a
peptidyl carrier protein domain. This family of
siderophore-synthesizing NRPS includes the third
adenylation domain of SidN from the endophytic fungus
Neotyphodium lolii, ferrichrome siderophore synthetase,
HC-toxin synthetase, and enniatin synthase. NRPSs are
large multifunctional enzymes which synthesize many
therapeutically useful peptides. These natural products
include antibiotics, immunosuppressants, plant and
animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and in some
cases, modification of a single amino acid residue of
the final peptide product. The modules can be subdivided
into domains that catalyze specific biochemical
reactions.
Length = 447
Score = 85.7 bits (213), Expect = 2e-17
Identities = 29/95 (30%), Positives = 55/95 (57%), Gaps = 1/95 (1%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+ PD +AV DG +T+ +LD + + +LI+ G G V + +ER ++ +
Sbjct: 2 AQTHPDAVAVDFWDGS-LTYAELDRRANKLAHHLISLGVRPGDIVALCLERSPWLYVAIL 60
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVIT 117
A+ KAG Y+P++ S P L+ +++D+ ++V+T
Sbjct: 61 AVLKAGAAYVPIDPSAPVERLQFIIEDSGATVVLT 95
>gnl|CDD|235703 PRK06125, PRK06125, short chain dehydrogenase; Provisional.
Length = 259
Score = 82.8 bits (205), Expect = 2e-17
Identities = 56/192 (29%), Positives = 85/192 (44%), Gaps = 8/192 (4%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPG-SIIVKK 771
LA K + +TG+S GIG + G + VAR D LE L L+ A G + V
Sbjct: 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLVARDADALEALAADLRAAHGVDVAVHA 63
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
LD++ + ++ AE G IDILVNNAG + ++ W A + + G +
Sbjct: 64 LDLSSPEARE----QLAAEAGDIDILVNNAGAIPGGGLDDVDDAAWRAGWELKVFGYIDL 119
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAG-LAVYTGTKYFIEGISGALRQEVSDRNIK 890
P M +R G I+N+ AG P A + G + + AL + D ++
Sbjct: 120 TRLAYPRM-KARGSGVIVNVIGAAGENPDADYICGSAGNAALM-AFTRALGGKSLDDGVR 177
Query: 891 VTCIQAGDVKTE 902
V + G V T+
Sbjct: 178 VVGVNPGPVATD 189
>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 = 82.8 bits (205), Expect = 2e-17
Identities = 47/154 (30%), Positives = 74/154 (48%), Gaps = 1/154 (0%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
KV VTG +SGIG + K L GA VV + E + + Q P ++ V+ DVT
Sbjct: 2 KVALVTGGASGIGLAIAKRLAAEGAAVVVADIDPEIAEKVAEAAQGGPRALGVQ-CDVTS 60
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
E V+ + + E G +DI+V+NAG+ + + + LE+WN +++N+ G
Sbjct: 61 EAQVQSAFEQAVLEFGGLDIVVSNAGIATSSPIAETSLEDWNRSMDINLTGHFLVSREAF 120
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
M G+I+ +S V P A Y+ K
Sbjct: 121 RIMKSQGIGGNIVFNASKNAVAPGPNAAAYSAAK 154
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 82.7 bits (205), Expect = 2e-17
Identities = 47/179 (26%), Positives = 74/179 (41%), Gaps = 3/179 (1%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L KV+ V+G G+G L GA VV AR +RL+ + + + + D
Sbjct: 3 LKGKVVVVSGVGPGLGRTLAVRAARAGADVVLAARTAERLDEVAAEIDDLGRRALAVPTD 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKGVLHCI 832
+T E+ +V L G +D LVNNA + + W A+I +N+ G L
Sbjct: 63 ITDEDQCANLVALALERFGRVDALVNNAFRVPSMKPLADADFAHWRAVIELNVLGTLRLT 122
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
P++ S G I+ I+S Y K + S +L E+ + I+V
Sbjct: 123 QAFTPALAESG--GSIVMINSMVLRHSQPKYGAYKMAKGALLAASQSLATELGPQGIRV 179
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 84.0 bits (208), Expect = 2e-17
Identities = 61/239 (25%), Positives = 108/239 (45%), Gaps = 15/239 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L V+ +TG+SSGIG+ + GA++V AR + L+ + + ++V D
Sbjct: 5 LHGAVVVITGASSGIGQATAEAFARRGARLVLAARDEEALQAVAEECRALGAEVLVVPTD 64
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT + VK + + + G ID+ VNN GV E+ +E +I N+ G +
Sbjct: 65 VTDADQVKALATQAASFGGRIDVWVNNVGVGAVGRFEETPIEAHEQVIQTNLIGYMRDAH 124
Query: 834 NILPSMLHSRRPGHILNISSNAG--VRPFAGLAVYTGTKYFIEGISGALRQEVSD-RNIK 890
LP G +N+ S G +P+A A Y+ +K+ + G S ALR E++D +I
Sbjct: 125 AALPIFKKQGH-GIFINMISLGGFAAQPYA--AAYSASKFGLRGFSEALRGELADHPDIH 181
Query: 891 VTCIQAGDVKTELLSHS---TDRDVVDKYDISKAVPVLTTKEISQSIIFALLQPSHSAV 946
V + + T H T R ++ PV + ++++++ +P +
Sbjct: 182 VCDVYPAFMDTPGFRHGANYTGR------RLTPPPPVYDPRRVAKAVVRLADRPRATTT 234
>gnl|CDD|181491 PRK08589, PRK08589, short chain dehydrogenase; Validated.
Length = 272
Score = 82.9 bits (205), Expect = 3e-17
Identities = 52/198 (26%), Positives = 93/198 (46%), Gaps = 16/198 (8%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L NKV +TG+S+GIG+ L GA V+AV + + +++ G +D
Sbjct: 4 LENKVAVITGASTGIGQASAIALAQEGAYVLAVDIA-EAVSETVDKIKSNGGKAKAYHVD 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGV-MYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
++ E VK E+ + G +D+L NNAGV + +Y ++ ++ ++ V+++G
Sbjct: 63 ISDEQQVKDFASEIKEQFGRVDVLFNNAGVDNAAGRIHEYPVDVFDKIMAVDMRGTFLMT 122
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAV------YTGTKYFIEGISGALRQEVSD 886
+LP M+ + G I+N SS F+G A Y K + + ++ E
Sbjct: 123 KMLLPLMM--EQGGSIINTSS------FSGQAADLYRSGYNAAKGAVINFTKSIAIEYGR 174
Query: 887 RNIKVTCIQAGDVKTELL 904
I+ I G ++T L+
Sbjct: 175 DGIRANAIAPGTIETPLV 192
>gnl|CDD|180802 PRK07035, PRK07035, short chain dehydrogenase; Provisional.
Length = 252
Score = 82.0 bits (203), Expect = 3e-17
Identities = 54/208 (25%), Positives = 91/208 (43%), Gaps = 2/208 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K+ VTG+S GIGE + K L GA V+ +R++D + + ++ A G
Sbjct: 6 LTGKIALVTGASRGIGEAIAKLLAQQGAHVIVSSRKLDGCQAVADAIVAAGGKAEALACH 65
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKGVLHCI 832
+ + + + G +DILVNNA YF + L + ++VNI+G
Sbjct: 66 IGEMEQIDALFAHIRERHGRLDILVNNAAANPYFGHILDTDLGAFQKTVDVNIRGYFFMS 125
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
M G I+N++S GV P +Y+ TK + ++ A +E + I+V
Sbjct: 126 VEAGKLMKEQGG-GSIVNVASVNGVSPGDFQGIYSITKAAVISMTKAFAKECAPFGIRVN 184
Query: 893 CIQAGDVKTELLSHSTDRDVVDKYDISK 920
+ G T+ S D + K ++
Sbjct: 185 ALLPGLTDTKFASALFKNDAILKQALAH 212
>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 = 81.2 bits (201), Expect = 4e-17
Identities = 53/192 (27%), Positives = 91/192 (47%), Gaps = 11/192 (5%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLG-AKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
+ +TG+S GIG +LV+ L+ G V+A R L L + + + +LDVT
Sbjct: 1 VLITGASRGIGLELVRQLLARGNNTVIATCRDPSAATELAA-LGASHSRLHILELDVT-- 57
Query: 778 NDVKKVVREVLAELG--HIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
+++ + V LG +D+L+NNAG+++ + + E+ + VN+ G L
Sbjct: 58 DEIAESAEAVAERLGDAGLDVLINNAGILHSYGPASEVDSEDLLEVFQVNVLGPLLLTQA 117
Query: 835 ILPSMLHSRRPGHILNISSNAG---VRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
LP +L R I+NISS G G Y +K + ++ +L E+ I V
Sbjct: 118 FLPLLLKGARA-KIINISSRVGSIGDNTSGGWYSYRASKAALNMLTKSLAVELKRDGITV 176
Query: 892 TCIQAGDVKTEL 903
+ G V+T++
Sbjct: 177 VSLHPGWVRTDM 188
>gnl|CDD|213310 cd05945, DltA, D-alanine:D-alanyl carrier protein ligase (DltA).
DltA belongs to the class I AMP-forming adenylation
domain superfamily, which also includes acetyl-CoA
synthetase, luciferase, and the adenylation domains of
non-ribosomal synthetases. It catalyzes the two-step
activation reaction of D-alanine: the formation of a
substrate-AMP molecule as an intermediate, and then the
transfer of the amino acid adenylate to teichoic acid in
the biosynthesis of lipoteichoic acid (LTA) and wall
teichoic acid (WTA) in gram-positive bacteria.
Length = 447
Score = 84.9 bits (211), Expect = 4e-17
Identities = 61/259 (23%), Positives = 98/259 (37%), Gaps = 73/259 (28%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A + PD+ A+V G ++T+ +L E D + L+ G G V V + + + +
Sbjct: 1 AAKHPDRPALVV-GGDTLTYAELKERADRLAARLLALGGRAGDPVAVYGHKSPDAYAAIL 59
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGE---YMDRLERTS----VPK--- 132
A KAG Y+PL+ S P + +L+ A P+ ++ + Y + TS PK
Sbjct: 60 ACLKAGAAYVPLDPSQPAERIAKILEAAGPAALVADPDDLAY---ILFTSGSTGKPKGVQ 116
Query: 133 VKLEN--DFLSKMIS-----ENEKFHNH----------------------VPIAEEYRKN 163
+ N FL M+ E + F N I +E +
Sbjct: 117 ISHANLASFLDWMVEDFDLTEGDVFSNQAPFSFDLSVFDLFPALASGATLYVIPKEQIAD 176
Query: 164 LVQNFESLH-------------LSILKSSGKLNKEELPKLDSIAQIELDESMFQSQ---K 207
+ FE L S+L S +LN E LP L + +F + K
Sbjct: 177 PLALFEFLKEHGLTVWVSVPSFASLLLLSRELNPESLPSLRT--------FLFCGEVLPK 228
Query: 208 NIAKIW------CKILNLY 220
+AK +I+NLY
Sbjct: 229 KLAKALRRRFPNARIINLY 247
>gnl|CDD|235933 PRK07097, PRK07097, gluconate 5-dehydrogenase; Provisional.
Length = 265
Score = 82.0 bits (203), Expect = 5e-17
Identities = 40/140 (28%), Positives = 71/140 (50%), Gaps = 1/140 (0%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K+ +TG+S GIG + K GA +V + ++ + + D
Sbjct: 8 LKGKIALITGASYGIGFAIAKAYAKAGATIVFNDINQELVDKGLAAYRELGIEAHGYVCD 67
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
VT E+ V+ +V ++ E+G IDILVNNAG++ M + E++ +I++++
Sbjct: 68 VTDEDGVQAMVSQIEKEVGVIDILVNNAGIIKRIPMLEMSAEDFRQVIDIDLNAPFIVSK 127
Query: 834 NILPSMLHSRRPGHILNISS 853
++PSM+ + G I+NI S
Sbjct: 128 AVIPSMI-KKGHGKIINICS 146
>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 = 81.1 bits (200), Expect = 6e-17
Identities = 56/194 (28%), Positives = 90/194 (46%), Gaps = 14/194 (7%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
V VTG ++GIG+ + L GA VV + + E + ++Q A G I + +VT E
Sbjct: 1 VAIVTGGAAGIGKAIAGTLAKAGASVVIADLKSEGAEAVAAAIQQAGGQAIGLECNVTSE 60
Query: 778 NDVKKVVREVLAELGHIDILVNNAG-------VMYFTLMEKYKLEEWNAMINVNIKGVLH 830
D++ VV+ +++ G I ILVNNAG M T E++ +N+
Sbjct: 61 QDLEAVVKATVSQFGGITILVNNAGGGGPKPFDMPMT------EEDFEWAFKLNLFSAFR 114
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
P M + G ILNISS + +A Y +K + ++ L ++ + I+
Sbjct: 115 LSQLCAPHMQKAGG-GAILNISSMSSENKNVRIAAYGSSKAAVNHMTRNLAFDLGPKGIR 173
Query: 891 VTCIQAGDVKTELL 904
V + G VKT+ L
Sbjct: 174 VNAVAPGAVKTDAL 187
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 80.9 bits (200), Expect = 8e-17
Identities = 51/195 (26%), Positives = 83/195 (42%), Gaps = 3/195 (1%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
L + +TG+S GIG + ++ + LGA V+ VAR D L + L V L
Sbjct: 6 RLDGQTALITGASKGIGLAIAREFLGLGADVLIVARDADALAQARDELAEEFPEREVHGL 65
Query: 773 --DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
DV+ + D + ++ V + ILVNNAG Y +EW + N+
Sbjct: 66 AADVSDDEDRRAILDWVEDHWDGLHILVNNAGGNIRKAAIDYTEDEWRGIFETNLFSAFE 125
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
+ +L I+NI S +G+ A Y TK + ++ L E ++ I+
Sbjct: 126 -LSRYAHPLLKQHASSAIVNIGSVSGLTHVRSGAPYGMTKAALLQMTRNLAVEWAEDGIR 184
Query: 891 VTCIQAGDVKTELLS 905
V + ++T L S
Sbjct: 185 VNAVAPWYIRTPLTS 199
>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 = 80.2 bits (198), Expect = 2e-16
Identities = 61/237 (25%), Positives = 98/237 (41%), Gaps = 12/237 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRI-DRLENLKTSLQNAPGSIIVKKL 772
L+ K+ VTG+S GIG + L GA V R I +L ++ G I +
Sbjct: 1 LSGKIALVTGASRGIGRGIALQLGEAGATVYITGRTILPQLPGTAEEIEARGGKCIPVRC 60
Query: 773 DVTIENDVKKVVREVLAEL-GHIDILVNNAGVMYFTLMEKY-------KLEEWNAMINVN 824
D + +++V+ + V E G +DILVNNA ++ W+ + NV
Sbjct: 61 DHSDDDEVEALFERVAREQQGRLDILVNNAYAAVQLILVGVAKPFWEEPPTIWDDINNVG 120
Query: 825 IKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV 884
++ C P M+ + + G I+ ISS G+ +A Y K I+ ++ + E+
Sbjct: 121 LRAHYACSVYAAPLMVKAGK-GLIVIISSTGGLEYLFNVA-YGVGKAAIDRMAADMAHEL 178
Query: 885 SDRNIKVTCIQAGDVKTEL-LSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQ 940
+ V + G V+TEL L D + A T E S + AL
Sbjct: 179 KPHGVAVVSLWPGFVRTELVLEMPEDDEGSWHAKERDAFLNGETTEYSGRCVVALAA 235
>gnl|CDD|181349 PRK08278, PRK08278, short chain dehydrogenase; Provisional.
Length = 273
Score = 80.3 bits (199), Expect = 2e-16
Identities = 54/190 (28%), Positives = 84/190 (44%), Gaps = 10/190 (5%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTS-------LQNAPG 765
+L+ K +F+TG+S GIG + GA +V A+ + L + ++ A G
Sbjct: 3 SLSGKTLFITGASRGIGLAIALRAARDGANIVIAAKTAEPHPKLPGTIHTAAEEIEAAGG 62
Query: 766 SIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNI 825
+ DV E+ V V + + G IDI VNNA + T E ++ ++ M +N+
Sbjct: 63 QALPLVGDVRDEDQVAAAVAKAVERFGGIDICVNNASAINLTGTEDTPMKRFDLMQQINV 122
Query: 826 KGVLHCIGNILPSMLHSRRPGHILNISS--NAGVRPFAGLAVYTGTKYFIEGISGALRQE 883
+G LP + S P HIL +S N + FA YT KY + + L +E
Sbjct: 123 RGTFLVSQACLPHLKKSENP-HILTLSPPLNLDPKWFAPHTAYTMAKYGMSLCTLGLAEE 181
Query: 884 VSDRNIKVTC 893
D I V
Sbjct: 182 FRDDGIAVNA 191
>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 = 79.9 bits (197), Expect = 2e-16
Identities = 52/195 (26%), Positives = 94/195 (48%), Gaps = 4/195 (2%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQ--NAPGSIIVKKLD 773
+KV+ +TG SG+G L GAK+ V + LE K +L +++ K D
Sbjct: 3 DKVVLITGGGSGLGLATAVRLAKEGAKLSLVDLNEEGLEAAKAALLEIAPDAEVLLIKAD 62
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKGVLHCI 832
V+ E V+ V + + G ID NNAG+ L E + +E++ ++++N++GV + +
Sbjct: 63 VSDEAQVEAYVDATVEQFGRIDGFFNNAGIEGKQNLTEDFGADEFDKVVSINLRGVFYGL 122
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+L M + G I+N +S G+R + Y K+ + G++ E I++
Sbjct: 123 EKVLKVM-REQGSGMIVNTASVGGIRGVGNQSGYAAAKHGVVGLTRNSAVEYGQYGIRIN 181
Query: 893 CIQAGDVKTELLSHS 907
I G + T ++ S
Sbjct: 182 AIAPGAILTPMVEGS 196
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 80.0 bits (198), Expect = 2e-16
Identities = 42/161 (26%), Positives = 72/161 (44%), Gaps = 7/161 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAK-VVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
L KV VTG + G+G + + GA +V R ++ E L+ + +
Sbjct: 4 LDGKVALVTGGTQGLGAAIARAFAERGAAGLVICGRNAEKGEAQAAELEALGAKAVFVQA 63
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKGVLHC 831
D++ D ++VV G +D LVN AG+ T+++ E ++ VN++
Sbjct: 64 DLSDVEDCRRVVAAADEAFGRLDALVNAAGLTDRGTILDT-SPELFDRHFAVNVRAPFFL 122
Query: 832 IGNILPSMLHSRRPGHILNISSNA--GVRPFAGLAVYTGTK 870
+ + M + G I+NI S + G +PF LA Y +K
Sbjct: 123 MQEAIKLMRRRKAEGTIVNIGSMSAHGGQPF--LAAYCASK 161
>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 = 79.7 bits (197), Expect = 2e-16
Identities = 56/188 (29%), Positives = 86/188 (45%), Gaps = 13/188 (6%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTS---------LQNAPGS 766
+V+ VTG+ G+G GAKVV DR + K+S ++ A G
Sbjct: 5 GRVVLVTGAGGGLGRAYALAFAERGAKVVVNDLGGDRKGSGKSSSAADKVVDEIKAAGGK 64
Query: 767 IIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIK 826
+ V D +K+V+ + G +DILVNNAG++ K E+W+ ++ V++K
Sbjct: 65 AVANYDSVE---DGEKIVKTAIDAFGRVDILVNNAGILRDRSFAKMSEEDWDLVMRVHLK 121
Query: 827 GVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSD 886
G P M ++ G I+N SS AG+ G A Y+ K + G+S L E +
Sbjct: 122 GSFKVTRAAWPYMR-KQKFGRIINTSSAAGLYGNFGQANYSAAKLGLLGLSNTLAIEGAK 180
Query: 887 RNIKVTCI 894
NI I
Sbjct: 181 YNITCNTI 188
>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 = 79.0 bits (195), Expect = 3e-16
Identities = 52/167 (31%), Positives = 80/167 (47%), Gaps = 10/167 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLK-------TSLQNAPGS 766
LA K +F+TG+S GIG+ + GA VV A+ + L ++ A G
Sbjct: 1 LAGKTLFITGASRGIGKAIALKAARDGANVVIAAKTAEPHPKLPGTIYTAAEEIEAAGGK 60
Query: 767 IIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIK 826
+ +D+ E+ V+ V + + + G IDILVNNA + T ++ ++ M+ VN +
Sbjct: 61 ALPCIVDIRDEDQVRAAVEKAVEKFGGIDILVNNASAISLTGTLDTPMKRYDLMMGVNTR 120
Query: 827 GVLHCIGNILPSMLHSRRPGHILNISSNAGVRP--FAGLAVYTGTKY 871
G C LP + S+ P HILN+S + P F YT KY
Sbjct: 121 GTYLCSKACLPYLKKSKNP-HILNLSPPLNLNPKWFKNHTAYTMAKY 166
>gnl|CDD|223951 COG1020, EntF, Non-ribosomal peptide synthetase modules and related
proteins [Secondary metabolites biosynthesis, transport,
and catabolism].
Length = 642
Score = 83.1 bits (205), Expect = 3e-16
Identities = 37/115 (32%), Positives = 66/115 (57%), Gaps = 1/115 (0%)
Query: 7 SDYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGST 66
+ +H +F QA TPD +A+V G+ +T+ +LD + + LI+ G G T
Sbjct: 221 APIPLRLTIHLLFEEQAATTPDAVALV-RGGQQLTYAELDARANRLARLLISLGVGPGET 279
Query: 67 VGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEY 121
V +L +R LE ++ +A+ KAG Y+PL+ YP L +L+D++P++++T+
Sbjct: 280 VAILADRSLELVVALLAVLKAGAAYVPLDPLYPAERLAYILEDSRPTLLLTQAHL 334
>gnl|CDD|233550 TIGR01733, AA-adenyl-dom, amino acid adenylation domain. This
model represents a domain responsible for the specific
recognition of amino acids and activation as adenylyl
amino acids. The reaction catalyzed is aa + ATP ->
aa-AMP + PPi. These domains are usually found as
components of multi-domain non-ribosomal peptide
synthetases and are usually called "A-domains" in that
context (for a review, see ). A-domains are almost
invariably followed by "T-domains" (thiolation domains,
pfam00550) to which the amino acid adenylate is
transferred as a thiol-ester to a bound pantetheine
cofactor with the release of AMP (these are also called
peptide carrier proteins, or PCPs. When the A-domain
does not represent the first module (corresponding to
the first amino acid in the product molecule) it is
usually preceded by a "C-domain" (condensation domain,
pfam00668) which catalyzes the ligation of two amino
acid thiol-esters from neighboring modules. This domain
is a subset of the AMP-binding domain found in Pfam
(pfam00501) which also hits substrate--CoA ligases and
luciferases. Sequences scoring in between trusted and
noise for this model may be ambiguous as to whether they
activate amino acids or other molecules lacking an alpha
amino group.
Length = 409
Score = 81.9 bits (203), Expect = 3e-16
Identities = 32/101 (31%), Positives = 55/101 (54%), Gaps = 1/101 (0%)
Query: 41 TFKQLDEWTDIVGTYLINQGCI-VGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYP 99
T+++LDE + + +L G + G V VL+ER E ++ +A+ KAG Y+PL+ +YP
Sbjct: 1 TYRELDERANRLARHLRAAGGVGPGDRVAVLLERSAELVVAILAVLKAGAAYVPLDPAYP 60
Query: 100 PALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKLENDFL 140
L +L+DA +++T RL +P + L+ L
Sbjct: 61 AERLAFILEDAGARLLLTDSALASRLAGLVLPVILLDPLEL 101
>gnl|CDD|183714 PRK12742, PRK12742, oxidoreductase; Provisional.
Length = 237
Score = 79.0 bits (195), Expect = 3e-16
Identities = 56/195 (28%), Positives = 89/195 (45%), Gaps = 20/195 (10%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVV-AVARRIDRLENLKTSLQNAPGSIIVKKL 772
K + V G S GIG +V+ VT GA V A D E L G+ V+
Sbjct: 4 FTGKKVLVLGGSRGIGAAIVRRFVTDGANVRFTYAGSKDAAERLAQE----TGATAVQ-T 58
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D D V+ +V+ + G +DILV NAG+ F + ++ + + +NI H
Sbjct: 59 DSA---DRDAVI-DVVRKSGALDILVVNAGIAVFGDALELDADDIDRLFKINIHAPYHA- 113
Query: 833 GNILPSMLHSRR---PGHILNISSNAGVR-PFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
S+ +R+ G I+ I S G R P AG+A Y +K ++G++ L ++ R
Sbjct: 114 -----SVEAARQMPEGGRIIIIGSVNGDRMPVAGMAAYAASKSALQGMARGLARDFGPRG 168
Query: 889 IKVTCIQAGDVKTEL 903
I + +Q G + T+
Sbjct: 169 ITINVVQPGPIDTDA 183
>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 = 78.8 bits (194), Expect = 3e-16
Identities = 49/193 (25%), Positives = 89/193 (46%), Gaps = 7/193 (3%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLE----NLKTSLQNAPGSIIV 769
L +++I VTG+S GIG + GA V+ + R ++L ++ P I+
Sbjct: 2 LNDRIILVTGASDGIGREAALTYARYGATVILLGRNEEKLRQVADHINEEGGRQPQWFIL 61
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGV 828
L T EN +++ + + +D +++NAG++ + + + W + VN+
Sbjct: 62 DLLTCTSEN-CQQLAQRIAVNYPRLDGVLHNAGLLGDVCPLSEQNPQVWQDVXQVNVNAT 120
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
+LP +L S G ++ SS+ G + A Y +K+ EG+ L E RN
Sbjct: 121 FMLTQALLPLLLKS-DAGSLVFTSSSVGRQGRANWGAYAVSKFATEGLXQVLADEYQQRN 179
Query: 889 IKVTCIQAGDVKT 901
++V CI G +T
Sbjct: 180 LRVNCINPGGTRT 192
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 78.8 bits (194), Expect = 4e-16
Identities = 54/194 (27%), Positives = 94/194 (48%), Gaps = 12/194 (6%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRI-DRLENLKTSLQNAPGSIIVKKL 772
L KV +TG ++G+G+ + L GA +V V + +L I
Sbjct: 6 LNGKVAIITGCNTGLGQGMAIGLAKAGADIVGVGVAEAPETQAQVEALGRKFHFITA--- 62
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
D+ + D+ +V + + +GHIDIL+NNAG++ + ++ ++W+ +IN+N K V
Sbjct: 63 DLIQQKDIDSIVSQAVEVMGHIDILINNAGIIRRQDLLEFGNKDWDDVININQKTVFFLS 122
Query: 833 GNILPSMLHSRRPGHILNISS----NAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
+ + G I+NI+S G+R + YT +K + G++ AL E+S N
Sbjct: 123 QAVAKQFVKQGNGGKIINIASMLSFQGGIR----VPSYTASKSAVMGLTRALATELSQYN 178
Query: 889 IKVTCIQAGDVKTE 902
I V I G + T+
Sbjct: 179 INVNAIAPGYMATD 192
>gnl|CDD|166421 PLN02780, PLN02780, ketoreductase/ oxidoreductase.
Length = 320
Score = 79.5 bits (196), Expect = 6e-16
Identities = 56/181 (30%), Positives = 88/181 (48%), Gaps = 11/181 (6%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
VTG + GIG+ L G +V VAR D+L+++ S+Q+ +K + V D+
Sbjct: 58 VTGPTDGIGKGFAFQLARKGLNLVLVARNPDKLKDVSDSIQSKYSKTQIKTVVVDFSGDI 117
Query: 781 KKVVREVLAELGHID--ILVNNAGVMYFTLMEKYKLEE--WNAMINVNIKGVLHCIGNIL 836
+ V+ + + +D +L+NN GV Y ++++E +I VN++G +L
Sbjct: 118 DEGVKRIKETIEGLDVGVLINNVGVSYPYARFFHEVDEELLKNLIKVNVEGTTKVTQAVL 177
Query: 837 PSMLHSRRPGHILNISSNAGV----RPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
P ML R+ G I+NI S A + P AVY TK +I+ S L E I V
Sbjct: 178 PGML-KRKKGAIINIGSGAAIVIPSDPL--YAVYAATKAYIDQFSRCLYVEYKKSGIDVQ 234
Query: 893 C 893
C
Sbjct: 235 C 235
>gnl|CDD|235816 PRK06500, PRK06500, short chain dehydrogenase; Provisional.
Length = 249
Score = 78.1 bits (193), Expect = 7e-16
Identities = 61/233 (26%), Positives = 101/233 (43%), Gaps = 20/233 (8%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K +TG +SGIG + + + GA+V R LE + L S +V + D
Sbjct: 4 LQGKTALITGGTSGIGLETARQFLAEGARVAITGRDPASLEAARAELGE---SALVIRAD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
K + + + G +D + NAGV F +E + ++ N N+KG I
Sbjct: 61 AGDVAAQKALAQALAEAFGRLDAVFINAGVAKFAPLEDWDEAMFDRSFNTNVKGPYFLIQ 120
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLA---VYTGTKYFIEGISGALRQEVSDRNIK 890
+LP L + +LN S NA + G+ VY +K + ++ L E+ R I+
Sbjct: 121 ALLP--LLANPASIVLNGSINAHI----GMPNSSVYAASKAALLSLAKTLSGELLPRGIR 174
Query: 891 VTCIQAGDVKTELLSH----STDRDVVDKYDISKAVPVL---TTKEISQSIIF 936
V + G V+T L D V I VP+ T +EI++++++
Sbjct: 175 VNAVSPGPVQTPLYGKLGLPEATLDAVAA-QIQALVPLGRFGTPEEIAKAVLY 226
>gnl|CDD|236668 PRK10252, entF, enterobactin synthase subunit F; Provisional.
Length = 1296
Score = 82.4 bits (204), Expect = 7e-16
Identities = 34/104 (32%), Positives = 59/104 (56%), Gaps = 1/104 (0%)
Query: 22 QAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISY 81
QA +TPD A+ D +++++ E + L +G G +V V + R + T++
Sbjct: 467 QAAKTPDAPALAD-ARYQFSYREMREQVVALANLLRERGVKPGDSVAVALPRSVFLTLAL 525
Query: 82 IAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
AI +AG +LPL+T YP L+ +L+DA+PS++IT + + R
Sbjct: 526 HAIVEAGAAWLPLDTGYPDDRLKMMLEDARPSLLITTADQLPRF 569
Score = 72.4 bits (178), Expect = 1e-12
Identities = 28/108 (25%), Positives = 58/108 (53%)
Query: 176 LKSSGKLNKEELPKLDSIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGHS 235
L ++GKL+++ LP + AQ+ ++ IA + +L +D D +FF +GGHS
Sbjct: 950 LSANGKLDRKALPLPELKAQVPGRAPKTGTETIIAAAFSSLLGCDVVDADADFFALGGHS 1009
Query: 236 LTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLENKSNETLKLDL 283
L A ++++ + + ++ + TV ++A LL+ + +E+ +L
Sbjct: 1010 LLAMKLAAQLSRQFARQVTPGQVMVASTVAKLATLLDAEEDESRRLGF 1057
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 77.8 bits (192), Expect = 1e-15
Identities = 52/191 (27%), Positives = 81/191 (42%), Gaps = 12/191 (6%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
+ I +TG SSGIG + L + G +V A R+ + + L+ + +LD
Sbjct: 3 MKRSILITGCSSGIGAYCARALQSDGWRVFATCRKEEDVAALEA------EGLEAFQLDY 56
Query: 775 TIENDVKKVVREVLAELGH-IDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+ +V +VL G +D L NN +E E A N G
Sbjct: 57 AEPESIAALVAQVLELSGGRLDALFNNGAYGQPGAVEDLPTEALRAQFEANFFGWHDLTR 116
Query: 834 NILPSMLHSRRPGH--ILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
++P M R+ G I+ SS G+ P Y +K+ IEG+S LR E+ I V
Sbjct: 117 RVIPVM---RKQGQGRIVQCSSILGLVPMKYRGAYNASKFAIEGLSLTLRMELQGSGIHV 173
Query: 892 TCIQAGDVKTE 902
+ I+ G ++T
Sbjct: 174 SLIEPGPIETR 184
>gnl|CDD|237054 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 81.9 bits (202), Expect = 1e-15
Identities = 37/119 (31%), Positives = 66/119 (55%), Gaps = 1/119 (0%)
Query: 7 SDYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGST 66
+ Y A +H + +A+ TPD +AVV D +T+ +L+ + + LI +G
Sbjct: 4545 AGYPATRCVHQLVAERARMTPDAVAVV-FDEEKLTYAELNRRANRLAHALIARGVGPEVL 4603
Query: 67 VGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
VG+ MER E + +A+ KAGG Y+PL+ YP L +++D+ ++++T+ + RL
Sbjct: 4604 VGIAMERSAEMMVGLLAVLKAGGAYVPLDPEYPRERLAYMMEDSGAALLLTQSHLLQRL 4662
Score = 80.4 bits (198), Expect = 4e-15
Identities = 37/134 (27%), Positives = 68/134 (50%), Gaps = 2/134 (1%)
Query: 6 LSDYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGS 65
Y +H QA R P+ IAVV + +++ +LD + + L +G
Sbjct: 1996 PEAYPRGPGVHQRIAEQAARAPEAIAVV-FGDQHLSYAELDSRANRLAHRLRARGVGPEV 2054
Query: 66 TVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
V + ER E ++ +A+ KAGG Y+PL+ +YP L +L+D+ ++++T+ ++RL
Sbjct: 2055 RVAIAAERSFELVVALLAVLKAGGAYVPLDPNYPAERLAYMLEDSGAALLLTQRHLLERL 2114
Query: 126 E-RTSVPKVKLEND 138
V ++ L+ D
Sbjct: 2115 PLPAGVARLPLDRD 2128
Score = 80.0 bits (197), Expect = 5e-15
Identities = 39/114 (34%), Positives = 63/114 (55%), Gaps = 2/114 (1%)
Query: 176 LKSSGKLNKEELPKLD-SIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGH 234
L +GKL+++ LP+ D S+ Q + ++ +A IW ++L L + D+NFFE+GGH
Sbjct: 5043 LTPNGKLDRKALPQPDASLLQQAYVAPRSELEQQVAAIWAEVLQLERVGLDDNFFELGGH 5102
Query: 235 SLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLEN-KSNETLKLDLIHEI 287
SL A S++ EL L L +++LF PT+ L S + K D + E+
Sbjct: 5103 SLLAIQVTSRIQLELGLELPLRELFQTPTLAAFVELAAAAGSGDDEKFDDLEEL 5156
Score = 77.3 bits (190), Expect = 4e-14
Identities = 34/117 (29%), Positives = 63/117 (53%), Gaps = 1/117 (0%)
Query: 9 YDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVG 68
Y + +H +F Q +RTP+ A+ ++ + +L+ + + LI +G VG
Sbjct: 507 YPLQRGVHRLFEEQVERTPEAPALA-FGEETLDYAELNRRANRLAHALIERGVGPDVLVG 565
Query: 69 VLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
V MER +E ++ +AI KAGG Y+PL+ YP L +L+D+ +++++ +L
Sbjct: 566 VAMERSIEMVVALLAILKAGGAYVPLDPEYPAERLAYMLEDSGVQLLLSQSHLGRKL 622
Score = 66.1 bits (161), Expect = 8e-11
Identities = 29/98 (29%), Positives = 56/98 (57%), Gaps = 2/98 (2%)
Query: 176 LKSSGKLNKEELPKLD-SIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGH 234
L +GKL+++ LP+ D ++ Q + + + ++ +A IW +L L + +NFFE+GG
Sbjct: 3527 LTPNGKLDRKALPRPDAALLQQDYVAPVNELERRLAAIWADVLKLEQVGLTDNFFELGGD 3586
Query: 235 SLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLE 272
S+ + +S+ + + + KDLF H T+Q +A +
Sbjct: 3587 SIISLQVVSRA-RQAGIRFTPKDLFQHQTIQGLARVAR 3623
Score = 65.7 bits (160), Expect = 1e-10
Identities = 34/98 (34%), Positives = 57/98 (58%), Gaps = 1/98 (1%)
Query: 176 LKSSGKLNKEELPKLD-SIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGH 234
L +GKL+++ LPK D S + ++ +A IW +L + + D++FFE+GGH
Sbjct: 2487 LNPNGKLDRKALPKPDVSQLRQAYVAPQEGLEQRLAAIWQAVLKVEQVGLDDHFFELGGH 2546
Query: 235 SLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLE 272
SL A +S++ ++L L + ++ LF PT+ AA LE
Sbjct: 2547 SLLATQVVSRVRQDLGLEVPLRILFERPTLAAFAASLE 2584
Score = 65.4 bits (159), Expect = 2e-10
Identities = 36/111 (32%), Positives = 64/111 (57%), Gaps = 1/111 (0%)
Query: 8 DYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTV 67
+Y E +H +F Q +RTPD +A+ + R +++ +L+ + + LI +G V
Sbjct: 3052 EYPLERGVHRLFEEQVERTPDAVALAFGEQR-LSYAELNRRANRLAHRLIERGVGPDVLV 3110
Query: 68 GVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITK 118
GV +ER LE + +AI KAGG Y+PL+ YP L +L+D+ +++++
Sbjct: 3111 GVAVERSLEMVVGLLAILKAGGAYVPLDPEYPEERLAYMLEDSGAQLLLSQ 3161
Score = 60.4 bits (146), Expect = 5e-09
Identities = 30/94 (31%), Positives = 54/94 (57%), Gaps = 2/94 (2%)
Query: 176 LKSSGKLNKEELPKLD-SIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGH 234
L +GKL+++ LP + S+AQ ++ +A IW +L + + D+NFFE+GG
Sbjct: 989 LTPNGKLDRKALPAPEASVAQQGYVAPRNALERTLAAIWQDVLGVERVGLDDNFFELGGD 1048
Query: 235 SLTAALCISKMNEELSLNLSIKDLFAHPTVQEMA 268
S+ + +S+ + + LS +DLF H T++ +A
Sbjct: 1049 SIVSIQVVSRARQA-GIQLSPRDLFQHQTIRSLA 1081
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 77.3 bits (191), Expect = 1e-15
Identities = 52/188 (27%), Positives = 90/188 (47%), Gaps = 13/188 (6%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
A KV+ VTG++ GIG + GA+VV V R + + + L+ A G + D+
Sbjct: 7 AGKVVVVTGAAQGIGRGVALRAAAEGARVVLVDRS-ELVHEVAAELRAAGGEALALTADL 65
Query: 775 TIENDVKKVVREVLAELGHIDILVNN-AGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+ + + G ID+L+NN G ++ E+Y+ E+ A I ++ L C
Sbjct: 66 ETYAGAQAAMAAAVEAFGRIDVLINNVGGTIWAKPFEEYEEEQIEAEIRRSLFPTLWCCR 125
Query: 834 NILPSMLHSRRPGHILNISSNA--GVR--PFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
+LP ML ++ G I+N+SS A G+ P Y+ K + ++ +L E ++ I
Sbjct: 126 AVLPHML-AQGGGAIVNVSSIATRGINRVP------YSAAKGGVNALTASLAFEYAEHGI 178
Query: 890 KVTCIQAG 897
+V + G
Sbjct: 179 RVNAVAPG 186
>gnl|CDD|223528 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell
envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 314
Score = 78.1 bits (192), Expect = 2e-15
Identities = 63/303 (20%), Positives = 109/303 (35%), Gaps = 48/303 (15%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG G++G HL+++ LL D+ L+
Sbjct: 2 RILVTGGAGFIGSHLVER--------------------LLAAGHDVRG-------LDRLR 34
Query: 381 DRLILVKSDLSLEMLGLKNQD-EYVSLSYEIDMIIHAAAFVNLILPY----NALYKSNVL 435
D L + S + +L L ++D D +IH AA ++ NV
Sbjct: 35 DGLDPLLSGVEFVVLDLTDRDLVDELAKGVPDAVIHLAAQSSVPDSNASDPAEFLDVNVD 94
Query: 436 ATKNLIEFSFLNKIKSFHYVSTDSIY--PSTSENFQEDYTVADFDDFMTTTSGYGQSKIV 493
T NL+E + +K F + S+ S+ ED + YG SK+
Sbjct: 95 GTLNLLEAARAAGVKRFVFASSVSVVYGDPPPLPIDEDLGPPRP------LNPYGVSKLA 148
Query: 494 SEYLVLNAGQM-GLPVSIVRCGNI---GGSLEFKNWNLVDLNLYILKAITRLGYAPDIDW 549
+E L+ ++ GLPV I+R N+ G + + + +LK + D
Sbjct: 149 AEQLLRAYARLYGLPVVILRPFNVYGPGDKPDLSSGVVSAFIRQLLKGEPIIVIGGDGSQ 208
Query: 550 YLEFTPVDFLTKSLVQLTTNVNNANKIYNFIN-TNPIHIKTLVS-VLNTYGYNIKTVPYE 607
+F VD + +L+ N ++N + T I ++ L V G + Y
Sbjct: 209 TRDFVYVDDVADALLLALE--NPDGGVFNIGSGTAEITVRELAEAVAEAVGSKAPLIVYI 266
Query: 608 KWF 610
Sbjct: 267 PLG 269
Score = 43.8 bits (103), Expect = 3e-04
Identities = 30/141 (21%), Positives = 53/141 (37%), Gaps = 21/141 (14%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
I VTG + IG LV+ L+ G V + R L+ L + LD+T
Sbjct: 1 MRILVTGGAGFIGSHLVERLLAAGHDVRGLDR-------LRDGLDPLLSGVEFVVLDLTD 53
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ V ++ + V D +++ A + ++VN+ G L N+L
Sbjct: 54 RDLVDELAKGV------PDAVIHLAAQSSVPD---SNASDPAEFLDVNVDGTL----NLL 100
Query: 837 PSMLHSRRPGHILNISSNAGV 857
+ + + SS + V
Sbjct: 101 EAARAAGVK-RFVFASSVSVV 120
>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 = 76.7 bits (189), Expect = 2e-15
Identities = 55/198 (27%), Positives = 96/198 (48%), Gaps = 10/198 (5%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQ----NAPGSII 768
L K VTG + GIG +V++L LGA+V AR L+ T + GS+
Sbjct: 3 NLEGKTALVTGGTKGIGYAIVEELAGLGAEVYTCARNQKELDECLTEWREKGFKVEGSVC 62
Query: 769 VKKLDVTIENDVKKVVREVLAEL-GHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKG 827
DV+ ++ ++++ V + G ++ILVNNAG + Y E+++ +++ N +
Sbjct: 63 ----DVSSRSERQELMDTVASHFGGKLNILVNNAGTNIRKEAKDYTEEDYSLIMSTNFEA 118
Query: 828 VLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDR 887
H + + +L + G+I+ ISS AGV A Y TK + ++ +L E +
Sbjct: 119 AYH-LSRLAHPLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGALNQLTRSLACEWAKD 177
Query: 888 NIKVTCIQAGDVKTELLS 905
NI+V + + T L+
Sbjct: 178 NIRVNAVAPWVIATPLVE 195
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 76.4 bits (188), Expect = 3e-15
Identities = 51/196 (26%), Positives = 84/196 (42%), Gaps = 10/196 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K +TG+ +GIG+++ T GA VV D ++ +Q G + D
Sbjct: 9 LDGKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGGQAFACRCD 68
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAG---VMYFTL-MEKYKLEEWNAMINVNIKGVL 829
+T E ++ + L++LG +DILVNNAG F + M + +NV
Sbjct: 69 ITSEQELSALADFALSKLGKVDILVNNAGGGGPKPFDMPMADF---RRAYELNVF--SFF 123
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
H + P M G IL I+S A + Y +K + + ++ ++NI
Sbjct: 124 HLSQLVAPEM-EKNGGGVILTITSMAAENKNINMTSYASSKAAASHLVRNMAFDLGEKNI 182
Query: 890 KVTCIQAGDVKTELLS 905
+V I G + T+ L
Sbjct: 183 RVNGIAPGAILTDALK 198
>gnl|CDD|213322 cd12114, A_NRPS_TlmIV_like, The adenylation domain of nonribosomal
peptide synthetases (NRPS), including Streptoalloteichus
tallysomycin biosynthesis genes. The adenylation (A)
domain of NRPS recognizes a specific amino acid or
hydroxy acid and activates it as an (amino) acyl
adenylate by hydrolysis of ATP. The activated acyl
moiety then forms a thioester to the enzyme-bound
cofactor phosphopantetheine of a peptidyl carrier
protein domain. NRPSs are large multifunctional enzymes
which synthesize many therapeutically useful peptides in
bacteria and fungi via a template-directed, nucleic acid
independent nonribosomal mechanism. These natural
products include antibiotics, immunosuppressants, plant
and animal toxins, and enzyme inhibitors. NRPS has a
distinct modular structure in which each module is
responsible for the recognition, activation, and in some
cases, modification of a single amino acid residue of
the final peptide product. The modules can be subdivided
into domains that catalyze specific biochemical
reactions. This family includes the TLM biosynthetic
gene cluster from Streptoalloteichus that consists of
nine NRPS genes; the N-terminal module of TlmVI (NRPS-5)
and the starter module of BlmVI (NRPS-5) are comprised
of the acyl CoA ligase (AL) and acyl carrier protein
(ACP)-like domains, which are thought to be involved in
the biosynthesis of the beta-aminoalaninamide moiety.
Length = 476
Score = 78.8 bits (195), Expect = 3e-15
Identities = 27/111 (24%), Positives = 46/111 (41%), Gaps = 1/111 (0%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
PD AV+D G +T+ +L + + L G G V V+M + E ++ + I
Sbjct: 1 PDATAVIDGAGT-LTYGELARRANAIAAALRAAGVAPGDLVAVVMPKGWEQIVAVLGILL 59
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKLEN 137
AG Y+P++ P ++L A V+T E + V +
Sbjct: 60 AGAAYVPIDPDQPAERRAAILARAGARAVLTDPGLAQPEEAPDLLVVADDA 110
>gnl|CDD|236209 PRK08265, PRK08265, short chain dehydrogenase; Provisional.
Length = 261
Score = 75.8 bits (187), Expect = 5e-15
Identities = 47/169 (27%), Positives = 72/169 (42%), Gaps = 13/169 (7%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
LA KV VTG ++ IG + + LV GA+V V D + SL D
Sbjct: 4 LAGKVAIVTGGATLIGAAVARALVAAGARVAIVDIDADNGAAVAASL---GERARFIATD 60
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+T + +++ V V+A G +DILVN A Y +W A ++VN+
Sbjct: 61 ITDDAAIERAVATVVARFGRVDILVNLA-CTYLDDGLASSRADWLAALDVNLVSAAMLAQ 119
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
P + +R G I+N +S + G +Y +K A+RQ
Sbjct: 120 AAHPHL--ARGGGAIVNFTSISAKFAQTGRWLYPASK-------AAIRQ 159
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 75.5 bits (186), Expect = 6e-15
Identities = 46/185 (24%), Positives = 86/185 (46%), Gaps = 20/185 (10%)
Query: 720 FVTGSSSGIGEQLVKDLVTLGAKVV-----------AVARRIDRLENLKTSLQNAPGSII 768
F+TG++ G+G + + + GAKV A A I+ + G
Sbjct: 3 FITGAAGGLGRAIARRMAEQGAKVFLTDINDAAGLDAFAAEINA--------AHGEGVAF 54
Query: 769 VKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGV 828
DVT E + ++ + +G + +LVNNAGV F +E+ +L+EW ++ +N++ +
Sbjct: 55 AAVQDVTDEAQWQALLAQAADAMGGLSVLVNNAGVGSFGAIEQIELDEWRRVMAINVESI 114
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
+ LP + S +P I+NISS A + Y +K + ++ ++ + + R
Sbjct: 115 FLGCKHALPYLRAS-QPASIVNISSVAAFKAEPDYTAYNASKAAVASLTKSIALDCARRG 173
Query: 889 IKVTC 893
+ V C
Sbjct: 174 LDVRC 178
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of the
critical active site Tyr, it has Phe, but contains the
nearby Lys). SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 75.1 bits (185), Expect = 6e-15
Identities = 44/176 (25%), Positives = 81/176 (46%), Gaps = 4/176 (2%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTS-LQNAPGSIIVKKLDVTI 776
V V G+ G+G + + G V ARR +LE L +++A GS D
Sbjct: 1 VAAVVGAGDGLGAAIARRFAAEGFSVALAARREAKLEALLVDIIRDAGGSAKAVPTDARD 60
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGV-MYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
E++V + + E+G +++LV NAG ++F ++E + + + G
Sbjct: 61 EDEVIALFDLIEEEIGPLEVLVYNAGANVWFPILETTP-RVFEKVWEMAAFGGFLAAREA 119
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
ML +R G I+ + A +R AG A + G K+ + ++ ++ +E+ + I V
Sbjct: 120 AKRML-ARGRGTIIFTGATASLRGRAGFAAFAGAKFALRALAQSMARELGPKGIHV 174
>gnl|CDD|182051 PRK09730, PRK09730, putative NAD(P)-binding oxidoreductase;
Provisional.
Length = 247
Score = 75.3 bits (185), Expect = 7e-15
Identities = 62/244 (25%), Positives = 109/244 (44%), Gaps = 11/244 (4%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ VTG S GIG L G V V + + + + + A G V + D++
Sbjct: 2 AIALVTGGSRGIGRATALLLAQEGYTVAVNYQQNLHAAQEVVNLITQAGGKAFVLQADIS 61
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYF-TLMEKYKLEEWNAMINVNIKGVLHCIGN 834
EN V + + + LVNNAG+++ +E E N +++ N+ G C
Sbjct: 62 DENQVVAMFTAIDQHDEPLAALVNNAGILFTQCTVENLTAERINRVLSTNVTGYFLCCRE 121
Query: 835 ILPSMLHSR--RPGHILNISSNAGVRPFAGLAV-YTGTKYFIEGISGALRQEVSDRNIKV 891
+ M G I+N+SS A G V Y +K I+ ++ L EV+ + I+V
Sbjct: 122 AVKRMALKHGGSGGAIVNVSSAASRLGAPGEYVDYAASKGAIDTLTTGLSLEVAAQGIRV 181
Query: 892 TCIQAGDVKTELLSHSTDRDVVDKYDISKAVPVL---TTKEISQSIIFALLQPSHSAVNS 948
C++ G + TE+ + + VD+ + +P+ +E++Q+I++ LL S V
Sbjct: 182 NCVRPGFIYTEMHASGGEPGRVDR--VKSNIPMQRGGQPEEVAQAIVW-LLSDKASYVTG 238
Query: 949 ILIE 952
I+
Sbjct: 239 SFID 242
>gnl|CDD|212494 cd08946, SDR_e, extended (e) SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 200
Score = 73.9 bits (182), Expect = 7e-15
Identities = 46/177 (25%), Positives = 85/177 (48%), Gaps = 17/177 (9%)
Query: 411 DMIIHAAAFVNLILPYN---ALYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIYPSTSEN 467
D+++H AA V + ++ +++NV+ T NL+E + +K F Y S+ S+Y S
Sbjct: 32 DVVVHLAALVGVPASWDNPDEDFETNVVGTLNLLEAARKAGVKRFVYASSASVYGSPEGL 91
Query: 468 FQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNAG-QMGLPVSIVRCGNIGGSLEFKNWN 526
+E+ T S YG SK+ +E+L+ + G GLPV I+R N+ G + +
Sbjct: 92 PEEEETP------PRPLSPYGVSKLAAEHLLRSYGESYGLPVVILRLANVYGPGQRPRLD 145
Query: 527 LVDLNLYILKAITR----LGYAPDIDWYLEFTPVDFLTKSLVQLTTNVNNANKIYNF 579
V +N +I +A+ + + +F VD + ++++ N +YN
Sbjct: 146 GV-VNDFIRRALEGKPLTVFGGGNQ--TRDFIHVDDVVRAILHALENPLEGGGVYNI 199
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 74.5 bits (184), Expect = 1e-14
Identities = 49/196 (25%), Positives = 92/196 (46%), Gaps = 5/196 (2%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA---PGSII 768
+ L +++I VTG+ GIG + GA V+ + R ++LE + ++ A +II
Sbjct: 8 DLLKDRIILVTGAGDGIGREAALTYARHGATVILLGRTEEKLEAVYDEIEAAGGPQPAII 67
Query: 769 VKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVM-YFTLMEKYKLEEWNAMINVNIKG 827
L + +++ + + G +D +++NAG++ ME+ E W ++ VN+
Sbjct: 68 PLDLLTATPQNYQQLADTIEEQFGRLDGVLHNAGLLGELGPMEQQDPEVWQDVMQVNVNA 127
Query: 828 VLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDR 887
+LP +L S ++ SS+ G + A Y +K+ EG+ L E
Sbjct: 128 TFMLTQALLPLLLKSPA-ASLVFTSSSVGRQGRANWGAYAVSKFATEGMMQVLADEYQGT 186
Query: 888 NIKVTCIQAGDVKTEL 903
N++V CI G +T +
Sbjct: 187 NLRVNCINPGGTRTAM 202
>gnl|CDD|181517 PRK08642, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 253
Score = 74.4 bits (183), Expect = 1e-14
Identities = 60/234 (25%), Positives = 99/234 (42%), Gaps = 17/234 (7%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRI-DRLENLKTSLQNAPGSIIVKKL 772
++ + + VTG S G+G + + GA+VV + D E L I +
Sbjct: 3 ISEQTVLVTGGSRGLGAAIARAFAREGARVVVNYHQSEDAAEALA---DELGDRAIALQA 59
Query: 773 DVTIENDVKKVVREVLAELGH-IDILVNNAGVMY-FTLMEKYKL-----EEWNAMINVNI 825
DVT V+ + G I +VNNA + F + K E++ + ++
Sbjct: 60 DVTDREQVQAMFATATEHFGKPITTVVNNALADFSFDGDARKKADDITWEDFQQQLEGSV 119
Query: 826 KGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVS 885
KG L+ I LP M + G I+NI +N P YT K + G++ L E+
Sbjct: 120 KGALNTIQAALPGMR-EQGFGRIINIGTNLFQNPVVPYHDYTTAKAALLGLTRNLAAELG 178
Query: 886 DRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP---VLTTKEISQSIIF 936
I V + G ++T S +T +V D I+ P V T +E + +++F
Sbjct: 179 PYGITVNMVSGGLLRTTDASAATPDEVFDL--IAATTPLRKVTTPQEFADAVLF 230
>gnl|CDD|183489 PRK12384, PRK12384, sorbitol-6-phosphate dehydrogenase;
Provisional.
Length = 259
Score = 74.3 bits (183), Expect = 1e-14
Identities = 42/185 (22%), Positives = 78/185 (42%), Gaps = 2/185 (1%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL--QNAPGSIIVKKLD 773
N+V V G +G L L G +V ++ N+ + + G D
Sbjct: 2 NQVAVVIGGGQTLGAFLCHGLAEEGYRVAVADINSEKAANVAQEINAEYGEGMAYGFGAD 61
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
T E V + R V G +D+LV NAG+ + ++L +++ + VN+ G C
Sbjct: 62 ATSEQSVLALSRGVDEIFGRVDLLVYNAGIAKAAFITDFQLGDFDRSLQVNLVGYFLCAR 121
Query: 834 NILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
M+ G I+ I+S +G + Y+ K+ G++ +L ++++ I V
Sbjct: 122 EFSRLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEYGITVHS 181
Query: 894 IQAGD 898
+ G+
Sbjct: 182 LMLGN 186
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 74.0 bits (182), Expect = 2e-14
Identities = 52/226 (23%), Positives = 87/226 (38%), Gaps = 19/226 (8%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
+ VTG++ GIG+ L + + G +V+A+ L +L +A + D+
Sbjct: 1 TKRTALVTGAAGGIGQALARRFLAAGDRVLALDIDAAALAAFADALGDA--RFVPVACDL 58
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
T + + AE G +D+LV NAG + W A +N++ C+
Sbjct: 59 TDAASLAAALANAAAERGPVDVLVANAGAARAASLHDTTPASWRADNALNLEAAYLCVEA 118
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
+L ML R G ++NI S G+ G Y+ K + + L E I+ +
Sbjct: 119 VLEGMLKRSR-GAVVNIGSVNGMAAL-GHPAYSAAKAGLIHYTKLLAVEYGRFGIRANAV 176
Query: 895 QAGDVKTELLSHSTD---------------RDVVDKYDISKAVPVL 925
G VKT+ +D D++ AV L
Sbjct: 177 APGTVKTQAWEARVAANPQVFEELKKWYPLQDFATPDDVANAVLFL 222
>gnl|CDD|131680 TIGR02632, RhaD_aldol-ADH, rhamnulose-1-phosphate aldolase/alcohol
dehydrogenase.
Length = 676
Score = 77.2 bits (190), Expect = 2e-14
Identities = 48/160 (30%), Positives = 73/160 (45%), Gaps = 2/160 (1%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL--QNAPGSIIVK 770
TLA +V FVTG + GIG + + L GA VV ++ E + + Q G +
Sbjct: 411 TLARRVAFVTGGAGGIGRETARRLAAEGAHVVLADLNLEAAEAVAAEINGQFGAGRAVAL 470
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
K+DVT E VK +V G +DI+VNNAG+ + E+ L+EW +++ G
Sbjct: 471 KMDVTDEQAVKAAFADVALAYGGVDIVVNNAGIATSSPFEETTLQEWQLNLDILATGYFL 530
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
M G+I+ I+S V + Y+ K
Sbjct: 531 VAREAFRQMREQGLGGNIVFIASKNAVYAGKNASAYSAAK 570
>gnl|CDD|181605 PRK08993, PRK08993, 2-deoxy-D-gluconate 3-dehydrogenase; Validated.
Length = 253
Score = 73.8 bits (181), Expect = 2e-14
Identities = 52/198 (26%), Positives = 91/198 (45%), Gaps = 20/198 (10%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAV-----ARRIDRLENLKTSLQNAPGSI 767
+L KV VTG +G+G+ + L G +V + I+++ L + +
Sbjct: 7 SLEGKVAVVTGCDTGLGQGMALGLAEAGCDIVGINIVEPTETIEQVTALGRRFLSLTADL 66
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKG 827
K+D + ++ +AE GHIDILVNNAG++ ++ ++W+ ++N+NIK
Sbjct: 67 R--KID-----GIPALLERAVAEFGHIDILVNNAGLIRREDAIEFSEKDWDDVMNLNIKS 119
Query: 828 VLHCIGNILPSMLHSRRPGHILNISS----NAGVRPFAGLAVYTGTKYFIEGISGALRQE 883
V + G I+NI+S G+R + YT +K + G++ + E
Sbjct: 120 VFFMSQAAAKHFIAQGNGGKIINIASMLSFQGGIR----VPSYTASKSGVMGVTRLMANE 175
Query: 884 VSDRNIKVTCIQAGDVKT 901
+ NI V I G + T
Sbjct: 176 WAKHNINVNAIAPGYMAT 193
>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 = 73.4 bits (180), Expect = 2e-14
Identities = 52/189 (27%), Positives = 92/189 (48%), Gaps = 3/189 (1%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDR--LENLKTSLQNAPGSIIVKKLDVTI 776
+ VTG+S GIG + L G ++ V R E++ +++Q G+ + + DV
Sbjct: 1 VLVTGASRGIGRAIANRLAADGFEI-CVHYHSGRSDAESVVSAIQAQGGNARLLQFDVAD 59
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ ++ +AE G +V NAG+ E+W+ +I+ N+ G + I
Sbjct: 60 RVACRTLLEADIAEHGAYYGVVLNAGITRDAAFPALSEEDWDIVIHTNLDGFYNVIHPCT 119
Query: 837 PSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQA 896
M+ +R+ G I+ ++S +GV G Y+ K + G + AL E++ R I V CI
Sbjct: 120 MPMIRARQGGRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVELAKRKITVNCIAP 179
Query: 897 GDVKTELLS 905
G + TE+L+
Sbjct: 180 GLIDTEMLA 188
>gnl|CDD|180371 PRK06057, PRK06057, short chain dehydrogenase; Provisional.
Length = 255
Score = 73.6 bits (181), Expect = 3e-14
Identities = 56/194 (28%), Positives = 84/194 (43%), Gaps = 9/194 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
LA +V +TG SGIG + L GA VV D + + G + V D
Sbjct: 5 LAGRVAVITGGGSGIGLATARRLAAEGATVVVG----DIDPEAGKAAADEVGGLFV-PTD 59
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVM--YFTLMEKYKLEEWNAMINVNIKGVLHC 831
VT E+ V + G +DI NNAG+ + L+ W + +VN+ V C
Sbjct: 60 VTDEDAVNALFDTAAETYGSVDIAFNNAGISPPEDDSILNTGLDAWQRVQDVNLTSVYLC 119
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAV-YTGTKYFIEGISGALRQEVSDRNIK 890
LP M+ + G I+N +S V A + YT +K + +S L + + + I+
Sbjct: 120 CKAALPHMVRQGK-GSIINTASFVAVMGSATSQISYTASKGGVLAMSRELGVQFARQGIR 178
Query: 891 VTCIQAGDVKTELL 904
V + G V T LL
Sbjct: 179 VNALCPGPVNTPLL 192
>gnl|CDD|236110 PRK07831, PRK07831, short chain dehydrogenase; Provisional.
Length = 262
Score = 73.5 bits (181), Expect = 3e-14
Identities = 49/160 (30%), Positives = 73/160 (45%), Gaps = 3/160 (1%)
Query: 714 LANKVIFVTGSS-SGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
LA KV+ VT ++ +GIG + + GA+VV RL L G V+ +
Sbjct: 15 LAGKVVLVTAAAGTGIGSATARRALEEGARVVISDIHERRLGETADELAAELGLGRVEAV 74
Query: 773 --DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
DVT E V ++ + LG +D+LVNNAG+ T + +EW+ +++V + G
Sbjct: 75 VCDVTSEAQVDALIDAAVERLGRLDVLVNNAGLGGQTPVVDMTDDEWSRVLDVTLTGTFR 134
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
L M G I+N +S G R G A Y K
Sbjct: 135 ATRAALRYMRARGHGGVIVNNASVLGWRAQHGQAHYAAAK 174
>gnl|CDD|216461 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family.
This family of proteins utilise NAD as a cofactor. The
proteins in this family use nucleotide-sugar substrates
for a variety of chemical reactions.
Length = 233
Score = 72.7 bits (179), Expect = 4e-14
Identities = 46/210 (21%), Positives = 76/210 (36%), Gaps = 43/210 (20%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTD 381
+L+TG TG++G HL+ + LLQ ++ + L
Sbjct: 1 ILVTGGTGFIGSHLV--------------------RRLLQEGYEV-------IVLGRRRR 33
Query: 382 RLILVKSDLSLEMLGLKNQDEYVSL--SYEIDMIIHAAA----FVNLILPYNALYKSNVL 435
L + L + D L + D +IH AA + P ++NVL
Sbjct: 34 SESLNTGRIRFHEGDLTDPDALERLLAEVQPDAVIHLAAQSGVGASFEDP-ADFIRANVL 92
Query: 436 ATKNLIEFSFLNKIKSFHYVSTDSIYPSTSEN-FQEDYTVADFDDFMTTTSGYGQSKIVS 494
T L+E + +K F + S+ +Y ++ ED + S Y +K+ +
Sbjct: 93 GTLRLLEAARRAGVKRFVFASSSEVYGDVADPPITEDTPLGP-------LSPYAAAKLAA 145
Query: 495 EYLVLNAG-QMGLPVSIVRCGNIGGSLEFK 523
E LV GL I+R N+ G
Sbjct: 146 ERLVEAYARAYGLRAVILRLFNVYGPGNPD 175
Score = 36.1 bits (84), Expect = 0.063
Identities = 30/135 (22%), Positives = 52/135 (38%), Gaps = 21/135 (15%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
I VTG + IG LV+ L+ G +V+ + RR + S G I + D+T +
Sbjct: 1 ILVTGGTGFIGSHLVRRLLQEGYEVIVLGRR-------RRSESLNTGRIRFHEGDLTDPD 53
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
+++++ EV D +++ A E+ I N+ G L +L
Sbjct: 54 ALERLLAEV-----QPDAVIHLAAQSG----VGASFEDPADFIRANVLGTL----RLL-E 99
Query: 839 MLHSRRPGHILNISS 853
+ SS
Sbjct: 100 AARRAGVKRFVFASS 114
>gnl|CDD|213307 cd05941, MCS, Malonyl-CoA synthetase (MCS). MCS catalyzes the
formation of malonyl-CoA in a two-step reaction
consisting of the adenylation of malonate with ATP,
followed by malonyl transfer from malonyl-AMP to CoA.
Malonic acid and its derivatives are the building blocks
of polyketides and malonyl-CoA serves as the substrate
of polyketide synthases. Malonyl-CoA synthetase has
broad substrate tolerance and can activate a variety of
malonyl acid derivatives. MCS may play an important role
in biosynthesis of polyketides, the important secondary
metabolites with therapeutic and agrochemical utility.
Length = 430
Score = 75.4 bits (186), Expect = 4e-14
Identities = 35/90 (38%), Positives = 56/90 (62%), Gaps = 1/90 (1%)
Query: 28 DKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKA 87
D+IA+VD GRS+T+ +LD + + L+ G + G V VL + E+ + Y+AI +A
Sbjct: 1 DRIALVD-GGRSLTYGELDARSGRLAKALLALGLLPGDRVAVLAPKSAEYVVLYLAIWRA 59
Query: 88 GGGYLPLETSYPPALLESVLDDAKPSIVIT 117
GG +PL SYP A L +L D++PS+++
Sbjct: 60 GGVAVPLNPSYPAAELAYILSDSQPSLLVD 89
>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 = 72.5 bits (178), Expect = 7e-14
Identities = 57/209 (27%), Positives = 94/209 (44%), Gaps = 25/209 (11%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLEN----LKTSLQNAPGSIIVKKL 772
K + +TG+++GIG++ ++L GA+V+ R + + E ++ N +IV+ L
Sbjct: 2 KTVIITGANTGIGKETARELARRGARVIMACRDMAKCEEAAAEIRRDTLN--HEVIVRHL 59
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAM-INVNIKGVLH- 830
D+ ++ E LAE +D+L+NNAGVM K E+ M VN G H
Sbjct: 60 DLASLKSIRAFAAEFLAEEDRLDVLINNAGVM---RCPYSKTEDGFEMQFGVNHLG--HF 114
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVR---PFAGL---------AVYTGTKYFIEGISG 878
+ N+L +L P I+N+SS A F L Y +K +
Sbjct: 115 LLTNLLLDLLKKSAPSRIVNVSSLAHKAGKINFDDLNSEKSYNTGFAYCQSKLANVLFTR 174
Query: 879 ALRQEVSDRNIKVTCIQAGDVKTELLSHS 907
L + + + V + G V+TEL H+
Sbjct: 175 ELARRLQGTGVTVNALHPGVVRTELGRHT 203
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 71.7 bits (176), Expect = 1e-13
Identities = 54/186 (29%), Positives = 86/186 (46%), Gaps = 8/186 (4%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K + +TG SSGIG + +L G +V+A R+ D + + N+ G + LD+
Sbjct: 3 KSVLITGCSSGIGLEAALELKRRGYRVLAACRKPDDVARM-----NSLGFTGIL-LDLDD 56
Query: 777 ENDVKKVVREVLAEL-GHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
V++ EV+A + L NNAG + + ++ + N G +
Sbjct: 57 PESVERAADEVIALTDNRLYGLFNNAGFGVYGPLSTISRQQMEQQFSTNFFGTHQLTMLL 116
Query: 836 LPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
LP+ML G I+ SS G+ G Y +KY +E S ALR E+ IKV+ I+
Sbjct: 117 LPAMLPHGE-GRIVMTSSVMGLISTPGRGAYAASKYALEAWSDALRMELRHSGIKVSLIE 175
Query: 896 AGDVKT 901
G ++T
Sbjct: 176 PGPIRT 181
>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 = 70.4 bits (173), Expect = 2e-13
Identities = 57/228 (25%), Positives = 95/228 (41%), Gaps = 10/228 (4%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR--IDRLENLKTSLQNAPGSIIVKKLDV 774
V VTG++ IG + + L G +VV R + LK L S ++ + D+
Sbjct: 1 AVALVTGAAKRIGRAIAEALAAEGYRVVVHYNRSEAEAQR-LKDELNALRNSAVLVQADL 59
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
+ +V G D+LVNNA Y T + + + W + +N+K I
Sbjct: 60 SDFAACADLVAAAFRAFGRCDVLVNNASAFYPTPLGQGSEDAWAELFGINLKAPYLLIQA 119
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
L R G I+NI RP G Y +K +EG++ + E++ NI+V I
Sbjct: 120 FAR-RLAGSRNGSIINIIDAMTDRPLTGYFAYCMSKAALEGLTRSAALELAP-NIRVNGI 177
Query: 895 QAGDV-KTELLSHSTDRDVVDKYDISKAVPVLTTKEISQSIIFALLQP 941
G + E + + + K + + +EI+ ++IF LL
Sbjct: 178 APGLILLPEDMDAEYRENALRKVPLKRRPSA---EEIADAVIF-LLDS 221
>gnl|CDD|180300 PRK05875, PRK05875, short chain dehydrogenase; Provisional.
Length = 276
Score = 71.0 bits (174), Expect = 2e-13
Identities = 51/224 (22%), Positives = 96/224 (42%), Gaps = 23/224 (10%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL--QNAPGSIIVK 770
+ ++ VTG SGIG+ + LV GA V+ V R D+L + G++ +
Sbjct: 4 SFQDRTYLVTGGGSGIGKGVAAGLVAAGAAVMIVGRNPDKLAAAAEEIEALKGAGAVRYE 63
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAG----VMYFTLMEKYKLEEWNAMINVNIK 826
DVT E+ V + V A G + +V+ AG + T ++ + W +++N+
Sbjct: 64 PADVTDEDQVARAVDAATAWHGRLHGVVHCAGGSETIGPITQIDS---DAWRRTVDLNVN 120
Query: 827 GVLHCIGNILPSMLHSRRP------GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGAL 880
G ++ + H+ R G + ISS A Y TK ++ +
Sbjct: 121 GTMYVLK-------HAARELVRGGGGSFVGISSIAASNTHRWFGAYGVTKSAVDHLMKLA 173
Query: 881 RQEVSDRNIKVTCIQAGDVKTELLSHSTDR-DVVDKYDISKAVP 923
E+ ++V I+ G ++T+L++ T+ ++ Y +P
Sbjct: 174 ADELGPSWVRVNSIRPGLIRTDLVAPITESPELSADYRACTPLP 217
>gnl|CDD|236399 PRK09186, PRK09186, flagellin modification protein A; Provisional.
Length = 256
Score = 70.0 bits (172), Expect = 4e-13
Identities = 55/209 (26%), Positives = 89/209 (42%), Gaps = 30/209 (14%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGS--IIVKK 771
L K I +TG+ IG LVK ++ G V+A + L L SL S + + +
Sbjct: 2 LKGKTILITGAGGLIGSALVKAILEAGGIVIAADIDKEALNELLESLGKEFKSKKLSLVE 61
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNA---GVMYFTLMEKYKLEEWNAMINVNIKGV 828
LD+T + +++ + + + G ID VN A Y L+++N N++
Sbjct: 62 LDITDQESLEEFLSKSAEKYGKIDGAVNCAYPRNKDYGKKFFDVSLDDFNE--NLS---- 115
Query: 829 LHCIGNILPS-----MLHSRRPGHILNISSNAGV-RPFAGLAVYTGT-----------KY 871
LH + L S + G+++NISS GV P +Y GT K
Sbjct: 116 LHLGSSFLFSQQFAKYFKKQGGGNLVNISSIYGVVAP--KFEIYEGTSMTSPVEYAAIKA 173
Query: 872 FIEGISGALRQEVSDRNIKVTCIQAGDVK 900
I ++ L + D NI+V C+ G +
Sbjct: 174 GIIHLTKYLAKYFKDSNIRVNCVSPGGIL 202
>gnl|CDD|183718 PRK12746, PRK12746, short chain dehydrogenase; Provisional.
Length = 254
Score = 69.7 bits (170), Expect = 6e-13
Identities = 65/246 (26%), Positives = 109/246 (44%), Gaps = 12/246 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSIIVKKL 772
L KV VTG+S GIG + L GA V + R + +++ G + +
Sbjct: 4 LDGKVALVTGASRGIGRAIAMRLANDGALVAIHYGRNKQAADETIREIESNGGKAFLIEA 63
Query: 773 DVTIENDVKKVVREVLAEL------GHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIK 826
D+ + VKK+V ++ EL IDILVNNAG+ +E E ++ ++ VNIK
Sbjct: 64 DLNSIDGVKKLVEQLKNELQIRVGTSEIDILVNNAGIGTQGTIENTTEEIFDEIMAVNIK 123
Query: 827 GVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSD 886
I LP + R G ++NISS F G Y +K + ++ L + + +
Sbjct: 124 APFFLIQQTLPLL---RAEGRVINISSAEVRLGFTGSIAYGLSKGALNTMTLPLAKHLGE 180
Query: 887 RNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAV--PVLTTKEISQSIIFALLQPSHS 944
R I V I G KT++ + D + + + +V + ++I+ ++ F S
Sbjct: 181 RGITVNTIMPGYTKTDINAKLLDDPEIRNFATNSSVFGRIGQVEDIADAVAFLASSDSRW 240
Query: 945 AVNSIL 950
I+
Sbjct: 241 VTGQII 246
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 70.6 bits (174), Expect = 1e-12
Identities = 44/164 (26%), Positives = 72/164 (43%), Gaps = 37/164 (22%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVV------------AVARRIDRLENLKTSLQ 761
LA KV VTG++ GIG + + L GA VV AVA R+ T+L
Sbjct: 208 LAGKVALVTGAARGIGAAIAEVLARDGAHVVCLDVPAAGEALAAVANRVG-----GTALA 262
Query: 762 NAPGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMI 821
LD+T + ++ + G +DI+V+NAG+ + W++++
Sbjct: 263 ----------LDITAPDAPARIAEHLAERHGGLDIVVHNAGITRDKTLANMDEARWDSVL 312
Query: 822 NVNIKGVLHCIGNILPSMLHS---RRPGHILNISSNAGVRPFAG 862
VN+ L I ++L + G I+ +SS +G+ AG
Sbjct: 313 AVNLLAPLR----ITEALLAAGALGDGGRIVGVSSISGI---AG 349
>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
Length = 240
Score = 67.6 bits (165), Expect = 2e-12
Identities = 59/230 (25%), Positives = 97/230 (42%), Gaps = 42/230 (18%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ +TG++SGIG+QL D G +V+A R L L +I DVT
Sbjct: 1 MTAVLITGATSGIGKQLALDYAKQGWQVIACGRNQSVL----DELHTQSANIFTLAFDVT 56
Query: 776 IENDVKKVVREVLAELGHI-DILVNNA--------GVMYFTLMEKYKLEEWNAMINVNIK 826
K L++L I ++ + NA G + TLM + + NVN+
Sbjct: 57 DHPGTK----AALSQLPFIPELWIFNAGDCEYMDDGKVDATLMAR--------VFNVNVL 104
Query: 827 GVLHCIGNILPSMLHSRRPGH-ILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVS 885
GV +CI I P + GH ++ + S A Y +K + + L+ ++
Sbjct: 105 GVANCIEGIQPHL----SCGHRVVIVGSIASELALPRAEAYGASKAAVAYFARTLQLDLR 160
Query: 886 DRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP-VLTTKEISQSI 934
+ I+V + G V T L TD++ A+P ++T ++ SQ I
Sbjct: 161 PKGIEVVTVFPGFVATPL----TDKNTF-------AMPMIITVEQASQEI 199
>gnl|CDD|213302 cd05936, FC-FACS_FadD_like, Prokaryotic long-chain fatty acid CoA
synthetases similar to Escherichia coli FadD. This
subfamily of the AMP-forming adenylation family contains
Escherichia coli FadD and similar prokaryotic fatty acid
CoA synthetases. FadD was characterized as a long-chain
fatty acid CoA synthetase. The gene fadD is regulated by
the fatty acid regulatory protein FadR. Fatty acid CoA
synthetase catalyzes the formation of fatty acyl-CoA in
a two-step reaction: the formation of a fatty acyl-AMP
molecule as an intermediate, followed by the formation
of a fatty acyl-CoA. This is a required step before free
fatty acids can participate in most catabolic and
anabolic reactions.
Length = 468
Score = 70.2 bits (173), Expect = 2e-12
Identities = 33/103 (32%), Positives = 53/103 (51%), Gaps = 1/103 (0%)
Query: 15 LHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERC 74
L + A+R PD+ A+ GR +T+ +LDE +D YL G G V +++ C
Sbjct: 1 LADLLERAARRFPDRPALTFF-GRKLTYAELDELSDRFAAYLQQLGVKKGDRVALMLPNC 59
Query: 75 LEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVIT 117
++ I+Y I KAG +P+ Y P LE L+D+ ++I
Sbjct: 60 PQFPIAYFGILKAGAVVVPVNPLYTPRELEHQLNDSGAKVLIV 102
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 67.7 bits (166), Expect = 3e-12
Identities = 67/248 (27%), Positives = 105/248 (42%), Gaps = 32/248 (12%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L +KV+ VTG +SGIG + L GA V R E + P + V+ +D
Sbjct: 5 LKDKVVIVTGGASGIGAAISLRLAEEGAIPVIFGRSAPDDEFAEELRALQPRAEFVQ-VD 63
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
+T + + V + +A+ G ID LVNNAGV +E E + A + N ++H
Sbjct: 64 LTDDAQCRDAVEQTVAKFGRIDGLVNNAGVNDGVGLEA-GREAFVASLERN---LIHYY- 118
Query: 834 NILPSMLHSRRP------GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ---EV 884
M H P G I+NISS + G + Y K R+ +
Sbjct: 119 ----VMAHYCLPHLKASRGAIVNISSKTALTGQGGTSGYAAAK---GAQLALTREWAVAL 171
Query: 885 SDRNIKVTCIQAGDVKTELLSH--STDRDVVDKYD-ISKAVPV----LTTKEISQSIIFA 937
+ ++V + +V T L + +T D K I+ +P+ T +EI+ + +F
Sbjct: 172 AKDGVRVNAVIPAEVMTPLYENWIATFDDPEAKLAAITAKIPLGHRMTTAEEIADTAVF- 230
Query: 938 LLQP--SH 943
LL SH
Sbjct: 231 LLSERSSH 238
>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 = 67.7 bits (166), Expect = 3e-12
Identities = 53/217 (24%), Positives = 89/217 (41%), Gaps = 10/217 (4%)
Query: 711 GNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAV--ARRIDRLENLKTSLQNAPGSII 768
L K +TG SGIG + GA V D E K ++ +
Sbjct: 21 SGKLKGKKALITGGDSGIGRAVAIAFAREGADVAINYLPEEEDDAEETKKLIEEEGRKCL 80
Query: 769 VKKLDVTIENDVKKVVREVLAELGHIDILVNNAG--VMYFTLMEKYKLEEWNAMINVNIK 826
+ D+ E+ + +V+EV+ E G +DILVNNA ++ E E+ NI
Sbjct: 81 LIPGDLGDESFCRDLVKEVVKEFGKLDILVNNAAYQHPQESI-EDITTEQLEKTFRTNIF 139
Query: 827 GVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSD 886
+ + LP H ++ I+N +S + L Y TK I + L ++++
Sbjct: 140 SMFYLTKAALP---HLKKGSSIINTTSVTAYKGSPHLLDYAATKGAIVAFTRGLSLQLAE 196
Query: 887 RNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVP 923
+ I+V + G + T L+ S + V ++ VP
Sbjct: 197 KGIRVNAVAPGPIWTPLIPSSFPEEKVSEF--GSQVP 231
>gnl|CDD|235564 PRK05691, PRK05691, peptide synthase; Validated.
Length = 4334
Score = 69.8 bits (171), Expect = 6e-12
Identities = 37/109 (33%), Positives = 64/109 (58%), Gaps = 15/109 (13%)
Query: 172 HLSILKS-----SGKLNKEELPKLDSIAQIELDESMFQSQKN-----IAKIWCKILNLYT 221
HL +L S +GKL++ LP D EL+ +Q+ ++ +A+IW ++LN+
Sbjct: 2671 HLILLDSLPLTANGKLDRRALPAPD----PELNRQAYQAPRSELEQQLAQIWREVLNVER 2726
Query: 222 LDKDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAAL 270
+ +NFFE+GG S+ + +S+ +L ++ S +DLF H TVQ +AA+
Sbjct: 2727 VGLGDNFFELGGDSILSIQVVSRA-RQLGIHFSPRDLFQHQTVQTLAAV 2774
Score = 69.4 bits (170), Expect = 8e-12
Identities = 34/106 (32%), Positives = 61/106 (57%), Gaps = 1/106 (0%)
Query: 22 QAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISY 81
QA++TP++IA+V DG S+ + +L + + YL ++G V + ER + +
Sbjct: 1140 QARQTPERIALV-WDGGSLDYAELHAQANRLAHYLRDKGVGPDVCVAIAAERSPQLLVGL 1198
Query: 82 IAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLER 127
+AI KAGG Y+PL+ YP L +L D+ +++T+ ++RL +
Sbjct: 1199 LAILKAGGAYVPLDPDYPAERLAYMLADSGVELLLTQSHLLERLPQ 1244
Score = 68.3 bits (167), Expect = 2e-11
Identities = 31/110 (28%), Positives = 57/110 (51%), Gaps = 15/110 (13%)
Query: 178 SSGKLNKE------ELPKLDSIAQIELDESMFQS---------QKNIAKIWCKILNLYTL 222
SSGKL + LDS A +++ + Q IA IWC+ L + +
Sbjct: 545 SSGKLQRSACRLRLADGSLDSYALFPALQAVEAAQTAASGDELQARIAAIWCEQLKVEQV 604
Query: 223 DKDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLE 272
D++FF +GG+S+ A ++++ +EL ++L+++ LF PT+ +A +
Sbjct: 605 AADDHFFLLGGNSIAATQVVARLRDELGIDLNLRQLFEAPTLAAFSAAVA 654
Score = 66.0 bits (161), Expect = 1e-10
Identities = 37/112 (33%), Positives = 60/112 (53%), Gaps = 13/112 (11%)
Query: 171 LHLSILKS-----SGKLNKEELPKLDSIAQIELDESMFQSQKN-----IAKIWCKILNLY 220
LH L +GKL+++ LP LD I Q L + + +N +A IW +L +
Sbjct: 4201 LHWLWLDRLPLNANGKLDRKALPALD-IGQ--LQSQAYLAPRNELEQTLATIWADVLKVE 4257
Query: 221 TLDKDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLE 272
+ +NFFE+GGHSL A S++ + L N+ ++ +F TV+E+A +E
Sbjct: 4258 RVGVHDNFFELGGHSLLATQIASRVQKALQRNVPLRAMFECSTVEELAEYIE 4309
Score = 65.2 bits (159), Expect = 2e-10
Identities = 38/133 (28%), Positives = 68/133 (51%), Gaps = 3/133 (2%)
Query: 8 DYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTV 67
+ + LH +F QA RTP A+ G+++++ +LD + + L +G V
Sbjct: 2183 EARLDQTLHGLFAAQAARTPQAPALT-FAGQTLSYAELDARANRLARALRERGVGPQVRV 2241
Query: 68 GVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLER 127
G+ +ER LE + +AI KAGG Y+PL+ YP L +++D+ ++++ + L
Sbjct: 2242 GLALERSLEMVVGLLAILKAGGAYVPLDPEYPLERLHYMIEDSGIGLLLSDRALFEALGE 2301
Query: 128 --TSVPKVKLEND 138
V + LE+D
Sbjct: 2302 LPAGVARWCLEDD 2314
Score = 61.3 bits (149), Expect = 3e-09
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 1/94 (1%)
Query: 176 LKSSGKLNKEELPKLDSIAQIELDESMFQSQKNIAKIWCKILNLYTLDKDENFFEIGGHS 235
L SGKL++ LP+ Q E E + Q+ IA IW ++L L + ++FF +GGHS
Sbjct: 1611 LGPSGKLDRRALPEPV-WQQREHVEPRTELQQQIAAIWREVLGLPRVGLRDDFFALGGHS 1669
Query: 236 LTAALCISKMNEELSLNLSIKDLFAHPTVQEMAA 269
L A +S+ + + L ++ LF + A
Sbjct: 1670 LLATQIVSRTRQACDVELPLRALFEASELGAFAE 1703
Score = 46.7 bits (111), Expect = 7e-05
Identities = 29/101 (28%), Positives = 47/101 (46%), Gaps = 1/101 (0%)
Query: 8 DYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTV 67
DY E + +F Q P +IA D + ++ +L+ + +G L G V V
Sbjct: 3715 DYPLEQSYVRLFEAQVAAHPQRIAASCLD-QQWSYAELNRAANRLGHALRAAGVGVDQPV 3773
Query: 68 GVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLD 108
+L ER L+ + KAG GYLPL+ P L+ +++
Sbjct: 3774 ALLAERGLDLLGMIVGSFKAGAGYLPLDPGLPAQRLQRIIE 3814
>gnl|CDD|183719 PRK12747, PRK12747, short chain dehydrogenase; Provisional.
Length = 252
Score = 66.6 bits (162), Expect = 6e-12
Identities = 56/202 (27%), Positives = 90/202 (44%), Gaps = 20/202 (9%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSII---- 768
L KV VTG+S GIG + K L GA V + R + E +Q+ GS
Sbjct: 2 LKGKVALVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEETVYEIQSNGGSAFSIGA 61
Query: 769 -------VKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMI 821
V+ L +++N+++ DIL+NNAG+ +E+ + ++ M+
Sbjct: 62 NLESLHGVEALYSSLDNELQNRTGST-----KFDILINNAGIGPGAFIEETTEQFFDRMV 116
Query: 822 NVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALR 881
+VN K I L + + R I+NISS A Y+ TK I ++ L
Sbjct: 117 SVNAKAPFFIIQQALSRLRDNSR---IINISSAATRISLPDFIAYSMTKGAINTMTFTLA 173
Query: 882 QEVSDRNIKVTCIQAGDVKTEL 903
+++ R I V I G +KT++
Sbjct: 174 KQLGARGITVNAILPGFIKTDM 195
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 186
Score = 64.8 bits (158), Expect = 6e-12
Identities = 37/184 (20%), Positives = 63/184 (34%), Gaps = 47/184 (25%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGA-KVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
+ VTG S GIG + + L + G+ KV+ V+RR
Sbjct: 1 VLVTGGSGGIGGAIARWLASRGSPKVLVVSRR---------------------------- 32
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILP 837
D++V+NA ++ + I N+ G +
Sbjct: 33 -----------------DVVVHNAAILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARE 75
Query: 838 SMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAG 897
M ++R G + ISS AG+ GL Y +K ++G++ E + T + G
Sbjct: 76 LM-KAKRLGRFILISSVAGLFGAPGLGGYAASKAALDGLAQQWASEGWGNGLPATAVACG 134
Query: 898 DVKT 901
Sbjct: 135 TWAG 138
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 65.5 bits (160), Expect = 9e-12
Identities = 44/190 (23%), Positives = 81/190 (42%), Gaps = 18/190 (9%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
++ + VTG++ GIG L L LG +V+ +AR +++ + PG + D+
Sbjct: 3 SRTVLVTGATKGIGLALSLRLANLGHQVIGIAR---------SAIDDFPGELF--ACDLA 51
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNI 835
+ ++ +D +VNN G+ + K L + ++N++ +
Sbjct: 52 DIEQTAATLAQINEI-HPVDAIVNNVGIALPQPLGKIDLAALQDVYDLNVRAAVQVTQAF 110
Query: 836 LPSMLHSRRPGHILNISSNA--GVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTC 893
L M R G I+NI S A G Y+ K + G + E+++ I V
Sbjct: 111 LEGMK-LREQGRIVNICSRAIFGALDRTS---YSAAKSALVGCTRTWALELAEYGITVNA 166
Query: 894 IQAGDVKTEL 903
+ G ++TEL
Sbjct: 167 VAPGPIETEL 176
>gnl|CDD|181668 PRK09135, PRK09135, pteridine reductase; Provisional.
Length = 249
Score = 65.7 bits (161), Expect = 1e-11
Identities = 44/161 (27%), Positives = 67/161 (41%), Gaps = 4/161 (2%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR-IDRLENLKTSLQNA-PGSIIV 769
T + KV +TG + IG + + L G +V R + L L PGS
Sbjct: 2 MTDSAKVALITGGARRIGAAIARTLHAAGYRVAIHYHRSAAEADALAAELNALRPGSAAA 61
Query: 770 KKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
+ D+ + + ++V +A G +D LVNNA Y T + +W+ + N+K
Sbjct: 62 LQADLLDPDALPELVAACVAAFGRLDALVNNASSFYPTPLGSITEAQWDDLFASNLKAPF 121
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK 870
P L +R G I+NI+ RP G VY K
Sbjct: 122 FLSQAAAP-QLRKQR-GAIVNITDIHAERPLKGYPVYCAAK 160
>gnl|CDD|215989 pfam00550, PP-binding, Phosphopantetheine attachment site. A
4'-phosphopantetheine prosthetic group is attached
through a serine. This prosthetic group acts as a a
'swinging arm' for the attachment of activated fatty
acid and amino-acid groups. This domain forms a four
helix bundle. This family includes members not included
in Prosite. The inclusion of these members is supported
by sequence analysis and functional evidence. The
related domain of Vibrio anguillarum angR has the
attachment serine replaced by an alanine.
Length = 66
Score = 59.9 bits (146), Expect = 2e-11
Identities = 21/64 (32%), Positives = 39/64 (60%), Gaps = 1/64 (1%)
Query: 209 IAKIWCKILNLYT-LDKDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEM 267
+ +I ++L + +D D++ F++G SL A ++++ EE + + DLF HPT+ E+
Sbjct: 3 LREIVAEVLGIPDEIDPDDDLFDLGLDSLLAVELLARLEEEFGVEIPPSDLFEHPTLGEL 62
Query: 268 AALL 271
AA L
Sbjct: 63 AAYL 66
>gnl|CDD|235737 PRK06197, PRK06197, short chain dehydrogenase; Provisional.
Length = 306
Score = 63.9 bits (156), Expect = 9e-11
Identities = 28/91 (30%), Positives = 47/91 (51%), Gaps = 2/91 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL--QNAPGSIIVKKLDV 774
+V VTG+++G+G + L GA VV R +D+ + + + +++LD+
Sbjct: 17 RVAVVTGANTGLGYETAAALAAKGAHVVLAVRNLDKGKAAAARITAATPGADVTLQELDL 76
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMY 805
T V+ + A ID+L+NNAGVMY
Sbjct: 77 TSLASVRAAADALRAAYPRIDLLINNAGVMY 107
>gnl|CDD|181126 PRK07806, PRK07806, short chain dehydrogenase; Provisional.
Length = 248
Score = 62.4 bits (152), Expect = 1e-10
Identities = 35/104 (33%), Positives = 45/104 (43%), Gaps = 2/104 (1%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVAR-RIDRLENLKTSLQNAPGSIIVKK 771
L K VTGSS GIG K L GA VV R + R + ++ A G
Sbjct: 3 DLPGKTALVTGSSRGIGADTAKILAGAGAHVVVNYRQKAPRANKVVAEIEAAGGRASAVG 62
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNA-GVMYFTLMEKYKL 814
D+T E V ++ E G +D LV NA G M + E Y +
Sbjct: 63 ADLTDEESVAALMDTAREEFGGLDALVLNASGGMESGMDEDYAM 106
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 62.7 bits (153), Expect = 2e-10
Identities = 56/205 (27%), Positives = 84/205 (40%), Gaps = 5/205 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDR-LENLKTSLQNAPGSIIVKKL 772
L KV +TG SGIG + GA + V K ++ ++
Sbjct: 44 LKGKVALITGGDSGIGRAVAVLFAKEGADIAIVYLDEHEDANETKQRVEKEGVKCLLIPG 103
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTL-MEKYKLEEWNAMINVNIKGVLHC 831
DV+ E K V E + ELG +DILVNNA Y +E E+ + NI H
Sbjct: 104 DVSDEAFCKDAVEETVRELGRLDILVNNAAFQYPQQSLEDITAEQLDKTFKTNIYSYFHM 163
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
LP H ++ I+N S G L Y+ TK I + +L Q + + I+V
Sbjct: 164 TKAALP---HLKQGSAIINTGSITGYEGNETLIDYSATKGAIHAFTRSLAQSLVQKGIRV 220
Query: 892 TCIQAGDVKTELLSHSTDRDVVDKY 916
+ G + T L+ D + V ++
Sbjct: 221 NAVAPGPIWTPLIPSDFDEEKVSQF 245
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 61.8 bits (150), Expect = 2e-10
Identities = 50/187 (26%), Positives = 82/187 (43%), Gaps = 16/187 (8%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
+V VTG++ GIG + L+ G +VV +DR K + + + +DV
Sbjct: 11 RVALVTGAARGIGLGIAAWLIAEGWQVVLA--DLDRERGSKVAKALGENAWFIA-MDVAD 67
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVM--YFTLMEKYKLEEWNAMINVNIKGVL----H 830
E V V EVL + G +D LV NA + + T +E L WN ++ VN+ G + H
Sbjct: 68 EAQVAAGVAEVLGQFGRLDALVCNAAIADPHNTTLESLSLAHWNRVLAVNLTGPMLLAKH 127
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
C L + G I+N++S + Y +K + ++ AL + I+
Sbjct: 128 C-----APYLRAHN-GAIVNLASTRARQSEPDTEAYAASKGGLLALTHALAISLGP-EIR 180
Query: 891 VTCIQAG 897
V + G
Sbjct: 181 VNAVSPG 187
>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 = 61.7 bits (150), Expect = 2e-10
Identities = 48/200 (24%), Positives = 87/200 (43%), Gaps = 31/200 (15%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
IF+TGSS G+G + L+ G +VV AR R + K + A G +I D++
Sbjct: 10 IFITGSSDGLGLAAARTLLHQGHEVVLHARSQKRAADAKAACPGAAGVLIG---DLSSLA 66
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS 838
+ +K+ +V A +G D +++NAG++ K AM+ VN+ + P
Sbjct: 67 ETRKLADQVNA-IGRFDAVIHNAGILSGPNR-KTPDTGIPAMVAVNV---------LAPY 115
Query: 839 MLHS--RRPGHILNISSN-------------AGVRPFAGLAVYTGTKYFIEGISGALRQE 883
+L + RRP ++ +SS R Y+ +K + ++ A+ +
Sbjct: 116 VLTALIRRPKRLIYLSSGMHRGGNASLDDIDWFNRGENDSPAYSDSKLHVLTLAAAVARR 175
Query: 884 VSDRNIKVTCIQAGDVKTEL 903
D + + G V T++
Sbjct: 176 WKD--VSSNAVHPGWVPTKM 193
>gnl|CDD|187564 cd05254, dTDP_HR_like_SDR_e, dTDP-6-deoxy-L-lyxo-4-hexulose
reductase and related proteins, extended (e) SDRs.
dTDP-6-deoxy-L-lyxo-4-hexulose reductase, an extended
SDR, synthesizes dTDP-L-rhamnose from
alpha-D-glucose-1-phosphate, providing the precursor of
L-rhamnose, an essential cell wall component of many
pathogenic bacteria. This subgroup has the
characteristic active site tetrad and NADP-binding
motif. This subgroup also contains human MAT2B, the
regulatory subunit of methionine adenosyltransferase
(MAT); MAT catalyzes S-adenosylmethionine synthesis. The
human gene encoding MAT2B encodes two major splicing
variants which are induced in human cell liver cancer
and regulate HuR, an mRNA-binding protein which
stabilizes the mRNA of several cyclins, to affect cell
proliferation. Both MAT2B variants include this extended
SDR domain. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 280
Score = 61.5 bits (150), Expect = 3e-10
Identities = 52/213 (24%), Positives = 85/213 (39%), Gaps = 51/213 (23%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG TG LG L + L + + R LDL +
Sbjct: 1 KILITGATGMLGRAL-VRLLKERGYEVIGTGRSR--------------ASLFKLDLTDP- 44
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLIL----PYNALYKSNVLA 436
++E E + Y+ D+II+ AA+ + P A Y+ NVLA
Sbjct: 45 ---------DAVE--------EAIR-DYKPDVIINCAAYTRVDKCESDPELA-YRVNVLA 85
Query: 437 TKNLIEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEY 496
+NL + + H STD ++ ++E+ D + + + YG+SK++ E
Sbjct: 86 PENLARAAKEVGARLIHI-STDYVFDGKKGPYKEE----DAPNPL---NVYGKSKLLGEV 137
Query: 497 LVLNAGQMGLPVSIVRCGNIGGSLEFKNWNLVD 529
VLNA L I+R + G L+ N V+
Sbjct: 138 AVLNANPRYL---ILRTSWLYGELKNGE-NFVE 166
Score = 30.3 bits (69), Expect = 4.7
Identities = 20/84 (23%), Positives = 36/84 (42%), Gaps = 21/84 (25%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
I +TG++ +G LV+ L G +V+ R L KLD+T +
Sbjct: 2 ILITGATGMLGRALVRLLKERGYEVIGTGRSRASLF----------------KLDLTDPD 45
Query: 779 DVKKVVREVLAELGHIDILVNNAG 802
V++ +R+ D+++N A
Sbjct: 46 AVEEAIRDY-----KPDVIINCAA 64
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 61.3 bits (149), Expect = 3e-10
Identities = 50/200 (25%), Positives = 79/200 (39%), Gaps = 5/200 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L ++V VTG+ G+G + GA V+ AR +L+ + ++ A V D
Sbjct: 8 LDDQVAVVTGAGRGLGAAIALAFAEAGADVLIAARTESQLDEVAEQIRAAGRRAHVVAAD 67
Query: 774 VTIENDVKKVVREVLAELGHIDILVNN-AGVMYFTLMEKYKLEEWNAM-INVNIKGVLHC 831
+ + + + G +DI+VNN G M L+ + +A NV L
Sbjct: 68 LAHPEATAGLAGQAVEAFGRLDIVVNNVGGTMPNPLLSTSTKDLADAFTFNVATAHALTV 127
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
+P ML G ++NISS G G A Y K + + ++ R I+V
Sbjct: 128 AA--VPLMLEHSGGGSVINISSTMGRLAGRGFAAYGTAKAALAHYTRLAALDLCPR-IRV 184
Query: 892 TCIQAGDVKTELLSHSTDRD 911
I G + T L D
Sbjct: 185 NAIAPGSILTSALEVVAAND 204
>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 = 59.5 bits (145), Expect = 4e-10
Identities = 42/185 (22%), Positives = 77/185 (41%), Gaps = 21/185 (11%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAK-VVAVARRI---DRLENLKTSLQNAPGSIIVKKLDVTI 776
VTG G+G +L + L GA+ +V ++R E L L+ + V DV+
Sbjct: 5 VTGGLGGLGLELARWLAERGARHLVLLSRSGAPDPEAEALLAELEARGAEVTVVACDVSD 64
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ V+ ++ E+ A+ + +++ AGV+ L+ E++ ++ + G +
Sbjct: 65 RDAVRALLAEIRADGPPLRGVIHAAGVLRDALLANMTAEDFARVLAPKVTGAWN------ 118
Query: 837 PSMLH----SRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
LH R + SS AGV G A Y F++ ++ R + + T
Sbjct: 119 ---LHEATRDRPLDFFVLFSSIAGVLGSPGQANYAAANAFLDALAHYRRA----QGLPAT 171
Query: 893 CIQAG 897
I G
Sbjct: 172 SINWG 176
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 61.0 bits (148), Expect = 4e-10
Identities = 56/207 (27%), Positives = 88/207 (42%), Gaps = 22/207 (10%)
Query: 712 NTLANKVIFVTGSS--SGIGEQLVKDLVTLGAKVV---------AVARRIDRLEN--LKT 758
N L NKV VTG S GIG + K+L GA + + +D+ E L+
Sbjct: 2 NQLKNKVAVVTGVSRLDGIGAAICKELAEAGADIFFTYWTAYDKEMPWGVDQDEQIQLQE 61
Query: 759 SLQNAPGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNA----GVMYFTLMEKYKL 814
L + +LD+T + K+++ +V +LG+ ILVNNA + L
Sbjct: 62 ELLKNGVKVSSMELDLTQNDAPKELLNKVTEQLGYPHILVNNAAYSTNNDFSNLTA---- 117
Query: 815 EEWNAMINVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIE 874
EE + VN++ + + + G I+N++S P G Y TK I+
Sbjct: 118 EELDKHYMVNVRATT-LLSSQFARGFDKKSGGRIINMTSGQFQGPMVGELAYAATKGAID 176
Query: 875 GISGALRQEVSDRNIKVTCIQAGDVKT 901
++ +L EV+ I V I G T
Sbjct: 177 ALTSSLAAEVAHLGITVNAINPGPTDT 203
>gnl|CDD|180771 PRK06947, PRK06947, glucose-1-dehydrogenase; Provisional.
Length = 248
Score = 60.6 bits (147), Expect = 6e-10
Identities = 65/252 (25%), Positives = 111/252 (44%), Gaps = 27/252 (10%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
KV+ +TG+S GIG G V + AR E +++ A G V DV
Sbjct: 3 KVVLITGASRGIGRATAVLAAARGWSVGINYARDAAAAEETADAVRAAGGRACVVAGDVA 62
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGV----MYFTLMEKYKLEEWNAMINVNIKGVLHC 831
E DV + V + G +D LVNNAG+ M M+ +L M + N+ G C
Sbjct: 63 NEADVIAMFDAVQSAFGRLDALVNNAGIVAPSMPLADMDAARLR---RMFDTNVLGAYLC 119
Query: 832 IGNILPSMLHSR--RPGHILNISSNAGV--RPFAGLAVYTGTKYFIEGISGALRQEVSDR 887
+ R R G I+N+SS A P + Y G+K ++ ++ L +E+
Sbjct: 120 AREAARRLSTDRGGRGGAIVNVSSIASRLGSPNEYVD-YAGSKGAVDTLTLGLAKELGPH 178
Query: 888 NIKVTCIQAGDVKTELLSHST----DRDVVDKYDISKAVPV---LTTKEISQSIIFALLQ 940
++V ++ G ++TE+ H++ R + P+ E++++I++ LL
Sbjct: 179 GVRVNAVRPGLIETEI--HASGGQPGRAAR----LGAQTPLGRAGEADEVAETIVW-LLS 231
Query: 941 PSHSAVNSILIE 952
+ S V L++
Sbjct: 232 DAASYVTGALLD 243
>gnl|CDD|237188 PRK12745, PRK12745, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 60.4 bits (147), Expect = 7e-10
Identities = 52/222 (23%), Positives = 88/222 (39%), Gaps = 39/222 (17%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR-IDRLENLKTSLQNAPGSIIVKKLDVT 775
V VTG GIG + + L G + R + L + L+ +I DV
Sbjct: 3 PVALVTGGRRGIGLGIARALAAAGFDLAINDRPDDEELAATQQELRALGVEVIFFPADVA 62
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKL-----EEWNAMINVNIKGVLH 830
+ + ++ A G ID LVNNAGV + + L E ++ ++ +N++G
Sbjct: 63 DLSAHEAMLDAAQAAWGRIDCLVNNAGV---GVKVRGDLLDLTPESFDRVLAINLRGPFF 119
Query: 831 CIGNILPSMLHSRR-----PGHILNISS-NAGVRPF---------AGLAVYTGTKYFIEG 875
+ ML I+ +SS NA + AGL++ + F
Sbjct: 120 LTQAVAKRMLAQPEPEELPHRSIVFVSSVNAIMVSPNRGEYCISKAGLSM--AAQLF--- 174
Query: 876 ISGALRQEVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYD 917
A R +++ I V ++ G +KT++ + V KYD
Sbjct: 175 ---AAR--LAEEGIGVYEVRPGLIKTDMTA-----PVTAKYD 206
>gnl|CDD|235730 PRK06187, PRK06187, long-chain-fatty-acid--CoA ligase; Validated.
Length = 521
Score = 62.1 bits (152), Expect = 8e-10
Identities = 37/136 (27%), Positives = 60/136 (44%), Gaps = 6/136 (4%)
Query: 8 DYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTV 67
D + + R+ A++ PDK AV DGR T+ +LDE + + L G G V
Sbjct: 1 MQDYPLTIGRILRHGARKHPDKEAVYF-DGRRTTYAELDERVNRLANALRALGVKKGDRV 59
Query: 68 GVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLER 127
V E+ +Y A+ K G P+ P + +L+DA+ +V+ E++ L
Sbjct: 60 AVFDWNSHEYLEAYFAVPKIGAVLHPINIRLKPEEIAYILNDAEDRVVLVDSEFVPLLAA 119
Query: 128 -----TSVPKVKLEND 138
+V V +E D
Sbjct: 120 ILPQLPTVRTVIVEGD 135
>gnl|CDD|236099 PRK07791, PRK07791, short chain dehydrogenase; Provisional.
Length = 286
Score = 60.5 bits (147), Expect = 9e-10
Identities = 48/185 (25%), Positives = 79/185 (42%), Gaps = 26/185 (14%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVA--VARRIDRLENLKTSLQN-------A 763
L +V+ VTG+ GIG GA+VV + +D + ++ Q A
Sbjct: 3 LLDGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAA 62
Query: 764 PGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGV----MYFTLMEKYKLEEWNA 819
G + D+ + +V + G +D+LVNNAG+ M + E EEW+A
Sbjct: 63 GGEAVANGDDIADWDGAANLVDAAVETFGGLDVLVNNAGILRDRMIANMSE----EEWDA 118
Query: 820 MINVNIKGVLH-CIGNILPSMLHSR-RPGH-----ILNISSNAGVRPFAGLAVYTGTKYF 872
+I V++KG H + + + G I+N SS AG++ G Y+ K
Sbjct: 119 VIAVHLKG--HFATLRHAAAYWRAESKAGRAVDARIINTSSGAGLQGSVGQGNYSAAKAG 176
Query: 873 IEGIS 877
I ++
Sbjct: 177 IAALT 181
>gnl|CDD|235736 PRK06196, PRK06196, oxidoreductase; Provisional.
Length = 315
Score = 60.5 bits (147), Expect = 1e-09
Identities = 34/97 (35%), Positives = 47/97 (48%), Gaps = 4/97 (4%)
Query: 708 IVFGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSI 767
++ G+ L+ K VTG SG+G + + L GA V+ ARR D +L G
Sbjct: 18 VLAGHDLSGKTAIVTGGYSGLGLETTRALAQAGAHVIVPARRPDVARE---ALAGIDGVE 74
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVM 804
+V LD+ V+ L IDIL+NNAGVM
Sbjct: 75 VV-MLDLADLESVRAFAERFLDSGRRIDILINNAGVM 110
>gnl|CDD|223953 COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid
metabolism].
Length = 613
Score = 61.9 bits (151), Expect = 1e-09
Identities = 36/184 (19%), Positives = 75/184 (40%), Gaps = 13/184 (7%)
Query: 18 MFRNQAKRTPDKIAVV---DHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERC 74
+ K PD +A++ +IT+++L E + + L++ G G V +
Sbjct: 21 RLAERVKDRPDGVALMYKELGGWEAITYRELYERVRALASGLLSLGIPAGDRVAIFAANR 80
Query: 75 LEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYM-DRLERTSVPKV 133
EW I+ +AI G +P+ ++ P L +L++++ ++ + + + D +
Sbjct: 81 PEWAIADLAILALGAVSVPIYSTSTPEQLAYILNESESKVIFVENQELLDLVLPVLEDCP 140
Query: 134 KLENDFLSKMISENEKFHNHVPIAEEYRKNL-VQNFESLHLSILKSSGKLNKEELPKLDS 192
K+ + + E L V E + L ++ S+G + PK D
Sbjct: 141 KVVDLIVII--------DLVREAVEAKALVLEVFPDEGISLFLIDSAGLEGRIAPPKPDD 192
Query: 193 IAQI 196
+A I
Sbjct: 193 LATI 196
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 59.4 bits (144), Expect = 1e-09
Identities = 42/187 (22%), Positives = 76/187 (40%), Gaps = 7/187 (3%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL--- 772
N+V V G +GE L L G V I+ EN + K
Sbjct: 2 NQVAVVIGGGQTLGEFLCHGLAEAGYDVAVA--DINS-ENAEKVADEINAEYGEKAYGFG 58
Query: 773 -DVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
D T E V + + V +D+LV +AG+ + ++L +++ + VN+ G C
Sbjct: 59 ADATNEQSVIALSKGVDEIFKRVDLLVYSAGIAKSAKITDFELGDFDRSLQVNLVGYFLC 118
Query: 832 IGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKV 891
M+ G I+ I+S +G + Y+ K+ G++ +L ++++ I V
Sbjct: 119 AREFSKLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAKFGGVGLTQSLALDLAEHGITV 178
Query: 892 TCIQAGD 898
+ G+
Sbjct: 179 NSLMLGN 185
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 59.5 bits (144), Expect = 2e-09
Identities = 45/193 (23%), Positives = 92/193 (47%), Gaps = 9/193 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQN-APGSIIVKKL 772
L+ K+ F T SS GIG + + L GA V+ ++R + L+ + +++ + +
Sbjct: 6 LSGKLAFTTASSKGIGFGVARVLARAGADVILLSRNEENLKKAREKIKSESNVDVSYIVA 65
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAG---VMYFTLMEKYKLEEWNAMINVNIKGVL 829
D+T D+++ V+E+ +G DI + G YF M +E+W + + + +
Sbjct: 66 DLTKREDLERTVKELK-NIGEPDIFFFSTGGPKPGYFMEMS---MEDWEGAVKLLLYPAV 121
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
+ ++P+M + G I+ +S A P +A+ + + G+ L +E+ + I
Sbjct: 122 YLTRALVPAM-ERKGFGRIIYSTSVAIKEPIPNIALSNVVRISMAGLVRTLAKELGPKGI 180
Query: 890 KVTCIQAGDVKTE 902
V I G ++T+
Sbjct: 181 TVNGIMPGIIRTD 193
>gnl|CDD|187557 cd05246, dTDP_GD_SDR_e, dTDP-D-glucose 4,6-dehydratase, extended
(e) SDRs. This subgroup contains dTDP-D-glucose
4,6-dehydratase and related proteins, members of the
extended-SDR family, with the characteristic Rossmann
fold core region, active site tetrad and NAD(P)-binding
motif. dTDP-D-glucose 4,6-dehydratase is closely related
to other sugar epimerases of the SDR family.
dTDP-D-dlucose 4,6,-dehydratase catalyzes the second of
four steps in the dTDP-L-rhamnose pathway (the
dehydration of dTDP-D-glucose to
dTDP-4-keto-6-deoxy-D-glucose) in the synthesis of
L-rhamnose, a cell wall component of some pathogenic
bacteria. In many gram negative bacteria, L-rhamnose is
an important constituent of lipopoylsaccharide
O-antigen. The larger N-terminal portion of
dTDP-D-Glucose 4,6-dehydratase forms a Rossmann fold
NAD-binding domain, while the C-terminus binds the sugar
substrate. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 315
Score = 59.5 bits (145), Expect = 2e-09
Identities = 38/131 (29%), Positives = 56/131 (42%), Gaps = 33/131 (25%)
Query: 408 YEIDMIIHAAA-------------FVNLILPYNALYKSNVLATKNLIEFSFLNKIKSFHY 454
+ID +IH AA F+ ++NVL T L+E + +K F +
Sbjct: 73 EKIDAVIHFAAESHVDRSISDPEPFI----------RTNVLGTYTLLEAARKYGVKRFVH 122
Query: 455 VSTDSIYPSTSEN--FQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNAGQM-GLPVSIV 511
+STD +Y ++ F E + TS Y SK ++ LV + GLPV I
Sbjct: 123 ISTDEVYGDLLDDGEFTE-------TSPLAPTSPYSASKAAADLLVRAYHRTYGLPVVIT 175
Query: 512 RCGNIGGSLEF 522
RC N G +F
Sbjct: 176 RCSNNYGPYQF 186
>gnl|CDD|187539 cd05228, AR_FR_like_1_SDR_e, uncharacterized subgroup of aldehyde
reductase and flavonoid reductase related proteins,
extended (e) SDRs. This subgroup contains proteins of
unknown function related to aldehyde reductase and
flavonoid reductase of the extended SDR-type. Aldehyde
reductase I (aka carbonyl reductase) is an NADP-binding
SDR; it has an NADP-binding motif consensus that is
slightly different from the canonical SDR form and lacks
the Asn of the extended SDR active site tetrad. Aldehyde
reductase I catalyzes the NADP-dependent reduction of
ethyl 4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 318
Score = 59.2 bits (144), Expect = 3e-09
Identities = 46/210 (21%), Positives = 81/210 (38%), Gaps = 40/210 (19%)
Query: 322 VLLTGVTGYLGIHLLQKFLV-DTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG TG+LG +L++ L + VR + LL L
Sbjct: 1 ILVTGATGFLGSNLVRALLAQGYRVRAL--VRSGSDAVLLDGL----------------- 41
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLS---YEIDMIIHAAAFVNLILPYNA-LYKSNVLA 436
+ +V+ DL + SL+ D + H AAF +L LY++NV
Sbjct: 42 -PVEVVEGDL----------TDAASLAAAMKGCDRVFHLAAFTSLWAKDRKELYRTNVEG 90
Query: 437 TKNLIEFSFLNKIKSFHYVSTDSIY-PSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSE 495
T+N+++ + ++ + S+ + E + + Y +SK+++E
Sbjct: 91 TRNVLDAALEAGVRRVVHTSSIAALGGPPDGRIDETTPWNERPFP----NDYYRSKLLAE 146
Query: 496 YLVLNAGQMGLPVSIVRCGNIGGSLEFKNW 525
VL A GL V IV + G +
Sbjct: 147 LEVLEAAAEGLDVVIVNPSAVFGPGDEGPT 176
Score = 35.3 bits (82), Expect = 0.13
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLK 757
I VTG++ +G LV+ L+ G +V A+ R L
Sbjct: 1 ILVTGATGFLGSNLVRALLAQGYRVRALVRSGSDAVLLD 39
>gnl|CDD|235724 PRK06178, PRK06178, acyl-CoA synthetase; Validated.
Length = 567
Score = 60.4 bits (147), Expect = 3e-09
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 1/118 (0%)
Query: 12 EGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLM 71
E L R A+ P + A++ + G IT+ +LDE +D L +G G V V +
Sbjct: 32 ERPLTEYLRAWARERPQRPAIIFY-GHVITYAELDELSDRFAALLRQRGVGAGDRVAVFL 90
Query: 72 ERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTS 129
C ++ I + I K G ++P+ + L L+DA +++ + +E+
Sbjct: 91 PNCPQFHIVFFGILKLGAVHVPVSPLFREHELSYELNDAGAEVLLALDQLAPVVEQVR 148
>gnl|CDD|213287 cd05920, 23DHB-AMP_lg, 2,3-dihydroxybenzoate-AMP ligase.
2,3-dihydroxybenzoate-AMP ligase activates
2,3-dihydroxybenzoate (DHB) by ligation of AMP from ATP
with the release of pyrophosphate. However, it can also
catalyze the ATP-PPi exchange for 2,3-DHB analogs, such
as salicyclic acid (o-hydrobenzoate), as well as
2,4-DHB and 2,5-DHB, but with less efficiency. Proteins
in this family are the stand-alone adenylation
components of non-ribosomal peptide synthases (NRPSs)
involved in the biosynthesis of siderophores, which are
low molecular weight iron-chelating compounds
synthesized by many bacteria to aid in the acquisition
of this vital trace elements. In Escherichia coli, the
2,3-dihydroxybenzoate-AMP ligase is called EntE, the
adenylation component of the enterobactin NRPS system.
Length = 483
Score = 59.9 bits (146), Expect = 3e-09
Identities = 28/85 (32%), Positives = 39/85 (45%), Gaps = 6/85 (7%)
Query: 9 YDAEGA-----LHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIV 63
Y A G L + A R PD+ AVVD R +T+++LD D + L+ G
Sbjct: 6 YRAAGYWGDQTLGDLLAANAARHPDRTAVVD-GPRRLTYRELDAAVDRLAAGLLALGIGP 64
Query: 64 GSTVGVLMERCLEWTISYIAIHKAG 88
G V V + E+ I Y A+ K G
Sbjct: 65 GDRVLVQLPNVAEFVILYFALFKLG 89
>gnl|CDD|236072 PRK07656, PRK07656, long-chain-fatty-acid--CoA ligase; Validated.
Length = 513
Score = 59.9 bits (146), Expect = 4e-09
Identities = 26/120 (21%), Positives = 44/120 (36%), Gaps = 3/120 (2%)
Query: 18 MFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEW 77
+ A+R DK A V + +T+ +L+ L G G V + W
Sbjct: 10 LLARAARRFGDKEAYVF-GDQRLTYAELNARVRRAAAALAALGIGKGDRVAIWAPNSPHW 68
Query: 78 TISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEY--MDRLERTSVPKVKL 135
I+ + KAG +PL T Y +L + G + +D T +P ++
Sbjct: 69 VIAALGALKAGAVVVPLNTRYTADEAAYILARGDAKALFVLGLFLGVDYSATTRLPALEH 128
>gnl|CDD|236100 PRK07798, PRK07798, acyl-CoA synthetase; Validated.
Length = 533
Score = 59.5 bits (145), Expect = 5e-09
Identities = 28/111 (25%), Positives = 54/111 (48%), Gaps = 3/111 (2%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
PD++A+V R +T+ +L+E + + YLI QG G VG+ +E+ + + K
Sbjct: 17 PDRVALV-CGDRRLTYAELEERANRLAHYLIAQGLGPGDHVGIYARNRIEYVEAMLGAFK 75
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE--RTSVPKVKL 135
A + + Y L +LDD+ ++ + E+ R+ +PK++
Sbjct: 76 ARAVPVNVNYRYVEDELRYLLDDSDAVALVYEREFAPRVAEVLPRLPKLRT 126
>gnl|CDD|187656 cd08953, KR_2_SDR_x, ketoreductase (KR), subgroup 2, complex (x)
SDRs. Ketoreductase, a module of the multidomain
polyketide synthase (PKS), has 2 subdomains, each
corresponding to a SDR family monomer. The C-terminal
subdomain catalyzes the NADPH-dependent reduction of the
beta-carbonyl of a polyketide to a hydroxyl group, a
step in the biosynthesis of polyketides, such as
erythromycin. The N-terminal subdomain, an interdomain
linker, is a truncated Rossmann fold which acts to
stabilizes the catalytic subdomain. Unlike typical SDRs,
the isolated domain does not oligomerize but is composed
of 2 subdomains, each resembling an SDR monomer. The
active site resembles that of typical SDRs, except that
the usual positions of the catalytic Asn and Tyr are
swapped, so that the canonical YXXXK motif changes to
YXXXN. Modular PKSs are multifunctional structures in
which the makeup recapitulates that found in (and may
have evolved from) FAS. Polyketide synthesis also
proceeds via the addition of 2-carbon units as in fatty
acid synthesis. The complex SDR NADP-binding motif,
GGXGXXG, is often present, but is not strictly conserved
in each instance of the module. This subfamily includes
both KR domains of the Bacillus subtilis Pks J,-L, and
PksM, and all three KR domains of PksN, components of
the megacomplex bacillaene synthase, which synthesizes
the antibiotic bacillaene. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type KRs have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P)-binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction.
Length = 436
Score = 58.9 bits (143), Expect = 6e-09
Identities = 41/168 (24%), Positives = 74/168 (44%), Gaps = 11/168 (6%)
Query: 721 VTGSSSGIGEQLVKDLV-TLGAKVVAVARR-----IDRLENLKTSLQNAPGSIIVKKLDV 774
VTG + GIG L + L GA++V + R + +L+ ++ DV
Sbjct: 210 VTGGAGGIGRALARALARRYGARLVLLGRSPLPPEEEWKAQTLAALEALGARVLYISADV 269
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGN 834
T V++++ +V G ID +++ AGV+ L+ + E++ A++ + G+L+
Sbjct: 270 TDAAAVRRLLEKVRERYGAIDGVIHAAGVLRDALLAQKTAEDFEAVLAPKVDGLLN---- 325
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
L L + SS + AG A Y F++ + LRQ
Sbjct: 326 -LAQALADEPLDFFVLFSSVSAFFGGAGQADYAAANAFLDAFAAYLRQ 372
>gnl|CDD|236056 PRK07576, PRK07576, short chain dehydrogenase; Provisional.
Length = 264
Score = 57.7 bits (140), Expect = 6e-09
Identities = 35/152 (23%), Positives = 62/152 (40%), Gaps = 4/152 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
A K + V G +SGI + + GA V +R ++++ LQ A + D
Sbjct: 7 FAGKNVVVVGGTSGINLGIAQAFARAGANVAVASRSQEKVDAAVAQLQQAGPEGLGVSAD 66
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIG 833
V V+ ++ E G ID+LV+ A + + ++++++ G + +
Sbjct: 67 VRDYAAVEAAFAQIADEFGPIDVLVSGAAGNFPAPAAGMSANGFKTVVDIDLLGTFNVLK 126
Query: 834 NILPSMLHSRRPG-HILNISSNAGVRPFAGLA 864
P RRPG I+ IS+ P A
Sbjct: 127 AAYP---LLRRPGASIIQISAPQAFVPMPMQA 155
>gnl|CDD|169556 PRK08703, PRK08703, short chain dehydrogenase; Provisional.
Length = 239
Score = 57.2 bits (138), Expect = 7e-09
Identities = 34/118 (28%), Positives = 58/118 (49%), Gaps = 7/118 (5%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA----PGSII 768
TL++K I VTG+S G+GEQ+ K GA V+ VAR +LE + ++ A P +I
Sbjct: 3 TLSDKTILVTGASQGLGEQVAKAYAAAGATVILVARHQKKLEKVYDAIVEAGHPEPFAIR 62
Query: 769 VKKLDVTIENDVKKVVREVLAEL-GHIDILVNNAGVMY-FTLMEKYKLEEWNAMINVN 824
+ E + ++ + G +D +V+ AG Y + ++ + EW +N
Sbjct: 63 FDLMS-AEEKEFEQFAATIAEATQGKLDGIVHCAGYFYALSPLDFQTVAEWVNQYRIN 119
>gnl|CDD|180393 PRK06087, PRK06087, short chain acyl-CoA synthetase; Reviewed.
Length = 547
Score = 59.0 bits (143), Expect = 8e-09
Identities = 32/99 (32%), Positives = 49/99 (49%)
Query: 19 FRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWT 78
++ A+ PDKIAVVD+ G S T+ LD + +L+ +G G V + E+T
Sbjct: 29 WQQTARAMPDKIAVVDNHGASYTYSALDHAASRLANWLLAKGIEPGDRVAFQLPGWCEFT 88
Query: 79 ISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVIT 117
I Y+A K G +PL S+ A L VL+ + +
Sbjct: 89 IIYLACLKVGAVSVPLLPSWREAELVWVLNKCQAKMFFA 127
>gnl|CDD|237189 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 57.0 bits (138), Expect = 1e-08
Identities = 47/203 (23%), Positives = 82/203 (40%), Gaps = 24/203 (11%)
Query: 717 KVIFVTGSS--SGIGEQLVKDLVTLGAKVVAVA-RRIDRLENLKTS------LQNAPGSI 767
K+ VTG+S +GIG + + L G + D+ L+ S
Sbjct: 6 KIALVTGASRLNGIGAAVCRRLAAKGIDIFFTYWSPYDKTMPWGMHDKEPVLLKEEIESY 65
Query: 768 IVK----KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINV 823
V+ ++D++ +V V LG IL+NNA T +E+ E+ + V
Sbjct: 66 GVRCEHMEIDLSQPYAPNRVFYAVSERLGDPSILINNAAYSTHTRLEELTAEQLDKHYAV 125
Query: 824 NIKGVLHCIGNILPSML----HSRRP-GHILNISSNAGVRPFAGLAVYTGTKYFIEGISG 878
N++ +L S + + G I+N++S + P Y TK IE +
Sbjct: 126 NVRA------TMLLSSAFAKQYDGKAGGRIINLTSGQSLGPMPDELAYAATKGAIEAFTK 179
Query: 879 ALRQEVSDRNIKVTCIQAGDVKT 901
+L E++++ I V + G T
Sbjct: 180 SLAPELAEKGITVNAVNPGPTDT 202
>gnl|CDD|213301 cd05935, LC_FACS_like, Putative long-chain fatty acid CoA ligase.
The members of this family are putative long-chain fatty
acyl-CoA synthetases, which catalyze the ATP-dependent
activation of fatty acids in a two-step reaction. The
carboxylate substrate first reacts with ATP to form an
acyl-adenylate intermediate, which then reacts with CoA
to produce an acyl-CoA ester. Fatty acyl-CoA synthetases
are responsible for fatty acid degradation as well as
physiological regulation of cellular functions via the
production of fatty acyl-CoA esters.
Length = 430
Score = 58.5 bits (142), Expect = 1e-08
Identities = 25/85 (29%), Positives = 42/85 (49%)
Query: 39 SITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSY 98
IT+ +L E D + L +G G V + M+ ++ I+Y AI +AG +P+
Sbjct: 1 VITYAELLELVDRLAGLLQEKGVRKGDRVALYMQNSPQFVIAYYAILRAGAVVVPVNPMN 60
Query: 99 PPALLESVLDDAKPSIVITKGEYMD 123
A LE +L+D+ ++I E D
Sbjct: 61 REAELEHILNDSGARVLIVGSELDD 85
>gnl|CDD|180413 PRK06128, PRK06128, oxidoreductase; Provisional.
Length = 300
Score = 57.2 bits (138), Expect = 1e-08
Identities = 53/207 (25%), Positives = 86/207 (41%), Gaps = 27/207 (13%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVV--------AVARRIDRLENLKTSLQ 761
FG L + +TG+ SGIG GA + A + +L ++ +
Sbjct: 50 FGR-LQGRKALITGADSGIGRATAIAFAREGADIALNYLPEEEQDAAEVVQL--IQAEGR 106
Query: 762 NA---PGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNNAG-VMYFTLMEKYKLEEW 817
A PG D+ E +++V + ELG +DILVN AG + E++
Sbjct: 107 KAVALPG-------DLKDEAFCRQLVERAVKELGGLDILVNIAGKQTAVKDIADITTEQF 159
Query: 818 NAMINVNIKGVLHCIGNILPSMLHSRRPG-HILNISSNAGVRPFAGLAVYTGTKYFIEGI 876
+A N+ + +P + PG I+N S +P L Y TK I
Sbjct: 160 DATFKTNVYAMFWLCKAAIPHL----PPGASIINTGSIQSYQPSPTLLDYASTKAAIVAF 215
Query: 877 SGALRQEVSDRNIKVTCIQAGDVKTEL 903
+ AL ++V+++ I+V + G V T L
Sbjct: 216 TKALAKQVAEKGIRVNAVAPGPVWTPL 242
>gnl|CDD|183716 PRK12744, PRK12744, short chain dehydrogenase; Provisional.
Length = 257
Score = 56.3 bits (136), Expect = 2e-08
Identities = 51/200 (25%), Positives = 88/200 (44%), Gaps = 21/200 (10%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAV-----ARRIDRLENLKTSLQNAPGSI 767
+L KV+ + G + +G + +DL GAK VA+ A + D E +++ A
Sbjct: 5 SLKGKVVLIAGGAKNLGGLIARDLAAQGAKAVAIHYNSAASKADA-EETVAAVKAAGAKA 63
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLE----EWNAMINV 823
+ + D+T V+K+ + A G DI +N G +++K +E E++ M V
Sbjct: 64 VAFQADLTTAAAVEKLFDDAKAAFGRPDIAINTVG----KVLKKPIVEISEAEYDEMFAV 119
Query: 824 NIKGVLHCIGNILPSMLHSRRPGHILNISSN--AGVRPFAGLAVYTGTKYFIEGISGALR 881
N K I + H G I+ + ++ PF + Y G+K +E + A
Sbjct: 120 NSKSAFFFIKE---AGRHLNDNGKIVTLVTSLLGAFTPF--YSAYAGSKAPVEHFTRAAS 174
Query: 882 QEVSDRNIKVTCIQAGDVKT 901
+E R I VT + G + T
Sbjct: 175 KEFGARGISVTAVGPGPMDT 194
>gnl|CDD|223442 COG0365, Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases
[Lipid metabolism].
Length = 528
Score = 57.7 bits (140), Expect = 2e-08
Identities = 21/123 (17%), Positives = 40/123 (32%), Gaps = 7/123 (5%)
Query: 20 RNQAKRTPDKIAVV----DHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCL 75
R+ PD A++ D R +T+ L + L + G + G V + M
Sbjct: 17 RHLEADRPDDTAIIFDGEDGLFRELTYGDLRREVARLANALKDLGGVKGDRVAIYMPNSP 76
Query: 76 EWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKL 135
E I+ +A + G + + + D P ++I +
Sbjct: 77 EAVIALLATARIGAIPAVVSPGLSAEAVADRIADLGPKVLIADDGTFRNG---KEIALLE 133
Query: 136 END 138
+ D
Sbjct: 134 DAD 136
>gnl|CDD|181120 PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 306
Score = 56.7 bits (137), Expect = 2e-08
Identities = 55/184 (29%), Positives = 83/184 (45%), Gaps = 26/184 (14%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVA--VARRIDRLENLKTSLQNAPGSI 767
L+ KV VTG+++G+G L LGA VV VA +D + L A G+
Sbjct: 6 NTTDLSGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVASALDASDVLDEI--RAAGAK 63
Query: 768 IVKKL-DVTIENDVKKVVREVLAELGHIDILVNNAGV----MYFTLMEKYKLEEWNAMIN 822
V D++ ++V LG +DI+VNNAG+ M F + + EEW+A+I
Sbjct: 64 AVAVAGDISQRATADELV-ATAVGLGGLDIVVNNAGITRDRMLFNMSD----EEWDAVIA 118
Query: 823 VNIKGVLHCIGNILPSMLHSRRP---------GHILNISSNAGVRPFAGLAVYTGTKYFI 873
V+++G N + + R G I+N SS AG+ G A Y K I
Sbjct: 119 VHLRGHFLLTRN---AAAYWRAKAKAAGGPVYGRIVNTSSEAGLVGPVGQANYGAAKAGI 175
Query: 874 EGIS 877
++
Sbjct: 176 TALT 179
>gnl|CDD|168698 PRK06839, PRK06839, acyl-CoA synthetase; Validated.
Length = 496
Score = 57.6 bits (139), Expect = 2e-08
Identities = 56/231 (24%), Positives = 93/231 (40%), Gaps = 36/231 (15%)
Query: 17 YMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQ-GCIVGSTVGVLMERCL 75
Y +A PD+IA++ + +T+KQL E+ V YLI + G + +L + L
Sbjct: 6 YWIEKRAYLHPDRIAIITEE-EEMTYKQLHEYVSKVAAYLIYELNVKKGERIAILSQNSL 64
Query: 76 EWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKL 135
E+ + AI K +PL L L D+ +++ + + + S+ KV
Sbjct: 65 EYIVLLFAIAKVECIAVPLNIRLTENELIFQLKDSGTTVLFVEKTFQNMAL--SMQKVS- 121
Query: 136 ENDFLSKMISENEKFHNHVPIAEEYRKNLVQNFESLHLSILKSSGKLNKEELPKLDSIAQ 195
++ ++IS + I + N V+ ES I +SG K PK + Q
Sbjct: 122 ---YVQRVIS----ITSLKEIEDRKIDNFVEKNESASFIICYTSGTTGK---PKGAVLTQ 171
Query: 196 IELDESMFQSQKNIAKIWCKILNLYTLDKDEN--------FFEIGGHSLTA 238
E+MF W + N + +D + F IGG L A
Sbjct: 172 ----ENMF---------WNALNNTFAIDLTMHDRSIVLLPLFHIGGIGLFA 209
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 55.2 bits (133), Expect = 3e-08
Identities = 46/187 (24%), Positives = 80/187 (42%), Gaps = 11/187 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
L K + + G S G+G + + GA+V +R ++L+ +K +L G+I D
Sbjct: 3 LKGKKVAIIGVSEGLGYAVAYFALKEGAQVCINSRNENKLKRMKKTLSKY-GNIHYVVGD 61
Query: 774 VTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYK-LEEWNAMINVNIKGVLHCI 832
V+ + V+ + L ID LV G +E++ LEE M+ +IK L+ +
Sbjct: 62 VSSTESARNVIEKAAKVLNAIDGLVVTVGGYVEDTVEEFSGLEE---MLTNHIKIPLYAV 118
Query: 833 GNILPSMLHSRRPGH-ILNISSNAGV-RPFAGLAVYTGTKYFIEGISGALRQEVSDRNIK 890
L + + G I+ +SS +G+ + Y K + L E+ R I+
Sbjct: 119 NASLRFL----KEGSSIVLVSSMSGIYKASPDQLSYAVAKAGLAKAVEILASELLGRGIR 174
Query: 891 VTCIQAG 897
V I
Sbjct: 175 VNGIAPT 181
>gnl|CDD|181011 PRK07514, PRK07514, malonyl-CoA synthase; Validated.
Length = 504
Score = 56.8 bits (138), Expect = 3e-08
Identities = 28/90 (31%), Positives = 45/90 (50%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
D + DG T+ LD + + L+ G G V V +E+ E Y+A +
Sbjct: 16 RDAPFIETPDGLRYTYGDLDAASARLANLLVALGVKPGDRVAVQVEKSPEALALYLATLR 75
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVI 116
AG +LPL T+Y A L+ + DA+P++V+
Sbjct: 76 AGAVFLPLNTAYTLAELDYFIGDAEPALVV 105
>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 = 54.8 bits (132), Expect = 5e-08
Identities = 44/208 (21%), Positives = 84/208 (40%), Gaps = 13/208 (6%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVA-RRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
V VTG+S GIG + +L G + D+ + + A I + D+
Sbjct: 3 VAIVTGASRGIGRAIATELAARGFDIAINDLPDDDQATEVVAEVLAAGRRAIYFQADIGE 62
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEE--WNAMINVNIKGVLHCIGN 834
+D + ++ + + G +D LVNNAG+ + L E ++ +I +N++G
Sbjct: 63 LSDHEALLDQAWEDFGRLDCLVNNAGIAVRPRGDLLDLTEDSFDRLIAINLRGPFFLTQA 122
Query: 835 ILPSMLHSRRP-----GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNI 889
+ M+ I+ ++S Y +K + + L ++D I
Sbjct: 123 VARRMVEQPDRFDGPHRSIIFVTSINAYLVSPNRGEYCISKAGLSMATRLLAYRLADEGI 182
Query: 890 KVTCIQAGDVKTELLSHSTDRDVVDKYD 917
V I+ G + T++ + V +KYD
Sbjct: 183 AVHEIRPGLIHTDMTA-----PVKEKYD 205
>gnl|CDD|236235 PRK08314, PRK08314, long-chain-fatty-acid--CoA ligase; Validated.
Length = 546
Score = 56.1 bits (136), Expect = 6e-08
Identities = 31/117 (26%), Positives = 56/117 (47%), Gaps = 4/117 (3%)
Query: 12 EGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIV--GSTVGV 69
E +L + A+R PDK A+V GR+I++++L E + + YL + C V G V +
Sbjct: 9 ETSLFHNLEVSARRYPDKTAIV-FYGRAISYRELLEEAERLAGYLQQE-CGVRKGDRVLL 66
Query: 70 LMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
M+ ++ I+Y AI +A +P+ L + D+ + I E ++
Sbjct: 67 YMQNSPQFVIAYYAILRANAVVVPVNPMNREEELAHYVTDSGARVAIVGSELAPKVA 123
>gnl|CDD|213272 cd05904, 4CL, 4-Coumarate-CoA Ligase (4CL). 4-Coumarate:coenzyme A
ligase is a key enzyme in the phenylpropanoid metabolic
pathway for monolignol and flavonoid biosynthesis. It
catalyzes the synthesis of hydroxycinnamate-CoA
thioesters in a two-step reaction, involving the
formation of hydroxycinnamate-AMP anhydride and the
nucleophilic substitution of AMP by CoA. The
phenylpropanoid pathway is one of the most important
secondary metabolism pathways in plants and
hydroxycinnamate-CoA thioesters are the precursors of
lignin and other important phenylpropanoids.
Length = 504
Score = 55.7 bits (135), Expect = 9e-08
Identities = 28/120 (23%), Positives = 52/120 (43%), Gaps = 1/120 (0%)
Query: 15 LHYMFRNQAKRTPDKIAVVDH-DGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMER 73
L A D+ A++D GR++T+ +L+ + L +G G V +L
Sbjct: 7 LDSASLLFASEFGDRPALIDAATGRALTYAELERLVRRLAAGLAARGGRKGDVVLLLSPN 66
Query: 74 CLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKV 133
LE+ + ++A+ AG Y PA + + D+ + IT E ++L ++ V
Sbjct: 67 SLEFPVVFLAVLSAGAVVTTANPLYTPAEIAKQVKDSGAKLAITTSELAEKLASLALEPV 126
>gnl|CDD|233441 TIGR01500, sepiapter_red, sepiapterin reductase. This model
describes sepiapterin reductase, a member of the short
chain dehydrogenase/reductase family. The enzyme
catalyzes the last step in the biosynthesis of
tetrahydrobiopterin. A similar enzyme in Bacillus cereus
was isolated for its ability to convert benzil to
(S)-benzoin, a property sepiapterin reductase also
shares. Cutoff scores for this model are set such that
benzil reductase scores between trusted and noise
cutoffs.
Length = 256
Score = 54.1 bits (130), Expect = 9e-08
Identities = 55/248 (22%), Positives = 101/248 (40%), Gaps = 32/248 (12%)
Query: 718 VIFVTGSSSGIG----EQLVKDLVTLGAKVVAVARRIDRLENLKTSLQ-NAPG-SIIVKK 771
V VTG+S G G ++L K L + G+ +V AR + L LK + G ++
Sbjct: 2 VCLVTGASRGFGRTIAQELAKCLKSPGSVLVLSARNDEALRQLKAEIGAERSGLRVVRVS 61
Query: 772 LDVTIENDVKKVVREVLAELGHID----ILVNNAGVMY-----------FTLMEKYKLEE 816
LD+ E ++++++ + +L+NNAG + T ++ Y
Sbjct: 62 LDLGAEAGLEQLLKALRELPRPKGLQRLLLINNAGTLGDVSKGFVDLSDSTQVQNYWALN 121
Query: 817 WNAMINVNIKGVLHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGI 876
+M+ + + R ++NISS ++PF G A+Y K + +
Sbjct: 122 LTSMLCLTSSVL-----KAFKDSPGLNRT--VVNISSLCAIQPFKGWALYCAGKAARDML 174
Query: 877 SGALRQEVSDRNIKVTCIQAGDVKTELLSH----STDRDVVDKYDISKAVPVLTTKEISQ 932
L E + N++V G + T++ S D D+ KA L ++S
Sbjct: 175 FQVLALEEKNPNVRVLNYAPGVLDTDMQQQVREESVDPDMRKGLQELKAKGKLVDPKVSA 234
Query: 933 SIIFALLQ 940
+ +LL+
Sbjct: 235 QKLLSLLE 242
>gnl|CDD|235313 PRK04813, PRK04813, D-alanine--poly(phosphoribitol) ligase subunit
1; Provisional.
Length = 503
Score = 55.3 bits (134), Expect = 1e-07
Identities = 32/115 (27%), Positives = 57/115 (49%), Gaps = 3/115 (2%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+ PD A D+ G +T+ QL E +D + ++ + S + V E +++
Sbjct: 12 AQTQPDFPAY-DYLGEKLTYGQLKEDSDALAAFIDSLKLPDKSPIIVFGHMSPEMLATFL 70
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKLEN 137
KAG Y+P++ S P +E +++ AKPS++I E LE +P + L+
Sbjct: 71 GAVKAGHAYIPVDVSSPAERIEMIIEVAKPSLIIATEE--LPLEILGIPVITLDE 123
>gnl|CDD|187537 cd05226, SDR_e_a, Extended (e) and atypical (a) SDRs. Extended or
atypical short-chain dehydrogenases/reductases (SDRs,
aka tyrosine-dependent oxidoreductases) are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. Atypical SDRs generally
lack the catalytic residues characteristic of the SDRs,
and their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Complex
(multidomain) SDRs such as ketoreductase domains of
fatty acid synthase have a GGXGXXG NAD(P)-binding motif
and an altered active site motif (YXXXN). Fungal type
ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding
motif.
Length = 176
Score = 52.0 bits (125), Expect = 1e-07
Identities = 44/222 (19%), Positives = 77/222 (34%), Gaps = 59/222 (26%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDT-KCTLFCPVRETP--NKTLLQRLEDIMLKYHMSLDLNN 378
+L+ G TG++G L ++ L + TL VR T +K + + + DL +
Sbjct: 1 ILILGATGFIGRALARELLEQGHEVTLL--VRNTKRLSKEDQEPVAVVEG------DLRD 52
Query: 379 YTDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATK 438
V+ +D++IH A + +V T+
Sbjct: 53 LDSLSDAVQ---------------------GVDVVIHLAGAPRDTRDFCE---VDVEGTR 88
Query: 439 NLIEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLV 498
N++E + +K F ++S+ Y E + Y K +E ++
Sbjct: 89 NVLEAAKEAGVKHFIFISSLGAYGDLHEETEPS---PSSP--------YLAVKAKTEAVL 137
Query: 499 LNAGQMGLPVSIVRCGNIGGSLEFKNWNLVDLNLYILKAITR 540
+ LP +IVR G I G DL I A+
Sbjct: 138 R---EASLPYTIVRPGVIYG----------DLARAIANAVVT 166
Score = 42.0 bits (99), Expect = 3e-04
Identities = 19/89 (21%), Positives = 38/89 (42%), Gaps = 13/89 (14%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
I + G++ IG L ++L+ G +V + R RL P + V + D+ +
Sbjct: 1 ILILGATGFIGRALARELLEQGHEVTLLVRNTKRLSK----EDQEPVA--VVEGDLRDLD 54
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFT 807
+ V+ +D++++ AG T
Sbjct: 55 SLSDAVQ-------GVDVVIHLAGAPRDT 76
>gnl|CDD|213275 cd05907, VL_LC_FACS_like, Long-chain fatty acid CoA synthetases and
Bubblegum-like very long-chain fatty acid CoA
synthetases. This family includes long-chain fatty acid
(C12-C20) CoA synthetases and Bubblegum-like very
long-chain (>C20) fatty acid CoA synthetases. FACS
catalyzes the formation of fatty acyl-CoA in a two-step
reaction: the formation of a fatty acyl-AMP molecule as
an intermediate, and the formation of a fatty acyl-CoA.
Eukaryotes generally have multiple isoforms of LC-FACS
genes with multiple splice variants. For example, nine
genes are found in Arabidopsis and six genes are
expressed in mammalian cells. Drosophila melanogaster
mutant bubblegum (BGM) have elevated levels of
very-long-chain fatty acids (VLCFA) caused by a
defective gene later named bubblegum. The human homolog
(hsBG) of bubblegum has been characterized as a very
long chain fatty acid CoA synthetase that functions
specifically in the brain; hsBG may play a central role
in brain VLCFA metabolism and myelinogenesis. Free fatty
acids must be "activated" to their CoA thioesters before
participating in most catabolic and anabolic reactions.
Length = 456
Score = 54.8 bits (133), Expect = 1e-07
Identities = 23/80 (28%), Positives = 39/80 (48%)
Query: 38 RSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETS 97
++IT+ +L E + LI G G V +L E EW I+ +AI AG +P+ +
Sbjct: 4 QTITWAELAERVRRLAAGLIALGVKPGDRVAILAENRPEWVIADLAILAAGAVPVPIYPT 63
Query: 98 YPPALLESVLDDAKPSIVIT 117
P + +L+D+ +V
Sbjct: 64 SSPEEVAYILNDSGARVVFV 83
>gnl|CDD|187552 cd05241, 3b-HSD-like_SDR_e, 3beta-hydroxysteroid dehydrogenases
(3b-HSD)-like, extended (e) SDRs. Extended SDR family
domains belonging to this subgroup have the
characteristic active site tetrad and a fairly
well-conserved NAD(P)-binding motif. 3b-HSD catalyzes
the NAD-dependent conversion of various steroids, such
as pregnenolone to progesterone, or androstenediol to
testosterone. This subgroup includes an unusual
bifunctional 3b-HSD/C-4 decarboxylase from Arabidopsis
thaliana, and Saccharomyces cerevisiae ERG26, a
3b-HSD/C-4 decarboxylase, involved in the synthesis of
ergosterol, the major sterol of yeast. It also includes
human 3 beta-HSD/HSD3B1 and C(27) 3beta-HSD/
[3beta-hydroxy-delta(5)-C(27)-steroid oxidoreductase;
HSD3B7]. C(27) 3beta-HSD/HSD3B7 is a membrane-bound
enzyme of the endoplasmic reticulum, that catalyzes the
isomerization and oxidation of 7alpha-hydroxylated
sterol intermediates, an early step in bile acid
biosynthesis. Mutations in the human NSDHL (NAD(P)H
steroid dehydrogenase-like protein) cause CHILD syndrome
(congenital hemidysplasia with ichthyosiform nevus and
limb defects), an X-linked dominant, male-lethal trait.
Mutations in the human gene encoding C(27) 3beta-HSD
underlie a rare autosomal recessive form of neonatal
cholestasis. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 331
Score = 54.0 bits (130), Expect = 2e-07
Identities = 41/201 (20%), Positives = 77/201 (38%), Gaps = 31/201 (15%)
Query: 321 NVLLTGVTGYLGIHLLQKFL--VDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNN 378
+VL+TG +G+ G L+++ L T F + + +I ++ D+ +
Sbjct: 1 SVLVTGGSGFFGERLVKQLLERGGTYVRSF-DIAPPGEALSAWQHPNI--EFLKG-DITD 56
Query: 379 YTDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATK 438
D ++ D + H AA V L P + ++ NV T+
Sbjct: 57 RND---------------VEQALS------GADCVFHTAAIVPLAGPRDLYWEVNVGGTQ 95
Query: 439 NLIEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLV 498
N+++ ++ F Y S+ S+ D T+ Y ++K ++E +V
Sbjct: 96 NVLDACQRCGVQKFVYTSSSSVIFGGQNIHNGDETLPYPPLDSDM---YAETKAIAEIIV 152
Query: 499 LNA-GQMGLPVSIVRCGNIGG 518
L A G+ L +R I G
Sbjct: 153 LEANGRDDLLTCALRPAGIFG 173
>gnl|CDD|187548 cd05237, UDP_invert_4-6DH_SDR_e, UDP-Glcnac (UDP-linked
N-acetylglucosamine) inverting 4,6-dehydratase, extended
(e) SDRs. UDP-Glcnac inverting 4,6-dehydratase was
identified in Helicobacter pylori as the hexameric flaA1
gene product (FlaA1). FlaA1 is hexameric, possesses
UDP-GlcNAc-inverting 4,6-dehydratase activity, and
catalyzes the first step in the creation of a
pseudaminic acid derivative in protein glycosylation.
Although this subgroup has the NADP-binding motif
characteristic of extended SDRs, its members tend to
have a Met substituted for the active site Tyr found in
most SDR families. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 287
Score = 53.4 bits (129), Expect = 2e-07
Identities = 33/126 (26%), Positives = 52/126 (41%), Gaps = 27/126 (21%)
Query: 400 QDEYVSLSYEIDMIIHAAA--FVNLI-LPYNALYKSNVLATKNLIEFSFLNKIKSFHYVS 456
+ D++ HAAA V + K+NVL TKN+I+ + N ++ F +S
Sbjct: 68 RLRRAFKERGPDIVFHAAALKHVPSMEDNPEEAIKTNVLGTKNVIDAAIENGVEKFVCIS 127
Query: 457 TD-SIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNAGQM--GLPVSIVRC 513
TD ++ P + G +K V+E L+L + S VR
Sbjct: 128 TDKAVNP---------------------VNVMGATKRVAEKLLLAKNEYSSSTKFSTVRF 166
Query: 514 GNIGGS 519
GN+ GS
Sbjct: 167 GNVLGS 172
Score = 41.8 bits (99), Expect = 0.001
Identities = 48/187 (25%), Positives = 72/187 (38%), Gaps = 20/187 (10%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
K I VTG + IG +LV+ ++ G K + V DR EN L S
Sbjct: 1 KGKTILVTGGAGSIGSELVRQILKFGPKKLIV---FDRDENKLHELVRELRSRFPHDKLR 57
Query: 775 TIENDV--KKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCI 832
I DV K+ +R E G DI+ + A + + ME E I N+ G + I
Sbjct: 58 FIIGDVRDKERLRRAFKERG-PDIVFHAAALKHVPSMEDNPEE----AIKTNVLGTKNVI 112
Query: 833 GNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVT 892
+ IS++ V P + V TK E + A + S K +
Sbjct: 113 D-----AAIENGVEKFVCISTDKAVNP---VNVMGATKRVAEKLLLAKNEYSSS--TKFS 162
Query: 893 CIQAGDV 899
++ G+V
Sbjct: 163 TVRFGNV 169
>gnl|CDD|214833 smart00822, PKS_KR, This enzymatic domain is part of bacterial
polyketide synthases. It catalyses the first step in
the reductive modification of the beta-carbonyl centres
in the growing polyketide chain. It uses NADPH to reduce
the keto group to a hydroxy group.
Length = 180
Score = 51.3 bits (124), Expect = 2e-07
Identities = 35/154 (22%), Positives = 60/154 (38%), Gaps = 17/154 (11%)
Query: 721 VTGSSSGIGEQLVKDLVTLGA-KVVAVARRI---DRLENLKTSLQNAPGSIIVKKLDVTI 776
+TG G+G L + L GA ++V ++R L L+ A + V DV
Sbjct: 5 ITGGLGGLGRALARWLAERGARRLVLLSRSGPDAPGAAALLAELEAAGARVTVVACDVAD 64
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ + V+ + A G + +++ AGV+ ++ E + A++ G +
Sbjct: 65 RDALAAVLAAIPAVEGPLTGVIHAAGVLDDGVLASLTPERFAAVLAPKAAGAWN------ 118
Query: 837 PSMLH----SRRPGHILNISSNAGVRPFAGLAVY 866
LH + SS AGV G A Y
Sbjct: 119 ---LHELTADLPLDFFVLFSSIAGVLGSPGQANY 149
>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 = 52.5 bits (126), Expect = 3e-07
Identities = 56/266 (21%), Positives = 90/266 (33%), Gaps = 67/266 (25%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
I +TG++SGIG + L G V+ + R +I D++
Sbjct: 1 TIVITGAASGIGAATAELLEDAGHTVIGIDLR--------------EADVIA---DLSTP 43
Query: 778 NDVKKVVREVLAEL-GHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNIL 836
+ +VLA G +D LVN AGV T+ ++ VN G+ + +L
Sbjct: 44 EGRAAAIADVLARCSGVLDGLVNCAGVGGTTVAG--------LVLKVNYFGLRALMEALL 95
Query: 837 PSMLHSRRPGH---ILNISSNAGVRPFA---------------------------GLAVY 866
P + R GH + +SS AG G Y
Sbjct: 96 PRL----RKGHGPAAVVVSSIAGAGWAQDKLELAKALAAGTEARAVALAEHAGQPGYLAY 151
Query: 867 TGTKY-FIEGISGALRQEVSDRNIKVTCIQAGDVKTELL--SHSTDR--DVVDKYDISKA 921
G+K + ++V + G V+T +L R + VD ++
Sbjct: 152 AGSKEALTVWTRRRAATWLYGAGVRVNTVAPGPVETPILQAFLQDPRGGESVDA-FVTPM 210
Query: 922 VPVLTTKEISQSIIFALLQPSHSAVN 947
EI+ I F L + S +N
Sbjct: 211 GRRAEPDEIAPVIAF-LASDAASWIN 235
>gnl|CDD|181381 PRK08316, PRK08316, acyl-CoA synthetase; Validated.
Length = 523
Score = 53.8 bits (130), Expect = 3e-07
Identities = 28/109 (25%), Positives = 47/109 (43%), Gaps = 1/109 (0%)
Query: 18 MFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEW 77
+ R A+R PDK A+V D RS T+ +LD + V L++ G G V L +
Sbjct: 16 ILRRSARRYPDKTALVFGD-RSWTYAELDAAVNRVAAALLDLGLKKGDRVAALGHNSDAY 74
Query: 78 TISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
+ ++A +AG ++P+ L +LD + + E
Sbjct: 75 ALLWLACARAGAVHVPVNFMLTGEELAYILDHSGARAFLVDPALAPTAE 123
>gnl|CDD|212496 cd11730, Tthb094_like_SDR_c, Tthb094 and related proteins,
classical (c) SDRs. Tthb094 from Thermus Thermophilus
is a classical SDR which binds NADP. Members of this
subgroup contain the YXXXK active site characteristic of
SDRs. Also, an upstream Asn residue of the canonical
catalytic tetrad is partially conserved in this subgroup
of proteins of undetermined function. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 206
Score = 51.4 bits (123), Expect = 4e-07
Identities = 43/188 (22%), Positives = 78/188 (41%), Gaps = 22/188 (11%)
Query: 720 FVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEND 779
+ G++ GIG L + L G +++ R L L + G++ DV E +
Sbjct: 2 LILGATGGIGRALARALAGRGWRLLLSGRDAGALAGLAAEV----GALARPA-DVAAELE 56
Query: 780 VKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPSM 839
V + ELG +D+LV AG + + + K W +++ N+ G + + L +
Sbjct: 57 ----VWALAQELGPLDLLVYAAGAILGKPLARTKPAAWRRILDANLTGAALVLKHALALL 112
Query: 840 LHSRRPGHILNISSNAGVRP----FAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQ 895
++ + G P GL+ Y K +E R+EV R +++T ++
Sbjct: 113 AAG---ARLVFL----GAYPELVMLPGLSAYAAAKAALEAYVEVARKEV--RGLRLTLVR 163
Query: 896 AGDVKTEL 903
V T L
Sbjct: 164 PPAVDTGL 171
>gnl|CDD|169390 PRK08340, PRK08340, glucose-1-dehydrogenase; Provisional.
Length = 259
Score = 52.1 bits (125), Expect = 4e-07
Identities = 32/84 (38%), Positives = 49/84 (58%), Gaps = 1/84 (1%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+ VT SS GIG + ++L+ GA+VV +R + LE L+ G + K D++ ++
Sbjct: 3 VLVTASSRGIGFNVARELLKKGARVVISSRNEENLEKALKELKEY-GEVYAVKADLSDKD 61
Query: 779 DVKKVVREVLAELGHIDILVNNAG 802
D+K +V+E LG ID LV NAG
Sbjct: 62 DLKNLVKEAWELLGGIDALVWNAG 85
>gnl|CDD|235914 PRK07041, PRK07041, short chain dehydrogenase; Provisional.
Length = 230
Score = 51.6 bits (124), Expect = 5e-07
Identities = 45/185 (24%), Positives = 67/185 (36%), Gaps = 12/185 (6%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
V G SSGIG L + GA+V +R DRL +L + LD+T E V
Sbjct: 2 VVGGSSGIGLALARAFAAEGARVTIASRSRDRLAAAARALGG-GAPVRTAALDITDEAAV 60
Query: 781 KKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPSML 840
E G D +V A + L A ++ G +
Sbjct: 61 DAFFAEA----GPFDHVVITAADTPGGPVRALPLAAAQAAMDSKFWGAYR-----VARAA 111
Query: 841 HSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGDVK 900
G + +S A VRP A + +E ++ L E++ ++V + G V
Sbjct: 112 RIAPGGSLTFVSGFAAVRPSASGVLQGAINAALEALARGLALELAP--VRVNTVSPGLVD 169
Query: 901 TELLS 905
T L S
Sbjct: 170 TPLWS 174
>gnl|CDD|222222 pfam13561, adh_short_C2, Enoyl-(Acyl carrier protein) reductase.
Length = 239
Score = 51.4 bits (124), Expect = 6e-07
Identities = 42/173 (24%), Positives = 72/173 (41%), Gaps = 22/173 (12%)
Query: 740 GAKVV----AVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDVKKVVREVLAELGHID 795
GA+VV A R+ ++ L L P +I LDVT + D+ ++ +V + G ID
Sbjct: 20 GAEVVLTTWPPALRMGAVDELAKEL---PADVIP--LDVTSDEDIDELFEKVKEDGGKID 74
Query: 796 ILVNNAGVMYFTLMEKYKLE---EW-NAMINVNIK---GVLHCIGNILPSMLHSRRPGHI 848
LV++ + K L+ E ++++ + ++ G I
Sbjct: 75 FLVHSIAMSPEIRKGKPYLDTSREGFLKALDISAYSFISLAKAAKPLMNEG------GSI 128
Query: 849 LNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCIQAGDVKT 901
+ +S A R F G K +E ++ L E+ + I+V I AG KT
Sbjct: 129 VALSYIAAERVFPGYGGMGVAKAALESLARYLAYELGRKGIRVNTISAGPTKT 181
>gnl|CDD|236217 PRK08279, PRK08279, long-chain-acyl-CoA synthetase; Validated.
Length = 600
Score = 53.0 bits (128), Expect = 6e-07
Identities = 26/110 (23%), Positives = 49/110 (44%), Gaps = 1/110 (0%)
Query: 19 FRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWT 78
F A R PD+ A++ + +SI++ +L+ + + +G G V +LME E+
Sbjct: 43 FEEAAARHPDRPALLF-EDQSISYAELNARANRYAHWAAARGVGKGDVVALLMENRPEYL 101
Query: 79 ISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERT 128
+++ + K G L T A+L L+ +I E ++ E
Sbjct: 102 AAWLGLAKLGAVVALLNTQQRGAVLAHSLNLVDAKHLIVGEELVEAFEEA 151
>gnl|CDD|224011 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 588
Score = 52.7 bits (127), Expect = 8e-07
Identities = 53/212 (25%), Positives = 91/212 (42%), Gaps = 54/212 (25%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNK-TLLQRLEDIMLK-YHMSLDLNN 378
VL+TG G +G L ++ L + P + L R E K Y + ++L
Sbjct: 252 TVLVTGGGGSIGSELCRQIL-----------KFNPKEIILFSRDE---YKLYLIDMELRE 297
Query: 379 YTDRLILVKSDLSLEMLG-LKNQD--EYVSLSYEIDMIIHAAAFVNL-ILPYNAL--YKS 432
L L +G ++++D E +++D++ HAAA ++ ++ YN K+
Sbjct: 298 KFPELKLR------FYIGDVRDRDRVERAMEGHKVDIVFHAAALKHVPLVEYNPEEAIKT 351
Query: 433 NVLATKNLIEFSFLNKIKSFHYVSTD-SIYPSTSENFQEDYTVADFDDFMTTTSGYGQSK 491
NVL T+N+ E + N +K F +STD ++ P T+ G +K
Sbjct: 352 NVLGTENVAEAAIKNGVKKFVLISTDKAVNP---------------------TNVMGATK 390
Query: 492 IVSEYLVLNAGQMGLP----VSIVRCGNIGGS 519
++E L A + +VR GN+ GS
Sbjct: 391 RLAEKLFQAANRNVSGTGTRFCVVRFGNVLGS 422
Score = 30.3 bits (69), Expect = 5.7
Identities = 41/195 (21%), Positives = 69/195 (35%), Gaps = 24/195 (12%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLE-NLKTSLQNAPGSII 768
G L K + VTG IG +L + ++ K + + R E L
Sbjct: 244 IGAMLTGKTVLVTGGGGSIGSELCRQILKFNPKEIIL---FSRDEYKLYLIDMELREKFP 300
Query: 769 VKKLDVTIENDV--KKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIK 826
KL DV + V + +DI+ + A + + L+E E I N+
Sbjct: 301 ELKL-RFYIGDVRDRDRVERAMEGHK-VDIVFHAAALKHVPLVEYNPEE----AIKTNVL 354
Query: 827 GVLHCIGNILPSMLHSRRPG--HILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEV 884
G + + + G + IS++ V P V TK E + A + V
Sbjct: 355 GTENVA-------EAAIKNGVKKFVLISTDKAVNP---TNVMGATKRLAEKLFQAANRNV 404
Query: 885 SDRNIKVTCIQAGDV 899
S + ++ G+V
Sbjct: 405 SGTGTRFCVVRFGNV 419
>gnl|CDD|235627 PRK05854, PRK05854, short chain dehydrogenase; Provisional.
Length = 313
Score = 50.8 bits (122), Expect = 1e-06
Identities = 29/93 (31%), Positives = 49/93 (52%), Gaps = 2/93 (2%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL-QNAPGS-IIVKK 771
L+ K VTG+S G+G L + L GA+V+ R + E ++ P + + ++
Sbjct: 12 LSGKRAVVTGASDGLGLGLARRLAAAGAEVILPVRNRAKGEAAVAAIRTAVPDAKLSLRA 71
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVM 804
LD++ V + ++ AE I +L+NNAGVM
Sbjct: 72 LDLSSLASVAALGEQLRAEGRPIHLLINNAGVM 104
>gnl|CDD|213279 cd05911, Firefly_Luc_like, Firefly luciferase of light emitting
insects and 4-Coumarate-CoA Ligase (4CL). This family
contains two functionally unique groups of proteins; one
group is insect firefly luciferases and the other is
plant 4-coumarate:coenzyme A ligases. However, they
share significant sequence similarity in spite of their
functional diversity. Luciferase catalyzes the
production of light in the presence of MgATP, molecular
oxygen, and luciferin. In the first step, luciferin is
activated by acylation of its carboxylate group with
ATP, resulting in an enzyme-bound luciferyl adenylate.
In the second step, luciferyl adenylate reacts with
molecular oxygen, producing an enzyme-bound excited
state product (Luc=O*) and releasing AMP. This
excited-state product then decays to the ground state
(Luc=O), emitting a quantum of visible light.
4-coumarate:coenzyme A ligase is a key enzyme in the
phenylpropanoid metabolic pathway for monolignol and
flavonoid biosynthesis. It catalyzes the synthesis of
hydroxycinnamate-CoA thioesters in a two-step reaction,
involving the formation of hydroxycinnamate-AMP
anhydride and then the nucleophilic substitution of AMP
by CoA. The phenylpropanoid pathway is one of the most
important secondary metabolism pathways in plants and
hydroxycinnamate-CoA thioesters are the precursors of
lignin and other important phenylpropanoids.
Length = 487
Score = 51.5 bits (124), Expect = 1e-06
Identities = 20/92 (21%), Positives = 36/92 (39%)
Query: 34 DHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLP 93
G +TF L + + L G G V ++ +E+ ++ AGG
Sbjct: 5 ADTGTELTFADLLKKALRLAKGLRKLGLKQGDVVALISPNSIEFPPVFLGCLAAGGIVSA 64
Query: 94 LETSYPPALLESVLDDAKPSIVITKGEYMDRL 125
SY P L L +KP ++ + +D++
Sbjct: 65 ANPSYTPDELAHQLKISKPKLIFCDPDELDKV 96
>gnl|CDD|217199 pfam02719, Polysacc_synt_2, Polysaccharide biosynthesis protein.
This is a family of diverse bacterial polysaccharide
biosynthesis proteins including the CapD protein, WalL
protein mannosyl-transferase and several putative
epimerases (e.g. WbiI).
Length = 280
Score = 50.2 bits (121), Expect = 2e-06
Identities = 36/122 (29%), Positives = 56/122 (45%), Gaps = 31/122 (25%)
Query: 407 SYEIDMIIHAAAF--VNLILPYNAL--YKSNVLATKNLIEFSFLNKIKSFHYVSTD-SIY 461
+ +D + HAAA V L + YN + K+NVL T+N+ E + N ++ F +STD ++
Sbjct: 71 QHGVDTVFHAAALKHVPL-VEYNPMEAIKTNVLGTENVAEAAIENGVEKFVLISTDKAVN 129
Query: 462 PSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNA----GQMGLPVSIVRCGNIG 517
P T+ G +K ++E L A G S+VR GN+
Sbjct: 130 P---------------------TNVMGATKRLAEKLFQAANRESGSGKTRFSVVRFGNVL 168
Query: 518 GS 519
GS
Sbjct: 169 GS 170
>gnl|CDD|180753 PRK06924, PRK06924, short chain dehydrogenase; Provisional.
Length = 251
Score = 50.1 bits (120), Expect = 2e-06
Identities = 46/206 (22%), Positives = 91/206 (44%), Gaps = 33/206 (16%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT- 775
+ + +TG+S G+GE + L+ G V++++R + + L + ++ LD+
Sbjct: 2 RYVIITGTSQGLGEAIANQLLEKGTHVISISRTEN--KELTKLAEQYNSNLTFHSLDLQD 59
Query: 776 ---IENDVKKVVREV-LAELGHIDILVNNAG-VMYFTLMEKYKLEEWNAMINVNIKGVLH 830
+E + +++ + + I L+NNAG V +EK + EE +++N+
Sbjct: 60 VHELETNFNEILSSIQEDNVSSI-HLINNAGMVAPIKPIEKAESEELITNVHLNL----- 113
Query: 831 CIGNILPSMLHSRRPGH---------ILNISSNAGVRPFAGLAVYTGTK----YFIEGIS 877
+ P +L S H ++NISS A P+ G + Y +K F + +
Sbjct: 114 ----LAPMILTSTFMKHTKDWKVDKRVINISSGAAKNPYFGWSAYCSSKAGLDMFTQTV- 168
Query: 878 GALRQEVSDRNIKVTCIQAGDVKTEL 903
A QE + +K+ G + T +
Sbjct: 169 -ATEQEEEEYPVKIVAFSPGVMDTNM 193
>gnl|CDD|181644 PRK09088, PRK09088, acyl-CoA synthetase; Validated.
Length = 488
Score = 50.6 bits (121), Expect = 3e-06
Identities = 26/96 (27%), Positives = 47/96 (48%), Gaps = 1/96 (1%)
Query: 22 QAKRTPDKIAVVD-HDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTIS 80
A+ P ++A VD GR T+ +LD + L +GC+ G + VL +
Sbjct: 4 HARLQPQRLAAVDLALGRRWTYAELDALVGRLAAVLRRRGCVDGERLAVLARNSVWLVAL 63
Query: 81 YIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVI 116
+ A + G Y+PL + L+++L DA+P +++
Sbjct: 64 HFACARVGAIYVPLNWRLSASELDALLQDAEPRLLL 99
>gnl|CDD|213319 cd05972, MACS_like, Medium-chain acyl-CoA synthetase (MACS or
ACSM). MACS catalyzes the two-step activation of medium
chain fatty acids (containing 4-12 carbons). The
carboxylate substrate first reacts with ATP to form an
acyl-adenylate intermediate, which then reacts with CoA
to produce an acyl-CoA ester. The acyl-CoA is a key
intermediate in many important biosynthetic and
catabolic processes.
Length = 430
Score = 50.0 bits (120), Expect = 4e-06
Identities = 24/89 (26%), Positives = 37/89 (41%)
Query: 41 TFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPP 100
TF +L E +D +L + G G V VL+ R E + K G ++P T P
Sbjct: 2 TFAELKEESDRAANFLKDLGVGRGDRVAVLLPRVPELWAVILGCIKLGAVFIPGTTQLGP 61
Query: 101 ALLESVLDDAKPSIVITKGEYMDRLERTS 129
+ L+ A ++T + L TS
Sbjct: 62 KDIRYRLERAGARAIVTSADDPALLYFTS 90
>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 = 49.1 bits (117), Expect = 5e-06
Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 1/88 (1%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVA-RRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ +TG+SSG+G K L G V +A R + E + S V D+
Sbjct: 2 GTVVITGASSGLGLAAAKALARRGEWHVVMACRDFLKAEQAAQEVGMPKDSYSVLHCDLA 61
Query: 776 IENDVKKVVREVLAELGHIDILVNNAGV 803
+ V++ V +D LV NA V
Sbjct: 62 SLDSVRQFVDNFRRTGRPLDALVCNAAV 89
>gnl|CDD|213297 cd05931, FAAL, Fatty acyl-AMP ligase (FAAL). FAAL belongs to the
class I adenylate forming enzyme family and is
homologous to fatty acyl-coenzyme A (CoA) ligases
(FACLs). However, FAALs produce only the acyl adenylate
and are unable to perform the thioester-forming
reaction, while FACLs perform a two-step catalytic
reaction; AMP ligation followed by CoA ligation using
ATP and CoA as cofactors. FAALs have insertion motifs
between the N-terminal and C-terminal subdomains that
distinguish them from the FACLs. This insertion motif
precludes the binding of CoA, thus preventing CoA
ligation. It has been suggested that the acyl adenylates
serve as substrates for multifunctional polyketide
synthases to permit synthesis of complex lipids such as
phthiocerol dimycocerosate, sulfolipids, mycolic acids,
and mycobactin.
Length = 547
Score = 49.9 bits (120), Expect = 5e-06
Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 15/117 (12%)
Query: 22 QAKRTPDK----IAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEW 77
+A PD + D + ++T+ +LD + L G G V +L L++
Sbjct: 2 RAAAQPDARYTFLFDDDDEEETLTYAELDRRARAIAARLQALGA-PGDRVLLLAPPGLDF 60
Query: 78 TISYIAIHKAGGGYLPLETSYPP-------ALLESVLDDAKPSIVITKGEYMDRLER 127
++ AG +P PP A L ++L DA V+T + L
Sbjct: 61 VAAFFGCLYAGAIAVPA---PPPRRLGRHLARLAAILADAGARAVLTTSAVLAALRA 114
>gnl|CDD|187543 cd05232, UDP_G4E_4_SDR_e, UDP-glucose 4 epimerase, subgroup 4,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
bacterial proteins, and includes the Staphylococcus
aureus capsular polysaccharide Cap5N, which may have a
role in the synthesis of UDP-N-acetyl-d-fucosamine. This
subgroup has the characteristic active site tetrad and
NAD-binding motif of the extended SDRs. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 303
Score = 48.9 bits (117), Expect = 6e-06
Identities = 44/200 (22%), Positives = 75/200 (37%), Gaps = 47/200 (23%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
VL+TG G++G L+ K L+ + VR N L ++ D++++T
Sbjct: 1 KVLVTGANGFIGRALVDK-LLSRGEEVRIAVRNAENAEPSVVLAEL-------PDIDSFT 52
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVN-----LILPYNALYKSNVL 435
D + V D ++H AA V+ P + K N
Sbjct: 53 DLFLGV------------------------DAVVHLAARVHVMNDQGADPLSDYRKVNTE 88
Query: 436 ATKNLIEFSFLNKIKSFHYVSTDSIY--PSTSENFQEDYTVADFDDFMTTTSGYGQSKIV 493
T+ L + +K F ++S+ + + F E D YG+SK+
Sbjct: 89 LTRRLARAAARQGVKRFVFLSSVKVNGEGTVGAPFDE-------TDPPAPQDAYGRSKLE 141
Query: 494 SEYLVLNAG-QMGLPVSIVR 512
+E +L G G+ V I+R
Sbjct: 142 AERALLELGASDGMEVVILR 161
Score = 29.2 bits (66), Expect = 9.5
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLEN 755
+ VTG++ IG LV L++ G +V R + E
Sbjct: 2 VLVTGANGFIGRALVDKLLSRGEEVRIAVRNAENAEP 38
>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 = 47.6 bits (114), Expect = 6e-06
Identities = 42/187 (22%), Positives = 69/187 (36%), Gaps = 33/187 (17%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
I V G++ IG + + L G +V+ R +S G V D+T E
Sbjct: 1 IIVIGATGTIGLAVAQLLSAHGHEVITAGR---------SS-----GDYQV---DITDEA 43
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKG----VLHCIGN 834
+K + +V GH D +V+ AG F + + ++ +N + G V H +
Sbjct: 44 SIKALFEKV----GHFDAIVSTAGDAEFAPLAELTDADFQRGLNSKLLGQINLVRHGLPY 99
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
+ G I S RP G A +EG A E+ I++ +
Sbjct: 100 LNDG-------GSITLTSGILAQRPIPGGAAAATVNGALEGFVRAAAIELPRG-IRINAV 151
Query: 895 QAGDVKT 901
G V+
Sbjct: 152 SPGVVEE 158
>gnl|CDD|224016 COG1091, RfbD, dTDP-4-dehydrorhamnose reductase [Cell envelope
biogenesis, outer membrane].
Length = 281
Score = 48.4 bits (116), Expect = 8e-06
Identities = 40/216 (18%), Positives = 72/216 (33%), Gaps = 61/216 (28%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG G LG L + L +++ LD+ T
Sbjct: 2 KILITGANGQLGTELRR---------------------ALPGEFEVIATDRAELDI---T 37
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNL---ILPYNALYKSNVLAT 437
D +++ V D++I+AAA+ + + N
Sbjct: 38 DPDAVLE----------------VIRETRPDVVINAAAYTAVDKAESEPELAFAVNATGA 81
Query: 438 KNLIEFSFLNKIKS-FHYVSTDSIYP-STSENFQEDYTVADFDDFMTTTSGYGQSKIVSE 495
+NL + ++ + ++STD ++ ++E D + YG+SK+ E
Sbjct: 82 ENLARAA--AEVGARLVHISTDYVFDGEKGGPYKE-------TDTPNPLNVYGRSKLAGE 132
Query: 496 YLVLNAGQMGLPVSIVRC----GNIGGSLEFKNWNL 527
V AG L I+R G G + L
Sbjct: 133 EAVRAAGPRHL---ILRTSWVYGEYGNNFVKTMLRL 165
>gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated.
Length = 322
Score = 48.4 bits (116), Expect = 8e-06
Identities = 28/92 (30%), Positives = 45/92 (48%), Gaps = 3/92 (3%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
+TG+SSG+G K L G V+ R + + E L P S + +D+ + V
Sbjct: 11 ITGASSGVGLYAAKALAKRGWHVIMACRNLKKAEAAAQELGIPPDSYTIIHIDLGDLDSV 70
Query: 781 KKVVREVLAELGH-IDILVNNAGVMYFTLMEK 811
++ V + LG +D LV NA V Y L+++
Sbjct: 71 RRFVDD-FRALGKPLDALVCNAAV-YMPLLKE 100
>gnl|CDD|187630 cd05372, ENR_SDR, Enoyl acyl carrier protein (ACP) reductase (ENR),
divergent SDR. This bacterial subgroup of ENRs includes
Escherichia coli ENR. ENR catalyzes the
NAD(P)H-dependent reduction of enoyl-ACP in the last
step of fatty acid biosynthesis. De novo fatty acid
biosynthesis is catalyzed by the fatty acid synthetase
complex, through the serial addition of 2-carbon
subunits. In bacteria and plants,ENR catalyzes one of
six synthetic steps in this process. Oilseed rape ENR,
and also apparently the NADH-specific form of
Escherichia coli ENR, is tetrameric. Although similar
to the classical SDRs, this group does not have the
canonical catalytic tetrad, nor does it have the typical
Gly-rich NAD-binding pattern. Such so-called divergent
SDRs have a GXXXXXSXA NAD-binding motif and a YXXMXXXK
(or YXXXMXXXK) active site motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 47.6 bits (114), Expect = 1e-05
Identities = 48/199 (24%), Positives = 81/199 (40%), Gaps = 25/199 (12%)
Query: 717 KVIFVTG--SSSGIGEQLVKDLVTLGAKVV---AVARRIDRLENLKTSLQNAPGSIIVKK 771
K I +TG + I + K L GA++ R+E L L S +V
Sbjct: 2 KRILITGIANDRSIAWGIAKALHEAGAELAFTYQPEALRKRVEKLAERL---GESALVLP 58
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DV+ + ++K++ EV + G +D LV++ ++ ++ + KG L
Sbjct: 59 CDVSNDEEIKELFAEVKKDWGKLDGLVHSIAFAPKVQLKG-------PFLDTSRKGFLKA 111
Query: 832 IGNI----LPSMLHSRRP-----GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
+ +I L S+ + P G I+ +S R G V K +E L
Sbjct: 112 L-DISAYSLVSLAKAALPIMNPGGSIVTLSYLGSERVVPGYNVMGVAKAALESSVRYLAY 170
Query: 883 EVSDRNIKVTCIQAGDVKT 901
E+ + I+V I AG +KT
Sbjct: 171 ELGRKGIRVNAISAGPIKT 189
>gnl|CDD|213300 cd05934, FACL_DitJ_like, Uncharacterized subfamily of fatty acid
CoA ligase (FACL). Fatty acyl-CoA ligases catalyze the
ATP-dependent activation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. This is a
required step before free fatty acids can participate in
most catabolic and anabolic reactions. Members of this
family include DitJ from Pseudomonas and similar
proteins.
Length = 421
Score = 48.3 bits (116), Expect = 1e-05
Identities = 19/81 (23%), Positives = 41/81 (50%)
Query: 37 GRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLET 96
GR T+ +L E + + L+ G G V ++++ C E+ ++ A++K G +P+ T
Sbjct: 1 GRRYTYAELAERVNRLAAGLLALGVRPGDRVALMLDNCPEFLRAWFALNKLGAVAVPINT 60
Query: 97 SYPPALLESVLDDAKPSIVIT 117
+ L +LD + +++
Sbjct: 61 ALRGEELAHILDHSGARLIVV 81
>gnl|CDD|211788 TIGR03098, ligase_PEP_1, acyl-CoA ligase (AMP-forming), exosortase
A-associated. This group of proteins contains an
AMP-binding domain (pfam00501) associated with acyl
CoA-ligases. These proteins are generally found in
genomes containing the exosortase/PEP-CTERM protein
expoert system , specifically the type 1 variant of this
system described by the Genome Property GenProp0652.
When found in this context they are invariably present
next to a decarboxylase enzyme. A number of sequences
from Burkholderia species also hit this model, but the
genomic context is obviously different. The hypothesis
of a constant substrate for this family is only strong
where the exosortase context is present.
Length = 517
Score = 48.2 bits (115), Expect = 2e-05
Identities = 30/114 (26%), Positives = 53/114 (46%), Gaps = 1/114 (0%)
Query: 15 LHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERC 74
LH++ + A R PD A+V HD R++T+ L E + + L G G V + +++
Sbjct: 2 LHHLLEDAAARLPDATALVHHD-RTLTYAALSERVLALASGLRGLGLARGERVAIYLDKR 60
Query: 75 LEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERT 128
LE + AGG ++P+ + +L D +++T E +D L
Sbjct: 61 LETVTAMFGAALAGGVFVPINPLLKAEQVAHILADCNVRLLVTSSERLDLLHPA 114
>gnl|CDD|180796 PRK07023, PRK07023, short chain dehydrogenase; Provisional.
Length = 243
Score = 46.9 bits (112), Expect = 2e-05
Identities = 42/162 (25%), Positives = 66/162 (40%), Gaps = 25/162 (15%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
VTG S G+G L + L+ G V+ VAR R +L + A + +LD++ D
Sbjct: 6 VTGHSRGLGAALAEQLLQPGIAVLGVARS--RHPSLAAA---AGERLAEVELDLS---DA 57
Query: 781 KKVVR----EVLAELG---HIDILVNNAGVMY-FTLMEKYKLEEWNAMINVNIKGVLHCI 832
++LA +L+NNAG + + + +N+ L
Sbjct: 58 AAAAAWLAGDLLAAFVDGASRVLLINNAGTVEPIGPLATLDAAAIARAVGLNVAAPL--- 114
Query: 833 GNILPSMLHSRRPG----HILNISSNAGVRPFAGLAVYTGTK 870
+L + L IL+ISS A +AG +VY TK
Sbjct: 115 --MLTAALAQAASDAAERRILHISSGAARNAYAGWSVYCATK 154
>gnl|CDD|184022 PRK13391, PRK13391, acyl-CoA synthetase; Provisional.
Length = 511
Score = 47.8 bits (114), Expect = 2e-05
Identities = 31/119 (26%), Positives = 53/119 (44%), Gaps = 3/119 (2%)
Query: 21 NQAKRTPDKIAVV-DHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTI 79
A+ TPDK AV+ G +T+++LDE ++ + + G G V + ME L +
Sbjct: 5 IHAQTTPDKPAVIMASTGEVVTYRELDERSNRLAHLFRSLGLKRGDHVAIFMENNLRYLE 64
Query: 80 SYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMD--RLERTSVPKVKLE 136
A ++G Y + + PA ++DD+ +IT +D R P V+
Sbjct: 65 VCWAAERSGLYYTCVNSHLTPAEAAYIVDDSGARALITSAAKLDVARALLKQCPGVRHR 123
>gnl|CDD|214834 smart00823, PKS_PP, Phosphopantetheine attachment site.
Phosphopantetheine (or pantetheine 4' phosphate) is the
prosthetic group of acyl carrier proteins (ACP) in some
multienzyme complexes where it serves as a 'swinging
arm' for the attachment of activated fatty acid and
amino-acid groups.
Length = 86
Score = 43.4 bits (103), Expect = 2e-05
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 222 LDKDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALL 271
+D D F ++G SL A +++ L L +F HPT +A L
Sbjct: 33 IDPDRPFRDLGLDSLMAVELRNRLEAATGLRLPATLVFDHPTPAALAEHL 82
>gnl|CDD|236389 PRK09134, PRK09134, short chain dehydrogenase; Provisional.
Length = 258
Score = 46.5 bits (111), Expect = 2e-05
Identities = 34/145 (23%), Positives = 59/145 (40%), Gaps = 10/145 (6%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKV-VAVARRIDRLENLKTSLQNAPGSIIVK 770
+ A + VTG++ IG + DL G V V R D E L ++ +
Sbjct: 5 SMAAPRAALVTGAARRIGRAIALDLAAHGFDVAVHYNRSRDEAEALAAEIRALGRRAVAL 64
Query: 771 KLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
+ D+ E +V+ +V A LG I +LVNNA + + + W+ + N++
Sbjct: 65 QADLADEAEVRALVARASAALGPITLLVNNASLFEYDSAASFTRASWDRHMATNLRAPF- 123
Query: 831 CIGNILPSMLHSRRP----GHILNI 851
+L P G ++N+
Sbjct: 124 ----VLAQAFARALPADARGLVVNM 144
>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 = 47.0 bits (112), Expect = 3e-05
Identities = 39/168 (23%), Positives = 71/168 (42%), Gaps = 17/168 (10%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAK-VVAVARRI--DRLENLKTSLQNAPGSIIVKKLDVTIE 777
+TG G+G + + L GA+ +V ++RR R L+ + V + DVT
Sbjct: 155 ITGGLGGLGLLVARWLAARGARHLVLLSRRGPAPRAAARAALLRAGGARVSVVRCDVTDP 214
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILP 837
+ ++ E LA G + +++ AGV+ L+ + + A++ + G L+
Sbjct: 215 AALAALLAE-LAAGGPLAGVIHAAGVLRDALLAELTPAAFAAVLAAKVAGALN------- 266
Query: 838 SMLHSRRPGH----ILNISSNAGVRPFAGLAVYTGTKYFIEGISGALR 881
LH P + SS A + AG A Y F++ ++ R
Sbjct: 267 --LHELTPDLPLDFFVLFSSVAALLGGAGQAAYAAANAFLDALAAQRR 312
>gnl|CDD|233551 TIGR01734, D-ala-DACP-lig, D-alanine--poly(phosphoribitol) ligase,
subunit 1. This model represents the enzyme (also
called D-alanine-D-alanyl carrier protein ligase) which
activates D-alanine as an adenylate via the reaction
D-ala + ATP -> D-ala-AMP + PPi, and further catalyzes
the condensation of the amino acid adenylate with the
D-alanyl carrier protein (D-ala-ACP). The D-alanine is
then further transferred to teichoic acid in the
biosynthesis of lipoteichoic acid (LTA) and wall
teichoic acid (WTA) in gram positive bacteria, both
polysacchatides [Cell envelope, Biosynthesis and
degradation of murein sacculus and peptidoglycan].
Length = 502
Score = 47.1 bits (112), Expect = 4e-05
Identities = 26/120 (21%), Positives = 54/120 (45%), Gaps = 1/120 (0%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+ P IA + G+ +T++QL E +D + ++ + S + V ++++
Sbjct: 10 AETYPQTIAY-RYQGQELTYQQLKEQSDRLAAFIQKRILPKKSPIIVYGHMEPHMLVAFL 68
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKLENDFLSK 142
K+G Y+P++TS P +E +++ A P +VI E T + + +
Sbjct: 69 GSIKSGHAYIPVDTSIPSERIEMIIEAAGPELVIHTAELSIDAVGTQIITLSALEQAETS 128
>gnl|CDD|213592 TIGR01179, galE, UDP-glucose-4-epimerase GalE. Alternate name:
UDPgalactose 4-epimerase This enzyme interconverts
UDP-glucose and UDP-galactose. A set of related
proteins, some of which are tentatively identified as
UDP-glucose-4-epimerase in Thermotoga maritima, Bacillus
halodurans, and several archaea, but deeply branched
from this set and lacking experimental evidence, are
excluded from This model and described by a separate
model [Energy metabolism, Sugars].
Length = 328
Score = 46.2 bits (110), Expect = 5e-05
Identities = 47/205 (22%), Positives = 85/205 (41%), Gaps = 34/205 (16%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG GY+G H +++ L + ++ L R E I ++ +
Sbjct: 1 KILVTGGAGYIGSHTVRQLLESGHEVVILDNLSNGSREALPRGERI---TPVTFVEGDLR 57
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFV----NLILPYNALYKSNVLA 436
DR +L D E ++ID +IH A + ++ P Y++NV+
Sbjct: 58 DRELL---DRLFE-------------EHKIDAVIHFAGLIAVGESVQKPLK-YYRNNVVG 100
Query: 437 TKNLIEFSFLNKIKSFHYVSTDSIYPSTSEN-FQEDYTVADFDDFMTTTSGYGQSKIVSE 495
T NL+E +K F + S+ ++Y S ED + + YG+SK++SE
Sbjct: 101 TLNLLEAMQQAGVKKFIFSSSAAVYGEPSSIPISEDSPLG-------PINPYGRSKLMSE 153
Query: 496 YLVLNA--GQMGLPVSIVRCGNIGG 518
++ + I+R N+ G
Sbjct: 154 QILRDLQKADPDWSYVILRYFNVAG 178
>gnl|CDD|213286 cd05919, BCL_like, Benzoate CoA ligase (BCL) and similar adenylate
forming enzymes. This family contains benzoate CoA
ligase (BCL) and related ligases that catalyze the
acylation of benzoate derivatives, 2-aminobenzoate and
4-hydroxybenzoate. Aromatic compounds represent the
second most abundant class of organic carbon compounds
after carbohydrates. Xenobiotic aromatic compounds are
also a major class of man-made pollutants. Some bacteria
use benzoate as the sole source of carbon and energy
through benzoate degradation. Benzoate degradation
starts with its activation to benzoyl-CoA by benzoate
CoA ligase. The reaction catalyzed by benzoate CoA
ligase proceeds via a two-step process; the first
ATP-dependent step forms an acyl-AMP intermediate, and
the second step forms the acyl-CoA ester with release of
the AMP.
Length = 436
Score = 46.2 bits (110), Expect = 6e-05
Identities = 25/102 (24%), Positives = 47/102 (46%), Gaps = 4/102 (3%)
Query: 35 HDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPL 94
+S+T+++L + + L G G V +L+ E +++A KAG + L
Sbjct: 6 CGEQSLTYRELHDLANRFANVLRALGVSPGDRVLLLLPDSPELVAAFLACLKAGAVAVAL 65
Query: 95 ETSYPPALLESVLDDAKPSIVITKGEYMDRLERTS----VPK 132
P LE +LDD+ ++++T+ + + TS PK
Sbjct: 66 NPLLTPQDLEHILDDSGAALLVTEADDIAYWLYTSGTTGKPK 107
>gnl|CDD|187671 cd09811, 3b-HSD_HSDB1_like_SDR_e, human 3beta-HSD (hydroxysteroid
dehydrogenase) and HSD3B1(delta 5-delta
4-isomerase)-like, extended (e) SDRs. This extended-SDR
subgroup includes human 3 beta-HSD/HSD3B1 and C(27)
3beta-HSD/ [3beta-hydroxy-delta(5)-C(27)-steroid
oxidoreductase; HSD3B7], and related proteins. These
proteins have the characteristic active site tetrad and
NAD(P)-binding motif of extended SDRs. 3 beta-HSD
catalyzes the oxidative conversion of delta 5-3
beta-hydroxysteroids to the delta 4-3-keto
configuration; this activity is essential for the
biosynthesis of all classes of hormonal steroids. C(27)
3beta-HSD is a membrane-bound enzyme of the endoplasmic
reticulum, it catalyzes the isomerization and oxidation
of 7alpha-hydroxylated sterol intermediates, an early
step in bile acid biosynthesis. Mutations in the human
gene encoding C(27) 3beta-HSD underlie a rare autosomal
recessive form of neonatal cholestasis. Extended SDRs
are distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 354
Score = 46.0 bits (109), Expect = 6e-05
Identities = 28/100 (28%), Positives = 47/100 (47%), Gaps = 7/100 (7%)
Query: 410 IDMIIHAAAFVNLILP--YNALYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIY--PSTS 465
+ ++IH AA V++ P Y L + NV T+ ++E N +K Y S+ +
Sbjct: 73 VSVVIHTAAIVDVFGPPNYEELEEVNVNGTQAVLEACVQNNVKRLVYTSSIEVAGPNFKG 132
Query: 466 ENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNA-GQM 504
++D T+T Y SK+++E +VLNA G
Sbjct: 133 RPIFNGVEDTPYED--TSTPPYASSKLLAENIVLNANGAP 170
>gnl|CDD|235527 PRK05599, PRK05599, hypothetical protein; Provisional.
Length = 246
Score = 45.3 bits (107), Expect = 6e-05
Identities = 44/175 (25%), Positives = 73/175 (41%), Gaps = 22/175 (12%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSL-QNAPGSIIVKKLDVTIE 777
I + G +S I ++ L G VV ARR + + L + L Q S+ V D
Sbjct: 3 ILILGGTSDIAGEIATLLCH-GEDVVLAARRPEAAQGLASDLRQRGATSVHVLSFDAQDL 61
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGV--------L 829
+ +++V++ G I + V G++ E+ + +E +A V I V L
Sbjct: 62 DTHRELVKQTQELAGEISLAVVAFGIL--GDQERAETDEAHA---VEIATVDYTAQVSML 116
Query: 830 HCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK----YFIEGISGAL 880
+ + L + P I+ SS AG R VY TK F +G++ +L
Sbjct: 117 TVLADELRAQTA---PAAIVAFSSIAGWRARRANYVYGSTKAGLDAFCQGLADSL 168
>gnl|CDD|213320 cd05973, MACS_like_2, Uncharacterized subfamily of medium-chain
acyl-CoA synthetase (MACS). MACS catalyzes the two-step
activation of medium chain fatty acids (containing 4-12
carbons). The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. MACS
enzymes are localized to mitochondria.
Length = 440
Score = 46.3 bits (110), Expect = 7e-05
Identities = 22/86 (25%), Positives = 41/86 (47%)
Query: 40 ITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYP 99
+++ +L E + V L + G G V L+ R E ++ +A + G Y+PL T++
Sbjct: 1 LSYAELREQSARVANLLADLGVKPGDRVAGLLPRTPELVVAILATWRVGAIYVPLFTAFG 60
Query: 100 PALLESVLDDAKPSIVITKGEYMDRL 125
P +E L + +V+T +L
Sbjct: 61 PKAIEYRLGHSGAKVVVTNAANRGKL 86
>gnl|CDD|213280 cd05912, OSB_CoA_lg, O-succinylbenzoate-CoA ligase (also known as
O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or
MenE). O-succinylbenzoic acid-CoA synthase catalyzes
the coenzyme A (CoA)- and ATP-dependent conversion of
o-succinylbenzoic acid to o-succinylbenzoyl-CoA. The
reaction is the fourth step of the biosynthesis pathway
of menaquinone (vitamin K2). In certain bacteria,
menaquinone is used during fumarate reduction in
anaerobic respiration. In cyanobacteria, the product of
the menaquinone pathway is phylloquinone
(2-methyl-3-phytyl-1,4-naphthoquinone), a molecule used
exclusively as an electron transfer cofactor in
Photosystem 1. In green sulfur bacteria and
heliobacteria, menaquinones are used as loosely bound
secondary electron acceptors in the photosynthetic
reaction center.
Length = 407
Score = 46.0 bits (110), Expect = 8e-05
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 39 SITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSY 98
S+TF++LD+ + L G G V +L + +E+ + ++A+ + G LPL
Sbjct: 1 SLTFQELDQRVSQLAEQLAALGVRRGDRVALLAKNSIEFLLLFLALLRLGAVVLPLNPRL 60
Query: 99 PPALLESVLDDAKP------SIVITKG 119
P L+ L D +P +I+ T G
Sbjct: 61 PQEELQQQLADLQPDLDRPATIIFTSG 87
>gnl|CDD|236097 PRK07788, PRK07788, acyl-CoA synthetase; Validated.
Length = 549
Score = 46.1 bits (110), Expect = 9e-05
Identities = 27/104 (25%), Positives = 47/104 (45%), Gaps = 1/104 (0%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+R PD+ A++D G ++T+ +LDE ++ + L+ G G V VL + ++
Sbjct: 59 ARRAPDRAALIDERG-TLTYAELDEQSNALARGLLALGVRAGDGVAVLARNHRGFVLALY 117
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
A K G + L T + L V ++ E+ D L
Sbjct: 118 AAGKVGARIILLNTGFSGPQLAEVAAREGVKALVYDDEFTDLLS 161
>gnl|CDD|187619 cd05361, haloalcohol_DH_SDR_c-like, haloalcohol dehalogenase,
classical (c) SDRs. Dehalogenases cleave carbon-halogen
bonds. Haloalcohol dehalogenase show low sequence
similarity to short-chain dehydrogenases/reductases
(SDRs). Like the SDRs, haloalcohol dehalogenases have a
conserved catalytic triad (Ser-Tyr-Lys/Arg), and form a
Rossmann fold. However, the normal classical SDR
NAD(P)-binding motif (TGXXGXG) and NAD-binding function
is replaced with a halide binding site, allowing the
enzyme to catalyze a dehalogenation reaction. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 44.5 bits (105), Expect = 1e-04
Identities = 25/120 (20%), Positives = 49/120 (40%), Gaps = 4/120 (3%)
Query: 777 ENDVKKVVREVLAELGHIDILVNN-AGVMYFTLMEKYKLEEWNAMIN-VNIKGVLHCIGN 834
E +++V VL G ID+LV+N ++ + ++I +
Sbjct: 56 EQKPEELVDAVLQAGGAIDVLVSNDYIPRPMNPIDGTSEADIRQAFEALSIFPFA--LLQ 113
Query: 835 ILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRNIKVTCI 894
+ + G I+ I+S +P A ++Y + ++ +L +E+S NI V I
Sbjct: 114 AAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAAVALAESLAKELSRDNILVYAI 173
>gnl|CDD|224013 COG1088, RfbB, dTDP-D-glucose 4,6-dehydratase [Cell envelope
biogenesis, outer membrane].
Length = 340
Score = 44.9 bits (107), Expect = 1e-04
Identities = 42/168 (25%), Positives = 65/168 (38%), Gaps = 35/168 (20%)
Query: 376 LNNYTDRLILVKSDLS----LEML-GLKNQDEY---------------VSLSYEIDMIIH 415
LN + D ++ L+ LE L +++ Y + Y+ D ++H
Sbjct: 21 LNKHPDDHVVNLDKLTYAGNLENLADVEDSPRYRFVQGDICDRELVDRLFKEYQPDAVVH 80
Query: 416 AAA--FV-NLILPYNALYKSNVLATKNLIE-FSFLNKIKSFHYVSTDSIY---PSTSENF 468
AA V I ++NV+ T L+E FH++STD +Y + F
Sbjct: 81 FAAESHVDRSIDGPAPFIQTNVVGTYTLLEAARKYWGKFRFHHISTDEVYGDLGLDDDAF 140
Query: 469 QEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNAGQM-GLPVSIVRCGN 515
E +S Y SK S+ LV + GLP +I RC N
Sbjct: 141 TETTPYN-------PSSPYSASKAASDLLVRAYVRTYGLPATITRCSN 181
>gnl|CDD|130249 TIGR01181, dTDP_gluc_dehyt, dTDP-glucose 4,6-dehydratase. This
protein is related to UDP-glucose 4-epimerase (GalE) and
likewise has an NAD cofactor [Cell envelope,
Biosynthesis and degradation of surface polysaccharides
and lipopolysaccharides].
Length = 317
Score = 44.7 bits (106), Expect = 1e-04
Identities = 37/126 (29%), Positives = 56/126 (44%), Gaps = 22/126 (17%)
Query: 408 YEIDMIIHAAAFVNL---ILPYNALYKSNVLATKNLIEFSFLNKIKS--FHYVSTDSIYP 462
++ D ++H AA ++ I A ++NV+ T L+E + FH++STD +Y
Sbjct: 72 HQPDAVVHFAAESHVDRSISGPAAFIETNVVGTYTLLE-AVRKYWHEFRFHHISTDEVYG 130
Query: 463 STSENFQEDYTVADFDDFMTTT-----SGYGQSKIVSEYLVLNAGQM-GLPVSIVRCGNI 516
+ D F TT S Y SK S++LV + GLP I RC N
Sbjct: 131 DLEKG----------DAFTETTPLAPSSPYSASKAASDHLVRAYHRTYGLPALITRCSNN 180
Query: 517 GGSLEF 522
G +F
Sbjct: 181 YGPYQF 186
>gnl|CDD|187562 cd05252, CDP_GD_SDR_e, CDP-D-glucose 4,6-dehydratase, extended (e)
SDRs. This subgroup contains CDP-D-glucose
4,6-dehydratase, an extended SDR, which catalyzes the
conversion of CDP-D-glucose to
CDP-4-keto-6-deoxy-D-glucose. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 336
Score = 45.0 bits (107), Expect = 1e-04
Identities = 53/231 (22%), Positives = 89/231 (38%), Gaps = 55/231 (23%)
Query: 306 FWKSVQLNSNKLKYGNVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLED 365
FW+ K VL+TG TG+ G L +L + + + P L
Sbjct: 1 FWQ------GK----RVLVTGHTGFKGSWLSL-WLQELGAKVIGYSLDPPTNPNL----- 44
Query: 366 IMLKYHMSLDLNNYTDRLILVKSDL-SLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLIL 424
+L N +++ + D+ L L YE +++ H AA + L
Sbjct: 45 --------FELANLDNKISSTRGDIRDLNAL------REAIREYEPEIVFHLAAQPLVRL 90
Query: 425 PYN---ALYKSNVLATKNLIEFS-FLNKIKSFHYVSTDSIYPSTS--ENFQEDYTVADFD 478
Y +++NV+ T NL+E +K+ V++D Y + ++E+ + D
Sbjct: 91 SYKDPVETFETNVMGTVNLLEAIRETGSVKAVVNVTSDKCYENKEWGWGYRENDPLGGHD 150
Query: 479 DFMTTTSGYGQSK-----IVSEY-----LVLNAGQMGLPVSIVRCGN-IGG 518
Y SK I+S Y N G+ G+ ++ R GN IGG
Sbjct: 151 P-------YSSSKGCAELIISSYRNSFFNPENYGKHGIAIASARAGNVIGG 194
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 44.6 bits (105), Expect = 1e-04
Identities = 42/195 (21%), Positives = 77/195 (39%), Gaps = 10/195 (5%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVA--VARRIDRLENLKTSLQNAPGSIIVKK 771
L ++ VTG SGIG GA V + + +++K ++ ++
Sbjct: 47 LKDRKALVTGGDSGIGRAAAIAYAREGADVAISYLPVEEEDAQDVKKIIEECGRKAVLLP 106
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYK---LEEWNAMINVNIKGV 828
D++ E + +V E LG +DI+ AG + E++ +N+ +
Sbjct: 107 GDLSDEKFARSLVHEAHKALGGLDIMALVAGKQ--VAIPDIADLTSEQFQKTFAINVFAL 164
Query: 829 LHCIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQEVSDRN 888
+P + I+ SS +P L Y TK I S L ++V+++
Sbjct: 165 FWLTQEAIP---LLPKGASIITTSSIQAYQPSPHLLDYAATKAAILNYSRGLAKQVAEKG 221
Query: 889 IKVTCIQAGDVKTEL 903
I+V + G + T L
Sbjct: 222 IRVNIVAPGPIWTAL 236
>gnl|CDD|187545 cd05234, UDP_G4E_2_SDR_e, UDP-glucose 4 epimerase, subgroup 2,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup is comprised of
archaeal and bacterial proteins, and has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 305
Score = 44.6 bits (106), Expect = 1e-04
Identities = 46/211 (21%), Positives = 77/211 (36%), Gaps = 48/211 (22%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG G++G HL+ + L E N+ + D +L++
Sbjct: 1 RILVTGGAGFIGSHLVDRLL------------EEGNEV---VVVD---------NLSSGR 36
Query: 381 DRLI---LVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNA---LYKSNV 434
I L + + V+ + D + H AA ++ L + NV
Sbjct: 37 RENIEPEFENKAFRFVKRDLLDTADKVAKK-DGDTVFHLAANPDVRLGATDPDIDLEENV 95
Query: 435 LATKNLIEFSFLNKIKSFHYVSTDSIY-----PSTSENFQEDYTVADFDDFMTTTSGYGQ 489
LAT N++E N +K + S+ ++Y T E++ S YG
Sbjct: 96 LATYNVLEAMRANGVKRIVFASSSTVYGEAKVIPTPEDYP-----------PLPISVYGA 144
Query: 490 SKIVSE-YLVLNAGQMGLPVSIVRCGNIGGS 519
SK+ +E + A G I R NI G
Sbjct: 145 SKLAAEALISAYAHLFGFQAWIFRFANIVGP 175
>gnl|CDD|213315 cd05968, AACS_like, Uncharacterized acyl-CoA synthetase subfamily
similar to Acetoacetyl-CoA synthetase. This
uncharacterized acyl-CoA synthetase family is highly
homologous to acetoacetyl-CoA synthetase. However, the
proteins in this family exist in only bacteria and
archaea. AACS is a cytosolic ligase that specifically
activates acetoacetate to its coenzyme A ester by a
two-step reaction. Acetoacetate first reacts with ATP to
form an acyl-adenylate intermediate, which then reacts
with CoA to produce an acyl-CoA ester. This is the first
step of the mevalonate pathway of isoprenoid
biosynthesis via isopentenyl diphosphate. Isoprenoids
are a large class of compounds found in all living
organisms.
Length = 474
Score = 45.0 bits (107), Expect = 1e-04
Identities = 24/91 (26%), Positives = 45/91 (49%), Gaps = 2/91 (2%)
Query: 36 DG--RSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLP 93
DG R+ T+ +L + + + L G G VG+ M E ++ +AI K G +P
Sbjct: 2 DGSVRTWTYSELAREVNRLASGLAALGLGKGDRVGIYMPMIPEAVVALLAIAKIGAIAVP 61
Query: 94 LETSYPPALLESVLDDAKPSIVITKGEYMDR 124
+ + + P + + L DA+ ++IT ++ R
Sbjct: 62 IFSGFGPDAVATRLQDAEAKVLITADGFLRR 92
>gnl|CDD|187574 cd05264, UDP_G4E_5_SDR_e, UDP-glucose 4-epimerase (G4E), subgroup
5, extended (e) SDRs. This subgroup partially conserves
the characteristic active site tetrad and NAD-binding
motif of the extended SDRs, and has been identified as
possible UDP-glucose 4-epimerase (aka UDP-galactose
4-epimerase), a homodimeric member of the extended SDR
family. UDP-glucose 4-epimerase catalyzes the
NAD-dependent conversion of UDP-galactose to
UDP-glucose, the final step in Leloir galactose
synthesis. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 300
Score = 44.2 bits (105), Expect = 2e-04
Identities = 47/207 (22%), Positives = 69/207 (33%), Gaps = 46/207 (22%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
VL+ G G++G HL+ L + VR L + Y +Y
Sbjct: 1 RVLIVGGNGFIGSHLVDALLEE-----GPQVRVFDRSIPPYELPLGGVDYIKG----DYE 51
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIH-------AAAFVNLILPYNALYKSN 433
+R L + L ID +IH A + N IL +N
Sbjct: 52 NRADLESA--------LVG----------IDTVIHLASTTNPATSNKNPILDIQ----TN 89
Query: 434 VLATKNLIEFSFLNKIKSFHYVST-DSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKI 492
V T L+E I + S+ ++Y + D S YG SK+
Sbjct: 90 VAPTVQLLEACAAAGIGKIIFASSGGTVYG------VPEQLPISESDPTLPISSYGISKL 143
Query: 493 VSE-YLVLNAGQMGLPVSIVRCGNIGG 518
E YL L GL +++R N G
Sbjct: 144 AIEKYLRLYQYLYGLDYTVLRISNPYG 170
>gnl|CDD|213318 cd05971, MACS_like_3, Uncharacterized subfamily of medium-chain
acyl-CoA synthetase (MACS). MACS catalyzes the two-step
activation of medium chain fatty acids (containing 4-12
carbons). The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. MACS
enzymes are localized to mitochondria.
Length = 439
Score = 44.7 bits (106), Expect = 2e-04
Identities = 24/86 (27%), Positives = 42/86 (48%)
Query: 34 DHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLP 93
D TF QL + ++ + L G G VGV + + E I+++A++K G +P
Sbjct: 1 DGTREEYTFGQLKDASNRLANALRELGVERGDRVGVYLPQSPETAIAHLAVYKLGAVSVP 60
Query: 94 LETSYPPALLESVLDDAKPSIVITKG 119
L + P +E L D+ +++T G
Sbjct: 61 LSVLFGPDAVEHRLRDSGARVLVTDG 86
>gnl|CDD|213312 cd05959, BCL_4HBCL, Benzoate CoA ligase (BCL) and
4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase).
Benzoate CoA ligase and 4-hydroxybenzoate-coenzyme A
ligase catalyze the first activating step for benzoate
and 4-hydroxybenzoate catabolic pathways, respectively.
Although these two enzymes share very high sequence
homology, they have their own substrate preference. The
reaction proceeds via a two-step process; the first
ATP-dependent step forms the substrate-AMP intermediate,
while the second step forms the acyl-CoA ester,
releasing the AMP. Aromatic compounds represent the
second most abundant class of organic carbon compounds
after carbohydrates. Some bacteria can use benzoic acid
or benzenoid compounds as the sole source of carbon and
energy through degradation. Benzoate CoA ligase and
4-hydroxybenzoate-Coenzyme A ligase are key enzymes of
this process.
Length = 506
Score = 44.6 bits (106), Expect = 2e-04
Identities = 26/113 (23%), Positives = 54/113 (47%), Gaps = 1/113 (0%)
Query: 14 ALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMER 73
A++++ R+ + DKIA+ DG S+T+ +L E + G L G + V +++
Sbjct: 6 AVYFLDRHLNEGRGDKIALYYDDG-SLTYGELQEEVNRWGNALRELGIERENRVLLILLD 64
Query: 74 CLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
E+ ++ K G +P+ T P L+D++ +++ E + L+
Sbjct: 65 TPEFPTAFWGAIKIGAVPVPINTLLTPDDYRYYLNDSRARVLVISEELWEVLK 117
>gnl|CDD|235146 PRK03640, PRK03640, O-succinylbenzoic acid--CoA ligase;
Provisional.
Length = 483
Score = 44.6 bits (106), Expect = 2e-04
Identities = 29/105 (27%), Positives = 48/105 (45%), Gaps = 1/105 (0%)
Query: 22 QAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISY 81
+A TPD+ A+ + + +TF +L E V L G G V +LM+ +E +
Sbjct: 11 RAFLTPDRTAIEF-EEKKVTFMELHEAVVSVAGKLAALGVKKGDRVALLMKNGMEMILVI 69
Query: 82 IAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
A+ + G + L T L LDDA+ +IT ++ +L
Sbjct: 70 HALQQLGAVAVLLNTRLSREELLWQLDDAEVKCLITDDDFEAKLI 114
>gnl|CDD|139531 PRK13383, PRK13383, acyl-CoA synthetase; Provisional.
Length = 516
Score = 44.6 bits (105), Expect = 2e-04
Identities = 25/106 (23%), Positives = 48/106 (45%), Gaps = 1/106 (0%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A R P + A++D DG ++++++L T+ + L G G VGV+ + +
Sbjct: 45 AARWPGRTAIIDDDG-ALSYRELQRATESLARRLTRDGVAPGRAVGVMCRNGRGFVTAVF 103
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERT 128
A+ G +P+ T + L + L S V+ E+ +R+
Sbjct: 104 AVGLLGADVVPISTEFRSDALAAALRAHHISTVVADNEFAERIAGA 149
>gnl|CDD|213290 cd05923, CBAL, 4-Chlorobenzoate-CoA ligase (CBAL). CBAL catalyzes
the conversion of 4-chlorobenzoate (4-CB) to
4-chlorobenzoyl-coenzyme A (4-CB-CoA) by the two-step
adenylation and thioester-forming reactions.
4-Chlorobenzoate (4-CBA) is an environmental pollutant
derived from microbial breakdown of aromatic pollutants,
such as polychlorinated biphenyls (PCBs), DDT, and
certain herbicides. The 4-CBA degrading pathway converts
4-CBA to the metabolite 4-hydroxybezoate (4-HBA),
allowing some soil-dwelling microbes to utilize 4-CBA as
an alternate carbon source. This pathway consists of
three chemical steps catalyzed by 4-CBA-CoA ligase,
4-CBA-CoA dehalogenase, and 4HBA-CoA thioesterase in
sequential reactions.
Length = 495
Score = 44.1 bits (104), Expect = 3e-04
Identities = 29/106 (27%), Positives = 47/106 (44%), Gaps = 10/106 (9%)
Query: 16 HYMFRNQAKRTPDKIAVVD-HDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERC 74
M R A R PD A+VD G +T+ +L + V L +G V V+
Sbjct: 4 FEMLRRAATRAPDACALVDPARGLRLTYSELRARVEGVAARLHARGVRPQQRVAVVAPNS 63
Query: 75 LEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGE 120
++ I+ +A+H+ G PAL+ L A+ + +I +GE
Sbjct: 64 VDAVIALLALHRLGA---------VPALMNPRLKPAEIAELIKRGE 100
>gnl|CDD|236236 PRK08315, PRK08315, AMP-binding domain protein; Validated.
Length = 559
Score = 44.0 bits (105), Expect = 4e-04
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 1/91 (1%)
Query: 18 MFRNQAKRTPDKIAVVDHD-GRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLE 76
+ A R PD+ A+V D G T+++ +E D + L+ G G VG+ E
Sbjct: 21 LLDRTAARYPDREALVYRDQGLRWTYREFNEEVDALAKGLLALGIEKGDRVGIWAPNVPE 80
Query: 77 WTISYIAIHKAGGGYLPLETSYPPALLESVL 107
W ++ A K G + + +Y + LE L
Sbjct: 81 WVLTQFATAKIGAILVTINPAYRLSELEYAL 111
>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 = 43.3 bits (102), Expect = 4e-04
Identities = 27/93 (29%), Positives = 42/93 (45%), Gaps = 1/93 (1%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGA-KVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
+ +TG+SSG+G K L G V+ R + E SL S + LD+
Sbjct: 6 VIITGASSGLGLYAAKALAATGEWHVIMACRDFLKAEQAAKSLGMPKDSYTIMHLDLGSL 65
Query: 778 NDVKKVVREVLAELGHIDILVNNAGVMYFTLME 810
+ V++ V++ +D LV NA V + T E
Sbjct: 66 DSVRQFVQQFRESGRPLDALVCNAAVYFPTAKE 98
>gnl|CDD|171527 PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional.
Length = 612
Score = 43.6 bits (103), Expect = 5e-04
Identities = 41/159 (25%), Positives = 67/159 (42%), Gaps = 36/159 (22%)
Query: 6 LSDY-DAEGAL---------HYMFRNQAKRTPDKIA--VVDH----DGRSI--TFKQLDE 47
+ D DA+G + + RN A D +A +DH G ++ T+ QL
Sbjct: 18 IEDCLDADGNIALPPGTTLISLIERNIAN-VGDTVAYRYLDHSHSAAGCAVELTWTQLGV 76
Query: 48 WTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPAL----- 102
VG L Q G V +L + +++ + A KAG +PL + P L
Sbjct: 77 RLRAVGARL-QQVAGPGDRVAILAPQGIDYVAGFFAAIKAGTIAVPL---FAPELPGHAE 132
Query: 103 -LESVLDDAKPSIVITKG-------EYMDRLERTSVPKV 133
L++ L DA+P++V+T ++ L R P+V
Sbjct: 133 RLDTALRDAEPTVVLTTTAAAEAVEGFLRNLPRLRRPRV 171
>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 = 42.6 bits (100), Expect = 5e-04
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGS--IIVKKLDV 774
+ +TG++SGIG+ + G V V R R E + ++ G+ I + +D+
Sbjct: 2 RSFLITGANSGIGKAAALAIAKRGGTVHMVCRNQTRAEEARKEIETESGNQNIFLHIVDM 61
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVM 804
+ V + V E E + +L+NNAG M
Sbjct: 62 SDPKQVWEFVEEFKEEGKKLHVLINNAGCM 91
>gnl|CDD|223696 COG0623, FabI, Enoyl-[acyl-carrier-protein].
Length = 259
Score = 42.6 bits (101), Expect = 6e-04
Identities = 50/228 (21%), Positives = 92/228 (40%), Gaps = 21/228 (9%)
Query: 714 LANKVIFVTG--SSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKK 771
L K I + G ++ I + K L GA++ A + +RLE L GS +V
Sbjct: 4 LEGKRILIMGVANNRSIAWGIAKALAEQGAEL-AFTYQGERLEKRVEELAEELGSDLVLP 62
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
DVT + + + + + G +D LV++ K +L+ ++ + +G L
Sbjct: 63 CDVTNDESIDALFATIKKKWGKLDGLVHSIA-----FAPKEELK--GDYLDTSREGFLIA 115
Query: 832 IGNI----LPSMLHSRRP-----GHILNISSNAGVRPFAGLAVYTGTKYFIEGISGALRQ 882
+ +I ++ + RP G IL ++ R V K +E L
Sbjct: 116 M-DISAYSFTALAKAARPLMNNGGSILTLTYLGSERVVPNYNVMGVAKAALEASVRYLAA 174
Query: 883 EVSDRNIKVTCIQAGDVKTELLSHSTD-RDVVDKYDISKAVPVLTTKE 929
++ I+V I AG ++T S D R ++ + + + + T E
Sbjct: 175 DLGKEGIRVNAISAGPIRTLAASGIGDFRKMLKENEANAPLRRNVTIE 222
>gnl|CDD|236016 PRK07424, PRK07424, bifunctional sterol desaturase/short chain
dehydrogenase; Validated.
Length = 406
Score = 42.8 bits (101), Expect = 6e-04
Identities = 27/91 (29%), Positives = 46/91 (50%), Gaps = 10/91 (10%)
Query: 713 TLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL 772
+L K + VTG+S +G+ L+K+L GAKVVA+ D++ +L+ + VK L
Sbjct: 175 SLKGKTVAVTGASGTLGQALLKELHQQGAKVVALTSNSDKI-----TLEINGEDLPVKTL 229
Query: 773 DVTIENDVKKVVREVLAELGHIDILVNNAGV 803
+ + + L +DIL+ N G+
Sbjct: 230 HWQVGQEA-----ALAELLEKVDILIINHGI 255
>gnl|CDD|215538 PLN02996, PLN02996, fatty acyl-CoA reductase.
Length = 491
Score = 42.8 bits (101), Expect = 8e-04
Identities = 45/160 (28%), Positives = 79/160 (49%), Gaps = 16/160 (10%)
Query: 310 VQLNSNKLKYGNVLLTGVTGYLGIHLLQKFL-VDTKCT-LFCPVRETPNKTLLQRLED-- 365
VQ NK +L+TG TG+L ++K L V L+ +R + K+ QRL D
Sbjct: 6 VQFLENK----TILVTGATGFLAKIFVEKILRVQPNVKKLYLLLRASDAKSATQRLHDEV 61
Query: 366 ------IMLKYHMSLDLNNY-TDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAA 418
+L+ + +LN+ ++++ V D+S + LG+K+ + + EID++++ AA
Sbjct: 62 IGKDLFKVLREKLGENLNSLISEKVTPVPGDISYDDLGVKDSNLREEMWKEIDIVVNLAA 121
Query: 419 FVNLILPYNALYKSNVLATKNLIEFS-FLNKIKSFHYVST 457
N Y+ N L N++ F+ K+K +VST
Sbjct: 122 TTNFDERYDVALGINTLGALNVLNFAKKCVKVKMLLHVST 161
>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 = 41.8 bits (98), Expect = 0.001
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 2/89 (2%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQN--APGSIIVKKLDV 774
KVI +TG++SGIG + + GA V+ R + R + + + LD+
Sbjct: 2 KVIIITGANSGIGFETARSFALHGAHVILACRNMSRASAAVSRILEEWHKARVEAMTLDL 61
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGV 803
V++ A+ + +LV NA V
Sbjct: 62 ASLRSVQRFAEAFKAKNSPLHVLVCNAAV 90
>gnl|CDD|187567 cd05257, Arna_like_SDR_e, Arna decarboxylase_like, extended (e)
SDRs. Decarboxylase domain of ArnA. ArnA, is an enzyme
involved in the modification of outer membrane protein
lipid A of gram-negative bacteria. It is a bifunctional
enzyme that catalyzes the NAD-dependent decarboxylation
of UDP-glucuronic acid and
N-10-formyltetrahydrofolate-dependent formylation of
UDP-4-amino-4-deoxy-l-arabinose; its NAD-dependent
decaboxylating activity is in the C-terminal 360
residues. This subgroup belongs to the extended SDR
family, however the NAD binding motif is not a perfect
match and the upstream Asn of the canonical active site
tetrad is not conserved. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 316
Score = 41.9 bits (99), Expect = 0.001
Identities = 49/207 (23%), Positives = 85/207 (41%), Gaps = 37/207 (17%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDL-NNY 379
NVL+TG G++G HL ++ L + VR +LD+ N++
Sbjct: 1 NVLVTGADGFIGSHLTERLLREG-----HEVR--------------------ALDIYNSF 35
Query: 380 TDRLIL---VKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNA---LYKSN 433
+L V +++ E L + D++ H AA + + Y A ++N
Sbjct: 36 NSWGLLDNAVHDRFHFISGDVRDASEVEYLVKKCDVVFHLAALIAIPYSYTAPLSYVETN 95
Query: 434 VLATKNLIEFSFLNKIKSFHYVSTDSIY-PSTSENFQEDYTVADFDDFMTTTSGYGQSKI 492
V T N++E + + K + ST +Y + ED+ + + S Y SK
Sbjct: 96 VFGTLNVLEAACVLYRKRVVHTSTSEVYGTAQDVPIDEDHPLLYIN---KPRSPYSASKQ 152
Query: 493 VSEYLVLN-AGQMGLPVSIVRCGNIGG 518
++ L + GLPV+I+R N G
Sbjct: 153 GADRLAYSYGRSFGLPVTIIRPFNTYG 179
>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 = 41.5 bits (97), Expect = 0.001
Identities = 54/245 (22%), Positives = 96/245 (39%), Gaps = 31/245 (12%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNA--PGSIIVKKLDVT 775
VTG++ IG + L G +VV R + + NA P S + + D++
Sbjct: 3 AAVVTGAAKRIGSSIAVALHQEGYRVVLHYHRSAAAASTLAAELNARRPNSAVTCQADLS 62
Query: 776 IENDV----KKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
+ + ++ G D+LVNNA Y T + + E V
Sbjct: 63 NSATLFSRCEAIIDACFRAFGRCDVLVNNASAFYPTPLLRGDAGEGVGDKKSLEVQVAEL 122
Query: 832 IGN--ILPSML----HSRRPG----------HILNISSNAGVRPFAGLAVYTGTKYFIEG 875
G+ I P L R+ G I+N+ +P G +YT K+ +EG
Sbjct: 123 FGSNAIAPYFLIKAFAQRQAGTRAEQRSTNLSIVNLCDAMTDQPLLGFTMYTMAKHALEG 182
Query: 876 ISGALRQEVSDRNIKVTCIQAGDVKTELLSHSTDRDVVDKYDISKAVPV----LTTKEIS 931
++ + E++ I+V + G LL + +V + Y + VP+ + ++I+
Sbjct: 183 LTRSAALELAPLQIRVNGVAPG---LSLLPDAMPFEVQEDY--RRKVPLGQREASAEQIA 237
Query: 932 QSIIF 936
+IF
Sbjct: 238 DVVIF 242
>gnl|CDD|236173 PRK08177, PRK08177, short chain dehydrogenase; Provisional.
Length = 225
Score = 40.8 bits (96), Expect = 0.001
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 9/90 (10%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ + G+S G+G LV L+ G +V A R + L+ A + ++KLD+
Sbjct: 1 KRTALIIGASRGLGLGLVDRLLERGWQVTATVRGPQQDTALQ-----ALPGVHIEKLDM- 54
Query: 776 IENDVKKVVREVLAELGH-IDILVNNAGVM 804
ND + + + G D+L NAG+
Sbjct: 55 --NDPASLDQLLQRLQGQRFDLLFVNAGIS 82
>gnl|CDD|187579 cd05271, NDUFA9_like_SDR_a, NADH dehydrogenase (ubiquinone) 1 alpha
subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical
(a) SDRs. This subgroup of extended SDR-like proteins
are atypical SDRs. They have a glycine-rich
NAD(P)-binding motif similar to the typical SDRs,
GXXGXXG, and have the YXXXK active site motif (though
not the other residues of the SDR tetrad). Members
identified include NDUFA9 (mitochondrial) and putative
nucleoside-diphosphate-sugar epimerase. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 273
Score = 41.1 bits (97), Expect = 0.002
Identities = 18/89 (20%), Positives = 38/89 (42%), Gaps = 9/89 (10%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
V+ V G++ IG +V L G++V+ R L + G ++ + D+
Sbjct: 1 MVVTVFGATGFIGRYVVNRLAKRGSQVIVPYRCEAYARRLL--VMGDLGQVLFVEFDLRD 58
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMY 805
+ ++K + D+++N G +Y
Sbjct: 59 DESIRKALE-------GSDVVINLVGRLY 80
>gnl|CDD|187566 cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase,
extended (e) SDRs. This subgroup contains
UDP-N-acetylglucosamine 4-epimerase of Pseudomonas
aeruginosa, WbpP, an extended SDR, that catalyzes the
NAD+ dependent conversion of UDP-GlcNAc and UDPGalNA to
UDP-Glc and UDP-Gal. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 304
Score = 41.1 bits (97), Expect = 0.002
Identities = 47/208 (22%), Positives = 79/208 (37%), Gaps = 45/208 (21%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLD--LNN 378
VL+TG G++G HL+++ LL+R ++++ LD
Sbjct: 1 RVLVTGGAGFIGSHLVER--------------------LLERGHEVIV-----LDNLSTG 35
Query: 379 YTDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLI------LPYNALYKS 432
+ L VK ++ +++ + +D + H AA ++ + +
Sbjct: 36 KKENLPEVKPNVKFIEGDIRDDELVEFAFEGVDYVFHQAAQASVPRSIEDPIKDHE---V 92
Query: 433 NVLATKNLIEFSFLNKIKSFHYVSTDS-IYPSTSENFQEDYTVADFDDFMTTTSGYGQSK 491
NVL T NL+E + +K F Y S+ S ED+ S Y SK
Sbjct: 93 NVLGTLNLLEAARKAGVKRFVYASSSSVYGDPPYLPKDEDHPPN-------PLSPYAVSK 145
Query: 492 IVSE-YLVLNAGQMGLPVSIVRCGNIGG 518
E Y + A GLP +R N+ G
Sbjct: 146 YAGELYCQVFARLYGLPTVSLRYFNVYG 173
Score = 30.3 bits (69), Expect = 5.3
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 13/74 (17%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRL-----ENLKTSLQNAPGSIIVKKLD 773
+ VTG + IG LV+ L+ G +V+ +D L ENL N I + D
Sbjct: 2 VLVTGGAGFIGSHLVERLLERGHEVIV----LDNLSTGKKENLPEVKPNVK--FI--EGD 53
Query: 774 VTIENDVKKVVREV 787
+ + V+ V
Sbjct: 54 IRDDELVEFAFEGV 67
>gnl|CDD|213317 cd05970, MACS_AAE_MA_like, Medium-chain acyl-CoA synthetase (MACS)
of AAE_MA like. MACS catalyzes the two-step activation
of medium chain fatty acids (containing 4-12 carbons).
The carboxylate substrate first reacts with ATP to form
an acyl-adenylate intermediate, which then reacts with
CoA to produce an acyl-CoA ester. This family of MACS
enzymes is found in archaea and bacteria. It is
represented by the acyl-adenylating enzyme from
Methanosarcina acetivorans (AAE_MA). AAE_MA is most
active with propionate, butyrate, and the branched
analogs: 2-methyl-propionate, butyrate, and pentanoate.
The specific activity is weaker for smaller or larger
acids.
Length = 537
Score = 41.6 bits (98), Expect = 0.002
Identities = 23/75 (30%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 23 AKRTPDKIAVV--DHDG--RSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWT 78
A PDK+A++ D DG + TF L ++++ + G G TV + ++R E+
Sbjct: 27 ADEEPDKLALIWCDDDGEEKIFTFGDLKDYSNKAANFFKALGIGKGDTVMLTLKRRYEFW 86
Query: 79 ISYIAIHKAGGGYLP 93
S +A+HK G +P
Sbjct: 87 FSMLALHKIGAIAIP 101
>gnl|CDD|213316 cd05969, MACS_like_4, Uncharacterized subfamily of Acetyl-CoA
synthetase like family (ACS). This family is most
similar to acetyl-CoA synthetase. Acetyl-CoA synthetase
(ACS) catalyzes the formation of acetyl-CoA from
acetate, CoA, and ATP. Synthesis of acetyl-CoA is
carried out in a two-step reaction. In the first step,
the enzyme catalyzes the synthesis of acetyl-AMP
intermediate from acetate and ATP. In the second step,
acetyl-AMP reacts with CoA to produce acetyl-CoA. This
enzyme is only present in bacteria.
Length = 443
Score = 41.3 bits (97), Expect = 0.002
Identities = 20/87 (22%), Positives = 40/87 (45%)
Query: 40 ITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYP 99
++++L E + L + G G V L+ R E ++ + K G Y PL +++
Sbjct: 1 YSYQELKELSARFANVLASLGVGKGERVFTLLPRSPELYVAALGTLKLGAVYGPLFSAFG 60
Query: 100 PALLESVLDDAKPSIVITKGEYMDRLE 126
P + L+ + ++IT E +R +
Sbjct: 61 PEPIRDRLELGEAKVLITTPELYERTD 87
>gnl|CDD|180669 PRK06720, PRK06720, hypothetical protein; Provisional.
Length = 169
Score = 40.0 bits (93), Expect = 0.002
Identities = 30/92 (32%), Positives = 41/92 (44%), Gaps = 4/92 (4%)
Query: 714 LANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTS--LQNAPGSIIVKK 771
LA KV VTG GIG L GAKV+ ID+ T + N G +
Sbjct: 14 LAGKVAIVTGGGIGIGRNTALLLAKQGAKVIVT--DIDQESGQATVEEITNLGGEALFVS 71
Query: 772 LDVTIENDVKKVVREVLAELGHIDILVNNAGV 803
D+ + D ++V+ L ID+L NAG+
Sbjct: 72 YDMEKQGDWQRVISITLNAFSRIDMLFQNAGL 103
>gnl|CDD|132628 TIGR03589, PseB, UDP-N-acetylglucosamine 4,6-dehydratase. This
enzyme catalyzes the first step in the biosynthesis of
pseudaminic acid, the conversion of
UDP-N-acetylglucosamine to
UDP-4-keto-6-deoxy-N-acetylglucosamine. These sequences
are members of the broader pfam01073 (3-beta
hydroxysteroid dehydrogenase/isomerase family) family.
Length = 324
Score = 40.8 bits (96), Expect = 0.002
Identities = 31/118 (26%), Positives = 51/118 (43%), Gaps = 27/118 (22%)
Query: 409 EIDMIIHAAAFVNL-ILPYNAL--YKSNVLATKNLIEFSFLNKIKSFHYVSTDSIYPSTS 465
+D ++HAAA + YN ++N+ +N+I+ + N +K +STD +
Sbjct: 74 GVDYVVHAAALKQVPAAEYNPFECIRTNINGAQNVIDAAIDNGVKRVVALSTDK--AANP 131
Query: 466 ENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNA----GQMGLPVSIVRCGNIGGS 519
N YG +K+ S+ L + A G G S+VR GN+ GS
Sbjct: 132 INL------------------YGATKLASDKLFVAANNISGSKGTRFSVVRYGNVVGS 171
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 40.8 bits (96), Expect = 0.003
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 35/139 (25%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ + VTG+ G+G ++ LGAKV+AV + + I+ K D
Sbjct: 163 GETVLVTGAGGGVGIHAIQVAKALGAKVIAVTSSESKAK------------IVSKYADYV 210
Query: 776 IEN-----DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
I +VKK +G DI++ G LEE ++ ++N+ G +
Sbjct: 211 IVGSKFSEEVKK--------IGGADIVIETVG--------TPTLEE--SLRSLNMGGKII 252
Query: 831 CIGNILPSMLHSRRPGHIL 849
IGN+ PS +S R G+I+
Sbjct: 253 QIGNVDPSPTYSLRLGYII 271
>gnl|CDD|172019 PRK13382, PRK13382, acyl-CoA synthetase; Provisional.
Length = 537
Score = 40.9 bits (96), Expect = 0.003
Identities = 26/105 (24%), Positives = 49/105 (46%), Gaps = 1/105 (0%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+R PD+ ++D G ++T+++LDE +D + L VG++ + + +
Sbjct: 53 AQRCPDRPGLIDELG-TLTWRELDERSDALAAALQALPIGEPRVVGIMCRNHRGFVEALL 111
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLER 127
A ++ G L L TS+ L V+ VI E+ ++R
Sbjct: 112 AANRIGADILLLNTSFAGPALAEVVTREGVDTVIYDEEFSATVDR 156
>gnl|CDD|200085 TIGR01214, rmlD, dTDP-4-dehydrorhamnose reductase. This enzyme
catalyzes the last of 4 steps in making dTDP-rhamnose, a
precursor of LPS core antigen, O-antigen, etc [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides].
Length = 287
Score = 40.5 bits (95), Expect = 0.003
Identities = 44/197 (22%), Positives = 69/197 (35%), Gaps = 58/197 (29%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTD 381
+L+TG G LG L+Q+ R T LDL
Sbjct: 2 ILITGANGQLGRELVQQLS--------PEGRVVVALT------------RSQLDL----- 36
Query: 382 RLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNL----ILPYNALYKSNVLAT 437
+D L+ D +++ AA+ ++ P A + N LA
Sbjct: 37 ------TDPEALERLLRAIRP--------DAVVNTAAYTDVDGAESDPEKA-FAVNALAP 81
Query: 438 KNLIEFSFLNKIKS-FHYVSTDSIYP-STSENFQEDYTVADFDDFMTTTSGYGQSKIVSE 495
+NL + + + ++STD ++ ++ED D + YGQSK+ E
Sbjct: 82 QNLARAA--ARHGARLVHISTDYVFDGEGKRPYRED-------DATNPLNVYGQSKLAGE 132
Query: 496 YLVLNAGQMGLPVSIVR 512
V AG L IVR
Sbjct: 133 QAVRAAGPNAL---IVR 146
>gnl|CDD|163279 TIGR03466, HpnA, hopanoid-associated sugar epimerase. The
sequences in this family are members of the pfam01370
superfamily of NAD-dependent epimerases and dehydratases
typically acting on nucleotide-sugar substrates. The
genes of the family modeled here are generally in the
same locus with genes involved in the biosynthesis and
elaboration of hopene, the cyclization product of the
polyisoprenoid squalene. This gene and its association
with hopene biosynthesis in Zymomonas mobilis has been
noted in the literature where the gene symbol hpnA was
assigned. Hopanoids are known to be components of the
plasma membrane and to have polar sugar head groups in
Z. mobilis and other species.
Length = 328
Score = 40.4 bits (95), Expect = 0.003
Identities = 44/195 (22%), Positives = 76/195 (38%), Gaps = 36/195 (18%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTD 381
VL+TG TG++G ++ + L++ + VR T ++ L+ L + + + D
Sbjct: 3 VLVTGATGFVGSAVV-RLLLEQGEEVRVLVRPTSDRRNLEGL-------DVEIVEGDLRD 54
Query: 382 RLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILP-YNALYKSNVLATKNL 440
+ L + G + + H AA L P +Y +NV T+NL
Sbjct: 55 P-----ASLRKAVAGCRA-------------LFHVAADYRLWAPDPEEMYAANVEGTRNL 96
Query: 441 IEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFD---DFMTTTSGYGQSKIVSEYL 497
+ + ++ Y S+ + + D T AD Y +SK ++E
Sbjct: 97 LRAALEAGVERVVYTSSVATL-----GVRGDGTPADETTPSSLDDMIGHYKRSKFLAEQA 151
Query: 498 VLNAGQ-MGLPVSIV 511
L GLPV IV
Sbjct: 152 ALEMAAEKGLPVVIV 166
Score = 30.0 bits (68), Expect = 6.1
Identities = 11/40 (27%), Positives = 20/40 (50%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENL 756
+ VTG++ +G +V+ L+ G +V + R NL
Sbjct: 1 MKVLVTGATGFVGSAVVRLLLEQGEEVRVLVRPTSDRRNL 40
>gnl|CDD|235722 PRK06164, PRK06164, acyl-CoA synthetase; Validated.
Length = 540
Score = 40.9 bits (96), Expect = 0.003
Identities = 22/94 (23%), Positives = 45/94 (47%), Gaps = 1/94 (1%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+ PD +A++D + R ++ +L D + +L QG G V V + C+EW + ++
Sbjct: 20 ARARPDAVALID-EDRPLSRAELRALVDRLAAWLAAQGVRRGDRVAVWLPNCIEWVVLFL 78
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVI 116
A + G + + T Y + +L + ++
Sbjct: 79 ACARLGATVIAVNTRYRSHEVAHILGRGRARWLV 112
>gnl|CDD|187581 cd05273, GME-like_SDR_e, Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME)-like, extended (e)
SDRs. This subgroup of NDP-sugar epimerase/dehydratases
are extended SDRs; they have the characteristic active
site tetrad, and an NAD-binding motif: TGXXGXX[AG],
which is a close match to the canonical NAD-binding
motif. Members include Arabidopsis thaliana
GDP-mannose-3',5'-epimerase (GME) which catalyzes the
epimerization of two positions of GDP-alpha-D-mannose to
form GDP-beta-L-galactose. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 328
Score = 40.5 bits (95), Expect = 0.003
Identities = 31/121 (25%), Positives = 52/121 (42%), Gaps = 12/121 (9%)
Query: 410 IDMIIHAAAFV---NLILPYNA-LYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIYPSTS 465
+D + H AA + I +A + +N L N++E + +N ++ F + S+ +YP
Sbjct: 65 VDHVFHLAADMGGMGYIQSNHAVIMYNNTLINFNMLEAARINGVERFLFASSACVYP--- 121
Query: 466 ENFQEDYTVADFDD----FMTTTSGYGQSKIVSEYLVLN-AGQMGLPVSIVRCGNIGGSL 520
E Q + TV + YG K+ +E L + G+ IVR NI G
Sbjct: 122 EFKQLETTVVRLREEDAWPAEPQDAYGWEKLATERLCQHYNEDYGIETRIVRFHNIYGPR 181
Query: 521 E 521
Sbjct: 182 G 182
>gnl|CDD|187568 cd05258, CDP_TE_SDR_e, CDP-tyvelose 2-epimerase, extended (e) SDRs.
CDP-tyvelose 2-epimerase is a tetrameric SDR that
catalyzes the conversion of CDP-D-paratose to
CDP-D-tyvelose, the last step in tyvelose biosynthesis.
This subgroup is a member of the extended SDR subfamily,
with a characteristic active site tetrad and NAD-binding
motif. Extended SDRs are distinct from classical SDRs.
In addition to the Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) core region typical
of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 337
Score = 40.4 bits (95), Expect = 0.004
Identities = 34/142 (23%), Positives = 65/142 (45%), Gaps = 20/142 (14%)
Query: 397 LKNQDEYVSLSYEIDMIIHAAAFVNLILPYNA---LYKSNVLATKNLIEFSFLNKIKS-F 452
++N+++ L +ID+IIH AA ++ ++ +++N L T N++E + + + F
Sbjct: 61 IRNRNDLEDLFEDIDLIIHTAAQPSVTTSASSPRLDFETNALGTLNVLEAARQHAPNAPF 120
Query: 453 HYVSTDSIYPST--SENFQED---YTVAD-------FDDFMTTT---SGYGQSKIVSEYL 497
+ ST+ +Y +E Y +A + S YG SK ++
Sbjct: 121 IFTSTNKVYGDLPNYLPLEELETRYELAPEGWSPAGISESFPLDFSHSLYGASKGAADQY 180
Query: 498 VLNAGQM-GLPVSIVRCGNIGG 518
V G++ GL + RCG + G
Sbjct: 181 VQEYGRIFGLKTVVFRCGCLTG 202
>gnl|CDD|235923 PRK07059, PRK07059, Long-chain-fatty-acid--CoA ligase; Validated.
Length = 557
Score = 40.4 bits (95), Expect = 0.004
Identities = 21/74 (28%), Positives = 42/74 (56%)
Query: 37 GRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLET 96
G++IT+ +LDE + + +L ++G G+ V ++M L++ ++ A+ +AG + +
Sbjct: 46 GKAITYGELDELSRALAAWLQSRGLAKGARVAIMMPNVLQYPVAIAAVLRAGYVVVNVNP 105
Query: 97 SYPPALLESVLDDA 110
Y P LE L D+
Sbjct: 106 LYTPRELEHQLKDS 119
>gnl|CDD|215146 PLN02260, PLN02260, probable rhamnose biosynthetic enzyme.
Length = 668
Score = 40.5 bits (95), Expect = 0.004
Identities = 40/130 (30%), Positives = 61/130 (46%), Gaps = 18/130 (13%)
Query: 403 YVSLSYEIDMIIHAAA-------FVNLILPYNALYKSNVLATKNLIE-FSFLNKIKSFHY 454
Y+ ++ ID I+H AA F N K+N+ T L+E +I+ F +
Sbjct: 74 YLLITEGIDTIMHFAAQTHVDNSFGNSF----EFTKNNIYGTHVLLEACKVTGQIRRFIH 129
Query: 455 VSTDSIYPSTSENFQEDYTVADFD-DFMTTTSGYGQSKIVSEYLVLNAGQ-MGLPVSIVR 512
VSTD +Y T ED V + + + T+ Y +K +E LV+ G+ GLPV R
Sbjct: 130 VSTDEVYGETD----EDADVGNHEASQLLPTNPYSATKAGAEMLVMAYGRSYGLPVITTR 185
Query: 513 CGNIGGSLEF 522
N+ G +F
Sbjct: 186 GNNVYGPNQF 195
>gnl|CDD|237145 PRK12583, PRK12583, acyl-CoA synthetase; Provisional.
Length = 558
Score = 40.5 bits (95), Expect = 0.004
Identities = 27/100 (27%), Positives = 43/100 (43%), Gaps = 1/100 (1%)
Query: 19 FRNQAKRTPDKIAVV-DHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEW 77
F R PD+ A+V H T++QL + D + L+ G G VG+ C EW
Sbjct: 24 FDATVARFPDREALVVRHQALRYTWRQLADAVDRLARGLLALGVQPGDRVGIWAPNCAEW 83
Query: 78 TISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVIT 117
++ A + G + + +Y + LE L + VI
Sbjct: 84 LLTQFATARIGAILVNINPAYRASELEYALGQSGVRWVIC 123
>gnl|CDD|236229 PRK08303, PRK08303, short chain dehydrogenase; Provisional.
Length = 305
Score = 40.0 bits (94), Expect = 0.004
Identities = 28/99 (28%), Positives = 44/99 (44%), Gaps = 10/99 (10%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVAR-------RIDRLENLKTS---LQ 761
L KV V G++ G G + +L GA V R DR E ++ + +
Sbjct: 4 KPLRGKVALVAGATRGAGRGIAVELGAAGATVYVTGRSTRARRSEYDRPETIEETAELVT 63
Query: 762 NAPGSIIVKKLDVTIENDVKKVVREVLAELGHIDILVNN 800
A G I ++D + V+ +V + E G +DILVN+
Sbjct: 64 AAGGRGIAVQVDHLVPEQVRALVERIDREQGRLDILVND 102
>gnl|CDD|223774 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar epimerases
[Cell envelope biogenesis, outer membrane / Carbohydrate
transport and metabolism].
Length = 275
Score = 39.5 bits (92), Expect = 0.006
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENL 756
I VTG++ +G +V++L+ G +V A R + L
Sbjct: 3 ILVTGATGFVGGAVVRELLARGHEVRAAVRNPEAAAAL 40
>gnl|CDD|187653 cd08950, KR_fFAS_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS), classical
(c)-like SDRs. KR domain of fungal-type fatty acid
synthase (FAS), type I. Fungal-type FAS is a
heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member, is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the Classical SDR and has partial
identity of the active site tetrad, but the upstream Asn
is replaced in KR by Met. As in other SDRs, there is a
glycine rich NAD-binding motif, but the pattern found in
KR does not match the classical SDRs, and is not
strictly conserved within this group. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 259
Score = 39.1 bits (92), Expect = 0.006
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 711 GNTLANKVIFVTGSSSG-IGEQLVKDLVTLGAKVVAVARRIDR 752
G + A KV VTG+ G IG ++V L+ GA V+ R
Sbjct: 2 GLSFAGKVALVTGAGPGSIGAEVVAGLLAGGATVIVTTSRFSH 44
>gnl|CDD|181609 PRK09009, PRK09009, C factor cell-cell signaling protein;
Provisional.
Length = 235
Score = 38.5 bits (90), Expect = 0.008
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 14/89 (15%)
Query: 719 IFVTGSSSGIGEQLVKDLVT--LGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
I + G S GIG+ +VK L+ A V A R ++ LDVT
Sbjct: 3 ILIVGGSGGIGKAMVKQLLERYPDATVHATYRH--------HKPDFQHDNVQWHALDVTD 54
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMY 805
E ++K++ + +D L+N G+++
Sbjct: 55 EAEIKQLSE----QFTQLDWLINCVGMLH 79
>gnl|CDD|182313 PRK10217, PRK10217, dTDP-glucose 4,6-dehydratase; Provisional.
Length = 355
Score = 38.9 bits (90), Expect = 0.010
Identities = 49/168 (29%), Positives = 71/168 (42%), Gaps = 33/168 (19%)
Query: 408 YEIDMIIHAAAFVNL---ILPYNALYKSNVLATKNLIE-----FSFLNKIKS----FHYV 455
++ D ++H AA ++ I A ++N++ T L+E ++ L + K FH++
Sbjct: 73 HQPDCVMHLAAESHVDRSIDGPAAFIETNIVGTYTLLEAARAYWNALTEDKKSAFRFHHI 132
Query: 456 STDSIYPSTSENFQEDYTVADFDDFMTTT------SGYGQSKIVSEYLVLN-AGQMGLPV 508
STD +Y DDF T T S Y SK S++LV GLP
Sbjct: 133 STDEVYGDLHST----------DDFFTETTPYAPSSPYSASKASSDHLVRAWLRTYGLPT 182
Query: 509 SIVRCGNIGGSLEF--KNWNLVDLNLYILKAITRLGYAPDI-DW-YLE 552
I C N G F K L+ LN K + G I DW Y+E
Sbjct: 183 LITNCSNNYGPYHFPEKLIPLMILNALAGKPLPVYGNGQQIRDWLYVE 230
>gnl|CDD|236443 PRK09274, PRK09274, peptide synthase; Provisional.
Length = 552
Score = 39.1 bits (92), Expect = 0.012
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 11/76 (14%)
Query: 23 AKRTPDKIAVVDHDGR---------SITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMER 73
A+ PD++AV GR ++F +LD +D + L G I VLM
Sbjct: 16 AQERPDQLAVAVPGGRGADGKLAYDELSFAELDARSDAIAHGLNAAG-IGRGMRAVLMVT 74
Query: 74 -CLEWTISYIAIHKAG 88
LE+ A+ KAG
Sbjct: 75 PSLEFFALTFALFKAG 90
>gnl|CDD|180666 PRK06710, PRK06710, long-chain-fatty-acid--CoA ligase; Validated.
Length = 563
Score = 38.9 bits (90), Expect = 0.013
Identities = 45/198 (22%), Positives = 78/198 (39%), Gaps = 8/198 (4%)
Query: 9 YDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVG 68
YD + LH A R P+K A+ G+ ITF + YL G G V
Sbjct: 21 YDIQ-PLHKYVEQMASRYPEKKAL-HFLGKDITFSVFHDKVKRFANYLQKLGVEKGDRVA 78
Query: 69 VLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERT 128
+++ C + I Y AGG + Y LE L D+ +++ R+
Sbjct: 79 IMLPNCPQAVIGYYGTLLAGGIVVQTNPLYTERELEYQLHDSGAKVILCLDLVFPRVTNV 138
Query: 129 SVPKVKLENDFLSKMISENEKFHNHV--PIAEEYRKNLVQNFESLHLSILKSSGKLNKEE 186
K+E+ +++ I++ F ++ P ++ + NLV L +S + KE
Sbjct: 139 Q-SATKIEHVIVTR-IADFLPFPKNLLYPFVQKKQSNLVVKVSESETIHLWNS--VEKEV 194
Query: 187 LPKLDSIAQIELDESMFQ 204
++ E D ++ Q
Sbjct: 195 NTGVEVPCDPENDLALLQ 212
>gnl|CDD|222146 pfam13460, NAD_binding_10, NADH(P)-binding.
Length = 182
Score = 37.3 bits (87), Expect = 0.016
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 16/84 (19%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
I V G++ G +LVK+L+ G +V A++R + APG V+K D+
Sbjct: 1 IAVIGATGKTGRRLVKELLARGHQVTALSRNPSKAP--------APGVTPVQK-DLFDLA 51
Query: 779 DVKKVVREVLAELGHIDILVNNAG 802
D+ + + V D +V+ G
Sbjct: 52 DLAEALAGV-------DAVVDAFG 68
>gnl|CDD|213326 cd12118, ttLC_FACS_AEE21_like, Fatty acyl-CoA synthetases similar
to LC-FACS from Thermus thermophiles and Arabidopsis.
This family includes fatty acyl-CoA synthetases that can
activate medium to long-chain fatty acids. These enzymes
catalyze the ATP-dependent acylation of fatty acids in a
two-step reaction. The carboxylate substrate first
reacts with ATP to form an acyl-adenylate intermediate,
which then reacts with CoA to produce an acyl-CoA ester.
Fatty acyl-CoA synthetases are responsible for fatty
acid degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family has been shown to catalyze
the long-chain fatty acid, myristoyl acid. Also included
in this family are acyl activating enzymes from
Arabidopsis, which contains a large number of proteins
from this family with up to 63 different genes, many of
which are uncharacterized.
Length = 520
Score = 38.0 bits (89), Expect = 0.021
Identities = 24/121 (19%), Positives = 48/121 (39%), Gaps = 6/121 (4%)
Query: 27 PDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHK 86
PD+ AVV D R T+++ + + + L G G V VL ++ +
Sbjct: 18 PDRTAVVYGD-RRYTYRETYDRCRRLASALSKLGIGKGDVVAVLAPNTPAMLEAHFGVPM 76
Query: 87 AGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE-----RTSVPKVKLENDFLS 141
AG +PL T + +L+ ++ ++ E++ E ++ + E +S
Sbjct: 77 AGAVLVPLNTRLDADDIAFILNHSEAKVLFVDQEFLSLAEEALALLSTKEIIDTEIIVIS 136
Query: 142 K 142
Sbjct: 137 P 137
>gnl|CDD|223952 COG1021, EntE, Peptide arylation enzymes [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 542
Score = 38.2 bits (89), Expect = 0.023
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 20 RNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTI 79
+ A R PD+IAV+D R +++ +LD+ D + L G G TV V + E+ I
Sbjct: 35 TDHAARYPDRIAVID-GERRLSYAELDQRADRLAAGLRRLGIKPGDTVLVQLPNVAEFYI 93
Query: 80 SYIAIHKAG 88
++ A+ + G
Sbjct: 94 TFFALLRLG 102
>gnl|CDD|180774 PRK06953, PRK06953, short chain dehydrogenase; Provisional.
Length = 222
Score = 37.0 bits (86), Expect = 0.030
Identities = 33/123 (26%), Positives = 56/123 (45%), Gaps = 10/123 (8%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTI 776
K + + G+S GIG + V+ G +V+A AR L L A G+ LDV
Sbjct: 2 KTVLIVGASRGIGREFVRQYRADGWRVIATARDAAALAAL-----QALGA-EALALDVAD 55
Query: 777 ENDVKKVVREVLAELGHIDILVNNAGVMYFTL--MEKYKLEEWNAMINVNIKGVLHCIGN 834
V + ++ E +D V AGV +E E+++A+++ N+ G + +
Sbjct: 56 PASVAGLAWKLDGE--ALDAAVYVAGVYGPRTEGVEPITREDFDAVMHTNVLGPMQLLPI 113
Query: 835 ILP 837
+LP
Sbjct: 114 LLP 116
>gnl|CDD|233807 TIGR02275, DHB_AMP_lig, 2,3-dihydroxybenzoate-AMP ligase.
Proteins in this family belong to the AMP-binding
enzyme family (pfam00501). Members activate
2,3-dihydroxybenzoate (DHB) by ligation of AMP from ATP
with the release of pyrophosphate; many are involved in
synthesis of siderophores such as enterobactin,
vibriobactin, vulnibactin, etc. The most closely
related proteine believed to differ in function
activates salicylate rather than DHB [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 526
Score = 37.5 bits (87), Expect = 0.032
Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 1/69 (1%)
Query: 20 RNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTI 79
R+QA R PD IA++ R ++++LD+ D + L G G T V + E+ I
Sbjct: 30 RDQAARYPDAIAIIC-GNRQWSYRELDQRADNLAAGLTKLGIKQGDTAVVQLPNIAEFYI 88
Query: 80 SYIAIHKAG 88
+ A+ K G
Sbjct: 89 VFFALLKLG 97
>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 = 37.3 bits (87), Expect = 0.033
Identities = 37/138 (26%), Positives = 55/138 (39%), Gaps = 35/138 (25%)
Query: 716 NKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ VTG+ G+G ++ LGA+V+AV R ++L+ LK D
Sbjct: 163 GDTVLVTGAGGGVGIHAIQLAKALGARVIAVTRSPEKLKILKE-----------LGADYV 211
Query: 776 I-----ENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
I DVKK LG D+++ G +EE +N + VL
Sbjct: 212 IDGSKFSEDVKK--------LGGADVVIELVG--------SPTIEESLRSLNKGGRLVL- 254
Query: 831 CIGNILPSMLHSRRPGHI 848
IGN+ P RPG +
Sbjct: 255 -IGNVTPD-PAPLRPGLL 270
>gnl|CDD|187673 cd09813, 3b-HSD-NSDHL-like_SDR_e, human NSDHL (NAD(P)H steroid
dehydrogenase-like protein)-like, extended (e) SDRs.
This subgroup includes human NSDHL and related proteins.
These proteins have the characteristic active site
tetrad of extended SDRs, and also have a close match to
their NAD(P)-binding motif. Human NSDHL is a
3beta-hydroxysteroid dehydrogenase (3 beta-HSD) which
functions in the cholesterol biosynthetic pathway. 3
beta-HSD catalyzes the oxidative conversion of delta 5-3
beta-hydroxysteroids to the delta 4-3-keto
configuration; this activity is essential for the
biosynthesis of all classes of hormonal steroids.
Mutations in the gene encoding NSDHL cause CHILD
syndrome (congenital hemidysplasia with ichthyosiform
nevus and limb defects), an X-linked dominant,
male-lethal trait. This subgroup also includes an
unusual bifunctional [3beta-hydroxysteroid dehydrogenase
(3b-HSD)/C-4 decarboxylase from Arabidopsis thaliana,
and Saccharomyces cerevisiae ERG26, a 3b-HSD/C-4
decarboxylase, involved in the synthesis of ergosterol,
the major sterol of yeast. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid sythase have
a GGXGXXG NAD(P)-binding motif and an altered active
site motif (YXXXN). Fungal type ketoacyl reductases have
a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 335
Score = 37.3 bits (87), Expect = 0.033
Identities = 41/183 (22%), Positives = 74/183 (40%), Gaps = 30/183 (16%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTL-FCPVRETPNKTLLQRLEDIMLKYHMSLDLNNY 379
+ L+ G +G+LG HL+++ L T+ +R T L +++H + DL +
Sbjct: 1 SCLVVGGSGFLGRHLVEQLLRRGNPTVHVFDIRPTFE--LDPSSSG-RVQFH-TGDLTD- 55
Query: 380 TDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKS-NVLATK 438
DL E +++ H A+ + + LY NV T+
Sbjct: 56 -------PQDL-----------EKAFNEKGPNVVFHTASPDHGS--NDDLYYKVNVQGTR 95
Query: 439 NLIEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLV 498
N+IE +K Y S+ S+ + + D ++ D Y ++K ++E LV
Sbjct: 96 NVIEACRKCGVKKLVYTSSASVVFNGQDIINGDESLPYPDKHQ---DAYNETKALAEKLV 152
Query: 499 LNA 501
L A
Sbjct: 153 LKA 155
>gnl|CDD|216283 pfam01073, 3Beta_HSD, 3-beta hydroxysteroid dehydrogenase/isomerase
family. The enzyme 3 beta-hydroxysteroid
dehydrogenase/5-ene-4-ene isomerase (3 beta-HSD)
catalyzes the oxidation and isomerisation of 5-ene-3
beta-hydroxypregnene and 5-ene-hydroxyandrostene steroid
precursors into the corresponding 4-ene-ketosteroids
necessary for the formation of all classes of steroid
hormones.
Length = 280
Score = 36.9 bits (86), Expect = 0.033
Identities = 23/98 (23%), Positives = 47/98 (47%), Gaps = 8/98 (8%)
Query: 409 EIDMIIHAAAFVNL--ILPYNALYKSNVLATKNLIEFSFLNKIKSFHYVST-DSIYPSTS 465
D++IH AA +++ + + K NV T+N+++ ++ Y S+ + + P++
Sbjct: 66 GSDVVIHTAAIIDVFGKAYRDTIMKVNVKGTQNVLDACVKAGVRVLVYTSSMEVVGPNS- 124
Query: 466 ENFQEDYTVADFDDFMTTTSG--YGQSKIVSEYLVLNA 501
+ + D +T Y +SK ++E LVL A
Sbjct: 125 --YGQPIVNGDETTPYESTHQDPYPESKALAEKLVLKA 160
>gnl|CDD|213271 cd05903, CHC_CoA_lg, Cyclohexanecarboxylate-CoA ligase (also called
cyclohex-1-ene-1-carboxylate:CoA ligase).
Cyclohexanecarboxylate-CoA ligase activates the
aliphatic ring compound, cyclohexanecarboxylate, for
degradation. It catalyzes the synthesis of
cyclohexanecarboxylate-CoA thioesters in a two-step
reaction involving the formation of
cyclohexanecarboxylate-AMP anhydride, followed by the
nucleophilic substitution of AMP by CoA.
Length = 437
Score = 37.2 bits (87), Expect = 0.035
Identities = 18/83 (21%), Positives = 34/83 (40%)
Query: 39 SITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSY 98
+T+ +LD+ D + L G G V + E+ + Y+A + G P+ Y
Sbjct: 1 RLTYGELDDAADRLAAALAELGVRPGDVVAFQLPNWWEFVVVYLACARIGAVINPIVPIY 60
Query: 99 PPALLESVLDDAKPSIVITKGEY 121
L +L A+ ++ E+
Sbjct: 61 RERELGFILRQARARVLFVPDEF 83
>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
Length = 275
Score = 36.9 bits (86), Expect = 0.036
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 715 ANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDV 774
+V+ V G+ GIG+ + + V G KV+ + LE +L+ A + +++DV
Sbjct: 1 MKEVVVVIGAG-GIGQAIARR-VGAGKKVLLADYNEENLEAAAKTLREAGFDVSTQEVDV 58
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGV 803
+ VK + LG + LV+ AGV
Sbjct: 59 SSRESVKALAATA-QTLGPVTGLVHTAGV 86
>gnl|CDD|200381 TIGR04130, FnlA, UDP-N-acetylglucosamine
4,6-dehydratase/5-epimerase. The FnlA enzyme is the
first step in the biosynthesis of UDP-FucNAc from
UDP-GlcNAc in E. coli (along with FnlB and FnlC). The
proteins identified by this model include FnlA homologs
in the O-antigen clusters of O4, O25, O26, O29 (Shigella
D11), O118, O145 and O172 serotype strains, all of which
produce O-antigens containing FucNAc (or the further
modified FucNAm). A homolog from Pseudomonas aerugiosa
serotype O11, WbjB, also involved in the biosynthesis of
UDP-FucNAc has been characterized and is now believed to
carry out both the initial 4,6-dehydratase reaction and
the subsequent epimerization of the resulting methyl
group at C-5. A phylogenetic tree of related sequences
shows a distinct clade of enzymes involved in the
biosynthesis of UDP-QuiNAc (Qui=qinovosamine). This
clade appears to be descendant from the common ancestor
of the Pseudomonas and E. coli fucose-biosynthesis
enzymes. It has been hypothesized that the first step in
the biosynthesis of these two compounds may be the same,
and thus that these enzymes all have the same function.
At present, lacking sufficient confirmation of this, the
current model trusted cutoff only covers the tree
segment surrounding the E. coli genes. The clades
containing the Pseudomonas and QuiNAc biosynthesis
enzymes score above the noise cutoff. Immediately below
the noise cutoff are enzymes involved in the
biosynthesis of UDP-RhaNAc (Rha=rhamnose), which again
may or may not produce the same product.
Length = 337
Score = 36.9 bits (85), Expect = 0.038
Identities = 39/147 (26%), Positives = 67/147 (45%), Gaps = 29/147 (19%)
Query: 322 VLLTGVTGYLGIHLLQKFL-VDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
+L+TG TG G +L++FL D K E + ++ + LK+++ D+ +Y
Sbjct: 7 LLITGGTGSFGNAVLRRFLDTDIKEIRIFSRDEKKQDDMRKKYNNSKLKFYIG-DVRDYR 65
Query: 381 DRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNL----ILPYNALYKSNVLA 436
L + + +D I HAAA + P A+ K+NVL
Sbjct: 66 SIL---------------------NATRGVDFIYHAAALKQVPSCEFHPMEAV-KTNVLG 103
Query: 437 TKNLIEFSFLNKIKSFHYVSTD-SIYP 462
T+N++E + N +K +STD ++YP
Sbjct: 104 TENVLEAAIANGVKRVVCLSTDKAVYP 130
>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 = 36.6 bits (85), Expect = 0.042
Identities = 24/99 (24%), Positives = 42/99 (42%), Gaps = 9/99 (9%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTL-----GAKVVAVARRIDRLE----NLKTSLQNAPGSI 767
KV+ VTG++SG+G + + L+ ++ R + R E L S +A
Sbjct: 2 KVVLVTGANSGLGLAICERLLAEDDENPELTLILACRNLQRAEAACRALLASHPDARVVF 61
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVNNAGVMYF 806
+D++ V +E+ +D L NAG+M
Sbjct: 62 DYVLVDLSNMVSVFAAAKELKKRYPRLDYLYLNAGIMPN 100
>gnl|CDD|233803 TIGR02262, benz_CoA_lig, benzoate-CoA ligase family. Characterized
members of this protein family include benzoate-CoA
ligase, 4-hydroxybenzoate-CoA ligase,
2-aminobenzoate-CoA ligase, etc. Members are related to
fatty acid and acetate CoA ligases.
Length = 508
Score = 37.1 bits (86), Expect = 0.044
Identities = 27/115 (23%), Positives = 52/115 (45%), Gaps = 3/115 (2%)
Query: 8 DYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTV 67
Y+A A + RN + K A +D D S+++ +L+ +G L G V
Sbjct: 2 KYNA--AEDLLDRNVVEGRGGKTAFID-DISSLSYGELEAQVRRLGAALRRLGVKREERV 58
Query: 68 GVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYM 122
+LM +++ I+++ +AG + L T +L+D++ +V GE +
Sbjct: 59 LLLMLDGVDFPIAFLGAIRAGIVPVALNTLLTADDYAYMLEDSRARVVFVSGELL 113
>gnl|CDD|235624 PRK05850, PRK05850, acyl-CoA synthetase; Validated.
Length = 578
Score = 37.2 bits (87), Expect = 0.047
Identities = 39/141 (27%), Positives = 58/141 (41%), Gaps = 20/141 (14%)
Query: 18 MFRNQAKRTPDKIAV------VDHDGR--SITFKQLDEWTDIVGTYLINQGCIVGSTVGV 69
+ R +A PD A D G ++T+ QL T V L G G +
Sbjct: 6 LLRERASLQPDDAAFTFIDYEQDPAGVAETLTWSQLYRRTLNVAEELRRHGS-TGDRAVI 64
Query: 70 LMERCLEWTISYIAIHKAGGGYLPLETSYPPALLE---SVLDDAKPSIVITK-------G 119
L + LE+ ++++ +AG +PL A E +VL D PS+V+T
Sbjct: 65 LAPQGLEYIVAFLGALQAGLIAVPLSVPQGGAHDERVSAVLRDTSPSVVLTTSAVVDDVT 124
Query: 120 EYMDRLERTSVPKVKLENDFL 140
EY+ S P V +E D L
Sbjct: 125 EYVAPQPGQSAPPV-IEVDLL 144
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 36.4 bits (85), Expect = 0.050
Identities = 50/195 (25%), Positives = 83/195 (42%), Gaps = 23/195 (11%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVK--KLDV 774
K I + G++S I + GA++ AR ++RLE L L+ A G++ V +LD+
Sbjct: 2 KKILIIGATSDIARACARRYAAAGARLYLAARDVERLERLADDLR-ARGAVAVSTHELDI 60
Query: 775 TIENDVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLE-EWNA---MINVNIKGVLH 830
+ + A DI++ G TL ++ E + N +G +
Sbjct: 61 LDTASHAAFLDSLPALP---DIVLIAVG----TLGDQAACEADPALALREFRTNFEGPI- 112
Query: 831 CIGNILPSMLHSRRPGHILNISSNAGVRPFAGLAVYTGTK----YFIEGISGALRQEVSD 886
+ +L + +R G I+ ISS AG R A VY K F+ G LR +
Sbjct: 113 ALLTLLANRFEARGSGTIVGISSVAGDRGRASNYVYGSAKAALTAFLSG----LRNRLFK 168
Query: 887 RNIKVTCIQAGDVKT 901
+ V ++ G V+T
Sbjct: 169 SGVHVLTVKPGFVRT 183
>gnl|CDD|187572 cd05262, SDR_a7, atypical (a) SDRs, subgroup 7. This subgroup
contains atypical SDRs of unknown function. Members of
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that matches the extended SDRs, TGXXGXXG, but
lacks the characteristic active site residues of the
SDRs. This subgroup has basic residues (HXXXR) in place
of the active site motif YXXXK, these may have a
catalytic role. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 291
Score = 36.2 bits (84), Expect = 0.057
Identities = 14/30 (46%), Positives = 22/30 (73%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVAR 748
+FVTG++ IG +V++LV G +VV +AR
Sbjct: 3 VFVTGATGFIGSAVVRELVAAGHEVVGLAR 32
>gnl|CDD|187558 cd05247, UDP_G4E_1_SDR_e, UDP-glucose 4 epimerase, subgroup 1,
extended (e) SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. This subgroup has the
characteristic active site tetrad and NAD-binding motif
of the extended SDRs. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 323
Score = 36.4 bits (85), Expect = 0.066
Identities = 52/212 (24%), Positives = 90/212 (42%), Gaps = 62/212 (29%)
Query: 321 NVLLTGVTGYLGIHLLQKFL--------VDTKCTLFCPVRETPNKTLLQRLEDIMLKYHM 372
VL+TG GY+G H + + L +D ++ L R+E I ++++
Sbjct: 1 KVLVTGGAGYIGSHTVVELLEAGYDVVVLDNLSN--------GHREALPRIEKIRIEFY- 51
Query: 373 SLDLNNYTDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAF------VNLILPY 426
D+ DR L K V ++ID +IH AA V L Y
Sbjct: 52 EGDIR---DRAALDK----------------VFAEHKIDAVIHFAALKAVGESVQKPLKY 92
Query: 427 NALYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIY--PST---SENFQEDYTVADFDDFM 481
Y +NV+ T NL+E + +K+F + S+ ++Y P T +E +
Sbjct: 93 ---YDNNVVGTLNLLEAMRAHGVKNFVFSSSAAVYGEPETVPITEEAP-----------L 138
Query: 482 TTTSGYGQSKIVSEYLVLNAGQM-GLPVSIVR 512
T+ YG++K++ E ++ + + GL I+R
Sbjct: 139 NPTNPYGRTKLMVEQILRDLAKAPGLNYVILR 170
>gnl|CDD|235279 PRK04319, PRK04319, acetyl-CoA synthetase; Provisional.
Length = 570
Score = 36.4 bits (85), Expect = 0.069
Identities = 25/110 (22%), Positives = 46/110 (41%), Gaps = 3/110 (2%)
Query: 28 DKIA---VVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAI 84
DK+A + T+K+L E ++ L G G V + M R E + +
Sbjct: 59 DKVALRYLDASRKEKYTYKELKELSNKFANVLKELGVEKGDRVFIFMPRIPELYFALLGA 118
Query: 85 HKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVK 134
K G PL ++ + L+D++ ++IT ++R +P +K
Sbjct: 119 LKNGAIVGPLFEAFMEEAVRDRLEDSEAKVLITTPALLERKPADDLPSLK 168
>gnl|CDD|176206 cd08244, MDR_enoyl_red, Possible enoyl reductase. Member
identified as possible enoyl reductase of the MDR
family. 2-enoyl thioester reductase (ETR) catalyzes the
NADPH-dependent dependent conversion of trans-2-enoyl
acyl carrier protein/coenzyme A (ACP/CoA) to
acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl
thioester reductase activity has been linked in Candida
tropicalis as essential in maintaining mitiochondrial
respiratory function. This ETR family is a part of the
medium chain dehydrogenase/reductase family, but lack
the zinc coordination sites characteristic of the
alcohol dehydrogenases in this family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically
form dimers (typically higher plants, mammals) or
tetramers (yeast, bacteria), and have 2 tightly bound
zinc atoms per subunit, a catalytic zinc at the active
site, and a structural zinc in a lobe of the catalytic
domain. NAD(H) binding occurs in the cleft between the
catalytic and coenzyme-binding domains at the active
site, and coenzyme binding induces a conformational
closing of this cleft. Coenzyme binding typically
precedes and contributes to substrate binding. Candida
tropicalis enoyl thioester reductase (Etr1p) catalyzes
the NADPH-dependent reduction of trans-2-enoyl
thioesters in mitochondrial fatty acid synthesis. Etr1p
forms homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 324
Score = 36.2 bits (84), Expect = 0.079
Identities = 12/45 (26%), Positives = 18/45 (40%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLE 754
V+ VT ++ G+G LV+ GA VV A +
Sbjct: 137 LATLTPGDVVLVTAAAGGLGSLLVQLAKAAGATVVGAAGGPAKTA 181
>gnl|CDD|181162 PRK07904, PRK07904, short chain dehydrogenase; Provisional.
Length = 253
Score = 35.8 bits (83), Expect = 0.083
Identities = 28/97 (28%), Positives = 49/97 (50%), Gaps = 11/97 (11%)
Query: 846 GHILNISSNAGVRPFAGLAVYTGTKY----FIEGISGALRQEVSDRNIKVTCIQAGDVKT 901
G I+ +SS AG R VY TK F G+ ALR + ++V ++ G V+T
Sbjct: 139 GQIIAMSSVAGERVRRSNFVYGSTKAGLDGFYLGLGEALR----EYGVRVLVVRPGQVRT 194
Query: 902 ELLSHSTDRDV-VDKYDISKAVPVLTTKEISQSIIFA 937
+ +H+ + + VDK D++K +T + +++A
Sbjct: 195 RMSAHAKEAPLTVDKEDVAKL--AVTAVAKGKELVWA 229
>gnl|CDD|235719 PRK06155, PRK06155, crotonobetaine/carnitine-CoA ligase;
Provisional.
Length = 542
Score = 36.3 bits (84), Expect = 0.092
Identities = 24/116 (20%), Positives = 47/116 (40%), Gaps = 1/116 (0%)
Query: 11 AEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVL 70
+E L M QA+R PD+ +V G T+ + L G G V ++
Sbjct: 19 SERTLPAMLARQAERYPDRPLLVF-GGTRWTYAEAARAAAAAAHALAAAGVKRGDRVALM 77
Query: 71 MERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLE 126
+E+ ++ G +P+ T+ LE +L ++ +++ + + LE
Sbjct: 78 CGNRIEFLDVFLGCAWLGAIAVPINTALRGPQLEHILRNSGARLLVVEAALLAALE 133
>gnl|CDD|215072 PLN00141, PLN00141, Tic62-NAD(P)-related group II protein;
Provisional.
Length = 251
Score = 35.6 bits (82), Expect = 0.099
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 4/59 (6%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
K +FV G++ G+++V+ L+ G V A R +D+ KTSL P IV+ DVT
Sbjct: 18 KTVFVAGATGRTGKRIVEQLLAKGFAVKAGVRDVDK---AKTSLPQDPSLQIVRA-DVT 72
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 35.8 bits (83), Expect = 0.10
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 15/87 (17%)
Query: 719 IFVTGSSSGIGE---QLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ V G++ G+G QL K L GA VVAV ++LE LK + +
Sbjct: 146 VLVHGAAGGVGSAAIQLAKAL---GATVVAVVSSSEKLELLK--------ELGADHVINY 194
Query: 776 IENDVKKVVREVLAELGHIDILVNNAG 802
E D + VRE+ G +D++++ G
Sbjct: 195 REEDFVEQVRELTGGKG-VDVVLDTVG 220
>gnl|CDD|178298 PLN02695, PLN02695, GDP-D-mannose-3',5'-epimerase.
Length = 370
Score = 35.6 bits (82), Expect = 0.11
Identities = 29/103 (28%), Positives = 44/103 (42%), Gaps = 21/103 (20%)
Query: 433 NVLATKNLIEFSFLNKIKSFHYVSTDSIYPSTSENFQEDYTV---------ADFDDFMTT 483
N + + N++E + +N +K F Y S+ IYP E Q + V A+ D
Sbjct: 113 NTMISFNMLEAARINGVKRFFYASSACIYP---EFKQLETNVSLKESDAWPAEPQD---- 165
Query: 484 TSGYGQSKIVSEYLVLNAGQ-MGLPVSIVRCGNIGGSLEFKNW 525
YG K+ +E L + + G+ I R NI G F W
Sbjct: 166 --AYGLEKLATEELCKHYTKDFGIECRIGRFHNIYGP--FGTW 204
>gnl|CDD|235625 PRK05852, PRK05852, acyl-CoA synthetase; Validated.
Length = 534
Score = 35.6 bits (82), Expect = 0.13
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 23 AKRTPDKIAVVDHDGR-SITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISY 81
A R P+ A+V R +I+++ L D + L G + G V + M E+ ++
Sbjct: 26 ATRLPEAPALVVTADRIAISYRDLARLVDDLAGQLTRSGLLPGDRVALRMGSNAEFVVAL 85
Query: 82 IAIHKAGGGYLPLETSYPPA 101
+A +A +PL+ + P A
Sbjct: 86 LAASRADLVVVPLDPALPIA 105
>gnl|CDD|213321 cd05974, MACS_like_1, Uncharacterized subfamily of medium-chain
acyl-CoA synthetase (MACS). MACS catalyzes the two-step
activation of medium chain fatty acids (containing 4-12
carbons). The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. MACS
enzymes are localized to mitochondria.
Length = 433
Score = 35.4 bits (82), Expect = 0.13
Identities = 18/78 (23%), Positives = 32/78 (41%)
Query: 40 ITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYP 99
++ QL + ++ V +L G G V +++ E + +A K G +P T
Sbjct: 1 YSYAQLSKRSNRVANFLRKHGVRRGDRVLLMLPNVPELWEAMLAAIKLGAVVIPATTLLT 60
Query: 100 PALLESVLDDAKPSIVIT 117
PA L KP ++
Sbjct: 61 PADLRDRFSRGKPKAIVA 78
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like proteins,
NMRa-like, atypical (a) SDRs. TMR is an atypical
NADP-binding protein of the SDR family. It lacks the
active site residues of the SDRs but has a glycine rich
NAD(P)-binding motif that matches the extended SDRs.
Proteins in this subgroup however, are more similar in
length to the classical SDRs. TMR was identified as a
reducer of triphenylmethane dyes, important
environmental pollutants. This subgroup also includes
Escherichia coli NADPH-dependent quinine oxidoreductase
(QOR2), which catalyzes two-electron reduction of
quinone; but is unlikely to play a major role in
protecting against quinone cytotoxicity. Atypical SDRs
are distinct from classical SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 272
Score = 34.9 bits (81), Expect = 0.13
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
I VTG++ +G +V+ L+ A VVA+ R N + + A + V++ D
Sbjct: 1 ILVTGATGKLGTAVVELLLAKVASVVALVR------NPEKAKAFAADGVEVRQGD 49
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 35.6 bits (82), Expect = 0.14
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 711 GNTLANKVIFVTGSSSG-IGEQLVKDLVTLGAKVVAVARRIDR 752
G T +KV VTG+S G I +V L+ GA V+A R+
Sbjct: 391 GGTYGDKVALVTGASKGSIAAAVVARLLAGGATVIATTSRLSE 433
>gnl|CDD|236363 PRK09029, PRK09029, O-succinylbenzoic acid--CoA ligase;
Provisional.
Length = 458
Score = 35.2 bits (82), Expect = 0.15
Identities = 26/92 (28%), Positives = 46/92 (50%), Gaps = 5/92 (5%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A+ P IA+ +D +T++QL D + QG + GS V + + E ++Y+
Sbjct: 13 AQVRPQAIALRLNDEV-LTWQQLCARIDQLAAGFAQQGVVEGSGVALRGKNSPETLLAYL 71
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSI 114
A+ + G LPL P L + +L++ PS+
Sbjct: 72 ALLQCGARVLPLN----PQLPQPLLEELLPSL 99
>gnl|CDD|235731 PRK06188, PRK06188, acyl-CoA synthetase; Validated.
Length = 524
Score = 35.3 bits (82), Expect = 0.15
Identities = 31/120 (25%), Positives = 48/120 (40%), Gaps = 16/120 (13%)
Query: 24 KRTPDKIAVVDHDGRSITFKQLDEWTDIVGTY---LINQGCIVGSTVGVLMERCLEWTIS 80
KR PD+ A+V +T+ QL D + Y G G V +L E ++
Sbjct: 23 KRYPDRPALVL-GDTRLTYGQL---ADRISRYIQAFEALGLGTGDAVALLSLNRPEVLMA 78
Query: 81 YIAIHKAGGGYLPLETSYPPALLES---VLDDAKPSI-VITKGEYMDRLE--RTSVPKVK 134
A AG L +P L+ VL+DA S ++ +++R VP +K
Sbjct: 79 IGAAQLAGLRRTAL---HPLGSLDDHAYVLEDAGISTLIVDPAPFVERALALLARVPSLK 135
>gnl|CDD|187563 cd05253, UDP_GE_SDE_e, UDP glucuronic acid epimerase, extended (e)
SDRs. This subgroup contains UDP-D-glucuronic acid
4-epimerase, an extended SDR, which catalyzes the
conversion of UDP-alpha-D-glucuronic acid to
UDP-alpha-D-galacturonic acid. This group has the SDR's
canonical catalytic tetrad and the TGxxGxxG NAD-binding
motif of the extended SDRs. Extended SDRs are distinct
from classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 332
Score = 35.0 bits (81), Expect = 0.15
Identities = 39/158 (24%), Positives = 66/158 (41%), Gaps = 45/158 (28%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLD-LNNY 379
+L+TG G++G H+ ++ LL+R ++++ +D LN+Y
Sbjct: 2 KILVTGAAGFIGFHVAKR--------------------LLERGDEVV-----GIDNLNDY 36
Query: 380 TDRLILVKSDLSLEMLGLKNQDEYVSL-------------SYEIDMIIH--AAAFVNLIL 424
D + +K LE+LG ++V +E D +IH A A V L
Sbjct: 37 YD--VRLKEA-RLELLGKSGGFKFVKGDLEDREALRRLFKDHEFDAVIHLAAQAGVRYSL 93
Query: 425 PYNALY-KSNVLATKNLIEFSFLNKIKSFHYVSTDSIY 461
Y SN++ NL+E +K Y S+ S+Y
Sbjct: 94 ENPHAYVDSNIVGFLNLLELCRHFGVKHLVYASSSSVY 131
Score = 31.5 bits (72), Expect = 2.0
Identities = 38/137 (27%), Positives = 57/137 (41%), Gaps = 33/137 (24%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVA---------VARRIDRLENLKTSLQNAPGSI 767
I VTG++ IG + K L+ G +VV V + RLE L + G
Sbjct: 1 MKILVTGAAGFIGFHVAKRLLERGDEVVGIDNLNDYYDVRLKEARLE----LLGKSGGFK 56
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILVN---NAGVMYFTLMEKYKLEEWNAMINVN 824
V K D+ D + + R L + D +++ AGV +Y LE +A ++ N
Sbjct: 57 FV-KGDL---EDREALRR--LFKDHEFDAVIHLAAQAGV-------RYSLENPHAYVDSN 103
Query: 825 IKGVLHCIGNILPSMLH 841
I G L N+L H
Sbjct: 104 IVGFL----NLLELCRH 116
>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 = 34.7 bits (80), Expect = 0.18
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 711 GNTLANKVIFVTGSSSGIGE---QLVKDLVTLGAKVVAVARRIDRLENL 756
G L + + VTG+S G+G QL GA VVAV R E L
Sbjct: 128 GGPLLGRRVLVTGASGGVGRFAVQLAA---LAGAHVVAVVGSPARAEGL 173
>gnl|CDD|213298 cd05932, LC_FACS_bac, Bacterial long-chain fatty acid CoA
synthetase (LC-FACS), including Marinobacter
hydrocarbonoclasticus isoprenoid Coenzyme A synthetase.
The members of this family are bacterial long-chain
fatty acid CoA synthetase. Marinobacter
hydrocarbonoclasticus isoprenoid Coenzyme A synthetase
in this family is involved in the synthesis of
isoprenoid wax ester storage compounds when grown on
phytol as the sole carbon source. LC-FACS catalyzes the
formation of fatty acyl-CoA in a two-step reaction: the
formation of a fatty acyl-AMP molecule as an
intermediate, and the formation of a fatty acyl-CoA.
Free fatty acids must be "activated" to their CoA
thioesters before participating in most catabolic and
anabolic reactions.
Length = 504
Score = 34.9 bits (81), Expect = 0.21
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 38 RSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETS 97
T+ Q+ + + L + G G + +L + C EW I+ +AI AG +PL
Sbjct: 5 HEYTWAQVADQARRIAAALQSLGLEPGDRIAILSKNCAEWIIADLAIWMAGHVSVPL--- 61
Query: 98 YPPALLESV 106
YP E++
Sbjct: 62 YPTLTAETI 70
>gnl|CDD|236121 PRK07868, PRK07868, acyl-CoA synthetase; Validated.
Length = 994
Score = 35.1 bits (81), Expect = 0.21
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 22 QAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLME 72
QA+ P ++ DGR T++ ++ + V LI G G VGVLME
Sbjct: 456 QARDAPKGEFLL-FDGRVHTYEAVNRRINNVVRGLIAVGVRQGDRVGVLME 505
>gnl|CDD|187551 cd05240, UDP_G4E_3_SDR_e, UDP-glucose 4 epimerase (G4E), subgroup
3, extended (e) SDRs. Members of this bacterial
subgroup are identified as possible sugar epimerases,
such as UDP-glucose 4 epimerase. However, while the
NAD(P)-binding motif is fairly well conserved, not all
members retain the canonical active site tetrad of the
extended SDRs. UDP-glucose 4 epimerase (aka
UDP-galactose-4-epimerase), is a homodimeric extended
SDR. It catalyzes the NAD-dependent conversion of
UDP-galactose to UDP-glucose, the final step in Leloir
galactose synthesis. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 306
Score = 34.7 bits (80), Expect = 0.22
Identities = 36/204 (17%), Positives = 71/204 (34%), Gaps = 40/204 (19%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKC--TLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNY 379
+L+TG G LG L ++ + R P ++E Y LD+ +
Sbjct: 1 ILVTGAAGGLGRLLARRLAASPRVIGVDGLDRRRPPGSP--PKVE-----YV-RLDIRDP 52
Query: 380 TDRLILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILPYNALYKSNVLATKN 439
+ + E D ++H A ++ ++ NV T+N
Sbjct: 53 AAADVFRE--------------------READAVVHLAFILDPPRDGAERHRINVDGTQN 92
Query: 440 LIEFSFLNKIKSFHYVSTDSIYPSTSEN---FQEDYTVADFDDFMTTTSGYGQSKIVSEY 496
+++ + S+ ++Y + +N ED + +F Y + K E
Sbjct: 93 VLDACAAAGVPRVVVTSSVAVYGAHPDNPAPLTEDAPLRGSPEF-----AYSRDKAEVEQ 147
Query: 497 LVLNAGQM--GLPVSIVRCGNIGG 518
L+ + L V+++R I G
Sbjct: 148 LLAEFRRRHPELNVTVLRPATILG 171
>gnl|CDD|178748 PLN03209, PLN03209, translocon at the inner envelope of chloroplast
subunit 62; Provisional.
Length = 576
Score = 34.9 bits (80), Expect = 0.24
Identities = 25/91 (27%), Positives = 52/91 (57%), Gaps = 6/91 (6%)
Query: 712 NTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQ----NAPGSI 767
+T + FV G++ +G + V++L+ LG +V A R R E+L S++ + G+
Sbjct: 76 DTKDEDLAFVAGATGKVGSRTVRELLKLGFRVRAGVRSAQRAESLVQSVKQMKLDVEGTQ 135
Query: 768 IVKKLDVTIENDVKKVVREVLAELGHIDILV 798
V+KL++ +E D++K ++ LG+ +++
Sbjct: 136 PVEKLEI-VECDLEK-PDQIGPALGNASVVI 164
>gnl|CDD|224012 COG1087, GalE, UDP-glucose 4-epimerase [Cell envelope biogenesis,
outer membrane].
Length = 329
Score = 34.5 bits (80), Expect = 0.24
Identities = 39/148 (26%), Positives = 58/148 (39%), Gaps = 33/148 (22%)
Query: 408 YEIDMIIHAAAF------VNLILPYNALYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIY 461
+ID ++H AA V L Y Y +NV+ T NLIE +K F + ST ++Y
Sbjct: 66 NKIDAVVHFAASISVGESVQNPLKY---YDNNVVGTLNLIEAMLQTGVKKFIFSSTAAVY 122
Query: 462 --PST---SENFQEDYTVADFDDFMTTTSGYGQSKIVSEYLVLNAGQM--GLPVSIVRCG 514
P+T SE + + YG+SK++SE +L V I+R
Sbjct: 123 GEPTTSPISETSP-----------LAPINPYGRSKLMSEE-ILRDAAKANPFKVVILRYF 170
Query: 515 NIGG---SLEFKNWNLVDLNL--YILKA 537
N+ G L +A
Sbjct: 171 NVAGACPDGTLGQRYPGATLLIPVAAEA 198
>gnl|CDD|236803 PRK10946, entE, enterobactin synthase subunit E; Provisional.
Length = 536
Score = 34.6 bits (80), Expect = 0.26
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 25 RTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAI 84
D IAV+ + R ++++L++ +D + L QG G T V + E+ I++ A+
Sbjct: 35 AASDAIAVICGE-RQFSYRELNQASDNLACSLRRQGIKPGDTALVQLGNVAEFYITFFAL 93
Query: 85 HKAG 88
K G
Sbjct: 94 LKLG 97
>gnl|CDD|213306 cd05940, FATP_FACS, Fatty acid transport proteins (FATP) play
dual roles as fatty acid transporters and its
activation enzymes. Fatty acid transport protein
(FATP) transports long-chain or very-long-chain fatty
acids across the plasma membrane. FATPs also have fatty
acid CoA synthetase activity, thus playing dual roles
as fatty acid transporters and its activation enzymes.
At least five copies of FATPs are identified in
mammalian cells. This family also includes prokaryotic
FATPs. FATPs are the key players in the trafficking of
exogenous fatty acids into the cell and in
intracellular fatty acid homeostasis.
Length = 444
Score = 34.5 bits (80), Expect = 0.30
Identities = 13/52 (25%), Positives = 26/52 (50%)
Query: 37 GRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAG 88
R +++ + + W + L G G V +LME E+ ++++A+ K G
Sbjct: 1 DRRLSYAEFNAWANRYAHALRALGVKKGDVVALLMENRPEYLLAWLALAKLG 52
>gnl|CDD|181546 PRK08751, PRK08751, putative long-chain fatty acyl CoA ligase;
Provisional.
Length = 560
Score = 34.5 bits (79), Expect = 0.30
Identities = 20/81 (24%), Positives = 44/81 (54%), Gaps = 1/81 (1%)
Query: 37 GRSITFKQLDEWTDIVGTYLINQGCIV-GSTVGVLMERCLEWTISYIAIHKAGGGYLPLE 95
G++IT+++ D+ + YL+ + + G V ++M CL++ I+ + +AG + +
Sbjct: 48 GKTITYREADQLVEQFAAYLLGELQLKKGDRVALMMPNCLQYPIATFGVLRAGLTVVNVN 107
Query: 96 TSYPPALLESVLDDAKPSIVI 116
Y P L+ L D+ S+++
Sbjct: 108 PLYTPRELKHQLIDSGASVLV 128
>gnl|CDD|187570 cd05260, GDP_MD_SDR_e, GDP-mannose 4,6 dehydratase, extended (e)
SDRs. GDP-mannose 4,6 dehydratase, a homodimeric SDR,
catalyzes the NADP(H)-dependent conversion of
GDP-(D)-mannose to GDP-4-keto, 6-deoxy-(D)-mannose in
the fucose biosynthesis pathway. These proteins have the
canonical active site triad and NAD-binding pattern,
however the active site Asn is often missing and may be
substituted with Asp. A Glu residue has been identified
as an important active site base. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 316
Score = 33.7 bits (78), Expect = 0.35
Identities = 48/205 (23%), Positives = 75/205 (36%), Gaps = 38/205 (18%)
Query: 321 NVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYT 380
L+TG+TG G + L +FL++ + VR R L +N
Sbjct: 1 RALITGITGQDGSY-LAEFLLEKGYEVHGIVR---------RSSSFNTDRIDHLYINK-- 48
Query: 381 DRLILVKSDL----SLEMLGLKNQDEYVSLSYEIDMIIHAAA--FVNL--ILPYNALYKS 432
DR+ L DL SL K + + I H AA V + P +
Sbjct: 49 DRITLHYGDLTDSSSLRRAIEKVRPDE---------IYHLAAQSHVKVSFDDPEY-TAEV 98
Query: 433 NVLATKNLIEFSFLNKIKS-FHYVSTDSIYPSTSENFQEDYTVADFDDFMTTTSGYGQSK 491
N + T NL+E + + + F+ S+ Y E Q + T S Y SK
Sbjct: 99 NAVGTLNLLEAIRILGLDARFYQASSSEEYGKVQELPQSETTP------FRPRSPYAVSK 152
Query: 492 IVSEYLVLNAGQ-MGLPVSIVRCGN 515
+ ++++ N + GL R N
Sbjct: 153 LYADWITRNYREAYGLFAVNGRLFN 177
>gnl|CDD|213293 cd05927, LC-FACS_euk, Eukaryotic long-chain fatty acid CoA
synthetase (LC-FACS). The members of this family are
eukaryotic fatty acid CoA synthetases that activate
fatty acids with chain lengths of 12 to 20. LC-FACS
catalyzes the formation of fatty acyl-CoA in a two-step
reaction: the formation of a fatty acyl-AMP molecule as
an intermediate, and the formation of a fatty acyl-CoA.
This is a required step before free fatty acids can
participate in most catabolic and anabolic reactions.
Organisms tend to have multiple isoforms of LC-FACS
genes with multiple splice variants. For example, nine
genes are found in Arabidopsis and six genes are
expressed in mammalian cells.
Length = 539
Score = 34.1 bits (79), Expect = 0.39
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 40 ITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPL-ETSY 98
I++K+++E +G+ L G G +G+ E EW I+ A +PL +T
Sbjct: 6 ISYKEVEERALNIGSGLRALGLKPGDKIGIFAENRPEWIITEQACFSQSLVIVPLYDTLG 65
Query: 99 PPALLESVLDDAKPSIVIT 117
A +E +L++ + SIV
Sbjct: 66 EEA-IEYILNETEISIVFC 83
>gnl|CDD|180988 PRK07470, PRK07470, acyl-CoA synthetase; Validated.
Length = 528
Score = 34.2 bits (79), Expect = 0.39
Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 1/79 (1%)
Query: 15 LHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERC 74
L + R A+R PD+IA+V RS T++++D D + L +G G + V C
Sbjct: 9 LAHFLRQAARRFPDRIALV-WGDRSWTWREIDARVDALAAALAARGVRKGDRILVHSRNC 67
Query: 75 LEWTISYIAIHKAGGGYLP 93
+ S A + G ++P
Sbjct: 68 NQMFESMFAAFRLGAVWVP 86
>gnl|CDD|213305 cd05939, hsFATP4_like, Fatty acid transport proteins (FATP),
including FATP4 and FATP1, and similar proteins. Fatty
acid transport protein (FATP) transports long-chain or
very-long-chain fatty acids across the plasma membrane.
At least five copies of FATPs are identified in
mammalian cells. This family includes FATP4, FATP1, and
homologous proteins. Each FATP has unique patterns of
tissue distribution. FATP4 is mainly expressed in the
brain, testis, colon and kidney. FATPs also have fatty
acid CoA synthetase activity, thus playing dual roles
as fatty acid transporters and its activation enzymes.
FATPs are the key players in the trafficking of
exogenous fatty acids into the cell and in
intracellular fatty acid homeostasis.
Length = 474
Score = 33.9 bits (78), Expect = 0.41
Identities = 16/52 (30%), Positives = 28/52 (53%)
Query: 37 GRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAG 88
R TF++L+E+++ V + QG G V + ME LE+ ++ + K G
Sbjct: 1 DRHWTFRELNEYSNKVANFFQAQGYRSGDVVALFMENRLEFVALWLGLAKIG 52
>gnl|CDD|213314 cd05967, PrpE, Propionyl-CoA synthetase (PrpE). PrpE catalyzes the
first step of the 2-methylcitric acid cycle for
propionate catabolism. It activates propionate to
propionyl-CoA in a two-step reaction, which proceeds
through a propionyl-AMP intermediate and requires ATP
and Mg2+. In Salmonella enterica, the PrpE protein is
required for growth of S. enterica on propionate and can
substitute for the acetyl-CoA synthetase (Acs) enzyme
during growth on acetate. PrpE can also activate
acetate, 3HP, and butyrate to their corresponding
CoA-thioesters, although with less efficiency.
Length = 607
Score = 34.2 bits (79), Expect = 0.41
Identities = 27/105 (25%), Positives = 46/105 (43%), Gaps = 21/105 (20%)
Query: 26 TPDKIAVVDHDG------RSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTI 79
D+IA++ +D R+ T+ +L + + L G + G V + M E I
Sbjct: 55 RGDQIALI-YDSPVTGTKRTYTYAELYDEVSRLAGVLRKLGVVKGDRVIIYMPMIPEAVI 113
Query: 80 SYIAIHKAG-------GGYLPLETSYPPALLESVLDDAKPSIVIT 117
+ +A + G GG+ E L S +DDAKP +++T
Sbjct: 114 AMLACARIGAIHSVVFGGFASKE-------LASRIDDAKPKLIVT 151
>gnl|CDD|177654 PLN00015, PLN00015, protochlorophyllide reductase.
Length = 308
Score = 33.5 bits (77), Expect = 0.46
Identities = 28/91 (30%), Positives = 38/91 (41%), Gaps = 1/91 (1%)
Query: 721 VTGSSSGIGEQLVKDLVTLGA-KVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEND 779
+TG+SSG+G K L G VV R + E S S V LD+ +
Sbjct: 2 ITGASSGLGLATAKALAETGKWHVVMACRDFLKAERAAKSAGMPKDSYTVMHLDLASLDS 61
Query: 780 VKKVVREVLAELGHIDILVNNAGVMYFTLME 810
V++ V +D+LV NA V T E
Sbjct: 62 VRQFVDNFRRSGRPLDVLVCNAAVYLPTAKE 92
>gnl|CDD|102207 PRK06145, PRK06145, acyl-CoA synthetase; Validated.
Length = 497
Score = 33.7 bits (77), Expect = 0.50
Identities = 27/118 (22%), Positives = 48/118 (40%), Gaps = 10/118 (8%)
Query: 4 VNLSDYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIV 63
NLS A H A+RTPD+ A+V + + I++ + + L +G
Sbjct: 2 FNLSASIA---FH------ARRTPDRAALV-YRDQEISYAEFHQRILQAAGMLHARGIGQ 51
Query: 64 GSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEY 121
G V +LM+ + A G +LP+ + +L DA +++ E+
Sbjct: 52 GDVVALLMKNSAAFLELAFAASYLGAVFLPINYRLAADEVAYILGDAGAKLLLVDEEF 109
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 33.0 bits (76), Expect = 0.55
Identities = 11/39 (28%), Positives = 23/39 (58%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLK 757
+ V G++ +G +V++L+ G +V A+ R + E L+
Sbjct: 2 VLVVGATGKVGRHVVRELLDRGYQVRALVRDPSQAEKLE 40
>gnl|CDD|187538 cd05227, AR_SDR_e, aldehyde reductase, extended (e) SDRs. This
subgroup contains aldehyde reductase of the extended
SDR-type and related proteins. Aldehyde reductase I (aka
carbonyl reductase) is an NADP-binding SDR; it has an
NADP-binding motif consensus that is slightly different
from the canonical SDR form and lacks the Asn of the
extended SDR active site tetrad. Aldehyde reductase I
catalyzes the NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. Extended SDRs are
distinct from classical SDRs. In addition to the
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet) core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids. Extended SDRs are a
diverse collection of proteins, and include isomerases,
epimerases, oxidoreductases, and lyases; they typically
have a TGXXGXXG cofactor binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 301
Score = 33.4 bits (77), Expect = 0.56
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 7/75 (9%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGS-----IIVKKL 772
++ VTG++ I +V+ L+ G KV R + + LK L+ A + +IV
Sbjct: 1 LVLVTGATGFIASHIVEQLLKAGYKVRGTVRSLSKSAKLKALLKAAGYNDRLEFVIVD-- 58
Query: 773 DVTIENDVKKVVREV 787
D+T N + ++ V
Sbjct: 59 DLTAPNAWDEALKGV 73
Score = 31.5 bits (72), Expect = 2.2
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 322 VLLTGVTGYLGIHLLQKFL 340
VL+TG TG++ H++++ L
Sbjct: 2 VLVTGATGFIASHIVEQLL 20
>gnl|CDD|236215 PRK08276, PRK08276, long-chain-fatty-acid--CoA ligase; Validated.
Length = 502
Score = 33.3 bits (77), Expect = 0.67
Identities = 20/94 (21%), Positives = 41/94 (43%)
Query: 30 IAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGG 89
++ G +T+ +L+ ++ + L G G V +L+E E+ Y A ++G
Sbjct: 2 AVIMAPSGEVVTYGELEARSNRLAHGLRALGLREGDVVAILLENNPEFFEVYWAARRSGL 61
Query: 90 GYLPLETSYPPALLESVLDDAKPSIVITKGEYMD 123
Y P+ A + ++DD+ ++I D
Sbjct: 62 YYTPINWHLTAAEIAYIVDDSGAKVLIVSAALAD 95
>gnl|CDD|236071 PRK07638, PRK07638, acyl-CoA synthetase; Validated.
Length = 487
Score = 33.2 bits (76), Expect = 0.67
Identities = 27/125 (21%), Positives = 58/125 (46%), Gaps = 4/125 (3%)
Query: 23 AKRTPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYI 82
A P+KIA+ ++D R +T+K E V +L N+ T+ +L+E +E+ +
Sbjct: 11 ASLQPNKIAIKEND-RVLTYKDWFESVCKVANWL-NEKESKNKTIAILLENRIEFLQLFA 68
Query: 83 AIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLERTSVPKVKLENDFLSK 142
AG +PL+ + L+ L + +++T+ ++ L ++++ +
Sbjct: 69 GAAMAGWTCVPLDIKWKQDELKERLAISNADMIVTERYKLNDLPDEEGRVIEIDE--WKR 126
Query: 143 MISEN 147
MI +
Sbjct: 127 MIEKY 131
>gnl|CDD|192933 pfam12076, Wax2_C, WAX2 C-terminal domain. This presumed domain is
functionally uncharacterized. This domain is found in
eukaryotes. This domain is about 170 amino acids in
length. This domain is found associated with pfam04116.
This domain has a conserved LEGW sequence motif. This
region has similarity to short chain dehydrogenases.
Length = 164
Score = 32.0 bits (73), Expect = 0.77
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 182 LNKEELPKLDSIAQIELDESMFQSQKNIAKIW 213
L+KEE KL A E+ +++ S AK+W
Sbjct: 28 LSKEEYEKLKPEAPPEVQDNLVLSTSYTAKVW 59
>gnl|CDD|180293 PRK05857, PRK05857, acyl-CoA synthetase; Validated.
Length = 540
Score = 33.1 bits (75), Expect = 0.83
Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 1/96 (1%)
Query: 22 QAKRTPDKIAVVDHDGRS-ITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTIS 80
QA++ P+ IA+ DG S + +++L + L Q GS V V+ + E +S
Sbjct: 23 QARQQPEAIALRRCDGTSALRYRELVAEVGGLAADLRAQSVSRGSRVLVISDNGPETYLS 82
Query: 81 YIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVI 116
+A K G + + + P A +E P+ +
Sbjct: 83 VLACAKLGAIAVMADGNLPIAAIERFCQITDPAAAL 118
>gnl|CDD|200431 TIGR04180, EDH_00030, NAD dependent epimerase/dehydratase,
LLPSF_EDH_00030 family. This clade within the NAD
dependent epimerase/dehydratase superfamily (pfam01370)
is characterized by inclusion of its members within a
cassette of seven distinctive enzymes. These include
four genes homologous to the elements of the neuraminic
(sialic) acid biosynthesis cluster (NeuABCD), an
aminotransferase and a nucleotidyltransferase in
addition to the epimerase/dehydratase. Together it is
very likely that these enzymes direct the biosynthesis
of a nine-carbon sugar analagous to CMP-neuraminic acid.
These seven genes form the core of the cassette,
although they are often accompanied by additional genes
that may further modify the product sugar. Although this
cassette is widely distributed in bacteria, the family
nomenclature arises from the instance in Leptospira
interrogans serovar Lai, str. 56601, where it appears as
the 30th gene in the 91-gene lipopolysaccharide
biosynthesis cluster.
Length = 297
Score = 32.7 bits (75), Expect = 0.88
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVAR 748
+ VTG+ IG LV+ LV G +V A
Sbjct: 1 VLVTGADGFIGSHLVEALVRQGYEVRAFVL 30
>gnl|CDD|176235 cd08274, MDR9, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 350
Score = 32.7 bits (75), Expect = 0.89
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 12/91 (13%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+ VTG+S G+G LV+ GA V+AVA + E ++ A G+ D I
Sbjct: 181 VLVTGASGGVGSALVQLAKRRGAIVIAVAGA-AKEEAVR-----ALGA------DTVILR 228
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLM 809
D + +D++ + G F +
Sbjct: 229 DAPLLADAKALGGEPVDVVADVVGGPLFPDL 259
>gnl|CDD|178256 PLN02650, PLN02650, dihydroflavonol-4-reductase.
Length = 351
Score = 32.5 bits (74), Expect = 0.99
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 11/74 (14%)
Query: 320 GNVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNY 379
V +TG +G++G L+ + L++ T+ VR+ N ++ L LDL
Sbjct: 6 ETVCVTGASGFIGSWLVMR-LLERGYTVRATVRDPANVKKVKHL----------LDLPGA 54
Query: 380 TDRLILVKSDLSLE 393
T RL L K+DL++E
Sbjct: 55 TTRLTLWKADLAVE 68
>gnl|CDD|221049 pfam11262, Tho2, Transcription factor/nuclear export subunit
protein 2. THO and TREX form a eukaryotic complex which
functions in messenger ribonucleoprotein metabolism and
plays a role in preventing the transcription-associated
genetic instability. Tho2, along with four other
subunits forms THO.
Length = 296
Score = 32.3 bits (74), Expect = 1.2
Identities = 27/120 (22%), Positives = 40/120 (33%), Gaps = 18/120 (15%)
Query: 558 FLTKSLVQLTTNVNNANKIYNFINTNPIHIKTLVSVLN-TYGY-NIKTVPYEKWFHKLNK 615
FL L L + P T + Y + + V Y KW KL K
Sbjct: 172 FLNDILKDLERWHRDEEVYEKECRNLPGFATTFDFQPSDELSYDDFRRVLY-KWHKKLTK 230
Query: 616 RELSEPLIQILRNKGKEYLTVNNSYCQRNTLALLKSCDETYPETNDH--TVRQFLDNLRN 673
L L KEY+ RN + LK + +P +DH + + L+ +
Sbjct: 231 A-----LFSCL--SEKEYM------SIRNAIIFLKKVSDVFPVVDDHGEKILKQLEKILK 277
>gnl|CDD|236649 PRK10084, PRK10084, dTDP-glucose 4,6 dehydratase; Provisional.
Length = 352
Score = 32.5 bits (74), Expect = 1.2
Identities = 52/176 (29%), Positives = 77/176 (43%), Gaps = 33/176 (18%)
Query: 404 VSLSYEIDMIIHAAAFVNL---ILPYNALYKSNVLATKNLIE-----FSFLNKIKS---- 451
+ ++ D ++H AA ++ I A ++N++ T L+E +S L++ K
Sbjct: 68 IFAQHQPDAVMHLAAESHVDRSITGPAAFIETNIVGTYVLLEAARNYWSALDEDKKNAFR 127
Query: 452 FHYVSTDSIY-----PSTSENFQEDYTVADFDDFMTTT-----SGYGQSKIVSEYLVLNA 501
FH++STD +Y P EN +E F TT S Y SK S++LV
Sbjct: 128 FHHISTDEVYGDLPHPDEVENSEE------LPLFTETTAYAPSSPYSASKASSDHLVRAW 181
Query: 502 GQM-GLPVSIVRCGNIGGSLEF--KNWNLVDLNLYILKAITRLGYAPDI-DW-YLE 552
+ GLP + C N G F K LV LN K + G I DW Y+E
Sbjct: 182 LRTYGLPTIVTNCSNNYGPYHFPEKLIPLVILNALEGKPLPIYGKGDQIRDWLYVE 237
>gnl|CDD|237099 PRK12428, PRK12428, 3-alpha-hydroxysteroid dehydrogenase;
Provisional.
Length = 241
Score = 31.9 bits (73), Expect = 1.2
Identities = 44/150 (29%), Positives = 57/150 (38%), Gaps = 40/150 (26%)
Query: 736 LVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDVK--KVVREVLAEL-G 792
L LGA+V+ V RR PG LD I+ D+ + +A L G
Sbjct: 5 LRFLGARVIGVDRR-------------EPGM----TLDGFIQADLGDPASIDAAVAALPG 47
Query: 793 HIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPSMLHSRRPGHILNIS 852
ID L N AGV +E + VN G+ H +LP M G I+N++
Sbjct: 48 RIDALFNIAGVPGTAPVE--------LVARVNFLGLRHLTEALLPRM---APGGAIVNVA 96
Query: 853 SNAGV------RPFAGLAVYTGTKYFIEGI 876
S AG LA T F EG
Sbjct: 97 SLAGAEWPQRLELHKALA---ATASFDEGA 123
>gnl|CDD|237325 PRK13267, PRK13267, archaemetzincin-like protein; Reviewed.
Length = 179
Score = 31.5 bits (72), Expect = 1.3
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 13/54 (24%)
Query: 781 KKVVREVLAELGHIDIL---VNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHC 831
++V +EV ELGH L N VM F+ N++ +V+IK C
Sbjct: 123 ERVRKEVTHELGHTLGLEHCDNPRCVMNFS----------NSVRDVDIKEPNFC 166
>gnl|CDD|178263 PLN02657, PLN02657, 3,8-divinyl protochlorophyllide a 8-vinyl
reductase.
Length = 390
Score = 32.0 bits (73), Expect = 1.4
Identities = 26/88 (29%), Positives = 43/88 (48%), Gaps = 13/88 (14%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARR---IDRLENLKTSLQNAPGSIIVKKLD 773
+ V G++ IG+ +V++LV G VVAVAR I + + + PG+ +V
Sbjct: 61 VTVLVVGATGYIGKFVVRELVRRGYNVVAVAREKSGIRGKNGKEDTKKELPGAEVV---- 116
Query: 774 VTIENDV--KKVVREVLAELGH-IDILV 798
DV +R+VL G +D++V
Sbjct: 117 ---FGDVTDADSLRKVLFSEGDPVDVVV 141
>gnl|CDD|187536 cd05193, AR_like_SDR_e, aldehyde reductase, flavonoid reductase,
and related proteins, extended (e) SDRs. This subgroup
contains aldehyde reductase and flavonoid reductase of
the extended SDR-type and related proteins. Proteins in
this subgroup have a complete SDR-type active site
tetrad and a close match to the canonical extended SDR
NADP-binding motif. Aldehyde reductase I (aka carbonyl
reductase) is an NADP-binding SDR; it catalyzes the
NADP-dependent reduction of ethyl
4-chloro-3-oxobutanoate to ethyl
(R)-4-chloro-3-hydroxybutanoate. The related flavonoid
reductases act in the NADP-dependent reduction of
flavonoids, ketone-containing plant secondary
metabolites. Extended SDRs are distinct from classical
SDRs. In addition to the Rossmann fold (alpha/beta
folding pattern with a central beta-sheet) core region
typical of all SDRs, extended SDRs have a less conserved
C-terminal extension of approximately 100 amino acids.
Extended SDRs are a diverse collection of proteins, and
include isomerases, epimerases, oxidoreductases, and
lyases; they typically have a TGXXGXXG cofactor binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 295
Score = 31.8 bits (72), Expect = 1.4
Identities = 27/111 (24%), Positives = 44/111 (39%), Gaps = 15/111 (13%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDR--LENLKTSLQNAPGSIIVKKLDVTIEN 778
VTG+S + +V+ L+ G KV A R + N L PG + + D+T E
Sbjct: 3 VTGASGFVASHVVEQLLERGYKVRATVRDPSKVKKVNHLLDLDAKPGRLELAVADLTDEQ 62
Query: 779 DVKKVVREVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVL 829
+V++ AGV + + ++ N +I I G L
Sbjct: 63 SFDEVIK-------------GCAGVFHVATPVSFSSKDPNEVIKPAIGGTL 100
Score = 30.3 bits (68), Expect = 5.3
Identities = 27/127 (21%), Positives = 50/127 (39%), Gaps = 29/127 (22%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLKYHMSLDLNNYTD 381
VL+TG +G++ H++ + L++ + VR+ + L LDL+
Sbjct: 1 VLVTGASGFVASHVV-EQLLERGYKVRATVRDPSKVKKVNHL----------LDLDAKPG 49
Query: 382 RLILVKSDLSLEMLGLKNQDEYVSLSYE-----IDMIIHAAAFVNLILPY-NALYKSNVL 435
RL L +DL+ E S++ + H A V+ N + K +
Sbjct: 50 RLELAVADLTDE------------QSFDEVIKGCAGVFHVATPVSFSSKDPNEVIKPAIG 97
Query: 436 ATKNLIE 442
T N ++
Sbjct: 98 GTLNALK 104
>gnl|CDD|187550 cd05239, GDP_FS_SDR_e, GDP-fucose synthetase, extended (e) SDRs.
GDP-fucose synthetase (aka 3, 5-epimerase-4-reductase)
acts in the NADP-dependent synthesis of GDP-fucose from
GDP-mannose. Two activities have been proposed for the
same active site: epimerization and reduction. Proteins
in this subgroup are extended SDRs, which have a
characteristic active site tetrad and an NADP-binding
motif, [AT]GXXGXXG, that is a close match to the
archetypical form. Extended SDRs are distinct from
classical SDRs. In addition to the Rossmann fold
(alpha/beta folding pattern with a central beta-sheet)
core region typical of all SDRs, extended SDRs have a
less conserved C-terminal extension of approximately 100
amino acids. Extended SDRs are a diverse collection of
proteins, and include isomerases, epimerases,
oxidoreductases, and lyases; they typically have a
TGXXGXXG cofactor binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold, an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Sequence identity between different
SDR enzymes is typically in the 15-30% range; they
catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. Atypical SDRs
generally lack the catalytic residues characteristic of
the SDRs, and their glycine-rich NAD(P)-binding motif is
often different from the forms normally seen in
classical or extended SDRs. Complex (multidomain) SDRs
such as ketoreductase domains of fatty acid synthase
have a GGXGXXG NAD(P)-binding motif and an altered
active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 300
Score = 31.8 bits (73), Expect = 1.5
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 411 DMIIHAAAFV-----NLILPYNALYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIYPS-T 464
D +IH AA V N+ P + L N+L N+I + +K ++ + IYP
Sbjct: 53 DYVIHLAAKVGGIVANMTYPADFLRD-NLLINDNVIHAAHRFGVKKLVFLGSSCIYPDLA 111
Query: 465 SENFQEDY 472
+ E
Sbjct: 112 PQPIDESD 119
>gnl|CDD|176191 cd05289, MDR_like_2, alcohol dehydrogenase and quinone
reductase-like medium chain degydrogenases/reductases.
Members identified as zinc-dependent alcohol
dehydrogenases and quinone oxidoreductase. QOR catalyzes
the conversion of a quinone + NAD(P)H to a hydroquinone
+ NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR actin the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 309
Score = 31.8 bits (73), Expect = 1.5
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 8/52 (15%)
Query: 710 FGNTLANKVIFVTGSSSGIG---EQLVKDLVTLGAKVVAVA--RRIDRLENL 756
G A + + + G++ G+G QL K GA+V+A A D L +L
Sbjct: 139 LGGLKAGQTVLIHGAAGGVGSFAVQLAKA---RGARVIATASAANADFLRSL 187
>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 = 31.2 bits (71), Expect = 1.5
Identities = 17/56 (30%), Positives = 26/56 (46%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPG 765
G L K V G + +G++ L GA+VV V R ++R + SL+ G
Sbjct: 22 MGKDLKGKTAVVLGGTGPVGQRAAVLLAREGARVVLVGRDLERAQKAADSLRARFG 77
>gnl|CDD|176228 cd08267, MDR1, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 31.8 bits (73), Expect = 1.6
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 719 IFVTGSSSGIGE---QLVKDLVTLGAKVVAVA 747
+ + G+S G+G Q+ K LGA V V
Sbjct: 147 VLINGASGGVGTFAVQIAKA---LGAHVTGVC 175
>gnl|CDD|181109 PRK07769, PRK07769, long-chain-fatty-acid--CoA ligase; Validated.
Length = 631
Score = 32.0 bits (73), Expect = 1.7
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 9/60 (15%)
Query: 64 GSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPPAL------LESVLDDAKPSIVIT 117
G V +L + L++ I++ AG +PL + PA L +VLDD PS ++T
Sbjct: 79 GDRVAILAPQNLDYLIAFFGALYAGRIAVPL---FDPAEPGHVGRLHAVLDDCTPSAILT 135
>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 = 31.9 bits (73), Expect = 1.7
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 727 GIGEQLVKDLVTLGAKVVAVARRIDRLE 754
GIG L+ L GAKV+AV R +E
Sbjct: 135 GIGRALIPLLAPFGAKVIAVNRSGRPVE 162
>gnl|CDD|176203 cd08241, QOR1, Quinone oxidoreductase (QOR). QOR catalyzes the
conversion of a quinone + NAD(P)H to a hydroquinone +
NAD(P)+. Quinones are cyclic diones derived from
aromatic compounds. Membrane bound QOR acts in the
respiratory chains of bacteria and mitochondria, while
soluble QOR acts to protect from toxic quinones (e.g.
DT-diaphorase) or as a soluble eye-lens protein in some
vertebrates (e.g. zeta-crystalin). QOR reduces quinones
through a semi-quinone intermediate via a
NAD(P)H-dependent single electron transfer. QOR is a
member of the medium chain dehydrogenase/reductase
family, but lacks the zinc-binding sites of the
prototypical alcohol dehydrogenases of this group.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 323
Score = 31.7 bits (73), Expect = 1.8
Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 24/74 (32%)
Query: 721 VTGSSSGIGE---QLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL--DVT 775
V G++ G+G QL K LGA+V+A A ++L + + L D
Sbjct: 145 VLGAAGGVGLAAVQLAK---ALGARVIAAASSEEKLA-------------LARALGADHV 188
Query: 776 I---ENDVKKVVRE 786
I + D+++ V+
Sbjct: 189 IDYRDPDLRERVKA 202
>gnl|CDD|187542 cd05231, NmrA_TMR_like_1_SDR_a, NmrA (a transcriptional regulator)
and triphenylmethane reductase (TMR) like proteins,
subgroup 1, atypical (a) SDRs. Atypical SDRs related to
NMRa, TMR, and HSCARG (an NADPH sensor). This subgroup
resembles the SDRs and has a partially conserved
characteristic [ST]GXXGXXG NAD-binding motif, but lacks
the conserved active site residues. NmrA is a negative
transcriptional regulator of various fungi, involved in
the post-translational modulation of the GATA-type
transcription factor AreA. NmrA lacks the canonical
GXXGXXG NAD-binding motif and has altered residues at
the catalytic triad, including a Met instead of the
critical Tyr residue. NmrA may bind nucleotides but
appears to lack any dehydrogenase activity. HSCARG has
been identified as a putative NADP-sensing molecule, and
redistributes and restructures in response to NADPH/NADP
ratios. Like NmrA, it lacks most of the active site
residues of the SDR family, but has an NAD(P)-binding
motif similar to the extended SDR family, GXXGXXG. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold, an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Sequence
identity between different SDR enzymes is typically in
the 15-30% range; they catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Atypical SDRs
are distinct from classical SDRs. Classical SDRs have an
TGXXX[AG]XG cofactor binding motif and a YXXXK active
site motif, with the Tyr residue of the active site
motif serving as a critical catalytic residue (Tyr-151,
human 15-hydroxyprostaglandin dehydrogenase numbering).
In addition to the Tyr and Lys, there is often an
upstream Ser and/or an Asn, contributing to the active
site; while substrate binding is in the C-terminal
region, which determines specificity. The standard
reaction mechanism is a 4-pro-S hydride transfer and
proton relay involving the conserved Tyr and Lys, a
water molecule stabilized by Asn, and nicotinamide. In
addition to the Rossmann fold core region typical of all
SDRs, extended SDRs have a less conserved C-terminal
extension of approximately 100 amino acids, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P)-binding
motif and an altered active site motif (YXXXN). Fungal
type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif.
Length = 259
Score = 31.5 bits (72), Expect = 1.8
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLK 757
I VTG++ IG ++ L+ G V A+ R +R L
Sbjct: 1 ILVTGATGRIGSKVATTLLEAGRPVRALVRSDERAAALA 39
>gnl|CDD|215137 PLN02246, PLN02246, 4-coumarate--CoA ligase.
Length = 537
Score = 31.9 bits (73), Expect = 2.0
Identities = 26/115 (22%), Positives = 51/115 (44%), Gaps = 3/115 (2%)
Query: 15 LH-YMFRNQAKRTPDKIAVVD-HDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLME 72
LH Y F ++ D+ ++D GR T+ ++ + V L G G V +L+
Sbjct: 25 LHDYCFERLSEF-SDRPCLIDGATGRVYTYADVELLSRRVAAGLHKLGIRQGDVVMLLLP 83
Query: 73 RCLEWTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKGEYMDRLER 127
C E+ ++++ + G Y PA + + ++IT+ Y+D+L+
Sbjct: 84 NCPEFVLAFLGASRRGAVTTTANPFYTPAEIAKQAKASGAKLIITQSCYVDKLKG 138
>gnl|CDD|178484 PLN02896, PLN02896, cinnamyl-alcohol dehydrogenase.
Length = 353
Score = 31.7 bits (72), Expect = 2.0
Identities = 37/133 (27%), Positives = 55/133 (41%), Gaps = 29/133 (21%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIENDV 780
VTG++ IG LVK L+ G V A R + +L + + E D
Sbjct: 15 VTGATGYIGSWLVKLLLQRGYTVHATLRDPAKSLHLLSKWK---------------EGDR 59
Query: 781 KKVVREVLAELGHIDILVNN-------AGVMYFTL-MEKYKLEEW--NAMINVNIKGVLH 830
++ R L E G D V A M F + + +EE+ + +I+ IKG L
Sbjct: 60 LRLFRADLQEEGSFDEAVKGCDGVFHVAASMEFDVSSDHNNIEEYVQSKVIDPAIKGTL- 118
Query: 831 CIGNILPSMLHSR 843
N+L S L S+
Sbjct: 119 ---NVLKSCLKSK 128
>gnl|CDD|169098 PRK07786, PRK07786, long-chain-fatty-acid--CoA ligase; Validated.
Length = 542
Score = 31.7 bits (72), Expect = 2.0
Identities = 25/103 (24%), Positives = 45/103 (43%), Gaps = 5/103 (4%)
Query: 21 NQAKR----TPDKIAVVDHDGRSITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLE 76
NQ R PD A+ G + T+++LD+ + L +G G V +LM E
Sbjct: 21 NQLARHALMQPDAPAL-RFLGNTTTWRELDDRVAALAGALSRRGVGFGDRVLILMLNRTE 79
Query: 77 WTISYIAIHKAGGGYLPLETSYPPALLESVLDDAKPSIVITKG 119
+ S +A + G +P+ P + ++ D +V+T+
Sbjct: 80 FVESVLAANMLGAIAVPVNFRLTPPEIAFLVSDCGAHVVVTEA 122
>gnl|CDD|162605 TIGR01923, menE, O-succinylbenzoate-CoA ligase. This model
represents an enzyme, O-succinylbenzoate-CoA ligase,
which is involved in the fourth step of the menaquinone
biosynthesis pathway. O-succinylbenzoate-CoA ligase,
together with menB - naphtoate synthase, take
2-succinylbenzoate and convert it into 1,4-di-hydroxy-2-
naphtoate [Biosynthesis of cofactors, prosthetic groups,
and carriers, Menaquinone and ubiquinone].
Length = 436
Score = 31.7 bits (72), Expect = 2.2
Identities = 17/77 (22%), Positives = 30/77 (38%)
Query: 41 TFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYPP 100
T++ LD + L QG GS V ++ + +E + A G L T
Sbjct: 1 TWQDLDCEAAHLAKALKAQGIRSGSRVALVGQNSIEMVLLLHACLLLGAEIAMLNTRLTE 60
Query: 101 ALLESVLDDAKPSIVIT 117
+ L+D +++T
Sbjct: 61 NERTNQLEDLDVQLLLT 77
>gnl|CDD|187658 cd08955, KR_2_FAS_SDR_x, beta-ketoacyl reductase (KR) domain of
fatty acid synthase (FAS), subgroup 2, complex (x).
Ketoreductase, a module of the multidomain polyketide
synthase, has 2 subdomains, each corresponding to a
short-chain dehydrogenases/reductase (SDR) family
monomer. The C-terminal subdomain catalyzes the
NADPH-dependent reduction of the beta-carbonyl of a
polyketide to a hydroxyl group, a step in the
biosynthesis of polyketides, such as erythromycin. The
N-terminal subdomain, an interdomain linker, is a
truncated Rossmann fold which acts to stabilizes the
catalytic subdomain. Unlike typical SDRs, the isolated
domain does not oligomerizes but is composed of 2
subdomains, each resembling an SDR monomer. In some
instances, as in porcine FAS, an enoyl reductase (a
Rossman fold NAD binding domain of the MDR family)
module is inserted between the sub-domains. The active
site resembles that of typical SDRs, except that the
usual positions of the catalytic asparagine and tyrosine
are swapped, so that the canonical YXXXK motif changes
to YXXXN. Modular polyketide synthases are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
fatty acid synthase. In some instances, such as
porcine FAS , an enoyl reductase module is inserted
between the sub-domains. Fatty acid synthesis occurs via
the stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consists of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthesis
uses dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-ketoacyl reductase (KR), forming
beta-hydroxyacyl-ACP, which is in turn dehydrated by
dehydratase to a beta-enoyl intermediate, which is
reduced by NADP-dependent beta-enoyl reductase (ER).
Polyketide syntheses also proceeds via the addition of
2-carbon units as in fatty acid synthesis. The complex
SDR NADP binding motif, GGXGXXG, is often present, but
is not strictly conserved in each instance of the
module. This subfamily includes the KR domain of the
Lyngbya majuscule Jam J, -K, and #L which are encoded
on the jam gene cluster and are involved in the
synthesis of the Jamaicamides (neurotoxins); Lyngbya
majuscule Jam P belongs to a different KR_FAS_SDR_x
subfamily. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 376
Score = 31.5 bits (72), Expect = 2.2
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 3/86 (3%)
Query: 721 VTGSSSGIGEQLVKDLVTLGAK-VVAVARR--IDRLENLKTSLQNAPGSIIVKKLDVTIE 777
+TG G+G + + LV GA+ +V RR +L+ A ++V DV+
Sbjct: 154 ITGGLGGLGLLVAEWLVERGARHLVLTGRRAPSAAARQAIAALEEAGAEVVVLAADVSDR 213
Query: 778 NDVKKVVREVLAELGHIDILVNNAGV 803
+ + + ++ A L + +++ AGV
Sbjct: 214 DALAAALAQIRASLPPLRGVIHAAGV 239
>gnl|CDD|187560 cd05250, CC3_like_SDR_a, CC3(TIP30)-like, atypical (a) SDRs.
Atypical SDRs in this subgroup include CC3 (also known
as TIP30) which is implicated in tumor suppression.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine rich NAD(P)-binding
motif that resembles the extended SDRs, and have an
active site triad of the SDRs (YXXXK and upstream Ser),
although the upstream Asn of the usual SDR active site
is substituted with Asp. For CC3, the Tyr of the triad
is displaced compared to the usual SDRs and the protein
is monomeric, both these observations suggest that the
usual SDR catalytic activity is not present. NADP
appears to serve an important role as a ligand, and may
be important in the interaction with other
macromolecules. Atypical SDRs generally lack the
catalytic residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 214
Score = 30.7 bits (70), Expect = 2.4
Identities = 13/48 (27%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 717 KVIFVTGSSSGIGEQLVKDLVTLG--AKVVAVARRIDRLENLKTSLQN 762
K V G++ +G+ L+++L+ +KV A+ RR K L
Sbjct: 1 KTALVLGATGLVGKHLLRELLKSPYYSKVTAIVRRKLTFPEAKEKLVQ 48
>gnl|CDD|176227 cd08266, Zn_ADH_like1, Alcohol dehydrogenases of the MDR family.
This group contains proteins related to the
zinc-dependent alcohol dehydrogenases. However, while
the group has structural zinc site characteristic of
these enzymes, it lacks the consensus site for a
catalytic zinc. NAD(P)(H)-dependent oxidoreductases are
the major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site, and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the cleft
between the catalytic and coenzyme-binding domains at
the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 342
Score = 31.5 bits (72), Expect = 2.4
Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 19/93 (20%)
Query: 719 IFVTGSSSGIGE---QLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVT 775
+ V G+ SG+G Q+ K GA V+A A D+LE K G+ D
Sbjct: 170 VLVHGAGSGVGSAAIQIAK---LFGATVIATAGSEDKLERAK-----ELGA------DYV 215
Query: 776 IENDVKKVVREVLAELGH--IDILVNNAGVMYF 806
I+ + VREV G +D++V + G +
Sbjct: 216 IDYRKEDFVREVRELTGKRGVDVVVEHVGAATW 248
>gnl|CDD|187553 cd05242, SDR_a8, atypical (a) SDRs, subgroup 8. This subgroup
contains atypical SDRs of unknown function. Proteins in
this subgroup have a glycine-rich NAD(P)-binding motif
consensus that resembles that of the extended SDRs,
(GXXGXXG or GGXGXXG), but lacks the characteristic
active site residues of the SDRs. A Cys often replaces
the usual Lys of the YXXXK active site motif, while the
upstream Ser is generally present and Arg replaces the
usual Asn. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 296
Score = 31.0 bits (71), Expect = 2.5
Identities = 22/85 (25%), Positives = 30/85 (35%), Gaps = 19/85 (22%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
I +TG + IG L + L G +VV ++RR A G V D
Sbjct: 1 KIVITGGTGFIGRALTRRLTAAGHEVVVLSRRP----------GKAEGLAEVITWDGLSL 50
Query: 778 NDVKKVVREVLAELGHIDILVNNAG 802
EL D ++N AG
Sbjct: 51 GP---------WELPGADAVINLAG 66
>gnl|CDD|176645 cd05282, ETR_like, 2-enoyl thioester reductase-like. 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 = 323
Score = 31.1 bits (71), Expect = 2.7
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 7/74 (9%)
Query: 710 FGNTLANKVIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIV 769
+ + ++S +G L++ LG K + V RR +++E LK A G+ V
Sbjct: 133 YLKLPPGDWVIQNAANSAVGRMLIQLAKLLGFKTINVVRRDEQVEELK-----ALGADEV 187
Query: 770 KKLDVTIENDVKKV 783
+D + E+ ++V
Sbjct: 188 --IDSSPEDLAQRV 199
>gnl|CDD|238936 cd01977, Nitrogenase_VFe_alpha, Nitrogenase_VFe_alpha -like:
Nitrogenase VFe protein, alpha subunit like. This group
contains proteins similar to the alpha subunits of, the
VFe protein of the vanadium-dependent (V-) nitrogenase
and the FeFe protein of the iron only (Fe-) nitrogenase
Nitrogenase catalyzes the ATP-dependent reduction of
dinitrogen (N2) to ammonia. In addition to V- and Fe-
nitrogenases there is a molybdenum (Mo)-dependent
nitrogenase which is the most widespread and best
characterized of these systems. These systems consist
of component 1 (VFe protein, FeFe protein or, MoFe
protein respectively) and, component 2 (Fe protein).
MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases
are alpha2beta2delta2 hexamers. The alpha and beta
subunits of VFe and FeFe are similar to the alpha and
beta subunits of MoFe. For MoFe each alphabeta pair
contains one P-cluster (at the alphabeta interface) and,
one molecule of iron molybdenum cofactor (FeMoco)
contained within the alpha subunit. The Fe protein which
has a practically identical structure in all three
systems, it contains a single [4Fe-4S] cluster.
Electrons are transferred from the [4Fe-4S] cluster of
the Fe protein to the P-cluster of the MoFe and in turn
to FeMoCo, the site of substrate reduction. The
V-nitrogenase requires an iron-vanadium cofactor
(FeVco), the iron only-nitrogenase an iron only cofactor
(FeFeco). These cofactors are analogous to the FeMoco.
The V-nitrogenase has P clusters identical to those of
MoFe. In addition to N2, nitrogenase also catalyzes the
reduction of a variety of other substrates such as
acetylene The V-nitrogenase differs from the
Mo-nitrogenase in that it produces free hydrazine, as a
minor product during dinitrogen reduction and, ethane
as a minor product during acetylene reduction.
Length = 415
Score = 31.3 bits (71), Expect = 2.7
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 776 IENDVKKVVREVLAELGHIDILVNNA 801
I +D+K V +EV+ EL +DI V NA
Sbjct: 103 IGDDIKAVAKEVMEELPDVDIFVCNA 128
>gnl|CDD|187556 cd05245, SDR_a2, atypical (a) SDRs, subgroup 2. This subgroup
contains atypical SDRs, one member is identified as
Escherichia coli protein ybjT, function unknown.
Atypical SDRs are distinct from classical SDRs. Members
of this subgroup have a glycine-rich NAD(P)-binding
motif consensus that generally matches the extended
SDRs, TGXXGXXG, but lacks the characteristic active site
residues of the SDRs. This subgroup has basic residues
(HXXXR) in place of the active site motif YXXXK, these
may have a catalytic role. Atypical SDRs generally lack
the catalytic residues characteristic of the SDRs, and
their glycine-rich NAD(P)-binding motif is often
different from the forms normally seen in classical or
extended SDRs. Atypical SDRs include biliverdin IX beta
reductase (BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 293
Score = 30.8 bits (70), Expect = 3.0
Identities = 15/69 (21%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 719 IFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIEN 778
+ VTG++ +G +LV L+ G +V A+ R ++L + S + V + D+
Sbjct: 1 VLVTGATGYVGGRLVPRLLQEGHQVRALVRSPEKLADRPWS-----ERVTVVRGDLEDPE 55
Query: 779 DVKKVVREV 787
++ + +
Sbjct: 56 SLRAALEGI 64
Score = 29.2 bits (66), Expect = 8.9
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 322 VLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDI 366
VL+TG TGY+G L+ + L+ + VR E +
Sbjct: 1 VLVTGATGYVGGRLVPR-LLQEGHQVRALVRSPEKLADRPWSERV 44
>gnl|CDD|178047 PLN02427, PLN02427, UDP-apiose/xylose synthase.
Length = 386
Score = 31.0 bits (70), Expect = 3.1
Identities = 56/235 (23%), Positives = 99/235 (42%), Gaps = 42/235 (17%)
Query: 310 VQLNSNKLKYGNVLLTGVTGYLGIHLLQKFLVDTKCTLFCPVRETPNKTLLQRLEDIMLK 369
+ L+ +K + + G G++G HL +K + ETP+K L + + +K
Sbjct: 5 LDLDGKPIKPLTICMIGAGGFIGSHLCEKLM-----------TETPHKVLALDVYNDKIK 53
Query: 370 YHMSLDLNNYTDRL----ILVKSDLSLEMLGLKNQDEYVSLSYEIDMIIHAAAFVNLILP 425
+ + D ++ R+ I +K D LE L +K D ++L+ I A N P
Sbjct: 54 HLLEPDTVPWSGRIQFHRINIKHDSRLEGL-IKMADLTINLA-----AICTPADYN-TRP 106
Query: 426 YNALYKSNVLATKNLIEFSFLNKIKSFHYVSTDSIYPSTSENF----------------Q 469
+ +Y SN + ++++ N + H+ ST +Y T +F +
Sbjct: 107 LDTIY-SNFIDALPVVKYCSENNKRLIHF-STCEVYGKTIGSFLPKDHPLRQDPAFYVLK 164
Query: 470 EDYTVADFDDFMTTTSGYGQSKIVSEYLVLNAG-QMGLPVSIVRCGN-IGGSLEF 522
ED + F Y +K + E L+ G + GL +IVR N IG ++F
Sbjct: 165 EDESPCIFGSIEKQRWSYACAKQLIERLIYAEGAENGLEFTIVRPFNWIGPRMDF 219
>gnl|CDD|180851 PRK07117, PRK07117, acyl carrier protein; Validated.
Length = 79
Score = 28.5 bits (64), Expect = 3.3
Identities = 12/53 (22%), Positives = 25/53 (47%)
Query: 222 LDKDENFFEIGGHSLTAALCISKMNEELSLNLSIKDLFAHPTVQEMAALLENK 274
+++ ++G +S+ A + E LSL + + + + E+A LL K
Sbjct: 26 FQPEDSLVDLGANSMDRAEIVIMTLESLSLKIPLVEFAGAKNIGELADLLYAK 78
>gnl|CDD|178452 PLN02861, PLN02861, long-chain-fatty-acid-CoA ligase.
Length = 660
Score = 31.0 bits (70), Expect = 3.4
Identities = 19/76 (25%), Positives = 39/76 (51%)
Query: 40 ITFKQLDEWTDIVGTYLINQGCIVGSTVGVLMERCLEWTISYIAIHKAGGGYLPLETSYP 99
+T+K++ + +G+ + ++G G G+ C EW I+ A + G Y+PL +
Sbjct: 78 LTYKEVYDAAIRIGSAIRSRGVNPGDRCGIYGSNCPEWIIAMEACNSQGITYVPLYDTLG 137
Query: 100 PALLESVLDDAKPSIV 115
+E +++ A+ SI
Sbjct: 138 ANAVEFIINHAEVSIA 153
>gnl|CDD|236232 PRK08309, PRK08309, short chain dehydrogenase; Provisional.
Length = 177
Score = 30.1 bits (68), Expect = 3.4
Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 5/81 (6%)
Query: 718 VIFVTGSSSGIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKLDVTIE 777
VI TG + L + G V +ARR +LEN+K P SI LD +
Sbjct: 5 VIGGTGMLKRVSLWLCEK----GFHVSVIARREVKLENVK-RESTTPESITPLPLDYHDD 59
Query: 778 NDVKKVVREVLAELGHIDILV 798
+ +K ++ + + G D+ V
Sbjct: 60 DALKLAIKSTIEKNGPFDLAV 80
>gnl|CDD|223992 COG1064, AdhP, Zn-dependent alcohol dehydrogenases [General
function prediction only].
Length = 339
Score = 30.6 bits (70), Expect = 4.0
Identities = 28/140 (20%), Positives = 48/140 (34%), Gaps = 33/140 (23%)
Query: 727 GIGEQLVKDLVTLGAKVVAVARRIDRLENLKTSLQNAPGSIIVKKL--DVTIENDVKKVV 784
G+G V+ +GA+V+A+ R ++LE + KKL D I + +
Sbjct: 177 GLGHMAVQYAKAMGAEVIAITRSEEKLE-------------LAKKLGADHVINSSDSDAL 223
Query: 785 REVLAELGHIDILVNNAGVMYFTLMEKYKLEEWNAMINVNIKGVLHCIGNILPS-MLHSR 843
V D +++ G LE ++ + G L +G +
Sbjct: 224 EAVKEIA---DAIIDTVG--------PATLE--PSLKALRRGGTLVLVGLPGGGPIPLLP 270
Query: 844 RPGHILN----ISSNAGVRP 859
IL + S G R
Sbjct: 271 AFLLILKEISIVGSLVGTRA 290
>gnl|CDD|107365 cd06370, PBP1_Speract_GC_like, Ligand-binding domain of membrane
bound guanylyl cyclases. Ligand-binding domain of
membrane bound guanylyl cyclases (GCs), which are known
to be activated by sperm-activating peptides (SAPs),
such as speract or resact. These ligand peptides are
released by a range of invertebrates to stimulate the
metabolism and motility of spermatozoa and are also
potent chemoattractants. These GCs contain a single
transmembrane segment, an extracellular ligand binding
domain, and intracellular protein kinase-like and
cyclase catalytic domains. GCs of insect and nematodes,
which exhibit high sequence similarity to the speract
receptor are also included in this model.
Length = 404
Score = 30.0 bits (68), Expect = 6.2
Identities = 24/125 (19%), Positives = 44/125 (35%), Gaps = 18/125 (14%)
Query: 570 VNNANKIYNFINTNPIHI---KTLVSVLNTYGYNIKTVPYEKWFHKLNKRELSEPLIQIL 626
V++ +K F T P I K+++++L + +N +V YE + E L +
Sbjct: 104 VSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYEN---DSKYSSVFETLKEEA 160
Query: 627 RNKG-----KEYLTVNNSYCQRNTLALLKSCDETYPET-------NDHTVRQFLDNLRNS 674
+ EY T T + +RQFL ++ +
Sbjct: 161 ELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKETTRIYVFIGEANELRQFLMSMLDE 220
Query: 675 NLLPN 679
LL +
Sbjct: 221 GLLES 225
>gnl|CDD|172588 PRK14098, PRK14098, glycogen synthase; Provisional.
Length = 489
Score = 30.1 bits (68), Expect = 7.1
Identities = 30/113 (26%), Positives = 51/113 (45%), Gaps = 27/113 (23%)
Query: 514 GNIGGSLEFKNWNLVDLNLYILKAITRLGYAPDI----DWYLEFTPVDFLTKSLVQLTTN 569
G++ GS E ++ N+ +L+ + RLG+ PDI DWY P+ L
Sbjct: 115 GDLKGSAE----KVIFFNVGVLETLQRLGWKPDIIHCHDWYAGLVPL---------LLKT 161
Query: 570 VNNANKIYNFINTNPIHIKTLVSVLNTYGYNIKTVPYEKWFHKLNKRELSEPL 622
V ++ + IKT++++ N Y + +P+ K F KL E+ L
Sbjct: 162 VYADHEFFK-------DIKTVLTIHNVYRQGV--LPF-KVFQKLLPEEVCSGL 204
>gnl|CDD|237316 PRK13253, PRK13253, citrate lyase subunit gamma; Provisional.
Length = 92
Score = 27.9 bits (63), Expect = 7.2
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 13/40 (32%)
Query: 772 LDVTIENDVKK--------VVREVLAELGHIDILVNNAGV 803
+D+ +E+ V+K V+ E LA+LG V NA V
Sbjct: 29 IDIQLESSVEKQFGDQIRAVILETLAKLG-----VENAQV 63
>gnl|CDD|227226 COG4889, COG4889, Predicted helicase [General function prediction
only].
Length = 1518
Score = 30.2 bits (68), Expect = 7.6
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 156 IAEEYRKNLVQNFESLHLSILKSSGKLN-KEELPKLDSIAQIELDE 200
+ E Y + L ++F++L +SI G +N E L L+ E +E
Sbjct: 483 VVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNE 528
>gnl|CDD|219065 pfam06506, PrpR_N, Propionate catabolism activator. This domain is
found at the N terminus of several sigma54- dependent
transcriptional activators including PrpR, which
activates catabolism of propionate.
Length = 169
Score = 29.1 bits (66), Expect = 7.9
Identities = 17/87 (19%), Positives = 31/87 (35%), Gaps = 28/87 (32%)
Query: 3 SVNLSDYDAEGALHYMFRNQAKRTPDKIAVVDHDGRSITFKQLDEWTDIVG------TY- 55
+ +S +D AL +A+R +I +V ++ L ++++G Y
Sbjct: 56 EIKVSGFDLLRAL-----ARARRYGGRIGLVGYEN---IIPGLKALSELLGLDIVQRAYQ 107
Query: 56 -----------LINQG--CIVGSTVGV 69
L QG IVG +
Sbjct: 108 SEEEARAAVKELKAQGIKVIVGDGLVC 134
>gnl|CDD|213626 TIGR01451, B_ant_repeat, conserved repeat domain. This model
represents the conserved region of about 53 amino acids
shared between regions, usually repeated, of proteins
from a small number of phylogenetically distant
prokaryotes. Examples include a 132-residue region found
repeated in three of the five longest proteins of
Bacillus anthracis, a 131-residue repeat in a cell
wall-anchored protein of Enterococcus faecalis, and a
120-residue repeat in Methanobacterium
thermoautotrophicum. A similar region is found in some
Chlamydial outer membrane proteins.
Length = 53
Score = 26.4 bits (59), Expect = 9.3
Identities = 10/32 (31%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 698 ISISNAGTV---NIVFGNTLANKVIFVTGSSS 726
I+++N G V N+V + L FV+ S +
Sbjct: 18 ITVTNNGNVPATNVVVTDILPAGTTFVSNSVT 49
>gnl|CDD|224825 COG1913, COG1913, Predicted Zn-dependent proteases [General
function prediction only].
Length = 181
Score = 28.9 bits (65), Expect = 9.5
Identities = 34/121 (28%), Positives = 47/121 (38%), Gaps = 33/121 (27%)
Query: 717 KVIFVTGSSSGI-GEQLVKDLVTLGAK--VVAVARRIDRLENLKTSLQNAPGSIIVKKLD 773
K++ VT G V L LG K VV+ R L S P +
Sbjct: 72 KILGVTDVDIYAPGLNFVFGLAYLGGKVAVVSTYR-------LYPSFYYTPDR------E 118
Query: 774 VTIENDVKKVVREVLAELGHIDILV---NNAGVMYFTLMEKYKLEEWNAMINVNIKGVLH 830
+ E +VV+EVL ELGH+ L N VM F+ N++ +V+ K
Sbjct: 119 LFKE----RVVKEVLHELGHLLGLSHCPNPRCVMNFS----------NSLRDVDRKSPNF 164
Query: 831 C 831
C
Sbjct: 165 C 165
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
0.317 0.135 0.385
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 47,967,878
Number of extensions: 4808062
Number of successful extensions: 5723
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5119
Number of HSP's successfully gapped: 533
Length of query: 958
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 852
Effective length of database: 6,236,078
Effective search space: 5313138456
Effective search space used: 5313138456
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: 64 (28.4 bits)