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3CAS
Asym. Unit
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Asym.Unit (124 KB)
Biol.Unit 1 (61 KB)
Biol.Unit 2 (62 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF 5BETA-REDUCTASE (AKR1D1) IN COMPLEX WITH NADP+ AND 4-ANDROSTENEDIONE
Authors
:
F Faucher, L Cantin, R Breton
Date
:
20 Feb 08 (Deposition) - 09 Dec 08 (Release) - 23 Dec 08 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
5B-Reductase, 5Beta-Reductase, 5B-Red, Akr1D1, Akr, Aldo- Keto Reductase, Nadp, Androstenedione, Nadph, Substrate Inhibition, Bile Acid Catabolism, Cytoplasm, Disease Mutation, Lipid Metabolism, Oxidoreductase, Steroid Metabolism
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Faucher, L. Cantin, V. Luu-The, F. Labrie, R. Breton
Crystal Structures Of Human Delta4-3-Ketosteroid 5Beta-Reductase (Akr1D1) Reveal The Presence Of An Alternative Binding Site Responsible For Substrate Inhibition (Dagger) (, ) (Double Dagger).
Biochemistry V. 47 13537 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 11)
Info
All Hetero Components
1a: 4-ANDROSTENE-3-17-DIONE (ASDa)
1b: 4-ANDROSTENE-3-17-DIONE (ASDb)
2a: BETA-MERCAPTOETHANOL (BMEa)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
4a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
4b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ASD
2
Ligand/Ion
4-ANDROSTENE-3-17-DIONE
2
BME
1
Ligand/Ion
BETA-MERCAPTOETHANOL
3
EDO
6
Ligand/Ion
1,2-ETHANEDIOL
4
NAP
2
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
[
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Sites
(10, 10)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC8 (SOFTWARE)
08: AC9 (SOFTWARE)
09: BC1 (SOFTWARE)
10: BC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:24 , THR A:25 , TYR A:26 , ASP A:53 , TYR A:58 , LYS A:87 , SER A:169 , ASN A:170 , GLN A:193 , TYR A:219 , SER A:220 , PRO A:221 , LEU A:222 , GLY A:223 , THR A:224 , SER A:225 , LEU A:239 , ALA A:256 , ILE A:271 , PRO A:272 , LYS A:273 , SER A:274 , PHE A:275 , ARG A:279 , GLU A:282 , ASN A:283
BINDING SITE FOR RESIDUE NAP A 327
02
AC2
SOFTWARE
GLY B:24 , THR B:25 , TYR B:26 , ASP B:53 , TYR B:58 , SER B:169 , ASN B:170 , GLN B:193 , TYR B:219 , SER B:220 , PRO B:221 , LEU B:222 , GLY B:223 , THR B:224 , SER B:225 , LEU B:239 , ALA B:256 , ILE B:271 , PRO B:272 , LYS B:273 , SER B:274 , PHE B:275 , ARG B:279 , GLU B:282 , ASN B:283
BINDING SITE FOR RESIDUE NAP B 327
03
AC3
SOFTWARE
CYS A:148 , LEU A:178 , ARG B:250
BINDING SITE FOR RESIDUE BME A 328
04
AC4
SOFTWARE
ALA A:6 , SER A:7 , HIS A:8 , ARG A:9 , ARG A:50
BINDING SITE FOR RESIDUE EDO A 329
05
AC5
SOFTWARE
ASN A:146 , LEU A:147 , CYS A:148
BINDING SITE FOR RESIDUE EDO A 330
06
AC6
SOFTWARE
THR B:224 , ARG B:226
BINDING SITE FOR RESIDUE EDO B 328
07
AC8
SOFTWARE
ASP A:129 , LEU B:106
BINDING SITE FOR RESIDUE EDO B 329
08
AC9
SOFTWARE
ALA B:6 , SER B:7 , HIS B:8 , ARG B:50
BINDING SITE FOR RESIDUE EDO B 330
09
BC1
SOFTWARE
TYR A:26 , TRP A:89 , TYR A:132 , SER A:225 , ARG A:226 , ASN A:227
BINDING SITE FOR RESIDUE ASD A 332
10
BC2
SOFTWARE
TYR B:26 , TRP B:89 , TYR B:132 , SER B:225 , ARG B:226 , ASN B:227 , TRP B:230
BINDING SITE FOR RESIDUE ASD B 331
[
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]
SAPs(SNPs)/Variants
(4, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_033007 (L106F, chain A/B, )
2: VAR_044430 (P133R, chain A/B, )
3: VAR_033008 (P198L, chain A/B, )
4: VAR_044431 (R261C, chain A/B, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_033007
L
106
F
AK1D1_HUMAN
Disease (CBAS2)
---
A/B
L
106
F
2
UniProt
VAR_044430
P
133
R
AK1D1_HUMAN
Disease (CBAS2)
---
A/B
P
133
R
3
UniProt
VAR_033008
P
198
L
AK1D1_HUMAN
Disease (CBAS2)
---
A/B
P
198
L
4
UniProt
VAR_044431
R
261
C
AK1D1_HUMAN
Disease (CBAS2)
---
A/B
R
261
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: ALDOKETO_REDUCTASE_1 (A:48-65,B:48-65)
2: ALDOKETO_REDUCTASE_2 (A:154-171,B:154-171)
3: ALDOKETO_REDUCTASE_3 (A:271-286,B:271-286)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALDOKETO_REDUCTASE_1
PS00798
Aldo/keto reductase family signature 1.
AK1D1_HUMAN
48-65
2
A:48-65
B:48-65
2
ALDOKETO_REDUCTASE_2
PS00062
Aldo/keto reductase family signature 2.
AK1D1_HUMAN
154-171
2
A:154-171
B:154-171
3
ALDOKETO_REDUCTASE_3
PS00063
Aldo/keto reductase family putative active site signature.
AK1D1_HUMAN
271-286
2
A:271-286
B:271-286
[
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Exons
(0, 0)
Info
All Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3casa_ (A:)
1b: SCOP_d3casb_ (B:)
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
NAD(P)-linked oxidoreductase
(286)
Family
:
Aldo-keto reductases (NADP)
(251)
Protein domain
:
automated matches
(62)
Human (Homo sapiens) [TaxId: 9606]
(48)
1a
d3casa_
A:
1b
d3casb_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3casA00 (A:2-326)
1b: CATH_3casB00 (B:2-326)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
NADP-dependent oxidoreductase
(181)
Human (Homo sapiens)
(116)
1a
3casA00
A:2-326
1b
3casB00
B:2-326
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Pfam Domains
(0, 0)
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Asym.Unit (124 KB)
Header - Asym.Unit
Biol.Unit 1 (61 KB)
Header - Biol.Unit 1
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