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3COS
Biol. Unit 2
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Asym.Unit (255 KB)
Biol.Unit 1 (124 KB)
Biol.Unit 2 (125 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN CLASS II ALCOHOL DEHYDROGENASE (ADH4) IN COMPLEX WITH NAD AND ZN
Authors
:
K. L. Kavanagh, N. Shafqat, W. Yue, F. Von Delft, S. Bishop, A. Roos, J. M A. M. Edwards, C. H. Arrowsmith, C. Bountra, U. Oppermann, Structural Consortium (Sgc)
Date
:
29 Mar 08 (Deposition) - 15 Apr 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Medium Chain Dehydrogenase, Alcohol Dehydrogenase, Zinc-Dependent, Metal-Binding, Nad, Oxidoreductase, Structural Genomics, Structural Genomics Consortium, Sgc
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. L. Kavanagh, N. Shafqat, W. Yue, F. Von Delft, S. Bishop, A. Roos, J. Murray, A. M. Edwards, C. H. Arrowsmith, C. Bountra, U. Oppermann
Crystal Structure Of Human Class Ii Alcohol Dehydrogenase (Adh4) In Complex With Nad And Zn.
To Be Published
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Hetero Components
(3, 7)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
1e: ACETIC ACID (ACYe)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
3d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
4f: ZINC ION (ZNf)
4g: ZINC ION (ZNg)
4h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
2
Ligand/Ion
ACETIC ACID
2
EDO
3
Ligand/Ion
1,2-ETHANEDIOL
3
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
4
ZN
-1
Ligand/Ion
ZINC ION
[
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Sites
(11, 11)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: BC2 (SOFTWARE)
06: BC3 (SOFTWARE)
07: BC7 (SOFTWARE)
08: BC9 (SOFTWARE)
09: CC1 (SOFTWARE)
10: CC4 (SOFTWARE)
11: CC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
CYS C:47 , HIS C:69 , CYS C:180
BINDING SITE FOR RESIDUE ZN C 501
02
AC6
SOFTWARE
CYS C:99 , CYS C:102 , CYS C:105 , CYS C:113
BINDING SITE FOR RESIDUE ZN C 502
03
AC7
SOFTWARE
CYS D:47 , HIS D:69 , CYS D:180
BINDING SITE FOR RESIDUE ZN D 501
04
AC8
SOFTWARE
CYS D:99 , CYS D:102 , CYS D:105 , CYS D:113
BINDING SITE FOR RESIDUE ZN D 502
05
BC2
SOFTWARE
HIS C:48 , THR C:49 , CYS C:180 , THR C:184 , GLY C:205 , GLY C:207 , GLY C:208 , ASP C:229 , ILE C:230 , LYS C:234 , CYS C:274 , ALA C:275 , THR C:280 , ILE C:298 , GLY C:299 , THR C:323 , PHE C:324 , PHE C:325 , ARG C:375
BINDING SITE FOR RESIDUE NAD C 400
06
BC3
SOFTWARE
HIS D:48 , THR D:49 , CYS D:180 , THR D:184 , GLY D:205 , GLY D:207 , GLY D:208 , ILE D:228 , ASP D:229 , ILE D:230 , LYS D:234 , CYS D:274 , ALA D:275 , THR D:280 , ILE D:298 , GLY D:299 , THR D:323 , PHE D:324 , PHE D:325 , ARG D:375
BINDING SITE FOR RESIDUE NAD D 400
07
BC7
SOFTWARE
SER D:124 , ASP D:125 , GLN D:126 , GLN D:127 , LEU D:128
BINDING SITE FOR RESIDUE EDO D 503
08
BC9
SOFTWARE
PHE C:204 , PRO C:249
BINDING SITE FOR RESIDUE EDO C 503
09
CC1
SOFTWARE
PHE D:204 , ILE D:228 , PRO D:249
BINDING SITE FOR RESIDUE EDO D 504
10
CC4
SOFTWARE
THR C:49 , HIS C:69 , TYR C:95 , PHE C:147 , CYS C:180
BINDING SITE FOR RESIDUE ACY C 401
11
CC5
SOFTWARE
CYS D:47 , THR D:49 , HIS D:69 , TYR D:95 , PHE D:147 , CYS D:180
BINDING SITE FOR RESIDUE ACY D 401
[
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SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_023461 (V309V, chain C/D, )
2: VAR_023462 (R318H, chain C/D, )
3: VAR_023463 (I374I, chain C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_023461
I
309
V
ADH4_HUMAN
Polymorphism
1126671
C/D
V
309
V
2
UniProt
VAR_023462
R
318
H
ADH4_HUMAN
Polymorphism
29001219
C/D
R
318
H
3
UniProt
VAR_023463
V
374
I
ADH4_HUMAN
Polymorphism
1126673
C/D
I
374
I
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: ADH_ZINC (C:68-82,D:68-82)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ADH_ZINC
PS00059
Zinc-containing alcohol dehydrogenases signature.
ADH4_HUMAN
68-82
2
-
-
C:68-82
D:68-82
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_3cosA02 (A:185-323)
1b: CATH_3cosB02 (B:185-323)
1c: CATH_3cosC02 (C:185-323)
1d: CATH_3cosD02 (D:185-323)
2a: CATH_3cosA01 (A:2-184,A:324-380)
2b: CATH_3cosB01 (B:2-184,B:324-380)
2c: CATH_3cosC01 (C:2-184,C:324-380)
2d: CATH_3cosD01 (D:0-184,D:324-380)
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(
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(
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)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
1a
3cosA02
A:185-323
1b
3cosB02
B:185-323
1c
3cosC02
C:185-323
1d
3cosD02
D:185-323
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Quinone Oxidoreductase; Chain A, domain 1
(131)
Homologous Superfamily
:
Medium-chain alcohol dehydrogenases, catalytic domain
(131)
Human (Homo sapiens)
(30)
2a
3cosA01
A:2-184,A:324-380
2b
3cosB01
B:2-184,B:324-380
2c
3cosC01
C:2-184,C:324-380
2d
3cosD01
D:0-184,D:324-380
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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