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3C5K
Asym. Unit
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Asym.Unit (25 KB)
Biol.Unit 1 (21 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN HDAC6 ZINC FINGER DOMAIN
Authors
:
A. Dong, M. Ravichandran, A. Schuetz, P. Loppnau, Y. Li, F. Mackenzie, I. Kozieradzki, A. M. Edwards, C. H. Arrowsmith, J. Weigelt, C. Bountra, A. Bochkarev, S. Dhe-Paganon, J. Min, H. Ouyang, Structural Genomics Consortium (Sgc)
Date
:
31 Jan 08 (Deposition) - 19 Feb 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.55
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hdac6, Zinc Finger, Actin-Binding, Chromatin Regulator, Cytoplasm, Hydrolase, Metal-Binding, Nucleus, Phosphoprotein, Repressor, Transcription, Transcription Regulation, Ubl Conjugation, Zinc-Finger, Structural Genomics, Structural Genomics Consortium, Sgc
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Dong, M. Ravichandran, A. Schuetz, P. Loppnau, Y. Li, F. Mackenzie, I. Kozieradzki, A. M. Edwards, C. H. Arrowsmith, J. Weigelt, C. Bountra, A. Bochkarev, S. Dhe-Paganon, J. Min, H. Ouyang
Crystal Structure Of Human Hdac6 Zinc Finger Domain.
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 3)
Info
All Hetero Components
1a: ZINC ION (ZNa)
1b: ZINC ION (ZNb)
1c: ZINC ION (ZNc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ZN
3
Ligand/Ion
ZINC ION
[
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]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:37 , CYS A:40 , HIS A:56 , HIS A:62
BINDING SITE FOR RESIDUE ZN A 201
2
AC2
SOFTWARE
CYS A:25 , CYS A:28 , CYS A:45 , HIS A:52
BINDING SITE FOR RESIDUE ZN A 202
3
AC3
SOFTWARE
CYS A:5 , HIS A:7 , CYS A:75 , CYS A:78
BINDING SITE FOR RESIDUE ZN A 203
[
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]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_068962 (N92D, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_068962
N
1200
D
HDAC6_HUMAN
Polymorphism
151130423
A
N
92
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZF_UBP (A:23-84)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZF_UBP
PS50271
Zinc finger UBP-type profile.
HDAC6_HUMAN
1131-1192
1
A:23-84
[
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Exons
(3, 3)
Info
All Exons
Exon 1.19 (A:0-42)
Exon 1.20 (A:43-85)
Exon 1.21b (A:86-107)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.18/1.19
2: Boundary 1.19/1.20
3: Boundary 1.20/1.21b
4: Boundary 1.21b/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.2e
ENST00000376619
2e
ENSE00001045684
X:48660441-48660577
137
HDAC6_HUMAN
-
0
0
-
-
1.2q
ENST00000376619
2q
ENSE00002164001
X:48661070-48661192
123
HDAC6_HUMAN
1-31
31
0
-
-
1.2t
ENST00000376619
2t
ENSE00001610802
X:48661278-48661406
129
HDAC6_HUMAN
32-74
43
0
-
-
1.3a
ENST00000376619
3a
ENSE00000670931
X:48661535-48661623
89
HDAC6_HUMAN
75-104
30
0
-
-
1.4
ENST00000376619
4
ENSE00001151249
X:48663845-48663929
85
HDAC6_HUMAN
104-132
29
0
-
-
1.5b
ENST00000376619
5b
ENSE00001248959
X:48664038-48664078
41
HDAC6_HUMAN
133-146
14
0
-
-
1.5l
ENST00000376619
5l
ENSE00001249179
X:48664775-48664871
97
HDAC6_HUMAN
146-178
33
0
-
-
1.5o
ENST00000376619
5o
ENSE00002177691
X:48665016-48665113
98
HDAC6_HUMAN
179-211
33
0
-
-
1.6b
ENST00000376619
6b
ENSE00000670925
X:48666440-48666544
105
HDAC6_HUMAN
211-246
36
0
-
-
1.7b
ENST00000376619
7b
ENSE00000670924
X:48666665-48666733
69
HDAC6_HUMAN
246-269
24
0
-
-
1.8b
ENST00000376619
8b
ENSE00000670923
X:48672847-48672973
127
HDAC6_HUMAN
269-311
43
0
-
-
1.9a
ENST00000376619
9a
ENSE00000670922
X:48673082-48673147
66
HDAC6_HUMAN
312-333
22
0
-
-
1.9e
ENST00000376619
9e
ENSE00000670921
X:48673241-48673300
60
HDAC6_HUMAN
334-353
20
0
-
-
1.9f
ENST00000376619
9f
ENSE00000670920
X:48673369-48673458
90
HDAC6_HUMAN
354-383
30
0
-
-
1.9j
ENST00000376619
9j
ENSE00000670918
X:48673791-48673897
107
HDAC6_HUMAN
384-419
36
0
-
-
1.10a
ENST00000376619
10a
ENSE00001249091
X:48673982-48674049
68
HDAC6_HUMAN
419-442
24
0
-
-
1.10d
ENST00000376619
10d
ENSE00000670914
X:48674291-48674459
169
HDAC6_HUMAN
442-498
57
0
-
-
1.11b
ENST00000376619
11b
ENSE00000608098
X:48674548-48674676
129
HDAC6_HUMAN
498-541
44
0
-
-
1.12a
ENST00000376619
12a
ENSE00000670910
X:48674872-48675040
169
HDAC6_HUMAN
541-597
57
0
-
-
1.13c
ENST00000376619
13c
ENSE00000670908
X:48675733-48675866
134
HDAC6_HUMAN
598-642
45
0
-
-
1.14c
ENST00000376619
14c
ENSE00001668251
X:48676448-48676516
69
HDAC6_HUMAN
642-665
24
0
-
-
1.14g
ENST00000376619
14g
ENSE00000670904
X:48676627-48676819
193
HDAC6_HUMAN
665-729
65
0
-
-
1.15e
ENST00000376619
15e
ENSE00001249051
X:48678513-48678662
150
HDAC6_HUMAN
730-779
50
0
-
-
1.16
ENST00000376619
16
ENSE00000670900
X:48681030-48681204
175
HDAC6_HUMAN
780-838
59
0
-
-
1.17c
ENST00000376619
17c
ENSE00000670898
X:48681322-48681998
677
HDAC6_HUMAN
838-1063
226
0
-
-
1.18
ENST00000376619
18
ENSE00000670896
X:48682082-48682195
114
HDAC6_HUMAN
1064-1101
38
0
-
-
1.19
ENST00000376619
19
ENSE00000670893
X:48682332-48682478
147
HDAC6_HUMAN
1102-1150
49
1
A:0-42
43
1.20
ENST00000376619
20
ENSE00000670891
X:48682576-48682704
129
HDAC6_HUMAN
1151-1193
43
1
A:43-85
43
1.21b
ENST00000376619
21b
ENSE00001333690
X:48682954-48683386
433
HDAC6_HUMAN
1194-1215
22
1
A:86-107
22
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
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Sorry, no Info available
[
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3c5kA00 (A:0-107)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Herpes Virus-1
(49)
Homologous Superfamily
:
Zinc/RING finger domain, C3HC4 (zinc finger)
(47)
Human (Homo sapiens)
(26)
1a
3c5kA00
A:0-107
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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