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3AZH
Asym. Unit
Info
Asym.Unit (247 KB)
Biol.Unit 1 (241 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN NUCLEOSOME CORE PARTICLE CONTAINING H3K122Q MUTATION
Authors
:
W. Iwasaki, H. Tachiwana, K. Kawaguchi, T. Shibata, W. Kagawa, H. Kurum
Date
:
25 May 11 (Deposition) - 21 Sep 11 (Release) - 01 Aug 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.49
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J (1x)
Keywords
:
Histone-Fold, Nucleosome, Structural Protein-Dna Complex
(Keyword Search:
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Reference
:
W. Iwasaki, H. Tachiwana, K. Kawaguchi, T. Shibata, W. Kagawa, H. Kurumizaka
Comprehensive Structural Analysis Of Mutant Nucleosomes Containing Lysine To Glutamine (Kq) Substitutions In The H3 And H4 Histone-Fold Domains
Biochemistry V. 50 7822 2011
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Hetero Components
(2, 15)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
2e: MANGANESE (II) ION (MNe)
2f: MANGANESE (II) ION (MNf)
2g: MANGANESE (II) ION (MNg)
2h: MANGANESE (II) ION (MNh)
2i: MANGANESE (II) ION (MNi)
2j: MANGANESE (II) ION (MNj)
2k: MANGANESE (II) ION (MNk)
2l: MANGANESE (II) ION (MNl)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
3
Ligand/Ion
CHLORIDE ION
2
MN
12
Ligand/Ion
MANGANESE (II) ION
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Sites
(14, 14)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ALA C:45 , GLY C:46 , ALA C:47 , SER D:91
BINDING SITE FOR RESIDUE CL C 1001
02
AC2
SOFTWARE
VAL D:48 , GLN E:76 , ASP E:77
BINDING SITE FOR RESIDUE MN D 201
03
AC3
SOFTWARE
PRO E:121 , GLN E:122
BINDING SITE FOR RESIDUE CL E 1001
04
AC4
SOFTWARE
GLY G:44 , ALA G:45 , GLY G:46 , THR H:90 , SER H:91
BINDING SITE FOR RESIDUE CL G 1001
05
AC5
SOFTWARE
DG I:68
BINDING SITE FOR RESIDUE MN I 1001
06
AC6
SOFTWARE
DG I:121
BINDING SITE FOR RESIDUE MN I 1002
07
AC7
SOFTWARE
DA I:133
BINDING SITE FOR RESIDUE MN I 1003
08
AC8
SOFTWARE
DG I:78
BINDING SITE FOR RESIDUE MN I 1005
09
AC9
SOFTWARE
DG I:100
BINDING SITE FOR RESIDUE MN I 1006
10
BC1
SOFTWARE
DG J:185 , DG J:186
BINDING SITE FOR RESIDUE MN J 1001
11
BC2
SOFTWARE
DG J:267
BINDING SITE FOR RESIDUE MN J 1002
12
BC3
SOFTWARE
DG J:217
BINDING SITE FOR RESIDUE MN J 1003
13
BC4
SOFTWARE
DG J:280
BINDING SITE FOR RESIDUE MN J 1004
14
BC5
SOFTWARE
DA I:139 , DC J:247
BINDING SITE FOR RESIDUE MN J 1005
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_036206 (E63Q, chain B/F, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_036206
E
64
Q
H4_HUMAN
Unclassified
---
B/F
E
63
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: HISTONE_H2A (C:21-27,G:21-27)
2: HISTONE_H3_2 (A:66-74,E:66-74)
3: HISTONE_H2B (D:92-114,H:92-114)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HISTONE_H2A
PS00046
Histone H2A signature.
H2A1B_HUMAN
22-28
2
C:21-27
G:21-27
2
HISTONE_H3_2
PS00959
Histone H3 signature 2.
H31_HUMAN
67-75
2
A:66-74
E:66-74
3
HISTONE_H2B
PS00357
Histone H2B signature.
H2B1J_HUMAN
93-115
2
D:92-114
H:92-114
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Exons
(2, 4)
Info
All Exons
Exon 1.2b (A:38-134 | E:37-135)
Exon 2.1 (B:25-102 | F:18-101)
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All Exon Boundaries
1: Boundary -/1.2b
2: Boundary 1.2b/-
3: Boundary -/2.1
4: Boundary 2.1/-
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
1.2b
ENST00000359303
2b
ENSE00001974165
chr6:
27858570-27858160
411
H31_HUMAN
1-136
136
2
A:38-134
E:37-135
97
99
2.1
ENST00000377803
1
ENSE00001475159
chr6:
26104104-26104518
415
H4_HUMAN
1-127
127
2
B:25-102
F:18-101
78
84
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SCOP Domains
(0, 0)
Info
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Sorry, no Info available
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CATH Domains
(0, 0)
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all CATH domains
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Sorry, no Info available
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (247 KB)
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