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3REI
Asym. Unit
Info
Asym.Unit (250 KB)
Biol.Unit 1 (242 KB)
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(1)
Title
:
2.65 ANGSTROM CRYSTAL STRUCTURE OF THE NUCLEOSOME CORE PARTICLE ASSEMBLED WITH A 145 BP ALPHA-SATELLITE DNA (NCP145) DERIVATIZED WITH TRIAMMINECHLOROPLATINUM(II) CHLORIDE
Authors
:
B. Wu, C. A. Davey
Date
:
04 Apr 11 (Deposition) - 14 Mar 12 (Release) - 14 Mar 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.65
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
:
Nucleosome, Structural Protein-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Wu, G. E. Davey, A. A. Nazarov, P. J. Dyson, C. A. Davey
Specific Dna Structural Attributes Modulate Platinum Anticancer Drug Site Selection And Cross-Link Generation.
Nucleic Acids Res. V. 39 8200 2011
[
close entry info
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Hetero Components
(3, 54)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
2a: PLATINUM (II) ION (PTa)
2aa: PLATINUM (II) ION (PTaa)
2ab: PLATINUM (II) ION (PTab)
2ac: PLATINUM (II) ION (PTac)
2ad: PLATINUM (II) ION (PTad)
2ae: PLATINUM (II) ION (PTae)
2af: PLATINUM (II) ION (PTaf)
2ag: PLATINUM (II) ION (PTag)
2ah: PLATINUM (II) ION (PTah)
2ai: PLATINUM (II) ION (PTai)
2aj: PLATINUM (II) ION (PTaj)
2ak: PLATINUM (II) ION (PTak)
2al: PLATINUM (II) ION (PTal)
2am: PLATINUM (II) ION (PTam)
2an: PLATINUM (II) ION (PTan)
2ao: PLATINUM (II) ION (PTao)
2ap: PLATINUM (II) ION (PTap)
2aq: PLATINUM (II) ION (PTaq)
2ar: PLATINUM (II) ION (PTar)
2as: PLATINUM (II) ION (PTas)
2at: PLATINUM (II) ION (PTat)
2au: PLATINUM (II) ION (PTau)
2av: PLATINUM (II) ION (PTav)
2aw: PLATINUM (II) ION (PTaw)
2b: PLATINUM (II) ION (PTb)
2c: PLATINUM (II) ION (PTc)
2d: PLATINUM (II) ION (PTd)
2e: PLATINUM (II) ION (PTe)
2f: PLATINUM (II) ION (PTf)
2g: PLATINUM (II) ION (PTg)
2h: PLATINUM (II) ION (PTh)
2i: PLATINUM (II) ION (PTi)
2j: PLATINUM (II) ION (PTj)
2k: PLATINUM (II) ION (PTk)
2l: PLATINUM (II) ION (PTl)
2m: PLATINUM (II) ION (PTm)
2n: PLATINUM (II) ION (PTn)
2o: PLATINUM (II) ION (PTo)
2p: PLATINUM (II) ION (PTp)
2q: PLATINUM (II) ION (PTq)
2r: PLATINUM (II) ION (PTr)
2s: PLATINUM (II) ION (PTs)
2t: PLATINUM (II) ION (PTt)
2u: PLATINUM (II) ION (PTu)
2v: PLATINUM (II) ION (PTv)
2w: PLATINUM (II) ION (PTw)
2x: PLATINUM (II) ION (PTx)
2y: PLATINUM (II) ION (PTy)
2z: PLATINUM (II) ION (PTz)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
2
Ligand/Ion
MANGANESE (II) ION
2
PT
49
Ligand/Ion
PLATINUM (II) ION
3
SO4
3
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(53, 53)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: FC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL D:45 , ASP E:77
BINDING SITE FOR RESIDUE MN E 1001
02
AC2
SOFTWARE
VAL H:45
BINDING SITE FOR RESIDUE MN H 1013
03
AC3
SOFTWARE
GLY C:44 , ALA C:45 , GLY C:46 , THR D:87 , SER D:88
BINDING SITE FOR RESIDUE SO4 D 1101
04
AC4
SOFTWARE
GLY G:44 , ALA G:45 , GLY G:46 , ALA G:47 , THR H:87 , SER H:88
BINDING SITE FOR RESIDUE SO4 H 1102
05
AC5
SOFTWARE
HIS H:46 , PRO H:47 , ASP H:48 , THR H:49
BINDING SITE FOR RESIDUE SO4 H 1103
06
AC6
SOFTWARE
DG I:60
BINDING SITE FOR RESIDUE PT I 73
07
AC7
SOFTWARE
DG J:60 , DG J:61
BINDING SITE FOR RESIDUE PT J 73
08
AC8
SOFTWARE
DG I:7
BINDING SITE FOR RESIDUE PT I 74
09
AC9
SOFTWARE
DG J:7
BINDING SITE FOR RESIDUE PT J 74
10
BC1
SOFTWARE
DA J:-54 , DG J:-55
BINDING SITE FOR RESIDUE PT J 75
11
BC2
SOFTWARE
DG J:-33
BINDING SITE FOR RESIDUE PT J 76
12
BC3
SOFTWARE
DG J:47
BINDING SITE FOR RESIDUE PT J 77
13
BC4
SOFTWARE
DG I:-55
BINDING SITE FOR RESIDUE PT I 75
14
BC5
SOFTWARE
DG I:-33 , DG I:-34
BINDING SITE FOR RESIDUE PT I 76
15
BC6
SOFTWARE
DG I:-33
BINDING SITE FOR RESIDUE PT I 77
16
BC7
SOFTWARE
DG I:-2
BINDING SITE FOR RESIDUE PT I 78
17
BC8
SOFTWARE
DG J:-5
BINDING SITE FOR RESIDUE PT J 78
18
BC9
SOFTWARE
DG J:4
BINDING SITE FOR RESIDUE PT J 79
19
CC1
SOFTWARE
DG I:63 , DG I:64 , PT I:84
BINDING SITE FOR RESIDUE PT I 79
20
CC2
SOFTWARE
MET B:84
BINDING SITE FOR RESIDUE PT B 103
21
CC3
SOFTWARE
DG I:4
BINDING SITE FOR RESIDUE PT I 80
22
CC4
SOFTWARE
DG J:-2
BINDING SITE FOR RESIDUE PT J 80
23
CC5
SOFTWARE
DA I:28
BINDING SITE FOR RESIDUE PT I 81
24
CC6
SOFTWARE
DG I:-15
BINDING SITE FOR RESIDUE PT I 82
25
CC7
SOFTWARE
DG I:-5
BINDING SITE FOR RESIDUE PT I 83
26
CC8
SOFTWARE
MET F:84 , GLY F:101
BINDING SITE FOR RESIDUE PT F 103
27
CC9
SOFTWARE
DG J:23 , DG J:24
BINDING SITE FOR RESIDUE PT J 82
28
DC1
SOFTWARE
DG I:-14 , DG J:13
BINDING SITE FOR RESIDUE PT J 83
29
DC2
SOFTWARE
DG I:63 , DG I:64 , PT I:79
BINDING SITE FOR RESIDUE PT I 84
30
DC3
SOFTWARE
DG J:63 , DG J:64 , PT J:133
BINDING SITE FOR RESIDUE PT J 84
31
DC4
SOFTWARE
DG I:23
BINDING SITE FOR RESIDUE PT I 85
32
DC5
SOFTWARE
DG I:47
BINDING SITE FOR RESIDUE PT I 86
33
DC6
SOFTWARE
DG J:26 , PT J:87
BINDING SITE FOR RESIDUE PT J 85
34
DC7
SOFTWARE
DT I:46
BINDING SITE FOR RESIDUE PT I 87
35
DC8
SOFTWARE
DA J:28
BINDING SITE FOR RESIDUE PT J 86
36
DC9
SOFTWARE
MET E:120 , DG J:-2
BINDING SITE FOR RESIDUE PT E 136
37
EC1
SOFTWARE
LYS A:64 , MET A:90
BINDING SITE FOR RESIDUE PT A 136
38
EC2
SOFTWARE
LYS E:64 , MET E:90
BINDING SITE FOR RESIDUE PT E 137
39
EC3
SOFTWARE
DT I:45 , DA J:-43 , DA J:-44
BINDING SITE FOR RESIDUE PT I 88
40
EC4
SOFTWARE
MET A:120 , DG I:-2
BINDING SITE FOR RESIDUE PT A 137
41
EC5
SOFTWARE
DA I:67 , PT J:85
BINDING SITE FOR RESIDUE PT J 87
42
EC6
SOFTWARE
DA I:25
BINDING SITE FOR RESIDUE PT I 89
43
EC7
SOFTWARE
DT J:46
BINDING SITE FOR RESIDUE PT J 88
44
EC8
SOFTWARE
DG J:-34 , DG J:-33
BINDING SITE FOR RESIDUE PT J 89
45
EC9
SOFTWARE
DA J:50 , DG J:51 , DT J:52
BINDING SITE FOR RESIDUE PT J 90
46
FC1
SOFTWARE
DG J:-58
BINDING SITE FOR RESIDUE PT J 91
47
FC2
SOFTWARE
DG I:-42 , DA I:-43
BINDING SITE FOR RESIDUE PT I 90
48
FC3
SOFTWARE
DG J:-42 , DT J:-41
BINDING SITE FOR RESIDUE PT J 92
49
FC4
SOFTWARE
DG J:-14
BINDING SITE FOR RESIDUE PT J 93
50
FC5
SOFTWARE
ASN C:38 , ASN G:38
BINDING SITE FOR RESIDUE PT C 130
51
FC6
SOFTWARE
DG I:26
BINDING SITE FOR RESIDUE PT I 91
52
FC7
SOFTWARE
DA J:-72
BINDING SITE FOR RESIDUE PT J 128
53
FC8
SOFTWARE
DG J:63 , DG J:64 , PT J:84
BINDING SITE FOR RESIDUE PT J 133
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
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:89-111,H:89-111)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HISTONE_H2A
PS00046
Histone H2A signature.
H2A1_XENLA
22-28
2
C:21-27
G:21-27
2
HISTONE_H3_2
PS00959
Histone H3 signature 2.
H32_XENLA
67-75
2
A:66-74
E:66-74
3
HISTONE_H2B
PS00357
Histone H2B signature.
H2B11_XENLA
93-115
2
D:89-111
H:89-111
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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Atom Selection
(currently selected atoms:
all
)
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
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Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
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