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1TZY
Asym. Unit
Info
Asym.Unit (144 KB)
Biol.Unit 1 (135 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE CORE-HISTONE OCTAMER TO 1.90 ANGSTROM RESOLUTION
Authors
:
C. M. Wood, J. M. Nicholson, L. Chantalat, C. D. Reynolds, S. J. Lambert, J. P. Baldwin
Date
:
12 Jul 04 (Deposition) - 03 Aug 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Keywords
:
Histone-Fold, Tetramer-Dimer-Dimer, Dna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. M. Wood, J. M. Nicholson, S. J. Lambert, L. Chantalat, C. D. Reynolds, J. P. Baldwin
High-Resolution Structure Of The Native Histone Octamer.
Acta Crystallogr. , Sect. F V. 61 541 2005
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 28)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
1o: CHLORIDE ION (CLo)
1p: CHLORIDE ION (CLp)
1q: CHLORIDE ION (CLq)
1r: CHLORIDE ION (CLr)
1s: CHLORIDE ION (CLs)
1t: CHLORIDE ION (CLt)
1u: CHLORIDE ION (CLu)
1v: CHLORIDE ION (CLv)
1w: CHLORIDE ION (CLw)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
2e: PHOSPHATE ION (PO4e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
23
Ligand/Ion
CHLORIDE ION
2
PO4
5
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(28, 28)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:29 , ARG A:32 , LYS A:36 , HOH A:1697 , HOH A:1705 , LYS D:31
BINDING SITE FOR RESIDUE PO4 A 1501
02
AC2
SOFTWARE
ILE A:79 , PRO A:80 , SER B:55 , LYS B:57
BINDING SITE FOR RESIDUE PO4 B 1502
03
AC3
SOFTWARE
ARG E:29 , ARG E:32 , LYS E:36
BINDING SITE FOR RESIDUE PO4 E 1503
04
AC4
SOFTWARE
ARG E:77 , HOH E:1704 , SER F:55 , SER F:56
BINDING SITE FOR RESIDUE PO4 E 1504
05
AC5
SOFTWARE
ARG C:49 , GLU C:50 , ARG C:53 , HOH C:1675
BINDING SITE FOR RESIDUE PO4 C 1505
06
AC6
SOFTWARE
LEU G:60 , LYS G:64
BINDING SITE FOR RESIDUE CL G 1601
07
AC7
SOFTWARE
GLY E:44 , GLY E:46 , ALA E:47 , THR F:90 , SER F:91
BINDING SITE FOR RESIDUE CL E 1602
08
AC8
SOFTWARE
ARG D:39 , ARG D:45 , ILE D:46 , HOH D:1683
BINDING SITE FOR RESIDUE CL D 1603
09
AC9
SOFTWARE
ARG A:35 , HOH A:1627 , LYS D:31
BINDING SITE FOR RESIDUE CL A 1604
10
BC1
SOFTWARE
THR A:101 , ALA G:95 , ARG H:95
BINDING SITE FOR RESIDUE CL H 1605
11
BC2
SOFTWARE
GLY A:44 , GLY A:46 , ALA A:47 , THR B:90 , SER B:91
BINDING SITE FOR RESIDUE CL B 1606
12
BC3
SOFTWARE
LYS C:122
BINDING SITE FOR RESIDUE CL C 1607
13
BC4
SOFTWARE
LYS G:122
BINDING SITE FOR RESIDUE CL G 1608
14
BC5
SOFTWARE
ARG G:116 , VAL G:117 , THR G:118
BINDING SITE FOR RESIDUE CL G 1609
15
BC6
SOFTWARE
ARG H:35 , ARG H:39 , ARG H:45 , ILE H:46
BINDING SITE FOR RESIDUE CL H 1610
16
BC7
SOFTWARE
HOH F:1687 , GLN G:68 , ARG G:69 , ARG G:72 , HOH G:1637
BINDING SITE FOR RESIDUE CL G 1611
17
BC8
SOFTWARE
THR D:30 , HOH D:1654
BINDING SITE FOR RESIDUE CL D 1612
18
BC9
SOFTWARE
LEU A:85 , ASN A:89
BINDING SITE FOR RESIDUE CL A 1613
19
CC1
SOFTWARE
SER B:64 , GLY H:101
BINDING SITE FOR RESIDUE CL B 1614
20
CC2
SOFTWARE
VAL C:117 , THR C:118
BINDING SITE FOR RESIDUE CL C 1615
21
CC3
SOFTWARE
LYS F:116 , LEU H:22 , ARG H:23 , ASN H:25
BINDING SITE FOR RESIDUE CL F 1616
22
CC4
SOFTWARE
ALA C:95 , ARG D:95 , THR E:101
BINDING SITE FOR RESIDUE CL D 1617
23
CC5
SOFTWARE
THR H:30 , LYS H:31
BINDING SITE FOR RESIDUE CL H 1618
24
CC6
SOFTWARE
GLN C:125 , ARG C:128 , HOH D:1663
BINDING SITE FOR RESIDUE CL C 1619
25
CC7
SOFTWARE
ILE A:111
BINDING SITE FOR RESIDUE CL A 1620
26
CC8
SOFTWARE
ARG E:17 , SER E:18 , VAL E:27 , GLY E:28
BINDING SITE FOR RESIDUE CL E 1621
27
CC9
SOFTWARE
ARG A:29 , LYS D:31
BINDING SITE FOR RESIDUE CL A 1622
28
DC1
SOFTWARE
SER F:64
BINDING SITE FOR RESIDUE CL F 1623
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: HISTONE_H2A (A:21-27,E:21-27)
2: HISTONE_H3_2 (C:66-74,G:66-74)
3: HISTONE_H2B (B:92-114,F:92-114,B:92-114,F:92-11...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HISTONE_H2A
PS00046
Histone H2A signature.
H2A4_CHICK
22-28
2
A:21-27
E:21-27
2
HISTONE_H3_2
PS00959
Histone H3 signature 2.
H32_CHICK
67-75
2
C:66-74
G:66-74
3
HISTONE_H2B
PS00357
Histone H2B signature.
H2B1_CHICK
93-115
2
B:92-114
F:92-114
H2B7_CHICK
93-115
2
B:92-114
F:92-114
H2B5_CHICK
93-115
2
B:92-114
F:92-114
[
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]
Exons
(0, 0)
Info
All Exons
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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
(4, 8)
Info
All SCOP Domains
1a: SCOP_d1tzya_ (A:)
1b: SCOP_d1tzye_ (E:)
2a: SCOP_d1tzyb_ (B:)
2b: SCOP_d1tzyf_ (F:)
3a: SCOP_d1tzyc_ (C:)
3b: SCOP_d1tzyg_ (G:)
4a: SCOP_d1tzyd_ (D:)
4b: SCOP_d1tzyh_ (H:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Histone-fold
(277)
Superfamily
:
Histone-fold
(277)
Family
:
Nucleosome core histones
(247)
Protein domain
:
Histone H2A
(45)
Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
(6)
1a
d1tzya_
A:
1b
d1tzye_
E:
Protein domain
:
Histone H2B
(48)
Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
(6)
2a
d1tzyb_
B:
2b
d1tzyf_
F:
Protein domain
:
Histone H3
(58)
Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
(6)
3a
d1tzyc_
C:
3b
d1tzyg_
G:
Protein domain
:
Histone H4
(60)
Chicken (Gallus gallus), erythrocytes [TaxId: 9031]
(6)
4a
d1tzyd_
D:
4b
d1tzyh_
H:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1tzyC00 (C:41-135)
1b: CATH_1tzyG00 (G:38-135)
1c: CATH_1tzyH00 (H:19-102)
1d: CATH_1tzyD00 (D:20-102)
1e: CATH_1tzyE00 (E:14-117)
1f: CATH_1tzyA00 (A:13-118)
1g: CATH_1tzyF00 (F:33-125)
1h: CATH_1tzyB00 (B:33-124)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Histone, subunit A
(62)
Homologous Superfamily
:
Histone, subunit A
(62)
Chicken (Gallus gallus)
(4)
1a
1tzyC00
C:41-135
1b
1tzyG00
G:38-135
1c
1tzyH00
H:19-102
1d
1tzyD00
D:20-102
1e
1tzyE00
E:14-117
1f
1tzyA00
A:13-118
1g
1tzyF00
F:33-125
1h
1tzyB00
B:33-124
[
close CATH info
]
Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Histone_1tzyE01 (E:17-90)
1b: PFAM_Histone_1tzyE02 (E:17-90)
1c: PFAM_Histone_1tzyF01 (F:33-101)
1d: PFAM_Histone_1tzyF02 (F:33-101)
1e: PFAM_Histone_1tzyG01 (G:57-131)
1f: PFAM_Histone_1tzyG02 (G:57-131)
1g: PFAM_Histone_1tzyH01 (H:24-93)
1h: PFAM_Histone_1tzyH02 (H:24-93)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Histone
(49)
Family
:
Histone
(46)
Gallus gallus (Chicken)
(2)
1a
Histone-1tzyE01
E:17-90
1b
Histone-1tzyE02
E:17-90
1c
Histone-1tzyF01
F:33-101
1d
Histone-1tzyF02
F:33-101
1e
Histone-1tzyG01
G:57-131
1f
Histone-1tzyG02
G:57-131
1g
Histone-1tzyH01
H:24-93
1h
Histone-1tzyH02
H:24-93
[
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]
Atom Selection
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Nucleic
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Sidechain
Hetero
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Solvent
All Atoms
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Protein & NOT Site
Protein & NOT PROSITE
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Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
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select residue range 5 to 10 in chain 'A'
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