Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

1HQ3

CRYSTAL STRUCTURE OF THE HISTONE-CORE-OCTAMER IN KCL/PHOSPHATE

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000786	cellular_component	nucleosome
A	0003677	molecular_function	DNA binding
A	0005634	cellular_component	nucleus
A	0005694	cellular_component	chromosome
A	0030527	molecular_function	structural constituent of chromatin
A	0031507	biological_process	heterochromatin formation
A	0046982	molecular_function	protein heterodimerization activity
B	0000786	cellular_component	nucleosome
B	0003677	molecular_function	DNA binding
B	0005634	cellular_component	nucleus
B	0005694	cellular_component	chromosome
B	0030527	molecular_function	structural constituent of chromatin
B	0044877	molecular_function	protein-containing complex binding
B	0046982	molecular_function	protein heterodimerization activity
C	0000786	cellular_component	nucleosome
C	0003677	molecular_function	DNA binding
C	0005634	cellular_component	nucleus
C	0005694	cellular_component	chromosome
C	0030527	molecular_function	structural constituent of chromatin
C	0046982	molecular_function	protein heterodimerization activity
D	0000786	cellular_component	nucleosome
D	0003677	molecular_function	DNA binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005694	cellular_component	chromosome
D	0006334	biological_process	nucleosome assembly
D	0030527	molecular_function	structural constituent of chromatin
D	0046982	molecular_function	protein heterodimerization activity
E	0000786	cellular_component	nucleosome
E	0003677	molecular_function	DNA binding
E	0005634	cellular_component	nucleus
E	0005694	cellular_component	chromosome
E	0030527	molecular_function	structural constituent of chromatin
E	0031507	biological_process	heterochromatin formation
E	0046982	molecular_function	protein heterodimerization activity
F	0000786	cellular_component	nucleosome
F	0003677	molecular_function	DNA binding
F	0005634	cellular_component	nucleus
F	0005694	cellular_component	chromosome
F	0030527	molecular_function	structural constituent of chromatin
F	0044877	molecular_function	protein-containing complex binding
F	0046982	molecular_function	protein heterodimerization activity
G	0000786	cellular_component	nucleosome
G	0003677	molecular_function	DNA binding
G	0005634	cellular_component	nucleus
G	0005694	cellular_component	chromosome
G	0030527	molecular_function	structural constituent of chromatin
G	0046982	molecular_function	protein heterodimerization activity
H	0000786	cellular_component	nucleosome
H	0003677	molecular_function	DNA binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005694	cellular_component	chromosome
H	0006334	biological_process	nucleosome assembly
H	0030527	molecular_function	structural constituent of chromatin
H	0046982	molecular_function	protein heterodimerization activity

Functional Information from PDB Data

site_id	1
Number of Residues
Details

Chain

Residue

site_id	AC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PO4 A 501

Chain	Residue
A	ARG29
A	ARG32
A	LYS36
A	HOH661
D	LYS31

site_id	AC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PO4 B 502

Chain	Residue
A	ARG77
B	SER55
B	SER56
B	HOH657

site_id	AC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE PO4 E 503

Chain	Residue
E	ARG29
E	ARG32
E	LYS36

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE PO4 E 504

Chain	Residue
E	ARG77
E	HOH653
F	SER55
F	SER56

site_id	AC5
Number of Residues	5
Details	BINDING SITE FOR RESIDUE PO4 C 505

Chain	Residue
C	GLU50
C	ARG53
C	TYR54
D	ARG36
D	HOH660

site_id	AC6
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL G 601

Chain	Residue
G	LEU60
G	LYS64

site_id	AC7
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CL E 602

Chain	Residue
E	GLY46
E	ALA47
F	THR90
F	SER91

site_id	AC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL D 603

Chain	Residue
D	ARG39
D	ILE46

site_id	AC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL A 604

Chain	Residue
A	ARG35
D	LYS31

site_id	BC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL H 605

Chain	Residue
A	THR101
A	HOH666
H	ARG95

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE CL A 606

Chain	Residue
A	GLY44
A	GLY46
A	ALA47
B	THR90
B	SER91

site_id	BC3
Number of Residues	1
Details	BINDING SITE FOR RESIDUE CL C 607

Chain	Residue
C	LYS122

site_id	BC4
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL G 608

Chain	Residue
G	PRO121
G	LYS122

site_id	BC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL G 609

Chain	Residue
G	ARG116
G	VAL117
G	THR118

site_id	BC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL H 610

Chain	Residue
H	ARG35
H	ARG39
H	ILE46

site_id	BC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL G 611

Chain	Residue
G	GLN68
G	ARG69
G	ARG72

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CL D 612

Chain	Residue
C	ARG63
D	GLY28
D	THR30
D	ALA33

site_id	BC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL A 613

Chain	Residue
A	LEU85
A	ASN89

site_id	CC1
Number of Residues	5
Details	BINDING SITE FOR RESIDUE CL B 614

Chain	Residue
B	LYS34
B	SER64
B	HOH632
H	GLY101
H	HOH620

site_id	CC2
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL C 615

Chain	Residue
C	ARG116
C	VAL117
C	THR118

site_id	CC3
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CL F 616

Chain	Residue
F	LYS116
H	LEU22
H	ARG23
H	ASN25

site_id	CC4
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL D 617

Chain	Residue
C	ALA95
D	ARG95
E	THR101

site_id	CC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL H 618

Chain	Residue
F	LYS108
H	THR30
H	LYS31

site_id	CC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL C 619

Chain	Residue
C	GLN125
C	ARG128
C	ARG134

site_id	CC7
Number of Residues	1
Details	BINDING SITE FOR RESIDUE CL A 620

Chain	Residue
A	ILE111

site_id	CC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL E 621

Chain	Residue
E	ARG17
E	SER18
E	GLY28

site_id	CC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE CL A 622

Chain	Residue
A	ARG29
D	LYS31

Functional Information from PROSITE/UniProt

site_id	PS00046
Number of Residues	7
Details	HISTONE_H2A Histone H2A signature. AGLqFPV

Chain	Residue	Details
A	ALA21-VAL27

site_id	PS00047
Number of Residues	5
Details	HISTONE_H4 Histone H4 signature. GAKRH

Chain	Residue	Details
D	GLY14-HIS18

site_id	PS00322
Number of Residues	7
Details	HISTONE_H3_1 Histone H3 signature 1. KAPRKQL

Chain	Residue	Details
C	LYS14-LEU20

site_id	PS00357
Number of Residues	23
Details	HISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG

Chain	Residue	Details
B	ARG92-GLY114

site_id	PS00959
Number of Residues	9
Details	HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI

Chain	Residue	Details
C	PRO66-ILE74

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	Modified residue: {"description":"N6-(2-hydroxyisobutyryl)lysine; alternate","evidences":[{"source":"UniProtKB","id":"P0C0S8","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Modified residue: {"description":"N6-(2-hydroxyisobutyryl)lysine","evidences":[{"source":"UniProtKB","id":"P0C0S8","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	2
Details	Modified residue: {"description":"N6-succinyllysine","evidences":[{"source":"UniProtKB","id":"P0C0S8","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	2
Details	Modified residue: {"description":"N6-glutaryllysine","evidences":[{"source":"UniProtKB","id":"P0C0S8","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	2
Details	Modified residue: {"description":"N5-methylglutamine","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	1
Details	Modified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"UniProtKB","id":"P0C0S8","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	5
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	2
Details	Glycosylation: {"description":"O-linked (GlcNAc) serine","evidences":[{"source":"UniProtKB","id":"P62807","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"2713375","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	2
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	4
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P84228","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI12
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI13
Number of Residues	2
Details	Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI14
Number of Residues	4
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI15
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI16
Number of Residues	2
Details	Modified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI17
Number of Residues	2
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI18
Number of Residues	2
Details	Lipidation: {"description":"S-palmitoyl cysteine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI19
Number of Residues	2
Details	Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI20
Number of Residues	4
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI21
Number of Residues	4
Details	Modified residue: {"description":"N6-propionyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI22
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine; by PAK2","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI23
Number of Residues	4
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI24
Number of Residues	2
Details	Modified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI25
Number of Residues	2
Details	Modified residue: {"description":"N6-succinyllysine","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI26
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI27
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)