Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

7PFX

Nucleosome 3 of the 4x207 nucleosome array containing H1

Functional Information from GO Data

Chain	GOid	namespace	contents
K	0000786	cellular_component	nucleosome
K	0003677	molecular_function	DNA binding
K	0005515	molecular_function	protein binding
K	0005576	cellular_component	extracellular region
K	0005634	cellular_component	nucleus
K	0005654	cellular_component	nucleoplasm
K	0005694	cellular_component	chromosome
K	0006325	biological_process	chromatin organization
K	0006334	biological_process	nucleosome assembly
K	0030527	molecular_function	structural constituent of chromatin
K	0043229	cellular_component	intracellular organelle
K	0046982	molecular_function	protein heterodimerization activity
K	0070062	cellular_component	extracellular exosome
L	0000781	cellular_component	chromosome, telomeric region
L	0000786	cellular_component	nucleosome
L	0003677	molecular_function	DNA binding
L	0003723	molecular_function	RNA binding
L	0005515	molecular_function	protein binding
L	0005576	cellular_component	extracellular region
L	0005634	cellular_component	nucleus
L	0005654	cellular_component	nucleoplasm
L	0005694	cellular_component	chromosome
L	0006325	biological_process	chromatin organization
L	0006334	biological_process	nucleosome assembly
L	0016020	cellular_component	membrane
L	0030527	molecular_function	structural constituent of chromatin
L	0032200	biological_process	telomere organization
L	0032991	cellular_component	protein-containing complex
L	0043505	cellular_component	CENP-A containing nucleosome
L	0045653	biological_process	negative regulation of megakaryocyte differentiation
L	0046982	molecular_function	protein heterodimerization activity
L	0061644	biological_process	protein localization to CENP-A containing chromatin
L	0070062	cellular_component	extracellular exosome
M	0000786	cellular_component	nucleosome
M	0003677	molecular_function	DNA binding
M	0005515	molecular_function	protein binding
M	0005634	cellular_component	nucleus
M	0005694	cellular_component	chromosome
M	0006325	biological_process	chromatin organization
M	0008285	biological_process	negative regulation of cell population proliferation
M	0030527	molecular_function	structural constituent of chromatin
M	0031492	molecular_function	nucleosomal DNA binding
M	0031507	biological_process	heterochromatin formation
M	0043229	cellular_component	intracellular organelle
M	0043505	cellular_component	CENP-A containing nucleosome
M	0046982	molecular_function	protein heterodimerization activity
M	0061644	biological_process	protein localization to CENP-A containing chromatin
M	0070062	cellular_component	extracellular exosome
N	0000786	cellular_component	nucleosome
N	0002227	biological_process	innate immune response in mucosa
N	0003674	molecular_function	molecular_function
N	0003677	molecular_function	DNA binding
N	0005515	molecular_function	protein binding
N	0005615	cellular_component	extracellular space
N	0005634	cellular_component	nucleus
N	0005654	cellular_component	nucleoplasm
N	0005694	cellular_component	chromosome
N	0005829	cellular_component	cytosol
N	0019731	biological_process	antibacterial humoral response
N	0030527	molecular_function	structural constituent of chromatin
N	0031640	biological_process	killing of cells of another organism
N	0042742	biological_process	defense response to bacterium
N	0043229	cellular_component	intracellular organelle
N	0046982	molecular_function	protein heterodimerization activity
N	0050829	biological_process	defense response to Gram-negative bacterium
N	0050830	biological_process	defense response to Gram-positive bacterium
N	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
O	0000786	cellular_component	nucleosome
O	0003677	molecular_function	DNA binding
O	0005515	molecular_function	protein binding
O	0005576	cellular_component	extracellular region
O	0005634	cellular_component	nucleus
O	0005654	cellular_component	nucleoplasm
O	0005694	cellular_component	chromosome
O	0006325	biological_process	chromatin organization
O	0006334	biological_process	nucleosome assembly
O	0030527	molecular_function	structural constituent of chromatin
O	0043229	cellular_component	intracellular organelle
O	0046982	molecular_function	protein heterodimerization activity
O	0070062	cellular_component	extracellular exosome
P	0000781	cellular_component	chromosome, telomeric region
P	0000786	cellular_component	nucleosome
P	0003677	molecular_function	DNA binding
P	0003723	molecular_function	RNA binding
P	0005515	molecular_function	protein binding
P	0005576	cellular_component	extracellular region
P	0005634	cellular_component	nucleus
P	0005654	cellular_component	nucleoplasm
P	0005694	cellular_component	chromosome
P	0006325	biological_process	chromatin organization
P	0006334	biological_process	nucleosome assembly
P	0016020	cellular_component	membrane
P	0030527	molecular_function	structural constituent of chromatin
P	0032200	biological_process	telomere organization
P	0032991	cellular_component	protein-containing complex
P	0043505	cellular_component	CENP-A containing nucleosome
P	0045653	biological_process	negative regulation of megakaryocyte differentiation
P	0046982	molecular_function	protein heterodimerization activity
P	0061644	biological_process	protein localization to CENP-A containing chromatin
P	0070062	cellular_component	extracellular exosome
Q	0000786	cellular_component	nucleosome
Q	0003677	molecular_function	DNA binding
Q	0005515	molecular_function	protein binding
Q	0005634	cellular_component	nucleus
Q	0005694	cellular_component	chromosome
Q	0006325	biological_process	chromatin organization
Q	0008285	biological_process	negative regulation of cell population proliferation
Q	0030527	molecular_function	structural constituent of chromatin
Q	0031492	molecular_function	nucleosomal DNA binding
Q	0031507	biological_process	heterochromatin formation
Q	0043229	cellular_component	intracellular organelle
Q	0043505	cellular_component	CENP-A containing nucleosome
Q	0046982	molecular_function	protein heterodimerization activity
Q	0061644	biological_process	protein localization to CENP-A containing chromatin
Q	0070062	cellular_component	extracellular exosome
R	0000786	cellular_component	nucleosome
R	0002227	biological_process	innate immune response in mucosa
R	0003674	molecular_function	molecular_function
R	0003677	molecular_function	DNA binding
R	0005515	molecular_function	protein binding
R	0005615	cellular_component	extracellular space
R	0005634	cellular_component	nucleus
R	0005654	cellular_component	nucleoplasm
R	0005694	cellular_component	chromosome
R	0005829	cellular_component	cytosol
R	0019731	biological_process	antibacterial humoral response
R	0030527	molecular_function	structural constituent of chromatin
R	0031640	biological_process	killing of cells of another organism
R	0042742	biological_process	defense response to bacterium
R	0043229	cellular_component	intracellular organelle
R	0046982	molecular_function	protein heterodimerization activity
R	0050829	biological_process	defense response to Gram-negative bacterium
R	0050830	biological_process	defense response to Gram-positive bacterium
R	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
S	0000122	biological_process	negative regulation of transcription by RNA polymerase II
S	0000786	cellular_component	nucleosome
S	0000791	cellular_component	euchromatin
S	0000792	cellular_component	heterochromatin
S	0003677	molecular_function	DNA binding
S	0003690	molecular_function	double-stranded DNA binding
S	0003723	molecular_function	RNA binding
S	0005515	molecular_function	protein binding
S	0005634	cellular_component	nucleus
S	0005694	cellular_component	chromosome
S	0006325	biological_process	chromatin organization
S	0006334	biological_process	nucleosome assembly
S	0006357	biological_process	regulation of transcription by RNA polymerase II
S	0030261	biological_process	chromosome condensation
S	0030527	molecular_function	structural constituent of chromatin
S	0031490	molecular_function	chromatin DNA binding
S	0031492	molecular_function	nucleosomal DNA binding
S	0042826	molecular_function	histone deacetylase binding
S	0045910	biological_process	negative regulation of DNA recombination

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
M	ALA21-VAL27

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

Chain	Residue	Details
L	GLY14-HIS18

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

Chain	Residue	Details
K	LYS14-LEU20

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

Chain	Residue	Details
N	ARG92-GLY114

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

Chain	Residue	Details
K	PRO66-ILE74

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0000250\|UniProtKB:P15865

Chain	Residue	Details
S	SER1
R	PRO1

site_id	SWS_FT_FI2
Number of Residues	1
Details	MOD_RES: N6-acetyllysine => ECO:0000250\|UniProtKB:P43274

Chain	Residue	Details
S	LYS16
R	GLU2

site_id	SWS_FT_FI3
Number of Residues	1
Details	MOD_RES: Phosphothreonine => ECO:0007744\|PubMed:17081983, ECO:0007744\|PubMed:18669648, ECO:0007744\|PubMed:18691976, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:21406692, ECO:0007744\|PubMed:23186163, ECO:0007744\|PubMed:24275569

Chain	Residue	Details
S	THR17
R	LYS11
R	LYS15
R	LYS16
R	LYS20
R	LYS23
R	LYS43
R	LYS85
N	LYS11
N	LYS15
N	LYS16
N	LYS20
N	LYS23
N	LYS43
N	LYS85
R	LYS5

site_id	SWS_FT_FI4
Number of Residues	1
Details	MOD_RES: N6-methyllysine; alternate => ECO:0000269\|PubMed:3782055

Chain	Residue	Details
S	LYS25
R	SER6
Q	LYS9
Q	LYS95

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250\|UniProtKB:P43274

Chain	Residue	Details
S	LYS33
R	LYS12
L	LYS44
P	LYS8
P	LYS16
P	LYS44

site_id	SWS_FT_FI6
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0000250\|UniProtKB:P43274

Chain	Residue	Details
S	SER35
R	SER14
L	LYS77
L	LYS91
P	LYS12
P	LYS31
P	LYS77
P	LYS91

site_id	SWS_FT_FI7
Number of Residues	5
Details	MOD_RES: N6-(beta-hydroxybutyryl)lysine => ECO:0000250\|UniProtKB:P43277

Chain	Residue	Details
S	LYS51
S	LYS63
S	LYS84
S	LYS89
S	LYS105

site_id	SWS_FT_FI8
Number of Residues	1
Details	MOD_RES: Citrulline => ECO:0000250\|UniProtKB:P43274

Chain	Residue	Details
S	ARG53
N	LYS116
N	LYS120
R	LYS34
R	LYS116
R	LYS120

site_id	SWS_FT_FI9
Number of Residues	1
Details	MOD_RES: Phosphothreonine => ECO:0007744\|PubMed:20068231

Chain	Residue	Details
S	THR145
R	GLU35
M	LYS125
Q	LYS118
Q	LYS119
Q	LYS125

site_id	SWS_FT_FI10
Number of Residues	1
Details	MOD_RES: ADP-ribosylserine => ECO:0000269\|PubMed:27723750

Chain	Residue	Details
S	SER149
R	SER36
O	LYS14
O	LYS56

site_id	SWS_FT_FI11
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:17081983, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:21406692

Chain	Residue	Details
S	SER186
N	LYS108
R	LYS46
R	LYS108

site_id	SWS_FT_FI12
Number of Residues	2
Details	MOD_RES: N6-(2-hydroxyisobutyryl)lysine; alternate => ECO:0000269\|PubMed:24681537

Chain	Residue	Details
N	LYS57
R	LYS57
Q	LYS119

site_id	SWS_FT_FI13
Number of Residues	2
Details	MOD_RES: Dimethylated arginine => ECO:0000250\|UniProtKB:Q96A08

Chain	Residue	Details
N	ARG79
R	ARG79

site_id	SWS_FT_FI14
Number of Residues	4
Details	MOD_RES: Omega-N-methylarginine => ECO:0000250\|UniProtKB:Q96A08

Chain	Residue	Details
N	ARG86
N	ARG92
R	ARG86
R	ARG92

site_id	SWS_FT_FI15
Number of Residues	2
Details	MOD_RES: Phosphothreonine => ECO:0000250\|UniProtKB:Q00729

Chain	Residue	Details
N	THR115
R	THR115
P	LYS91

site_id	SWS_FT_FI16
Number of Residues	2
Details	CARBOHYD: O-linked (GlcNAc) serine => ECO:0000250\|UniProtKB:P62807

Chain	Residue	Details
N	SER112
R	SER112
L	LYS79
P	LYS20
P	LYS59
P	LYS79

site_id	SWS_FT_FI17
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0000250\|UniProtKB:P58876

Chain	Residue	Details
N	LYS5
R	LYS5

site_id	SWS_FT_FI18
Number of Residues	4
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269\|PubMed:16307923, ECO:0000269\|PubMed:16627869, ECO:0000269\|PubMed:16713563

Chain	Residue	Details
K	SER57
N	LYS120
R	LYS120

site_id	SWS_FT_FI19
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0000250\|UniProtKB:Q5QNW6

Chain	Residue	Details
N	LYS20
R	LYS20

site_id	SWS_FT_FI20
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269\|PubMed:21726816

Chain	Residue	Details
N	LYS34
R	LYS34

site_id	SWS_FT_FI21
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0000250\|UniProtKB:P84243

Chain	Residue	Details
K	SER86
O	SER86

site_id	SWS_FT_FI22
Number of Residues	2
Details	MOD_RES: Phosphothreonine => ECO:0007744\|PubMed:19690332

Chain	Residue	Details
K	THR107
O	THR107

site_id	SWS_FT_FI23
Number of Residues	2
Details	MOD_RES: N6-glutaryllysine; alternate => ECO:0000269\|PubMed:31542297

Chain	Residue	Details
K	LYS115
O	LYS115

site_id	SWS_FT_FI24
Number of Residues	2
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000269\|PubMed:22389435, ECO:0000269\|PubMed:27436229

Chain	Residue	Details
K	LYS122
O	LYS122

site_id	SWS_FT_FI25
Number of Residues	2
Details	LIPID: N6-decanoyllysine => ECO:0000269\|PubMed:35939806

Chain	Residue	Details
K	LYS18
O	LYS18

site_id	SWS_FT_FI26
Number of Residues	2
Details	LIPID: S-palmitoyl cysteine => ECO:0000269\|PubMed:21076176

Chain	Residue	Details
K	ALA110
O	ALA110

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)