8EVI

CX3CR1 nucleosome and PU.1 complex containing disulfide bond mutations

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000786	cellular_component	nucleosome
A	0003677	molecular_function	DNA binding
A	0005515	molecular_function	protein binding
A	0005576	cellular_component	extracellular region
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005694	cellular_component	chromosome
A	0006325	biological_process	chromatin organization
A	0006334	biological_process	nucleosome assembly
A	0010467	biological_process	gene expression
A	0016020	cellular_component	membrane
A	0030527	molecular_function	structural constituent of chromatin
A	0032200	biological_process	telomere organization
A	0032991	cellular_component	protein-containing complex
A	0040029	biological_process	epigenetic regulation of gene expression
A	0043229	cellular_component	intracellular organelle
A	0045296	molecular_function	cadherin binding
A	0046982	molecular_function	protein heterodimerization activity
A	0070062	cellular_component	extracellular exosome
B	0000781	cellular_component	chromosome, telomeric region
B	0000786	cellular_component	nucleosome
B	0003677	molecular_function	DNA binding
B	0003723	molecular_function	RNA binding
B	0005515	molecular_function	protein binding
B	0005576	cellular_component	extracellular region
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005694	cellular_component	chromosome
B	0006325	biological_process	chromatin organization
B	0006334	biological_process	nucleosome assembly
B	0016020	cellular_component	membrane
B	0030527	molecular_function	structural constituent of chromatin
B	0032200	biological_process	telomere organization
B	0032991	cellular_component	protein-containing complex
B	0043505	cellular_component	CENP-A containing nucleosome
B	0045653	biological_process	negative regulation of megakaryocyte differentiation
B	0046982	molecular_function	protein heterodimerization activity
B	0061644	biological_process	protein localization to CENP-A containing chromatin
B	0070062	cellular_component	extracellular exosome
C	0000786	cellular_component	nucleosome
C	0003674	molecular_function	molecular_function
C	0003677	molecular_function	DNA binding
C	0005634	cellular_component	nucleus
C	0005694	cellular_component	chromosome
C	0008150	biological_process	biological_process
C	0030527	molecular_function	structural constituent of chromatin
C	0031492	molecular_function	nucleosomal DNA binding
C	0031507	biological_process	heterochromatin formation
C	0043229	cellular_component	intracellular organelle
C	0046982	molecular_function	protein heterodimerization activity
C	0070062	cellular_component	extracellular exosome
D	0000786	cellular_component	nucleosome
D	0002227	biological_process	innate immune response in mucosa
D	0003677	molecular_function	DNA binding
D	0005515	molecular_function	protein binding
D	0005615	cellular_component	extracellular space
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005694	cellular_component	chromosome
D	0005829	cellular_component	cytosol
D	0006334	biological_process	nucleosome assembly
D	0019731	biological_process	antibacterial humoral response
D	0030527	molecular_function	structural constituent of chromatin
D	0042742	biological_process	defense response to bacterium
D	0043229	cellular_component	intracellular organelle
D	0046982	molecular_function	protein heterodimerization activity
D	0050830	biological_process	defense response to Gram-positive bacterium
D	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
D	0070062	cellular_component	extracellular exosome
E	0000786	cellular_component	nucleosome
E	0003677	molecular_function	DNA binding
E	0005515	molecular_function	protein binding
E	0005576	cellular_component	extracellular region
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005694	cellular_component	chromosome
E	0006325	biological_process	chromatin organization
E	0006334	biological_process	nucleosome assembly
E	0010467	biological_process	gene expression
E	0016020	cellular_component	membrane
E	0030527	molecular_function	structural constituent of chromatin
E	0032200	biological_process	telomere organization
E	0032991	cellular_component	protein-containing complex
E	0040029	biological_process	epigenetic regulation of gene expression
E	0043229	cellular_component	intracellular organelle
E	0045296	molecular_function	cadherin binding
E	0046982	molecular_function	protein heterodimerization activity
E	0070062	cellular_component	extracellular exosome
F	0000781	cellular_component	chromosome, telomeric region
F	0000786	cellular_component	nucleosome
F	0003677	molecular_function	DNA binding
F	0003723	molecular_function	RNA binding
F	0005515	molecular_function	protein binding
F	0005576	cellular_component	extracellular region
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005694	cellular_component	chromosome
F	0006325	biological_process	chromatin organization
F	0006334	biological_process	nucleosome assembly
F	0016020	cellular_component	membrane
F	0030527	molecular_function	structural constituent of chromatin
F	0032200	biological_process	telomere organization
F	0032991	cellular_component	protein-containing complex
F	0043505	cellular_component	CENP-A containing nucleosome
F	0045653	biological_process	negative regulation of megakaryocyte differentiation
F	0046982	molecular_function	protein heterodimerization activity
F	0061644	biological_process	protein localization to CENP-A containing chromatin
F	0070062	cellular_component	extracellular exosome
G	0000786	cellular_component	nucleosome
G	0003674	molecular_function	molecular_function
G	0003677	molecular_function	DNA binding
G	0005634	cellular_component	nucleus
G	0005694	cellular_component	chromosome
G	0008150	biological_process	biological_process
G	0030527	molecular_function	structural constituent of chromatin
G	0031492	molecular_function	nucleosomal DNA binding
G	0031507	biological_process	heterochromatin formation
G	0043229	cellular_component	intracellular organelle
G	0046982	molecular_function	protein heterodimerization activity
G	0070062	cellular_component	extracellular exosome
H	0000786	cellular_component	nucleosome
H	0002227	biological_process	innate immune response in mucosa
H	0003677	molecular_function	DNA binding
H	0005515	molecular_function	protein binding
H	0005615	cellular_component	extracellular space
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005694	cellular_component	chromosome
H	0005829	cellular_component	cytosol
H	0006334	biological_process	nucleosome assembly
H	0019731	biological_process	antibacterial humoral response
H	0030527	molecular_function	structural constituent of chromatin
H	0042742	biological_process	defense response to bacterium
H	0043229	cellular_component	intracellular organelle
H	0046982	molecular_function	protein heterodimerization activity
H	0050830	biological_process	defense response to Gram-positive bacterium
H	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
H	0070062	cellular_component	extracellular exosome
O	0000122	biological_process	negative regulation of transcription by RNA polymerase II
O	0000785	cellular_component	chromatin
O	0000978	molecular_function	RNA polymerase II cis-regulatory region sequence-specific DNA binding
O	0000981	molecular_function	DNA-binding transcription factor activity, RNA polymerase II-specific
O	0000987	molecular_function	cis-regulatory region sequence-specific DNA binding
O	0001227	molecular_function	DNA-binding transcription repressor activity, RNA polymerase II-specific
O	0001228	molecular_function	DNA-binding transcription activator activity, RNA polymerase II-specific
O	0001944	biological_process	vasculature development
O	0002314	biological_process	germinal center B cell differentiation
O	0002316	biological_process	follicular B cell differentiation
O	0002320	biological_process	lymphoid progenitor cell differentiation
O	0002327	biological_process	immature B cell differentiation
O	0002572	biological_process	pro-T cell differentiation
O	0002573	biological_process	myeloid leukocyte differentiation
O	0003677	molecular_function	DNA binding
O	0003682	molecular_function	chromatin binding
O	0003700	molecular_function	DNA-binding transcription factor activity
O	0003723	molecular_function	RNA binding
O	0005515	molecular_function	protein binding
O	0005634	cellular_component	nucleus
O	0005654	cellular_component	nucleoplasm
O	0005667	cellular_component	transcription regulator complex
O	0006355	biological_process	regulation of DNA-templated transcription
O	0006357	biological_process	regulation of transcription by RNA polymerase II
O	0007179	biological_process	transforming growth factor beta receptor signaling pathway
O	0010628	biological_process	positive regulation of gene expression
O	0010629	biological_process	negative regulation of gene expression
O	0030098	biological_process	lymphocyte differentiation
O	0030218	biological_process	erythrocyte differentiation
O	0030225	biological_process	macrophage differentiation
O	0030851	biological_process	granulocyte differentiation
O	0031663	biological_process	lipopolysaccharide-mediated signaling pathway
O	0035019	biological_process	somatic stem cell population maintenance
O	0042826	molecular_function	histone deacetylase binding
O	0043011	biological_process	myeloid dendritic cell differentiation
O	0043314	biological_process	negative regulation of neutrophil degranulation
O	0043565	molecular_function	sequence-specific DNA binding
O	0045347	biological_process	negative regulation of MHC class II biosynthetic process
O	0045579	biological_process	positive regulation of B cell differentiation
O	0045815	biological_process	transcription initiation-coupled chromatin remodeling
O	0045892	biological_process	negative regulation of DNA-templated transcription
O	0045893	biological_process	positive regulation of DNA-templated transcription
O	0045944	biological_process	positive regulation of transcription by RNA polymerase II
O	0051090	biological_process	regulation of DNA-binding transcription factor activity
O	0051525	molecular_function	NFAT protein binding
O	0060033	biological_process	anatomical structure regression
O	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
O	0090402	biological_process	oncogene-induced cell senescence
O	0098508	biological_process	endothelial to hematopoietic transition
O	0120186	biological_process	negative regulation of protein localization to chromatin
O	0140297	molecular_function	DNA-binding transcription factor binding
O	0140311	molecular_function	protein sequestering activity
O	1900745	biological_process	positive regulation of p38MAPK cascade
O	1902262	biological_process	apoptotic process involved in blood vessel morphogenesis
O	1902895	biological_process	positive regulation of miRNA transcription
O	1904151	biological_process	positive regulation of microglial cell mediated cytotoxicity
O	1904178	biological_process	negative regulation of adipose tissue development
O	1904238	biological_process	pericyte cell differentiation
O	1905036	biological_process	positive regulation of antifungal innate immune response
O	1905453	biological_process	regulation of myeloid progenitor cell differentiation
O	2000529	biological_process	positive regulation of myeloid dendritic cell chemotaxis

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
G	ALA21-VAL27
C	ALA21-VAL27

---

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

Chain	Residue	Details
B	GLY14-HIS18

---

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

Chain	Residue	Details
A	LYS14-LEU20

---

site_id	PS00345
Number of Residues	9
Details	ETS_DOMAIN_1 Ets-domain signature 1. LYQFLLDLL

Chain	Residue	Details
O	LEU174-LEU182

---

site_id	PS00346
Number of Residues	16
Details	ETS_DOMAIN_2 Ets-domain signature 2. RkkMtYQkMARALRnY

Chain	Residue	Details
O	ARG222-TYR237

---

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

Chain	Residue	Details
D	ARG89-GLY111

---

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

Chain	Residue	Details
A	PRO66-ILE74

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	83
Details	DNA_BIND: ETS => ECO:0000255|PROSITE-ProRule:PRU00237

Chain	Residue	Details
O	ILE172-SER255
F	LYS16-LYS20

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	BINDING: forms a salt bridge with the phosphate backbone of the opposite strand downstream of the GGAA core sequence => ECO:0000269|PubMed:8602247

Chain	Residue	Details
O	LYS219
F	SER1

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	BINDING: contacts bases in the GGAA sequence in the major groove => ECO:0000269|PubMed:8602247, ECO:0007744|PDB:1PUE

Chain	Residue	Details
O	ARG232
H	LYS8
H	LYS12
H	LYS13
H	LYS17
H	LYS20
H	LYS40
H	LYS82
O	ARG235
D	LYS12
D	LYS13
D	LYS17
D	LYS20
D	LYS40
D	LYS82
H	LYS2

---

site_id	SWS_FT_FI4
Number of Residues	1
Details	BINDING: contacts the phosphate backbone of the GGAA sequence in the minor groove upstream => ECO:0000269|PubMed:8602247

Chain	Residue	Details
O	LYS245
C	LYS95

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P17947

Chain	Residue	Details
O	SER142
B	LYS16
B	LYS44
F	LYS8
F	LYS16
F	LYS44

---

site_id	SWS_FT_FI6
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:19144319

Chain	Residue	Details
O	SER148
B	LYS31
B	LYS77
B	LYS91
F	LYS12
F	LYS31
F	LYS77
F	LYS91

---

site_id	SWS_FT_FI7
Number of Residues	2
Details	MOD_RES: N6-(2-hydroxyisobutyryl)lysine => ECO:0000269|PubMed:24681537

Chain	Residue	Details
C	LYS74
C	LYS75

---

site_id	SWS_FT_FI8
Number of Residues	1
Details	MOD_RES: N6-glutaryllysine => ECO:0000269|PubMed:31542297

Chain	Residue	Details
C	LYS99
F	SER47
D	LYS117
H	LYS31
H	LYS113
H	LYS117

---

site_id	SWS_FT_FI9
Number of Residues	1
Details	MOD_RES: N5-methylglutamine => ECO:0000269|PubMed:24352239

Chain	Residue	Details
C	GLN104
F	TYR51

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	MOD_RES: N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297

Chain	Residue	Details
C	LYS118
C	LYS119
E	LYS14
E	LYS56

---

site_id	SWS_FT_FI11
Number of Residues	1
Details	MOD_RES: Phosphothreonine; by DCAF1 => ECO:0000269|PubMed:15078818, ECO:0000269|PubMed:24140421, ECO:0007744|PubMed:18669648

Chain	Residue	Details
C	THR120
F	LYS79
H	LYS43
H	LYS105

---

site_id	SWS_FT_FI12
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648

Chain	Residue	Details
C	SER122
F	THR80
E	LYS18
E	LYS64

---

site_id	SWS_FT_FI13
Number of Residues	1
Details	MOD_RES: N6-crotonyllysine => ECO:0000269|PubMed:21925322

Chain	Residue	Details
C	LYS124
F	TYR88

---

site_id	SWS_FT_FI14
Number of Residues	1
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:22713238, ECO:0000269|PubMed:22980979

Chain	Residue	Details
C	LYS13
F	LYS12
H	ARG83
H	ARG89

---

site_id	SWS_FT_FI15
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:15386022, ECO:0000269|PubMed:16359901, ECO:0000269|PubMed:16702407, ECO:0000269|PubMed:25470042

Chain	Residue	Details
A	LYS27
C	LYS119
F	LYS91

---

site_id	SWS_FT_FI16
Number of Residues	1
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:22713238, ECO:0000269|PubMed:22980979

Chain	Residue	Details
C	LYS15
B	LYS59
B	LYS79
F	LYS20
F	LYS59
F	LYS79

---

site_id	SWS_FT_FI17
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate => ECO:0000269|PubMed:30886146

Chain	Residue	Details
B	LYS31
F	LYS31

---

site_id	SWS_FT_FI18
Number of Residues	2
Details	MOD_RES: N6-methyllysine => ECO:0000269|PubMed:15983376

Chain	Residue	Details
A	LYS37
E	LYS37
H	LYS117

---

site_id	SWS_FT_FI19
Number of Residues	2
Details	MOD_RES: Phosphotyrosine => ECO:0000269|PubMed:19783980

Chain	Residue	Details
A	TYR41
E	TYR41

---

site_id	SWS_FT_FI20
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0000269|PubMed:20850016

Chain	Residue	Details
A	SER57
E	SER57

---

site_id	SWS_FT_FI21
Number of Residues	2
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:29211711

Chain	Residue	Details
A	LYS79
E	LYS79

---

site_id	SWS_FT_FI22
Number of Residues	2
Details	MOD_RES: Phosphothreonine => ECO:0000269|PubMed:20850016

Chain	Residue	Details
A	THR80
E	THR80

---

site_id	SWS_FT_FI23
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P84243

Chain	Residue	Details
A	SER86
E	SER86

---

site_id	SWS_FT_FI24
Number of Residues	2
Details	MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:Q71DI3

Chain	Residue	Details
A	THR107
E	THR107

---

site_id	SWS_FT_FI25
Number of Residues	2
Details	MOD_RES: N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297

Chain	Residue	Details
A	LYS115
E	LYS115

---

site_id	SWS_FT_FI26
Number of Residues	2
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:27436229

Chain	Residue	Details
A	LYS122
E	LYS122

---

site_id	SWS_FT_FI27
Number of Residues	2
Details	LIPID: N6-decanoyllysine => ECO:0000269|PubMed:35939806

Chain	Residue	Details
A	LYS18
E	LYS18

---