6TDA

Structure of SWI/SNF chromatin remodeler RSC bound to a nucleosome

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	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005694	cellular_component	chromosome
A	0030527	molecular_function	structural constituent of chromatin
A	0031492	molecular_function	nucleosomal DNA binding
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	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005694	cellular_component	chromosome
B	0006334	biological_process	nucleosome assembly
B	0030527	molecular_function	structural constituent of chromatin
B	0031507	biological_process	heterochromatin formation
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	0031507	biological_process	heterochromatin formation
C	0046982	molecular_function	protein heterodimerization activity
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	0005694	cellular_component	chromosome
D	0006325	biological_process	chromatin organization
D	0019731	biological_process	antibacterial humoral response
D	0030527	molecular_function	structural constituent of chromatin
D	0031507	biological_process	heterochromatin formation
D	0046982	molecular_function	protein heterodimerization activity
D	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
E	0000786	cellular_component	nucleosome
E	0003677	molecular_function	DNA binding
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005694	cellular_component	chromosome
E	0030527	molecular_function	structural constituent of chromatin
E	0031492	molecular_function	nucleosomal DNA binding
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	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0005694	cellular_component	chromosome
F	0006334	biological_process	nucleosome assembly
F	0030527	molecular_function	structural constituent of chromatin
F	0031507	biological_process	heterochromatin formation
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	0031507	biological_process	heterochromatin formation
G	0046982	molecular_function	protein heterodimerization activity
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	0005694	cellular_component	chromosome
H	0006325	biological_process	chromatin organization
H	0019731	biological_process	antibacterial humoral response
H	0030527	molecular_function	structural constituent of chromatin
H	0031507	biological_process	heterochromatin formation
H	0046982	molecular_function	protein heterodimerization activity
H	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
K	0000086	biological_process	G2/M transition of mitotic cell cycle
K	0000228	cellular_component	nuclear chromosome
K	0000785	cellular_component	chromatin
K	0003712	molecular_function	transcription coregulator activity
K	0005515	molecular_function	protein binding
K	0005634	cellular_component	nucleus
K	0006302	biological_process	double-strand break repair
K	0006325	biological_process	chromatin organization
K	0006337	biological_process	nucleosome disassembly
K	0006338	biological_process	chromatin remodeling
K	0006351	biological_process	DNA-templated transcription
K	0006357	biological_process	regulation of transcription by RNA polymerase II
K	0006368	biological_process	transcription elongation by RNA polymerase II
K	0007059	biological_process	chromosome segregation
K	0016586	cellular_component	RSC-type complex
K	0031491	molecular_function	nucleosome binding
K	0033262	biological_process	regulation of nuclear cell cycle DNA replication
K	0034080	biological_process	CENP-A containing chromatin assembly
L	0008270	molecular_function	zinc ion binding
M	0000785	cellular_component	chromatin
M	0003674	molecular_function	molecular_function
M	0005515	molecular_function	protein binding
M	0005634	cellular_component	nucleus
M	0006325	biological_process	chromatin organization
M	0006337	biological_process	nucleosome disassembly
M	0006338	biological_process	chromatin remodeling
M	0006351	biological_process	DNA-templated transcription
M	0006368	biological_process	transcription elongation by RNA polymerase II
M	0016586	cellular_component	RSC-type complex
M	0031490	molecular_function	chromatin DNA binding
M	0042802	molecular_function	identical protein binding
N	0000785	cellular_component	chromatin
N	0003677	molecular_function	DNA binding
N	0005515	molecular_function	protein binding
N	0005634	cellular_component	nucleus
N	0006325	biological_process	chromatin organization
N	0006337	biological_process	nucleosome disassembly
N	0006338	biological_process	chromatin remodeling
N	0006351	biological_process	DNA-templated transcription
N	0006355	biological_process	regulation of DNA-templated transcription
N	0006357	biological_process	regulation of transcription by RNA polymerase II
N	0006368	biological_process	transcription elongation by RNA polymerase II
N	0009303	biological_process	rRNA transcription
N	0016586	cellular_component	RSC-type complex
O	0000785	cellular_component	chromatin
O	0005198	molecular_function	structural molecule activity
O	0005515	molecular_function	protein binding
O	0005634	cellular_component	nucleus
O	0006325	biological_process	chromatin organization
O	0006337	biological_process	nucleosome disassembly
O	0006338	biological_process	chromatin remodeling
O	0006351	biological_process	DNA-templated transcription
O	0016586	cellular_component	RSC-type complex
O	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
P	0000785	cellular_component	chromatin
P	0003674	molecular_function	molecular_function
P	0005515	molecular_function	protein binding
P	0005634	cellular_component	nucleus
P	0006325	biological_process	chromatin organization
P	0006337	biological_process	nucleosome disassembly
P	0006338	biological_process	chromatin remodeling
P	0006351	biological_process	DNA-templated transcription
P	0006357	biological_process	regulation of transcription by RNA polymerase II
P	0006368	biological_process	transcription elongation by RNA polymerase II
P	0016586	cellular_component	RSC-type complex
P	0042802	molecular_function	identical protein binding
Q	0000086	biological_process	G2/M transition of mitotic cell cycle
Q	0000785	cellular_component	chromatin
Q	0003682	molecular_function	chromatin binding
Q	0005515	molecular_function	protein binding
Q	0005634	cellular_component	nucleus
Q	0006337	biological_process	nucleosome disassembly
Q	0006338	biological_process	chromatin remodeling
Q	0006351	biological_process	DNA-templated transcription
Q	0006368	biological_process	transcription elongation by RNA polymerase II
Q	0016586	cellular_component	RSC-type complex
R	0000785	cellular_component	chromatin
R	0003682	molecular_function	chromatin binding
R	0005515	molecular_function	protein binding
R	0005634	cellular_component	nucleus
R	0006325	biological_process	chromatin organization
R	0006337	biological_process	nucleosome disassembly
R	0006338	biological_process	chromatin remodeling
R	0006351	biological_process	DNA-templated transcription
R	0006366	biological_process	transcription by RNA polymerase II
R	0006368	biological_process	transcription elongation by RNA polymerase II
R	0016586	cellular_component	RSC-type complex
R	0042802	molecular_function	identical protein binding
R	0140006	molecular_function	histone H3 reader activity
R	0140008	molecular_function	histone H4 reader activity
S	0000166	molecular_function	nucleotide binding
S	0000775	cellular_component	chromosome, centromeric region
S	0000785	cellular_component	chromatin
S	0003677	molecular_function	DNA binding
S	0003678	molecular_function	DNA helicase activity
S	0003682	molecular_function	chromatin binding
S	0003824	molecular_function	catalytic activity
S	0004386	molecular_function	helicase activity
S	0005515	molecular_function	protein binding
S	0005524	molecular_function	ATP binding
S	0005634	cellular_component	nucleus
S	0006284	biological_process	base-excision repair
S	0006302	biological_process	double-strand break repair
S	0006325	biological_process	chromatin organization
S	0006337	biological_process	nucleosome disassembly
S	0006338	biological_process	chromatin remodeling
S	0006351	biological_process	DNA-templated transcription
S	0006355	biological_process	regulation of DNA-templated transcription
S	0006366	biological_process	transcription by RNA polymerase II
S	0006368	biological_process	transcription elongation by RNA polymerase II
S	0007010	biological_process	cytoskeleton organization
S	0007059	biological_process	chromosome segregation
S	0010468	biological_process	regulation of gene expression
S	0015616	molecular_function	DNA translocase activity
S	0016586	cellular_component	RSC-type complex
S	0016787	molecular_function	hydrolase activity
S	0016887	molecular_function	ATP hydrolysis activity
S	0031507	biological_process	heterochromatin formation
S	0034080	biological_process	CENP-A containing chromatin assembly
S	0042393	molecular_function	histone binding
S	0045944	biological_process	positive regulation of transcription by RNA polymerase II
S	0051321	biological_process	meiotic cell cycle
S	0140008	molecular_function	histone H4 reader activity
S	0140015	molecular_function	histone H3K14ac reader activity
S	0140054	molecular_function	histone H2A reader activity
S	0140658	molecular_function	ATP-dependent chromatin remodeler activity
S	0140750	molecular_function	nucleosome array spacer activity
T	0000785	cellular_component	chromatin
T	0003674	molecular_function	molecular_function
T	0003682	molecular_function	chromatin binding
T	0005198	molecular_function	structural molecule activity
T	0005515	molecular_function	protein binding
T	0005634	cellular_component	nucleus
T	0006325	biological_process	chromatin organization
T	0006337	biological_process	nucleosome disassembly
T	0006338	biological_process	chromatin remodeling
T	0006351	biological_process	DNA-templated transcription
T	0006355	biological_process	regulation of DNA-templated transcription
T	0006357	biological_process	regulation of transcription by RNA polymerase II
T	0006368	biological_process	transcription elongation by RNA polymerase II
T	0016514	cellular_component	SWI/SNF complex
T	0016586	cellular_component	RSC-type complex
T	0035267	cellular_component	NuA4 histone acetyltransferase complex
T	0045944	biological_process	positive regulation of transcription by RNA polymerase II
U	0000785	cellular_component	chromatin
U	0005198	molecular_function	structural molecule activity
U	0005515	molecular_function	protein binding
U	0005634	cellular_component	nucleus
U	0006325	biological_process	chromatin organization
U	0006337	biological_process	nucleosome disassembly
U	0006338	biological_process	chromatin remodeling
U	0006351	biological_process	DNA-templated transcription
U	0006355	biological_process	regulation of DNA-templated transcription
U	0006357	biological_process	regulation of transcription by RNA polymerase II
U	0006368	biological_process	transcription elongation by RNA polymerase II
U	0016514	cellular_component	SWI/SNF complex
U	0016586	cellular_component	RSC-type complex
U	0045944	biological_process	positive regulation of transcription by RNA polymerase II
V	0000785	cellular_component	chromatin
V	0005515	molecular_function	protein binding
V	0005634	cellular_component	nucleus
V	0006337	biological_process	nucleosome disassembly
V	0006338	biological_process	chromatin remodeling
V	0006351	biological_process	DNA-templated transcription
V	0006357	biological_process	regulation of transcription by RNA polymerase II
V	0006368	biological_process	transcription elongation by RNA polymerase II
V	0007059	biological_process	chromosome segregation
V	0015616	molecular_function	DNA translocase activity
V	0016514	cellular_component	SWI/SNF complex
V	0016586	cellular_component	RSC-type complex

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN L 560

Chain	Residue
L	CYS260
L	CYS263
L	CYS283
L	CYS286

---

Functional Information from PROSITE/UniProt

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

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

Chain	Residue	Details
A	PRO66-ILE74

---

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

Chain	Residue	Details
D	ARG89-GLY111

---

site_id	PS00633
Number of Residues	57
Details	BROMODOMAIN_1 Bromodomain signature. FkdFiklpSrkfhp..QYYykIqqpMsineIksrdye....YedgpsnflldvelLtkNCqaY

Chain	Residue	Details
R	PHE77-TYR133
R	SER210-PHE267
S	THR1275-TYR1332

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
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_FI3
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
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_FI5
Number of Residues	4
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
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_FI8
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_FI9
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_FI10
Number of Residues	4
Details	DNA binding: {}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	5
Details	Modified residue: {"description":"N6-propionyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	1
Details	Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
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_FI14
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_FI15
Number of Residues	4
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"UniProtKB","id":"P62805","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":"P62805","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI17
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_FI18
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_FI19
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

---

site_id	SWS_FT_FI20
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_FI21
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_FI22
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_FI23
Number of Residues	2
Details	Modified residue: {"description":"N5-methylglutamine","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI24
Number of Residues	4
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_FI25
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_FI26
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"P0C1H4","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI27
Number of Residues	41
Details	Region: {"description":"Interaction with STH1","evidences":[{"source":"PubMed","id":"9154831","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI28
Number of Residues	97
Details	Domain: {"description":"SWIRM","evidences":[{"source":"PROSITE-ProRule","id":"PRU00247","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI29
Number of Residues	4
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00228","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI30
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI31
Number of Residues	165
Details	Domain: {"description":"Helicase ATP-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI32
Number of Residues	3
Details	Motif: {"description":"DEGH box"}

Chain

Residue

Details

---

site_id	SWS_FT_FI33
Number of Residues	7
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---