8W9E

Cryo-EM structure of the Rpd3S-nucleosome complex from budding yeast in State 2

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	0016020	cellular_component	membrane
a	0030527	molecular_function	structural constituent of chromatin
a	0031492	molecular_function	nucleosomal DNA binding
a	0031507	biological_process	heterochromatin formation
a	0032200	biological_process	telomere organization
a	0032991	cellular_component	protein-containing complex
a	0040029	biological_process	epigenetic regulation of gene expression
a	0045296	molecular_function	cadherin binding
a	0046982	molecular_function	protein heterodimerization activity
a	0070062	cellular_component	extracellular exosome
A	0000086	biological_process	G2/M transition of mitotic cell cycle
A	0000122	biological_process	negative regulation of transcription by RNA polymerase II
A	0000785	cellular_component	chromatin
A	0003713	molecular_function	transcription coactivator activity
A	0003714	molecular_function	transcription corepressor activity
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0006303	biological_process	double-strand break repair via nonhomologous end joining
A	0006325	biological_process	chromatin organization
A	0006334	biological_process	nucleosome assembly
A	0006351	biological_process	DNA-templated transcription
A	0006355	biological_process	regulation of DNA-templated transcription
A	0006357	biological_process	regulation of transcription by RNA polymerase II
A	0010628	biological_process	positive regulation of gene expression
A	0016479	biological_process	negative regulation of transcription by RNA polymerase I
A	0030174	biological_process	regulation of DNA-templated DNA replication initiation
A	0032221	cellular_component	Rpd3S complex
A	0033698	cellular_component	Rpd3L complex
A	0034605	biological_process	cellular response to heat
A	0042802	molecular_function	identical protein binding
A	0044804	biological_process	nucleophagy
A	0045944	biological_process	positive regulation of transcription by RNA polymerase II
A	0051301	biological_process	cell division
A	0051321	biological_process	meiotic cell cycle
A	0061186	biological_process	negative regulation of silent mating-type cassette heterochromatin formation
A	0061188	biological_process	negative regulation of rDNA heterochromatin formation
A	0070210	cellular_component	Rpd3L-Expanded complex
A	0070550	biological_process	rDNA chromatin condensation
A	0070822	cellular_component	Sin3-type complex
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	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
B	0000082	biological_process	G1/S transition of mitotic cell cycle
B	0000086	biological_process	G2/M transition of mitotic cell cycle
B	0000118	cellular_component	histone deacetylase complex
B	0000122	biological_process	negative regulation of transcription by RNA polymerase II
B	0003713	molecular_function	transcription coactivator activity
B	0003714	molecular_function	transcription corepressor activity
B	0004407	molecular_function	histone deacetylase activity
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0006325	biological_process	chromatin organization
B	0006334	biological_process	nucleosome assembly
B	0006351	biological_process	DNA-templated transcription
B	0006355	biological_process	regulation of DNA-templated transcription
B	0006357	biological_process	regulation of transcription by RNA polymerase II
B	0006368	biological_process	transcription elongation by RNA polymerase II
B	0006979	biological_process	response to oxidative stress
B	0006995	biological_process	cellular response to nitrogen starvation
B	0008270	molecular_function	zinc ion binding
B	0010557	biological_process	positive regulation of macromolecule biosynthetic process
B	0016239	biological_process	positive regulation of macroautophagy
B	0016479	biological_process	negative regulation of transcription by RNA polymerase I
B	0016787	molecular_function	hydrolase activity
B	0030174	biological_process	regulation of DNA-templated DNA replication initiation
B	0031507	biological_process	heterochromatin formation
B	0032221	cellular_component	Rpd3S complex
B	0033698	cellular_component	Rpd3L complex
B	0034399	cellular_component	nuclear periphery
B	0034503	biological_process	protein localization to nucleolar rDNA repeats
B	0034605	biological_process	cellular response to heat
B	0044804	biological_process	nucleophagy
B	0045128	biological_process	negative regulation of reciprocal meiotic recombination
B	0045944	biological_process	positive regulation of transcription by RNA polymerase II
B	0051321	biological_process	meiotic cell cycle
B	0061186	biological_process	negative regulation of silent mating-type cassette heterochromatin formation
B	0061188	biological_process	negative regulation of rDNA heterochromatin formation
B	0070210	cellular_component	Rpd3L-Expanded complex
B	0070211	cellular_component	Snt2C complex
B	0070550	biological_process	rDNA chromatin condensation
B	0070822	cellular_component	Sin3-type complex
B	0141221	molecular_function	histone deacetylase activity, hydrolytic mechanism
c	0000786	cellular_component	nucleosome
c	0003677	molecular_function	DNA binding
c	0005515	molecular_function	protein binding
c	0005634	cellular_component	nucleus
c	0005654	cellular_component	nucleoplasm
c	0005694	cellular_component	chromosome
c	0006325	biological_process	chromatin organization
c	0008285	biological_process	negative regulation of cell population proliferation
c	0030527	molecular_function	structural constituent of chromatin
c	0031507	biological_process	heterochromatin formation
c	0046982	molecular_function	protein heterodimerization activity
c	0061644	biological_process	protein localization to CENP-A containing chromatin
c	0070062	cellular_component	extracellular exosome
C	0000122	biological_process	negative regulation of transcription by RNA polymerase II
C	0000123	cellular_component	histone acetyltransferase complex
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0006281	biological_process	DNA repair
C	0006325	biological_process	chromatin organization
C	0006334	biological_process	nucleosome assembly
C	0006335	biological_process	DNA replication-dependent chromatin assembly
C	0006337	biological_process	nucleosome disassembly
C	0006338	biological_process	chromatin remodeling
C	0006351	biological_process	DNA-templated transcription
C	0006355	biological_process	regulation of DNA-templated transcription
C	0006357	biological_process	regulation of transcription by RNA polymerase II
C	0006368	biological_process	transcription elongation by RNA polymerase II
C	0006974	biological_process	DNA damage response
C	0030174	biological_process	regulation of DNA-templated DNA replication initiation
C	0032221	cellular_component	Rpd3S complex
C	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
C	0035267	cellular_component	NuA4 histone acetyltransferase complex
C	0043487	biological_process	regulation of RNA stability
C	0045892	biological_process	negative regulation of DNA-templated transcription
C	0060195	biological_process	negative regulation of antisense RNA transcription
C	0140003	molecular_function	histone H3K36me3 reader activity
C	0140566	molecular_function	histone reader 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	0005654	cellular_component	nucleoplasm
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	0031640	biological_process	killing of cells of another organism
d	0042742	biological_process	defense response to bacterium
d	0046982	molecular_function	protein heterodimerization activity
d	0050829	biological_process	defense response to Gram-negative bacterium
d	0050830	biological_process	defense response to Gram-positive bacterium
d	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide
D	0000122	biological_process	negative regulation of transcription by RNA polymerase II
D	0000123	cellular_component	histone acetyltransferase complex
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0006281	biological_process	DNA repair
D	0006325	biological_process	chromatin organization
D	0006334	biological_process	nucleosome assembly
D	0006335	biological_process	DNA replication-dependent chromatin assembly
D	0006337	biological_process	nucleosome disassembly
D	0006338	biological_process	chromatin remodeling
D	0006351	biological_process	DNA-templated transcription
D	0006355	biological_process	regulation of DNA-templated transcription
D	0006357	biological_process	regulation of transcription by RNA polymerase II
D	0006368	biological_process	transcription elongation by RNA polymerase II
D	0006974	biological_process	DNA damage response
D	0030174	biological_process	regulation of DNA-templated DNA replication initiation
D	0032221	cellular_component	Rpd3S complex
D	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
D	0035267	cellular_component	NuA4 histone acetyltransferase complex
D	0043487	biological_process	regulation of RNA stability
D	0045892	biological_process	negative regulation of DNA-templated transcription
D	0060195	biological_process	negative regulation of antisense RNA transcription
D	0140003	molecular_function	histone H3K36me3 reader activity
D	0140566	molecular_function	histone reader activity
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	0016020	cellular_component	membrane
e	0030527	molecular_function	structural constituent of chromatin
e	0031492	molecular_function	nucleosomal DNA binding
e	0031507	biological_process	heterochromatin formation
e	0032200	biological_process	telomere organization
e	0032991	cellular_component	protein-containing complex
e	0040029	biological_process	epigenetic regulation of gene expression
e	0045296	molecular_function	cadherin binding
e	0046982	molecular_function	protein heterodimerization activity
e	0070062	cellular_component	extracellular exosome
E	0000118	cellular_component	histone deacetylase complex
E	0000122	biological_process	negative regulation of transcription by RNA polymerase II
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0006325	biological_process	chromatin organization
E	0006334	biological_process	nucleosome assembly
E	0006351	biological_process	DNA-templated transcription
E	0006357	biological_process	regulation of transcription by RNA polymerase II
E	0006368	biological_process	transcription elongation by RNA polymerase II
E	0008270	molecular_function	zinc ion binding
E	0030174	biological_process	regulation of DNA-templated DNA replication initiation
E	0032221	cellular_component	Rpd3S complex
E	0045944	biological_process	positive regulation of transcription by RNA polymerase II
E	0046872	molecular_function	metal ion binding
E	0060195	biological_process	negative regulation of antisense RNA transcription
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	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
F	0000118	cellular_component	histone deacetylase complex
F	0000122	biological_process	negative regulation of transcription by RNA polymerase II
F	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0006325	biological_process	chromatin organization
F	0006334	biological_process	nucleosome assembly
F	0006351	biological_process	DNA-templated transcription
F	0006357	biological_process	regulation of transcription by RNA polymerase II
F	0006368	biological_process	transcription elongation by RNA polymerase II
F	0008270	molecular_function	zinc ion binding
F	0030174	biological_process	regulation of DNA-templated DNA replication initiation
F	0032221	cellular_component	Rpd3S complex
F	0045944	biological_process	positive regulation of transcription by RNA polymerase II
F	0046872	molecular_function	metal ion binding
F	0060195	biological_process	negative regulation of antisense RNA transcription
g	0000786	cellular_component	nucleosome
g	0003677	molecular_function	DNA binding
g	0005515	molecular_function	protein binding
g	0005634	cellular_component	nucleus
g	0005654	cellular_component	nucleoplasm
g	0005694	cellular_component	chromosome
g	0006325	biological_process	chromatin organization
g	0008285	biological_process	negative regulation of cell population proliferation
g	0030527	molecular_function	structural constituent of chromatin
g	0031507	biological_process	heterochromatin formation
g	0046982	molecular_function	protein heterodimerization activity
g	0061644	biological_process	protein localization to CENP-A containing chromatin
g	0070062	cellular_component	extracellular exosome
G	0000122	biological_process	negative regulation of transcription by RNA polymerase II
G	0000123	cellular_component	histone acetyltransferase complex
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0006281	biological_process	DNA repair
G	0006325	biological_process	chromatin organization
G	0006334	biological_process	nucleosome assembly
G	0006335	biological_process	DNA replication-dependent chromatin assembly
G	0006337	biological_process	nucleosome disassembly
G	0006338	biological_process	chromatin remodeling
G	0006351	biological_process	DNA-templated transcription
G	0006355	biological_process	regulation of DNA-templated transcription
G	0006357	biological_process	regulation of transcription by RNA polymerase II
G	0006368	biological_process	transcription elongation by RNA polymerase II
G	0006974	biological_process	DNA damage response
G	0030174	biological_process	regulation of DNA-templated DNA replication initiation
G	0032221	cellular_component	Rpd3S complex
G	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
G	0035267	cellular_component	NuA4 histone acetyltransferase complex
G	0043487	biological_process	regulation of RNA stability
G	0045892	biological_process	negative regulation of DNA-templated transcription
G	0060195	biological_process	negative regulation of antisense RNA transcription
G	0140003	molecular_function	histone H3K36me3 reader activity
G	0140566	molecular_function	histone reader 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	0005654	cellular_component	nucleoplasm
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	0031640	biological_process	killing of cells of another organism
h	0042742	biological_process	defense response to bacterium
h	0046982	molecular_function	protein heterodimerization activity
h	0050829	biological_process	defense response to Gram-negative bacterium
h	0050830	biological_process	defense response to Gram-positive bacterium
h	0061844	biological_process	antimicrobial humoral immune response mediated by antimicrobial peptide

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

Chain	Residue	Details
d	ARG92-GLY114

---

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

Chain	Residue	Details
a	PRO66-ILE74

---

site_id	PS01359
Number of Residues	44
Details	ZF_PHD_1 Zinc finger PHD-type signature. CsaCnqsgsf.......................................LcCdt..Cpks.FHflCldppidpnnlpkgd...............................WhCneC

Chain	Residue	Details
E	CYS263-CYS306

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	98
Details	Zinc finger: {"description":"PHD-type 1","evidences":[{"source":"PROSITE-ProRule","id":"PRU00146","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	58
Details	Zinc finger: {"description":"PHD-type 2; atypical","evidences":[{"source":"PROSITE-ProRule","id":"PRU00146","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	312
Details	Region: {"description":"Histone deacetylase"}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	20
Details	Motif: {"description":"ESA1-RPD3 motif"}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	Active site: {"evidences":[{"evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	2
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"19783980","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	16
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"PubMed","id":"22389435","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"20850016","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	2
Details	Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"PubMed","id":"16267050","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17194708","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"PubMed","id":"22389435","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"29211711","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	2
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"20850016","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

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

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	6
Details	Modified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"PubMed","id":"31542297","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI15
Number of Residues	2
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"PubMed","id":"22389435","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27436229","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI16
Number of Residues	1
Details	Modified residue: {"description":"N6-methyllysine","evidences":[{"source":"PubMed","id":"15983376","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI17
Number of Residues	2
Details	Modified residue: {"description":"N6-propionyllysine; alternate","evidences":[{"source":"PubMed","id":"17267393","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI18
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine; by PAK2","evidences":[{"source":"PubMed","id":"21724829","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17081983","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI19
Number of Residues	2
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"15592455","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI20
Number of Residues	2
Details	Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62806","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI21
Number of Residues	2
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"P62806","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI22
Number of Residues	2
Details	Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI23
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate","evidences":[{"source":"PubMed","id":"30886146","evidenceCode":"ECO:0000269"}]}

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); alternate","evidences":[{"source":"PubMed","id":"19818714","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI25
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI26
Number of Residues	2
Details	Modified residue: {"description":"N6-(beta-hydroxybutyryl)lysine; alternate","evidences":[{"source":"PubMed","id":"27105115","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI27
Number of Residues	2
Details	Modified residue: {"description":"N6-crotonyllysine; alternate","evidences":[{"source":"PubMed","id":"21925322","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI28
Number of Residues	4
Details	Modified residue: {"description":"N6-(2-hydroxyisobutyryl)lysine","evidences":[{"source":"PubMed","id":"24681537","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI29
Number of Residues	2
Details	Modified residue: {"description":"N5-methylglutamine","evidences":[{"source":"PubMed","id":"24352239","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI30
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"PubMed","id":"22713238","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22980979","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI31
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"22713238","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22980979","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI32
Number of Residues	2
Details	Modified residue: {"description":"PolyADP-ribosyl glutamic acid","evidences":[{"source":"UniProtKB","id":"Q64475","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI33
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine; by AMPK","evidences":[{"source":"UniProtKB","id":"Q8CGP1","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI34
Number of Residues	4
Details	Modified residue: {"description":"N6-lactoyllysine; alternate","evidences":[{"source":"PubMed","id":"31645732","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI35
Number of Residues	4
Details	Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"PubMed","id":"16627869","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI36
Number of Residues	2
Details	Modified residue: {"description":"N6-(2-hydroxyisobutyryl)lysine; alternate","evidences":[{"source":"PubMed","id":"24681537","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI37
Number of Residues	2
Details	Modified residue: {"description":"Dimethylated arginine","evidences":[{"source":"UniProtKB","id":"Q96A08","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI38
Number of Residues	4
Details	Modified residue: {"description":"Omega-N-methylarginine","evidences":[{"source":"UniProtKB","id":"Q96A08","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI39
Number of Residues	2
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q00729","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI40
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_FI41
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"PubMed","id":"21726816","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI42
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"PubMed","id":"16307923","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16627869","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16713563","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---