7YI0

Cryo-EM structure of Rpd3S complex

Functional Information from GO Data

Chain	GOid	namespace	contents
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	0006355	biological_process	regulation of DNA-templated transcription
A	0006357	biological_process	regulation of transcription by RNA polymerase II
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	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	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	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
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	0009889	biological_process	regulation of biosynthetic process
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	0035064	molecular_function	methylated histone binding
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	1990453	cellular_component	nucleosome disassembly/reassembly complex
D	0000118	cellular_component	histone deacetylase complex
D	0000122	biological_process	negative regulation of transcription by RNA polymerase II
D	0005634	cellular_component	nucleus
D	0006325	biological_process	chromatin organization
D	0006334	biological_process	nucleosome assembly
D	0006357	biological_process	regulation of transcription by RNA polymerase II
D	0006368	biological_process	transcription elongation by RNA polymerase II
D	0008270	molecular_function	zinc ion binding
D	0030174	biological_process	regulation of DNA-templated DNA replication initiation
D	0032221	cellular_component	Rpd3S complex
D	0045944	biological_process	positive regulation of transcription by RNA polymerase II
D	0046872	molecular_function	metal ion binding
D	0060195	biological_process	negative regulation of antisense RNA transcription
E	0000122	biological_process	negative regulation of transcription by RNA polymerase II
E	0000123	cellular_component	histone acetyltransferase complex
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0006281	biological_process	DNA repair
E	0006325	biological_process	chromatin organization
E	0006334	biological_process	nucleosome assembly
E	0006335	biological_process	DNA replication-dependent chromatin assembly
E	0006337	biological_process	nucleosome disassembly
E	0006338	biological_process	chromatin remodeling
E	0006351	biological_process	DNA-templated transcription
E	0006355	biological_process	regulation of 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	0009889	biological_process	regulation of biosynthetic process
E	0030174	biological_process	regulation of DNA-templated DNA replication initiation
E	0032221	cellular_component	Rpd3S complex
E	0032968	biological_process	positive regulation of transcription elongation by RNA polymerase II
E	0035064	molecular_function	methylated histone binding
E	0035267	cellular_component	NuA4 histone acetyltransferase complex
E	0043487	biological_process	regulation of RNA stability
E	0045892	biological_process	negative regulation of DNA-templated transcription
E	0060195	biological_process	negative regulation of antisense RNA transcription
E	1990453	cellular_component	nucleosome disassembly/reassembly complex
F	0000118	cellular_component	histone deacetylase complex
F	0000122	biological_process	negative regulation of transcription by RNA polymerase II
F	0005634	cellular_component	nucleus
F	0006325	biological_process	chromatin organization
F	0006334	biological_process	nucleosome assembly
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

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
D	CYS263-CYS306
F	CYS263-CYS306

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Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	49
Details	ZN_FING: PHD-type 1 => ECO:0000255|PROSITE-ProRule:PRU00146

Chain	Residue	Details
F	GLU260-LYS309
E	SER201

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site_id	SWS_FT_FI2
Number of Residues	58
Details	ZN_FING: PHD-type 2; atypical => ECO:0000255|PROSITE-ProRule:PRU00146

Chain	Residue	Details
F	PHE414-THR472

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site_id	SWS_FT_FI3
Number of Residues	1
Details	MOD_RES: N-acetylmethionine => ECO:0007744|PubMed:22814378

Chain	Residue	Details
F	MET1

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site_id	SWS_FT_FI4
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:18407956

Chain	Residue	Details
F	SER68
A	SER1046

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site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:18407956, ECO:0007744|PubMed:19779198

Chain	Residue	Details
F	SER683

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