8I03

Cryo-EM structure of the SIN3L complex from S. pombe

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000122	biological_process	negative regulation of transcription by RNA polymerase II
A	0000785	cellular_component	chromatin
A	0003714	molecular_function	transcription corepressor activity
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005721	cellular_component	pericentric heterochromatin
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	0031508	biological_process	pericentric heterochromatin formation
A	0033698	cellular_component	Rpd3L complex
A	0045815	biological_process	transcription initiation-coupled chromatin remodeling
A	0051301	biological_process	cell division
A	0070210	cellular_component	Rpd3L-Expanded complex
A	0070822	cellular_component	Sin3-type complex
B	0000122	biological_process	negative regulation of transcription by RNA polymerase II
B	0000785	cellular_component	chromatin
B	0003714	molecular_function	transcription corepressor activity
B	0005634	cellular_component	nucleus
B	0005829	cellular_component	cytosol
B	0006303	biological_process	double-strand break repair via nonhomologous end joining
B	0006355	biological_process	regulation of DNA-templated transcription
B	0006357	biological_process	regulation of transcription by RNA polymerase II
B	0033698	cellular_component	Rpd3L complex
B	0045815	biological_process	transcription initiation-coupled chromatin remodeling
B	0070210	cellular_component	Rpd3L-Expanded complex
B	0070822	cellular_component	Sin3-type complex
C	0000122	biological_process	negative regulation of transcription by RNA polymerase II
C	0000785	cellular_component	chromatin
C	0004407	molecular_function	histone deacetylase activity
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005730	cellular_component	nucleolus
C	0005829	cellular_component	cytosol
C	0006325	biological_process	chromatin organization
C	0006351	biological_process	DNA-templated transcription
C	0006357	biological_process	regulation of transcription by RNA polymerase II
C	0010468	biological_process	regulation of gene expression
C	0016787	molecular_function	hydrolase activity
C	0031078	molecular_function	histone H3K14 deacetylase activity, hydrolytic mechanism
C	0031507	biological_process	heterochromatin formation
C	0032129	molecular_function	histone H3K9 deacetylase activity, hydrolytic mechanism
C	0032221	cellular_component	Rpd3S complex
C	0033558	molecular_function	protein lysine deacetylase activity
C	0033698	cellular_component	Rpd3L complex
C	0034739	molecular_function	histone H4K16 deacetylase activity, hydrolytic mechanism
C	0040029	biological_process	epigenetic regulation of gene expression
C	0045815	biological_process	transcription initiation-coupled chromatin remodeling
C	0070210	cellular_component	Rpd3L-Expanded complex
C	0140937	molecular_function	histone H4K12 deacetylase activity, hydrolytic mechanism
C	0141221	molecular_function	histone deacetylase activity, hydrolytic mechanism
C	0180032	molecular_function	histone H4K5 deacetylase activity, hydrolytic mechanism
C	0180033	molecular_function	histone H4K8 deacetylase activity, hydrolytic mechanism
D	0000122	biological_process	negative regulation of transcription by RNA polymerase II
D	0000785	cellular_component	chromatin
D	0004407	molecular_function	histone deacetylase activity
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005730	cellular_component	nucleolus
D	0005829	cellular_component	cytosol
D	0006325	biological_process	chromatin organization
D	0006351	biological_process	DNA-templated transcription
D	0006357	biological_process	regulation of transcription by RNA polymerase II
D	0010468	biological_process	regulation of gene expression
D	0016787	molecular_function	hydrolase activity
D	0031078	molecular_function	histone H3K14 deacetylase activity, hydrolytic mechanism
D	0031507	biological_process	heterochromatin formation
D	0032129	molecular_function	histone H3K9 deacetylase activity, hydrolytic mechanism
D	0032221	cellular_component	Rpd3S complex
D	0033558	molecular_function	protein lysine deacetylase activity
D	0033698	cellular_component	Rpd3L complex
D	0034739	molecular_function	histone H4K16 deacetylase activity, hydrolytic mechanism
D	0040029	biological_process	epigenetic regulation of gene expression
D	0045815	biological_process	transcription initiation-coupled chromatin remodeling
D	0070210	cellular_component	Rpd3L-Expanded complex
D	0140937	molecular_function	histone H4K12 deacetylase activity, hydrolytic mechanism
D	0141221	molecular_function	histone deacetylase activity, hydrolytic mechanism
D	0180032	molecular_function	histone H4K5 deacetylase activity, hydrolytic mechanism
D	0180033	molecular_function	histone H4K8 deacetylase activity, hydrolytic mechanism
E	0000122	biological_process	negative regulation of transcription by RNA polymerase II
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0006325	biological_process	chromatin organization
E	0006351	biological_process	DNA-templated transcription
E	0006357	biological_process	regulation of transcription by RNA polymerase II
E	0010468	biological_process	regulation of gene expression
E	0033698	cellular_component	Rpd3L complex
E	0042826	molecular_function	histone deacetylase binding
E	0045815	biological_process	transcription initiation-coupled chromatin remodeling
E	0070210	cellular_component	Rpd3L-Expanded complex
E	0070822	cellular_component	Sin3-type complex
F	0003674	molecular_function	molecular_function
F	0005634	cellular_component	nucleus
F	0005829	cellular_component	cytosol
F	0006325	biological_process	chromatin organization
F	0006351	biological_process	DNA-templated transcription
F	0006357	biological_process	regulation of transcription by RNA polymerase II
F	0033698	cellular_component	Rpd3L complex
F	0045815	biological_process	transcription initiation-coupled chromatin remodeling
F	0070210	cellular_component	Rpd3L-Expanded complex
G	0000122	biological_process	negative regulation of transcription by RNA polymerase II
G	0000785	cellular_component	chromatin
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0006325	biological_process	chromatin organization
G	0006351	biological_process	DNA-templated transcription
G	0006357	biological_process	regulation of transcription by RNA polymerase II
G	0010468	biological_process	regulation of gene expression
G	0033698	cellular_component	Rpd3L complex
G	0042826	molecular_function	histone deacetylase binding
G	0045815	biological_process	transcription initiation-coupled chromatin remodeling
G	0070210	cellular_component	Rpd3L-Expanded complex
G	0070822	cellular_component	Sin3-type complex
H	0000785	cellular_component	chromatin
H	0005634	cellular_component	nucleus
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006325	biological_process	chromatin organization
H	0006351	biological_process	DNA-templated transcription
H	0006355	biological_process	regulation of DNA-templated transcription
H	0006357	biological_process	regulation of transcription by RNA polymerase II
H	0008270	molecular_function	zinc ion binding
H	0032991	cellular_component	protein-containing complex
H	0033698	cellular_component	Rpd3L complex
H	0035267	cellular_component	NuA4 histone acetyltransferase complex
H	0046872	molecular_function	metal ion binding
H	0070210	cellular_component	Rpd3L-Expanded complex
H	0140566	molecular_function	histone reader activity
H	0140861	biological_process	DNA repair-dependent chromatin remodeling
I	0003674	molecular_function	molecular_function
I	0005634	cellular_component	nucleus
I	0006325	biological_process	chromatin organization
I	0006351	biological_process	DNA-templated transcription
I	0006357	biological_process	regulation of transcription by RNA polymerase II
I	0033698	cellular_component	Rpd3L complex
I	0045815	biological_process	transcription initiation-coupled chromatin remodeling
I	0070210	cellular_component	Rpd3L-Expanded complex
J	0000122	biological_process	negative regulation of transcription by RNA polymerase II
J	0000510	molecular_function	H3-H4 histone complex chaperone activity
J	0005515	molecular_function	protein binding
J	0005634	cellular_component	nucleus
J	0005730	cellular_component	nucleolus
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006325	biological_process	chromatin organization
J	0006338	biological_process	chromatin remodeling
J	0006351	biological_process	DNA-templated transcription
J	0006355	biological_process	regulation of DNA-templated transcription
J	0006357	biological_process	regulation of transcription by RNA polymerase II
J	0032221	cellular_component	Rpd3S complex
J	0033698	cellular_component	Rpd3L complex
J	0042393	molecular_function	histone binding
J	0045815	biological_process	transcription initiation-coupled chromatin remodeling
J	0070210	cellular_component	Rpd3L-Expanded complex
K	0000122	biological_process	negative regulation of transcription by RNA polymerase II
K	0000510	molecular_function	H3-H4 histone complex chaperone activity
K	0005515	molecular_function	protein binding
K	0005634	cellular_component	nucleus
K	0005730	cellular_component	nucleolus
K	0005737	cellular_component	cytoplasm
K	0005829	cellular_component	cytosol
K	0006325	biological_process	chromatin organization
K	0006338	biological_process	chromatin remodeling
K	0006351	biological_process	DNA-templated transcription
K	0006355	biological_process	regulation of DNA-templated transcription
K	0006357	biological_process	regulation of transcription by RNA polymerase II
K	0032221	cellular_component	Rpd3S complex
K	0033698	cellular_component	Rpd3L complex
K	0042393	molecular_function	histone binding
K	0045815	biological_process	transcription initiation-coupled chromatin remodeling
K	0070210	cellular_component	Rpd3L-Expanded complex

Functional Information from PROSITE/UniProt

site_id	PS00678
Number of Residues	15
Details	WD_REPEATS_1 Trp-Asp (WD) repeats signature. LATCstDkTIALWDL

Chain	Residue	Details
J	LEU297-LEU311
J	LEU341-LEU355

---

site_id	PS01359
Number of Residues	44
Details	ZF_PHD_1 Zinc finger PHD-type signature. Cy.Cqqvsygqm.....................................IgCdnenCkrewFHlpCvglveppkgi...................................WyCkeC

Chain	Residue	Details
H	CYS251-CYS294

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	141
Details	Domain: {"description":"PAH 3","evidences":[{"source":"PROSITE-ProRule","id":"PRU00810","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	312
Details	Region: {"description":"Histone deacetylase"}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	Active site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	64
Details	Repeat: {"description":"WD 1"}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	62
Details	Repeat: {"description":"WD 2"}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	62
Details	Repeat: {"description":"WD 3"}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	62
Details	Repeat: {"description":"WD 4"}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	62
Details	Repeat: {"description":"WD 5"}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	62
Details	Repeat: {"description":"WD 6"}

Chain

Residue

Details

---