Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

7KTS

Negative stain EM structure of the human SAGA coactivator complex (TRRAP, core, splicing module)

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005654	cellular_component	nucleoplasm
A	0080135	biological_process	regulation of cellular response to stress
B	0000124	cellular_component	SAGA complex
B	0003713	molecular_function	transcription coactivator activity
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0006282	biological_process	regulation of DNA repair
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	0006366	biological_process	transcription by RNA polymerase II
B	0016607	cellular_component	nuclear speck
B	0033276	cellular_component	transcription factor TFTC complex
B	0043484	biological_process	regulation of RNA splicing
B	0045893	biological_process	positive regulation of DNA-templated transcription
B	1904672	biological_process	regulation of somatic stem cell population maintenance
C	0000124	cellular_component	SAGA complex
C	0003712	molecular_function	transcription coregulator activity
D	0000124	cellular_component	SAGA complex
D	0003713	molecular_function	transcription coactivator activity
D	0003824	molecular_function	catalytic activity
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0006282	biological_process	regulation of DNA repair
D	0006351	biological_process	DNA-templated transcription
D	0018786	molecular_function	haloalkane dehalogenase activity
D	0043484	biological_process	regulation of RNA splicing
D	0045893	biological_process	positive regulation of DNA-templated transcription
D	0046982	molecular_function	protein heterodimerization activity
D	0051457	biological_process	maintenance of protein location in nucleus
E	0000122	biological_process	negative regulation of transcription by RNA polymerase II
E	0003714	molecular_function	transcription corepressor activity
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005669	cellular_component	transcription factor TFIID complex
E	0006351	biological_process	DNA-templated transcription
E	0006352	biological_process	DNA-templated transcription initiation
E	0006366	biological_process	transcription by RNA polymerase II
E	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
E	0030307	biological_process	positive regulation of cell growth
E	0033276	cellular_component	transcription factor TFTC complex
E	0043066	biological_process	negative regulation of apoptotic process
E	0046982	molecular_function	protein heterodimerization activity
E	0050821	biological_process	protein stabilization
E	1902166	biological_process	negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
F	0000118	cellular_component	histone deacetylase complex
F	0000124	cellular_component	SAGA complex
F	0003677	molecular_function	DNA binding
F	0003713	molecular_function	transcription coactivator activity
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005669	cellular_component	transcription factor TFIID complex
F	0006282	biological_process	regulation of DNA repair
F	0006338	biological_process	chromatin remodeling
F	0006351	biological_process	DNA-templated transcription
F	0006355	biological_process	regulation of DNA-templated transcription
F	0006357	biological_process	regulation of transcription by RNA polymerase II
F	0006367	biological_process	transcription initiation at RNA polymerase II promoter
F	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
F	0043484	biological_process	regulation of RNA splicing
F	0045893	biological_process	positive regulation of DNA-templated transcription
F	0046695	cellular_component	SLIK (SAGA-like) complex
F	0046982	molecular_function	protein heterodimerization activity
F	0051123	biological_process	RNA polymerase II preinitiation complex assembly
F	0070062	cellular_component	extracellular exosome
F	1904672	biological_process	regulation of somatic stem cell population maintenance
G	0000124	cellular_component	SAGA complex
G	0003677	molecular_function	DNA binding
G	0003713	molecular_function	transcription coactivator activity
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005669	cellular_component	transcription factor TFIID complex
G	0006282	biological_process	regulation of DNA repair
G	0006351	biological_process	DNA-templated transcription
G	0006352	biological_process	DNA-templated transcription initiation
G	0006355	biological_process	regulation of DNA-templated transcription
G	0006357	biological_process	regulation of transcription by RNA polymerase II
G	0006366	biological_process	transcription by RNA polymerase II
G	0006367	biological_process	transcription initiation at RNA polymerase II promoter
G	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
G	0017025	molecular_function	TBP-class protein binding
G	0033276	cellular_component	transcription factor TFTC complex
G	0042789	biological_process	mRNA transcription by RNA polymerase II
G	0043484	biological_process	regulation of RNA splicing
G	0045893	biological_process	positive regulation of DNA-templated transcription
G	0045944	biological_process	positive regulation of transcription by RNA polymerase II
G	0046982	molecular_function	protein heterodimerization activity
G	0051123	biological_process	RNA polymerase II preinitiation complex assembly
G	0060261	biological_process	positive regulation of transcription initiation by RNA polymerase II
G	0140297	molecular_function	DNA-binding transcription factor binding
H	0000124	cellular_component	SAGA complex
H	0001701	biological_process	in utero embryonic development
H	0001756	biological_process	somitogenesis
H	0001892	biological_process	embryonic placenta development
H	0003677	molecular_function	DNA binding
H	0004402	molecular_function	histone acetyltransferase activity
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005669	cellular_component	transcription factor TFIID complex
H	0005737	cellular_component	cytoplasm
H	0006282	biological_process	regulation of DNA repair
H	0006338	biological_process	chromatin remodeling
H	0006351	biological_process	DNA-templated transcription
H	0006352	biological_process	DNA-templated transcription initiation
H	0006355	biological_process	regulation of DNA-templated transcription
H	0006357	biological_process	regulation of transcription by RNA polymerase II
H	0006366	biological_process	transcription by RNA polymerase II
H	0006367	biological_process	transcription initiation at RNA polymerase II promoter
H	0010467	biological_process	gene expression
H	0016251	molecular_function	RNA polymerase II general transcription initiation factor activity
H	0019899	molecular_function	enzyme binding
H	0030331	molecular_function	nuclear estrogen receptor binding
H	0033276	cellular_component	transcription factor TFTC complex
H	0036285	biological_process	SAGA complex assembly
H	0042789	biological_process	mRNA transcription by RNA polymerase II
H	0042802	molecular_function	identical protein binding
H	0043484	biological_process	regulation of RNA splicing
H	0045893	biological_process	positive regulation of DNA-templated transcription
H	0048371	biological_process	lateral mesodermal cell differentiation
H	0048471	cellular_component	perinuclear region of cytoplasm
H	0051123	biological_process	RNA polymerase II preinitiation complex assembly
H	0060173	biological_process	limb development
H	0060261	biological_process	positive regulation of transcription initiation by RNA polymerase II
H	0070063	molecular_function	RNA polymerase binding
H	0097550	cellular_component	transcription preinitiation complex
H	1905069	biological_process	allantois development
H	1990841	molecular_function	promoter-specific chromatin binding
I	0000124	cellular_component	SAGA complex
I	0003713	molecular_function	transcription coactivator activity
I	0005634	cellular_component	nucleus
I	0005654	cellular_component	nucleoplasm
I	0006282	biological_process	regulation of DNA repair
I	0006351	biological_process	DNA-templated transcription
I	0006355	biological_process	regulation of DNA-templated transcription
I	0006357	biological_process	regulation of transcription by RNA polymerase II
I	0006366	biological_process	transcription by RNA polymerase II
I	0033276	cellular_component	transcription factor TFTC complex
I	0043484	biological_process	regulation of RNA splicing
I	0045893	biological_process	positive regulation of DNA-templated transcription
I	0046982	molecular_function	protein heterodimerization activity
J	0000124	cellular_component	SAGA complex
J	0003713	molecular_function	transcription coactivator activity
J	0005634	cellular_component	nucleus
J	0005654	cellular_component	nucleoplasm
J	0006282	biological_process	regulation of DNA repair
J	0006351	biological_process	DNA-templated transcription
J	0006357	biological_process	regulation of transcription by RNA polymerase II
J	0043484	biological_process	regulation of RNA splicing
J	0045893	biological_process	positive regulation of DNA-templated transcription
J	0070461	cellular_component	SAGA-type complex
N	0000226	biological_process	microtubule cytoskeleton organization
N	0005515	molecular_function	protein binding
N	0005634	cellular_component	nucleus
N	0005654	cellular_component	nucleoplasm
N	0005730	cellular_component	nucleolus
N	0005737	cellular_component	cytoplasm
N	0005829	cellular_component	cytosol
N	0005856	cellular_component	cytoskeleton
N	0006282	biological_process	regulation of DNA repair
N	0006351	biological_process	DNA-templated transcription
N	0006357	biological_process	regulation of transcription by RNA polymerase II
N	0006997	biological_process	nucleus organization
N	0007026	biological_process	negative regulation of microtubule depolymerization
N	0007601	biological_process	visual perception
N	0015630	cellular_component	microtubule cytoskeleton
N	0016363	cellular_component	nuclear matrix
N	0043484	biological_process	regulation of RNA splicing
N	0045893	biological_process	positive regulation of DNA-templated transcription
S	0000375	biological_process	RNA splicing, via transesterification reactions
S	0000387	biological_process	spliceosomal snRNP assembly
S	0000388	biological_process	spliceosome conformational change to release U4 (or U4atac) and U1 (or U11)
S	0000398	biological_process	mRNA splicing, via spliceosome
S	0003676	molecular_function	nucleic acid binding
S	0005515	molecular_function	protein binding
S	0005634	cellular_component	nucleus
S	0005654	cellular_component	nucleoplasm
S	0005681	cellular_component	spliceosomal complex
S	0005684	cellular_component	U2-type spliceosomal complex
S	0005686	cellular_component	U2 snRNP
S	0005689	cellular_component	U12-type spliceosomal complex
S	0005730	cellular_component	nucleolus
S	0006282	biological_process	regulation of DNA repair
S	0006397	biological_process	mRNA processing
S	0008380	biological_process	RNA splicing
S	0030620	molecular_function	U2 snRNA binding
S	0042177	biological_process	negative regulation of protein catabolic process
S	0043484	biological_process	regulation of RNA splicing
S	0044877	molecular_function	protein-containing complex binding
S	0045893	biological_process	positive regulation of DNA-templated transcription
S	0071005	cellular_component	U2-type precatalytic spliceosome
S	0071013	cellular_component	catalytic step 2 spliceosome
S	1903241	biological_process	U2-type prespliceosome assembly
T	0000387	biological_process	spliceosomal snRNP assembly
T	0000388	biological_process	spliceosome conformational change to release U4 (or U4atac) and U1 (or U11)
T	0000398	biological_process	mRNA splicing, via spliceosome
T	0003723	molecular_function	RNA binding
T	0005515	molecular_function	protein binding
T	0005634	cellular_component	nucleus
T	0005654	cellular_component	nucleoplasm
T	0005681	cellular_component	spliceosomal complex
T	0005684	cellular_component	U2-type spliceosomal complex
T	0005686	cellular_component	U2 snRNP
T	0005689	cellular_component	U12-type spliceosomal complex
T	0006282	biological_process	regulation of DNA repair
T	0006397	biological_process	mRNA processing
T	0008380	biological_process	RNA splicing
T	0043484	biological_process	regulation of RNA splicing
T	0045893	biological_process	positive regulation of DNA-templated transcription
T	0071005	cellular_component	U2-type precatalytic spliceosome
T	0071011	cellular_component	precatalytic spliceosome
T	1903241	biological_process	U2-type prespliceosome assembly
T	1990935	molecular_function	splicing factor binding

Functional Information from PROSITE/UniProt

site_id	PS00196
Number of Residues	15
Details	COPPER_BLUE Type-1 copper (blue) proteins signature. GeiSpFLCs.GsHqv..Q

Chain	Residue	Details
A	GLY2621-GLN2635

site_id	PS00290
Number of Residues	7
Details	IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. FVCSATH

Chain	Residue	Details
S	PHE287-HIS293

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

Chain	Residue	Details
B	LEU483-LEU497
B	ILE525-ILE539

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI4
Number of Residues	39
Details	Repeat: {"description":"WD 1"}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	39
Details	Repeat: {"description":"WD 2"}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	39
Details	Repeat: {"description":"WD 3"}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	39
Details	Repeat: {"description":"WD 4"}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	39
Details	Repeat: {"description":"WD 5"}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	39
Details	Repeat: {"description":"WD 6"}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"Q7TT00","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	67
Details	Domain: {"description":"Histone-fold","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI12
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"18691976","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI13
Number of Residues	1
Details	Modified residue: {"description":"N6,N6,N6-trimethyllysine; alternate","evidences":[{"source":"PubMed","id":"15099517","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16415881","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25959397","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI14
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI15
Number of Residues	37
Details	Region: {"description":"Interaction with PHF5A, SF3B1 and SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI16
Number of Residues	56
Details	Region: {"description":"Interaction with SF3B1 and SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI17
Number of Residues	21
Details	Region: {"description":"Interaction with SF3B1","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI18
Number of Residues	23
Details	Region: {"description":"Interaction with SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI19
Number of Residues	5
Details	Site: {"description":"Interaction with SF3B5","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI20
Number of Residues	2
Details	Site: {"description":"Interaction with SF3B1","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI21
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI22
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI23
Number of Residues	61
Details	Region: {"description":"Interaction with SF3B1 and SF3B3","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI24
Number of Residues	1
Details	Site: {"description":"Interaction with RNA","evidences":[{"source":"PubMed","id":"27720643","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI25
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		Validation report (PDF)