YRC Public Data Repository - Protein Complex GO Analysis

Complex Overview

From Publication:	Gavin A.C. et al. (2002) Abstract Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature. 2002 Jan 10;415(6868):141-7.
Notes:	From the published set of protein complexes.
Complex Size:	50 proteins

Complex Member Proteins

Protein	GO Cellular Component	GO Biological Process	GO Molecular Function
ADA2	SLIK (SAGA-like) complex Ada2/Gcn5/Ada3 transcription activator complex SAGA complex	chromatin modification histone acetylation	transcription coactivator activity
ADH1	cytosol	fermentation NADH oxidation ethanol biosynthetic process involved in glucose fermentation to ethanol	alcohol dehydrogenase (NAD) activity
CLU1	cytoplasm eukaryotic translation initiation factor 3 complex	translational initiation mitochondrion organization	molecular_function
FUN19	cellular_component	biological_process	molecular_function
GCN5	SLIK (SAGA-like) complex Ada2/Gcn5/Ada3 transcription activator complex SAGA complex	chromatin modification histone acetylation	histone acetyltransferase activity transcription coactivator activity
HEM13	mitochondrial inner membrane	heme biosynthetic process	coproporphyrinogen oxidase activity
KAP114	nucleus cytoplasm	protein import into nucleus	protein transmembrane transporter activity
KAP123	nucleus cytoplasm nuclear pore	protein import into nucleus	protein transmembrane transporter activity
MED4	nucleus mediator complex	transcription from RNA polymerase II promoter	RNA polymerase II transcription mediator activity
MES1	cytoplasm methionyl glutamyl tRNA synthetase complex	methionyl-tRNA aminoacylation	methionine-tRNA ligase activity
MNN4	membrane	protein amino acid O-linked glycosylation protein amino acid N-linked glycosylation response to stress	molecular_function
MOT1	mitochondrion nuclear chromosome nuclear outer membrane	transcription of nuclear rRNA large RNA polymerase I transcript regulation of RNA polymerase II transcriptional preinitiation complex assembly regulation of transcription from RNA polymerase II promoter	ATPase activity rDNA binding TATA-binding protein binding
MYO1	incipient cellular bud site cellular bud neck contractile ring cellular bud neck myosin II complex	contractile ring contraction involved in cell cycle cytokinesis cytokinesis, completion of separation cytokinesis, actomyosin contractile ring assembly cytokinesis	microfilament motor activity
NGG1	SLIK (SAGA-like) complex Ada2/Gcn5/Ada3 transcription activator complex SAGA complex	chromatin modification response to drug histone acetylation	transcription cofactor activity
NOP1	nuclear outer membrane nucleolus ribosome small nucleolar ribonucleoprotein complex	rRNA modification RNA methylation maturation of SSU-rRNA ribosome biogenesis ribosomal large subunit assembly snoRNA 3'-end processing	methyltransferase activity
PFK2	6-phosphofructokinase complex cytoplasm mitochondrion	glycolysis	6-phosphofructokinase activity
PSK1	cytoplasm	hexose metabolic process protein amino acid phosphorylation	protein serine/threonine kinase activity
PTC1	nucleus cytoplasm	mitochondrion inheritance inactivation of MAPK activity involved in osmosensory signaling pathway protein amino acid dephosphorylation telomere maintenance tRNA splicing, via endonucleolytic cleavage and ligation	protein serine/threonine phosphatase activity phosphoprotein phosphatase activity metal ion binding catalytic activity hydrolase activity
PUF6	nucleus nucleolus	regulation of transcription, mating-type specific ribosome biogenesis	mRNA binding specific transcriptional repressor activity
RPB2	mitochondrion DNA-directed RNA polymerase II, core complex	transcription from RNA polymerase II promoter	DNA-directed RNA polymerase activity
RPN9	proteasome regulatory particle, lid subcomplex	ubiquitin-dependent protein catabolic process	structural molecule activity
RPO21	mitochondrion DNA-directed RNA polymerase II, core complex	transcription from RNA polymerase II promoter	DNA-directed RNA polymerase activity
RPT5	proteasome regulatory particle, base subcomplex	ubiquitin-dependent protein catabolic process	ATPase activity endopeptidase activity
RVB2	nucleus Swr1 complex Ino80 complex nuclear outer membrane chromatin remodeling complex	chromatin remodeling snoRNA metabolic process regulation of transcription from RNA polymerase II promoter	ATPase activity ATP-dependent 5'-3' DNA helicase activity
SGF29	SAGA complex	histone acetylation	molecular_function
SGF73	SLIK (SAGA-like) complex SAGA complex	chromatin modification histone acetylation	histone acetyltransferase activity structural molecule activity
SIN3	Sin3 complex histone deacetylase complex	negative regulation of transcription from RNA polymerase II promoter chromatin silencing at rDNA telomere maintenance double-strand break repair via nonhomologous end joining histone deacetylation chromatin silencing at silent mating-type cassette positive regulation of transcription from RNA polymerase II promoter chromatin silencing at telomere	transcription coactivator activity histone deacetylase activity transcription corepressor activity
SIN4	nucleus mediator complex	transcription from RNA polymerase II promoter	RNA polymerase II transcription mediator activity
SPT15	nucleus RNA polymerase I transcription factor complex transcription factor TFIID complex transcription factor TFIIIB complex	transcription from RNA polymerase III promoter transcription initiation from RNA polymerase III promoter transcription from RNA polymerase I promoter transcription from RNA polymerase II promoter transcription initiation from RNA polymerase II promoter	DNA binding RNA polymerase I transcription factor activity protein homodimerization activity general RNA polymerase II transcription factor activity DNA bending activity RNA polymerase III transcription factor activity
SPT20	SLIK (SAGA-like) complex SAGA complex	chromatin modification histone acetylation	transcription cofactor activity
SPT7	SLIK (SAGA-like) complex mitochondrion SAGA complex	chromatin modification protein complex assembly conjugation with cellular fusion histone acetylation	structural molecule activity
SPT8	nucleus SAGA complex	negative regulation of transcription from RNA polymerase II promoter positive regulation of transcription from RNA polymerase II promoter	transcription cofactor activity TATA-binding protein binding
TAF1	transcription factor TFIID complex	protein amino acid phosphorylation regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	histone acetyltransferase activity general RNA polymerase II transcription factor activity protein serine/threonine kinase activity
TAF10	transcription factor TFIID complex SLIK (SAGA-like) complex SAGA complex	chromatin modification protein amino acid acetylation histone acetylation chromatin organization regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF11	transcription factor TFIID complex	regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF12	transcription factor TFIID complex SLIK (SAGA-like) complex SAGA complex	chromatin modification protein amino acid acetylation histone acetylation chromatin organization regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF13	nucleus transcription factor TFIID complex	regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF14	SWI/SNF complex transcription factor TFIID complex Ino80 complex transcription factor TFIIF complex histone acetyltransferase complex	chromatin remodeling regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF2	transcription factor TFIID complex	regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF3	transcription factor TFIID complex	regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF4	transcription factor TFIID complex	transcription from RNA polymerase II promoter	RNA polymerase II transcription factor activity
TAF5	transcription factor TFIID complex SLIK (SAGA-like) complex SAGA complex	chromatin modification protein amino acid acetylation histone acetylation chromatin organization regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF6	transcription factor TFIID complex SLIK (SAGA-like) complex SAGA complex	chromatin modification protein amino acid acetylation histone acetylation chromatin organization regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF7	nucleus transcription factor TFIID complex	regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TAF8	nucleus transcription factor TFIID complex	transcription from RNA polymerase II promoter	RNA polymerase II transcription factor activity
TAF9	transcription factor TFIID complex SLIK (SAGA-like) complex SAGA complex	chromatin modification protein amino acid acetylation histone acetylation chromatin organization regulation of transcription involved in G1 phase of mitotic cell cycle transcription initiation from RNA polymerase II promoter	general RNA polymerase II transcription factor activity
TBF1	nucleus nuclear chromosome nuclear chromosome, telomeric region	loss of chromatin silencing	DNA binding transcription factor activity chromatin insulator sequence binding
TEF4	mitochondrion ribosome eukaryotic translation elongation factor 1 complex	translational elongation	translation elongation factor activity
VAS1	cytoplasm mitochondrion	valyl-tRNA aminoacylation	valine-tRNA ligase activity
VPS1	membrane fraction peroxisome cytoplasm mitochondrial outer membrane	protein retention in Golgi apparatus peroxisome organization vacuolar transport protein targeting to vacuole actin cytoskeleton organization	GTPase activity

Cellular Component Analysis

Given the number of proteins in the complex (A), total proteins annotated with a given GO term (B), and the total number of annotated proteins (T); the p-value represents the chances of randomly having the number of proteins in the complex annotated with a specific GO term (I).

Only showing terms with a p-value less than or equal to 0.01.

GO Term	P-value	A	B	I	T
transcription factor TFIID complex	3.1208E-33	50	15	15	6292
nucleoplasm part	3.0395E-27	50	245	28	6292
nucleoplasm	2.5945E-26	50	264	28	6292
DNA-directed RNA polymerase II, holoenzyme	7.6039E-24	50	56	17	6292
SAGA complex	4.3726E-23	50	22	13	6292
SAGA-type complex	1.0002E-22	50	23	13	6292
nuclear lumen	2.562E-22	50	453	30	6292
SLIK (SAGA-like) complex	1.0435E-20	50	16	11	6292
histone acetyltransferase complex	5.3244E-20	50	44	14	6292
transcription factor complex	2.1264E-18	50	71	15	6292
protein complex	6.1166E-18	50	1137	37	6292
organelle lumen	1.3975E-17	50	660	30	6292
intracellular organelle lumen	1.3975E-17	50	660	30	6292
membrane-enclosed lumen	7.3995E-17	50	700	30	6292
nuclear part	3.4356E-15	50	1103	34	6292
macromolecular complex	1.6372E-13	50	1635	38	6292
nucleus	1.0241E-8	50	2041	36	6292
intracellular organelle part	5.6026E-8	50	2282	37	6292
organelle part	5.6026E-8	50	2282	37	6292
Ada2/Gcn5/Ada3 transcription activator complex	4.6705E-6	50	5	3	6292
intracellular part	5.6376E-4	50	4938	48	6292
membrane-bounded organelle	7.0447E-4	50	3771	41	6292
intracellular membrane-bounded organelle	7.0447E-4	50	3771	41	6292
intracellular	7.685E-4	50	4975	48	6292
intracellular organelle	2.0912E-3	50	4070	42	6292
organelle	2.106E-3	50	4071	42	6292
DNA helicase complex	3.2518E-3	50	11	2	6292
Ino80 complex	3.2518E-3	50	11	2	6292
DNA-directed RNA polymerase II, core complex	3.8824E-3	50	12	2	6292
cell part	4.2239E-3	50	5397	49	6292
cell	4.2932E-3	50	5399	49	6292
myosin II complex	7.9466E-3	50	1	1	6292
mediator complex	8.7307E-3	50	18	2	6292

Biological Process Analysis

Only showing terms with a p-value less than or equal to 0.01.

GO Term	P-value	A	B	I	T
regulation of transcription involved in G1 phase of mitotic cell cycle	1.3735E-24	50	14	12	6292
transcription initiation from RNA polymerase II promoter	1.557E-19	50	47	14	6292
G1 phase	2.4394E-19	50	27	12	6292
G1 phase of mitotic cell cycle	2.4394E-19	50	27	12	6292
transcription initiation	4.3564E-18	50	58	14	6292
histone acetylation	1.6699E-17	50	36	12	6292
transcription from RNA polymerase II promoter	7.0122E-17	50	335	23	6292
protein amino acid acetylation	4.9074E-16	50	46	12	6292
transcription, DNA-dependent	3.9937E-15	50	503	25	6292
RNA biosynthetic process	5.0399E-15	50	508	25	6292
protein amino acid acylation	1.3123E-14	50	59	12	6292
transcription	3.5162E-14	50	552	25	6292
covalent chromatin modification	7.3345E-14	50	88	13	6292
histone modification	7.3345E-14	50	88	13	6292
protein complex biogenesis	4.0491E-13	50	155	15	6292
protein complex assembly	4.0491E-13	50	155	15	6292
chromatin modification	1.3369E-12	50	168	15	6292
RNA metabolic process	3.2161E-12	50	954	29	6292
cellular macromolecule metabolic process	4.4703E-12	50	2285	42	6292
interphase of mitotic cell cycle	6.7436E-12	50	97	12	6292
interphase	6.7436E-12	50	97	12	6292
regulation of transcription from RNA polymerase II promoter	8.6229E-12	50	228	16	6292
macromolecule metabolic process	1.2733E-11	50	2349	42	6292
chromatin organization	2.1226E-11	50	203	15	6292
regulation of transcription, DNA-dependent	8.6648E-11	50	358	18	6292
regulation of RNA metabolic process	1.0909E-10	50	363	18	6292
cellular macromolecule biosynthetic process	1.2686E-10	50	1187	30	6292
macromolecule biosynthetic process	1.3252E-10	50	1189	30	6292
gene expression	1.4931E-10	50	1283	31	6292
macromolecular complex assembly	2.0489E-10	50	281	16	6292
regulation of transcription	2.7628E-10	50	384	18	6292
cellular metabolic process	4.1866E-10	50	3033	45	6292
primary metabolic process	5.7196E-10	50	2896	44	6292
regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	9.8354E-10	50	415	18	6292
regulation of nitrogen compound metabolic process	1.0228E-9	50	416	18	6292
metabolic process	2.1384E-9	50	3157	45	6292
cellular component assembly	2.5377E-9	50	385	17	6292
regulation of gene expression	3.0385E-9	50	445	18	6292
regulation of macromolecule biosynthetic process	4.4943E-9	50	456	18	6292
macromolecular complex subunit organization	6.9194E-9	50	357	16	6292
post-translational protein modification	6.9194E-9	50	357	16	6292
regulation of cellular biosynthetic process	7.7893E-9	50	472	18	6292
regulation of biosynthetic process	8.0557E-9	50	473	18	6292
regulation of cellular metabolic process	8.6187E-9	50	536	19	6292
biosynthetic process	9.3079E-9	50	1602	32	6292
regulation of metabolic process	1.207E-8	50	547	19	6292
regulation of macromolecule metabolic process	1.3211E-8	50	488	18	6292
cellular biosynthetic process	2.724E-8	50	1567	31	6292
regulation of primary metabolic process	2.987E-8	50	514	18	6292
nucleic acid metabolic process	5.588E-8	50	1415	29	6292
protein modification process	1.2417E-7	50	499	17	6292
nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	1.2993E-7	50	1566	30	6292
macromolecule modification	1.4395E-7	50	569	18	6292
mitotic cell cycle	4.6602E-7	50	255	12	6292
cellular process	4.7193E-7	50	4426	49	6292
cellular nitrogen compound metabolic process	5.5682E-7	50	1770	31	6292
nitrogen compound metabolic process	7.4033E-7	50	1791	31	6292
cellular protein metabolic process	1.7454E-6	50	1074	23	6292
cellular component biogenesis	2.7894E-6	50	694	18	6292
cellular component organization	2.9805E-6	50	1582	28	6292
chromosome organization	3.1143E-6	50	555	16	6292
regulation of cellular process	4.5897E-6	50	796	19	6292
protein metabolic process	4.7472E-6	50	1136	23	6292
regulation of biological process	7.6942E-6	50	824	19	6292
cell cycle phase	2.6602E-5	50	376	12	6292
cell cycle process	8.0328E-5	50	490	13	6292
cell cycle	1.6247E-4	50	525	13	6292
organelle organization	1.9626E-4	50	1127	20	6292
biological regulation	5.4287E-4	50	1213	20	6292
regulation of RNA polymerase II transcriptional preinitiation complex assembly	7.9466E-3	50	1	1	6292
regulation of transcription initiation from RNA polymerase II promoter	7.9466E-3	50	1	1	6292
RNA polymerase II transcriptional preinitiation complex assembly	7.9466E-3	50	1	1	6292
valyl-tRNA aminoacylation	7.9466E-3	50	1	1	6292
transcription of nuclear rRNA large RNA polymerase I transcript	7.9466E-3	50	1	1	6292
transcriptional preinitiation complex assembly	7.9466E-3	50	1	1	6292
snoRNA metabolic process	8.7307E-3	50	18	2	6292

Molecular Function Analysis

Only showing terms with a p-value less than or equal to 0.01.

GO Term	P-value	A	B	I	T
transcription regulator activity	3.001E-19	50	339	25	6292
general RNA polymerase II transcription factor activity	3.8477E-19	50	64	15	6292
RNA polymerase II transcription factor activity	4.3575E-17	50	130	17	6292
transcription cofactor activity	5.7816E-7	50	40	6	6292
transcription factor binding	9.0186E-7	50	43	6	6292
TATA-binding protein binding	6.1895E-5	50	2	2	6292
histone acetyltransferase activity	2.9692E-4	50	17	3	6292
lysine N-acetyltransferase activity	2.9692E-4	50	17	3	6292
transcription coactivator activity	5.6788E-4	50	21	3	6292
macromolecule transmembrane transporter activity	2.1502E-3	50	9	2	6292
protein transmembrane transporter activity	2.1502E-3	50	9	2	6292
N-acetyltransferase activity	2.1785E-3	50	33	3	6292
N-acyltransferase activity	3.2758E-3	50	38	3	6292
acetyltransferase activity	7.1197E-3	50	50	3	6292
chromatin insulator sequence binding	7.9466E-3	50	1	1	6292
coproporphyrinogen oxidase activity	7.9466E-3	50	1	1	6292
valine-tRNA ligase activity	7.9466E-3	50	1	1	6292

View Protein Complex Details

Complex Overview

Complex Member Proteins

Cellular Component Analysis

Biological Process Analysis

Molecular Function Analysis