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:	31 proteins

Complex Member Proteins

Protein	GO Cellular Component	GO Biological Process	GO Molecular Function
ABF2	mitochondrial chromosome mitochondrion mitochondrial nucleoid	mitochondrion inheritance mitochondrial genome maintenance	DNA binding DNA bending activity
CKA1	protein kinase CK2 complex	G2/M transition of mitotic cell cycle G1/S transition of mitotic cell cycle flocculation via cell wall protein-carbohydrate interaction protein amino acid phosphorylation response to DNA damage stimulus regulation of transcription from RNA polymerase III promoter regulation of transcription from RNA polymerase I promoter cellular ion homeostasis	protein kinase CK2 activity
CKA2	protein kinase CK2 complex	G2/M transition of mitotic cell cycle G1/S transition of mitotic cell cycle flocculation via cell wall protein-carbohydrate interaction protein amino acid phosphorylation response to DNA damage stimulus regulation of transcription from RNA polymerase III promoter regulation of transcription from RNA polymerase I promoter cellular ion homeostasis	protein kinase CK2 activity
CKB1	protein kinase CK2 complex	G2/M transition of mitotic cell cycle G1/S transition of mitotic cell cycle flocculation via cell wall protein-carbohydrate interaction protein amino acid phosphorylation response to DNA damage stimulus regulation of transcription from RNA polymerase III promoter regulation of transcription from RNA polymerase I promoter cellular ion homeostasis	protein kinase CK2 regulator activity
CKB2	protein kinase CK2 complex	G2/M transition of mitotic cell cycle G1/S transition of mitotic cell cycle flocculation via cell wall protein-carbohydrate interaction protein amino acid phosphorylation response to DNA damage stimulus regulation of transcription from RNA polymerase III promoter regulation of transcription from RNA polymerase I promoter cellular ion homeostasis	protein kinase CK2 regulator activity
CTI6	nucleus	positive regulation of transcription histone deacetylation	histone deacetylase activity transcription factor binding
DEP1	nucleus	telomere maintenance phospholipid metabolic process histone deacetylation regulation of transcription from RNA polymerase II promoter	histone deacetylase activity transcription regulator activity
DOT6	nucleus cytoplasm	filamentous growth unidimensional cell growth chromatin silencing at rDNA chromatin silencing at telomere regulation of transcription from RNA polymerase II promoter	molecular_function
EAF3	NuA4 histone acetyltransferase complex histone acetyltransferase complex	DNA repair histone acetylation histone deacetylation regulation of transcription from RNA polymerase II promoter	histone acetyltransferase activity histone deacetylase activity
ECM16	mitochondrion nucleolus small nucleolar ribonucleoprotein complex	maturation of SSU-rRNA ribosome biogenesis	RNA helicase activity
HTA2	nuclear nucleosome	DNA repair chromatin assembly or disassembly	DNA binding
IOC3	ISW1 complex	chromatin remodeling	protein binding
ISW1	ISW1 complex	chromatin remodeling RNA elongation	ATPase activity
MED4	nucleus mediator complex	transcription from RNA polymerase II promoter	RNA polymerase II transcription mediator activity
NHP10	nucleus Ino80 complex	chromatin remodeling	molecular_function
NRD1	nuclear exosome (RNase complex) nucleus	termination of RNA polymerase II transcription, poly(A)-independent	RNA binding
PHO23	nucleus histone deacetylase complex	chromatin modification histone deacetylation	histone deacetylase activity
RCO1	nucleus histone deacetylase complex	histone deacetylation	histone deacetylase activity
RPD3	histone deacetylase complex	negative regulation of transcription from RNA polymerase II promoter chromatin silencing at rDNA loss of chromatin silencing involved in replicative cell aging protein amino acid deacetylation chromatin silencing double-strand break repair via nonhomologous end joining chromatin organization histone deacetylation chromatin silencing at silent mating-type cassette positive regulation of transcription from RNA polymerase II promoter chromatin silencing at telomere mitotic recombination	transcription coactivator activity histone deacetylase activity transcription corepressor activity
RSC8	nucleus RSC complex	ATP-dependent chromatin remodeling double-strand break repair via nonhomologous end joining	DNA-dependent ATPase activity
RXT2	nucleus	negative regulation of transcription from RNA polymerase II promoter conjugation with cellular fusion invasive growth in response to glucose limitation histone deacetylation	histone deacetylase activity
RXT3	nucleus	chromatin silencing histone deacetylation	histone deacetylase activity
SAP30	histone deacetylase complex	chromatin silencing at rDNA telomere maintenance histone deacetylation chromatin silencing at silent mating-type cassette chromatin silencing at telomere	histone deacetylase activity
SDS3	nucleus Rpd3L-Expanded complex Rpd3L complex	chromatin silencing histone deacetylation	histone deacetylase 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
STO1	commitment complex nuclear cap binding complex	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay telomere maintenance nuclear mRNA splicing, via spliceosome	mRNA binding
TOP1	nucleus nucleolus	mitotic chromosome condensation chromatin silencing at rDNA DNA strand elongation involved in DNA replication nuclear migration regulation of mitotic recombination chromatin assembly or disassembly DNA topological change regulation of transcription from RNA polymerase II promoter RNA elongation from RNA polymerase II promoter	DNA topoisomerase type I activity
TUP1	nucleus	negative regulation of transcription nucleosome positioning	general transcriptional repressor activity
UME1	nucleus	regulation of meiosis histone deacetylation	histone deacetylase activity transcription corepressor activity
UME6	nucleus	ascospore formation positive regulation of meiosis reciprocal meiotic recombination response to drug negative regulation of transcription, mitotic histone deacetylation	DNA binding histone deacetylase activity transcription regulator 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
chromatin remodeling complex	1.9778E-11	31	99	10	6292
protein kinase CK2 complex	4.8228E-10	31	4	4	6292
histone deacetylase complex	8.1573E-10	31	23	6	6292
nucleus	4.3382E-8	31	2041	25	6292
protein complex	7.0778E-7	31	1137	18	6292
nuclear part	2.7686E-6	31	1103	17	6292
macromolecular complex	7.0113E-6	31	1635	20	6292
nucleoplasm part	1.7076E-5	31	245	8	6292
nucleoplasm	2.9375E-5	31	264	8	6292
nuclear lumen	3.7871E-5	31	453	10	6292
ISWI complex	1.401E-4	31	4	2	6292
ISW1 complex	1.401E-4	31	4	2	6292
organelle lumen	1.8399E-4	31	660	11	6292
intracellular organelle lumen	1.8399E-4	31	660	11	6292
Sin3-type complex	2.3279E-4	31	5	2	6292
membrane-enclosed lumen	3.1097E-4	31	700	11	6292
nuclear chromatin	4.1403E-4	31	73	4	6292
chromatin	5.0775E-4	31	77	4	6292
intracellular part	5.3555E-4	31	4938	31	6292
intracellular	6.7547E-4	31	4975	31	6292
membrane-bounded organelle	9.8393E-4	31	3771	27	6292
intracellular membrane-bounded organelle	9.8393E-4	31	3771	27	6292
intracellular organelle part	3.9211E-3	31	2282	19	6292
organelle part	3.9211E-3	31	2282	19	6292
Rpd3L complex	4.9269E-3	31	1	1	6292
Rpd3L-Expanded complex	4.9269E-3	31	1	1	6292
intracellular organelle	4.9427E-3	31	4070	27	6292
organelle	4.9678E-3	31	4071	27	6292
cell part	8.4905E-3	31	5397	31	6292
cell	8.5889E-3	31	5399	31	6292
mitochondrial chromosome	9.8303E-3	31	2	1	6292
cytoplasmic chromosome	9.8303E-3	31	2	1	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
histone deacetylation	1.0373E-24	31	27	13	6292
protein amino acid deacetylation	3.4907E-24	31	29	13	6292
chromatin organization	3.6322E-23	31	203	20	6292
chromatin modification	1.5145E-19	31	168	17	6292
covalent chromatin modification	5.2719E-17	31	88	13	6292
histone modification	5.2719E-17	31	88	13	6292
chromosome organization	9.6051E-16	31	555	21	6292
transcription	1.7796E-14	31	552	20	6292
post-translational protein modification	5.7743E-14	31	357	17	6292
regulation of transcription	1.9306E-13	31	384	17	6292
regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	6.9287E-13	31	415	17	6292
regulation of nitrogen compound metabolic process	7.2078E-13	31	416	17	6292
transcription, DNA-dependent	1.0284E-12	31	503	18	6292
RNA biosynthetic process	1.2196E-12	31	508	18	6292
regulation of gene expression	2.1706E-12	31	445	17	6292
regulation of macromolecule biosynthetic process	3.2315E-12	31	456	17	6292
regulation of cellular biosynthetic process	5.6605E-12	31	472	17	6292
regulation of biosynthetic process	5.8582E-12	31	473	17	6292
regulation of macromolecule metabolic process	9.7157E-12	31	488	17	6292
organelle organization	9.9256E-12	31	1127	23	6292
protein modification process	1.393E-11	31	499	17	6292
regulation of transcription, DNA-dependent	2.0759E-11	31	358	15	6292
regulation of primary metabolic process	2.2458E-11	31	514	17	6292
regulation of RNA metabolic process	2.5346E-11	31	363	15	6292
regulation of cellular metabolic process	4.4043E-11	31	536	17	6292
regulation of metabolic process	6.0985E-11	31	547	17	6292
macromolecule modification	1.1449E-10	31	569	17	6292
nucleic acid metabolic process	1.1841E-10	31	1415	24	6292
cellular component organization	1.2729E-10	31	1582	25	6292
regulation of transcription from RNA polymerase I promoter	4.8228E-10	31	4	4	6292
RNA metabolic process	5.4861E-10	31	954	20	6292
nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	1.1171E-9	31	1566	24	6292
gene expression	1.6427E-9	31	1283	22	6292
regulation of cellular process	2.3693E-9	31	796	18	6292
negative regulation of transcription	3.045E-9	31	164	10	6292
negative regulation of gene expression	3.045E-9	31	164	10	6292
regulation of biological process	4.176E-9	31	824	18	6292
negative regulation of macromolecule biosynthetic process	5.7345E-9	31	175	10	6292
cellular macromolecule metabolic process	6.8662E-9	31	2285	27	6292
negative regulation of nitrogen compound metabolic process	7.539E-9	31	180	10	6292
negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	7.539E-9	31	180	10	6292
negative regulation of biosynthetic process	1.209E-8	31	189	10	6292
negative regulation of cellular biosynthetic process	1.209E-8	31	189	10	6292
macromolecule metabolic process	1.3681E-8	31	2349	27	6292
negative regulation of macromolecule metabolic process	1.4074E-8	31	192	10	6292
cellular nitrogen compound metabolic process	1.6103E-8	31	1770	24	6292
regulation of transcription from RNA polymerase III promoter	1.6706E-8	31	7	4	6292
chromatin silencing at rDNA	1.6964E-8	31	18	5	6292
nitrogen compound metabolic process	2.0765E-8	31	1791	24	6292
cellular macromolecule biosynthetic process	2.8465E-8	31	1187	20	6292
macromolecule biosynthetic process	2.9329E-8	31	1189	20	6292
negative regulation of cellular metabolic process	3.1801E-8	31	209	10	6292
negative regulation of metabolic process	3.3287E-8	31	210	10	6292
negative regulation of transcription, DNA-dependent	3.7583E-8	31	157	9	6292
negative regulation of RNA metabolic process	3.9725E-8	31	158	9	6292
biological regulation	4.1799E-8	31	1213	20	6292
flocculation via cell wall protein-carbohydrate interaction	9.9209E-8	31	10	4	6292
flocculation	1.5536E-7	31	11	4	6292
negative regulation of cellular process	1.7398E-7	31	250	10	6292
negative regulation of biological process	1.9462E-7	31	253	10	6292
negative regulation of gene expression, epigenetic	3.9889E-7	31	100	7	6292
gene silencing	3.9889E-7	31	100	7	6292
regulation of gene expression, epigenetic	3.9889E-7	31	100	7	6292
chromatin silencing	3.9889E-7	31	100	7	6292
response to DNA damage stimulus	1.2356E-6	31	236	9	6292
cellular protein metabolic process	1.8856E-6	31	1074	17	6292
primary metabolic process	2.2921E-6	31	2896	27	6292
cellular biosynthetic process	3.4586E-6	31	1567	20	6292
protein metabolic process	4.223E-6	31	1136	17	6292
biosynthetic process	4.9997E-6	31	1602	20	6292
cellular response to stress	6.8193E-6	31	290	9	6292
cellular metabolic process	6.8884E-6	31	3033	27	6292
G2/M transition of mitotic cell cycle	1.0511E-5	31	29	4	6292
transcription from RNA polymerase I promoter	1.2086E-5	31	30	4	6292
metabolic process	1.7682E-5	31	3157	27	6292
cellular process	1.7796E-5	31	4426	31	6292
transcription from RNA polymerase II promoter	2.1936E-5	31	335	9	6292
transcription from RNA polymerase III promoter	3.167E-5	31	38	4	6292
cellular response to stimulus	5.8389E-5	31	379	9	6292
regulation of transcription from RNA polymerase II promoter	9.3478E-5	31	228	7	6292
G1/S transition of mitotic cell cycle	9.4814E-5	31	50	4	6292
chromatin silencing at telomere	1.3802E-4	31	55	4	6292
regulation of biological quality	1.9919E-4	31	551	10	6292
double-strand break repair via nonhomologous end joining	2.3149E-4	31	25	3	6292
chromatin remodeling	3.1516E-4	31	68	4	6292
DNA metabolic process	3.2613E-4	31	585	10	6292
response to stress	4.6365E-4	31	497	9	6292
chromatin silencing at silent mating-type cassette	5.3466E-4	31	33	3	6292
non-recombinational repair	5.8445E-4	31	34	3	6292
multi-organism process	5.9647E-4	31	143	5	6292
homeostatic process	6.1165E-4	31	408	8	6292
chromatin assembly or disassembly	6.3712E-4	31	35	3	6292
interphase of mitotic cell cycle	1.2137E-3	31	97	4	6292
interphase	1.2137E-3	31	97	4	6292
protein amino acid phosphorylation	1.5171E-3	31	103	4	6292
cell cycle phase	1.937E-3	31	376	7	6292
DNA repair	2.2362E-3	31	192	5	6292
cellular ion homeostasis	2.5791E-3	31	119	4	6292
cellular chemical homeostasis	2.5791E-3	31	119	4	6292
double-strand break repair	2.6471E-3	31	57	3	6292
cellular homeostasis	2.6589E-3	31	120	4	6292
response to stimulus	2.7124E-3	31	766	10	6292
chemical homeostasis	2.9085E-3	31	123	4	6292
ion homeostasis	2.9085E-3	31	123	4	6292
negative regulation of transcription from RNA polymerase II promoter	3.0651E-3	31	60	3	6292
positive regulation of cellular process	4.1773E-3	31	136	4	6292
positive regulation of biological process	4.2882E-3	31	137	4	6292
positive regulation of meiosis	4.9269E-3	31	1	1	6292
regulation of meiosis	5.1041E-3	31	22	2	6292
regulation of meiotic cell cycle	5.1041E-3	31	22	2	6292
mitotic cell cycle	7.5231E-3	31	255	5	6292
cell cycle process	8.4452E-3	31	490	7	6292
developmental growth involved in morphogenesis	9.8303E-3	31	2	1	6292
developmental growth	9.8303E-3	31	2	1	6292
unidimensional cell growth	9.8303E-3	31	2	1	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
protein deacetylase activity	1.7725E-23	31	32	13	6292
histone deacetylase activity	1.7725E-23	31	32	13	6292
deacetylase activity	7.473E-23	31	35	13	6292
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	9.4319E-21	31	48	13	6292
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	1.4139E-17	31	80	13	6292
hydrolase activity	1.6738E-7	31	911	17	6292
protein kinase CK2 activity	2.3495E-5	31	2	2	6292
protein kinase CK2 regulator activity	2.3495E-5	31	2	2	6292
transcription factor binding	5.2045E-5	31	43	4	6292
transcription repressor activity	5.7053E-5	31	44	4	6292
transcription corepressor activity	5.8081E-5	31	16	3	6292
obsolete_molecular_function	3.3341E-4	31	69	4	6292
transcription cofactor activity	9.4586E-4	31	40	3	6292
transcription regulator activity	1.0589E-3	31	339	7	6292
transcription coactivator activity	4.6543E-3	31	21	2	6292
catalytic activity	5.3557E-3	31	2150	18	6292
general transcriptional repressor activity	9.8303E-3	31	2	1	6292
DNA topoisomerase type I activity	9.8303E-3	31	2	1	6292

View Protein Complex Details

Complex Overview

Complex Member Proteins

Cellular Component Analysis

Biological Process Analysis

Molecular Function Analysis