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:	28 proteins

Complex Member Proteins

Protein	GO Cellular Component	GO Biological Process	GO Molecular Function
ADE5,7	cytoplasm	purine nucleotide biosynthetic process 'de novo' IMP biosynthetic process purine base metabolic process	phosphoribosylamine-glycine ligase activity phosphoribosylformylglycinamidine cyclo-ligase activity
HHF1, HHF2	nucleus nucleoplasm part nuclear nucleosome chromosome replication fork protection complex chromatin remodeling complex nucleosome histone acetyltransferase complex nucleoplasm	histone H3-K79 methylation DNA repair negative regulation of transcription chromatin assembly or disassembly positive regulation of transcription nucleosome assembly	DNA binding
IOC3	ISW1 complex	chromatin remodeling	protein binding
ISW1	ISW1 complex	chromatin remodeling RNA elongation	ATPase activity
ISW2	nucleus chromatin accessibility complex	negative regulation of transcription from RNA polymerase II promoter by pheromones chromatin remodeling nucleosome positioning chromatin silencing at telomere	ATPase activity
ITC1	chromatin accessibility complex	negative regulation of transcription from RNA polymerase II promoter by pheromones chromatin remodeling chromatin silencing at telomere	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
NPL6	nucleus RSC complex	chromatin remodeling protein import into nucleus ATP-dependent chromatin remodeling telomere maintenance response to DNA damage stimulus	DNA-dependent ATPase activity
REB1	nucleus	termination of RNA polymerase I transcription regulation of transcription from RNA polymerase II promoter	RNA polymerase II transcription factor activity RNA polymerase I transcription termination factor activity
RFA1	chromosome, telomeric region nucleus cytoplasm DNA replication factor A complex	DNA strand elongation involved in DNA replication double-strand break repair via homologous recombination DNA recombination nucleotide-excision repair telomere maintenance via recombination DNA unwinding involved in replication postreplication repair DNA replication, synthesis of RNA primer	damaged DNA binding single-stranded DNA binding
RFX1	nucleus cytoplasm	negative regulation of transcription from RNA polymerase II promoter DNA damage checkpoint	specific transcriptional repressor activity
RNR2	nucleus cytoplasm ribonucleoside-diphosphate reductase complex	DNA replication	ribonucleoside-diphosphate reductase activity
RPC34	nucleus cytoplasm mitochondrion DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter ribosome biogenesis	DNA-directed RNA polymerase activity
RPC40	DNA-directed RNA polymerase I complex DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter transcription from RNA polymerase I promoter ribosome biogenesis	DNA-directed RNA polymerase activity
RPO31	DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity
RSC2	RSC complex	sister chromatid cohesion ATP-dependent chromatin remodeling telomere maintenance double-strand break repair via nonhomologous end joining	DNA-dependent ATPase activity
RSC3	nucleus RSC complex	ATP-dependent chromatin remodeling regulation of transcription, DNA-dependent	DNA binding DNA-dependent ATPase activity
RSC58	RSC complex	chromatin remodeling	molecular_function
RSC8	nucleus RSC complex	ATP-dependent chromatin remodeling double-strand break repair via nonhomologous end joining	DNA-dependent ATPase 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
SFH1	RSC complex	G2/M transition of mitotic cell cycle ATP-dependent chromatin remodeling chromosome segregation chromatin remodeling at centromere double-strand break repair	DNA-dependent ATPase activity
STH1	RSC complex	cytoskeleton organization ATP-dependent chromatin remodeling chromosome segregation chromatin remodeling at centromere meiosis double-strand break repair	ATPase activity DNA-dependent ATPase 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
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
TFC7	transcription factor TFIIIC complex	transcription initiation from RNA polymerase III promoter	RNA polymerase III transcription factor activity
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
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
YBR090C-A, NHP6B	nucleus chromosome	DNA repair chromatin remodeling transcription DNA replication transcription from RNA polymerase II promoter response to DNA damage stimulus regulation of transcription RNA polymerase III transcriptional preinitiation complex assembly	DNA binding nucleosome binding DNA bending activity sequence-specific DNA binding

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	4.9747E-17	28	99	13	6292
RSC complex	1.1445E-12	28	20	7	6292
nuclear part	2.48E-12	28	1103	22	6292
nucleus	3.1342E-11	28	2041	26	6292
protein complex	6.8886E-11	28	1137	21	6292
macromolecular complex	7.6864E-8	28	1635	21	6292
intracellular organelle part	8.1792E-7	28	2282	23	6292
organelle part	8.1792E-7	28	2282	23	6292
membrane-bounded organelle	1.1351E-5	28	3771	27	6292
intracellular membrane-bounded organelle	1.1351E-5	28	3771	27	6292
DNA-directed RNA polymerase III complex	5.1487E-5	28	17	3	6292
intracellular organelle	7.9947E-5	28	4070	27	6292
organelle	8.0448E-5	28	4071	27	6292
chromatin accessibility complex	1.1396E-4	28	4	2	6292
ISWI complex	1.1396E-4	28	4	2	6292
ISW1 complex	1.1396E-4	28	4	2	6292
DNA-directed RNA polymerase complex	3.2643E-4	28	31	3	6292
RNA polymerase complex	3.2643E-4	28	31	3	6292
nuclear DNA-directed RNA polymerase complex	3.2643E-4	28	31	3	6292
nucleoplasm part	5.998E-4	28	245	6	6292
nucleoplasm	8.8992E-4	28	264	6	6292
intracellular part	1.1122E-3	28	4938	28	6292
intracellular	1.3715E-3	28	4975	28	6292
nuclear lumen	3E-3	28	453	7	6292
nuclear replication fork	3.4533E-3	28	20	2	6292
chromosome	6.5066E-3	28	274	5	6292
replication fork protection complex	8.8811E-3	28	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
chromatin remodeling	2.7041E-19	28	68	13	6292
chromatin organization	6.6101E-16	28	203	15	6292
chromatin modification	1.5784E-15	28	168	14	6292
nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	1.0027E-12	28	1566	25	6292
nucleic acid metabolic process	1.8895E-12	28	1415	24	6292
chromosome organization	8.0218E-12	28	555	17	6292
cellular nitrogen compound metabolic process	1.9317E-11	28	1770	25	6292
nitrogen compound metabolic process	2.5652E-11	28	1791	25	6292
RNA biosynthetic process	3.1761E-11	28	508	16	6292
transcription	1.1227E-10	28	552	16	6292
transcription, DNA-dependent	4.0174E-10	28	503	15	6292
ATP-dependent chromatin remodeling	9.5E-10	28	26	6	6292
cellular component organization	4.2678E-9	28	1582	22	6292
RNA metabolic process	4.2387E-8	28	954	17	6292
organelle organization	6.7851E-8	28	1127	18	6292
cellular macromolecule metabolic process	9.6057E-8	28	2285	24	6292
cellular macromolecule biosynthetic process	1.5589E-7	28	1187	18	6292
macromolecule biosynthetic process	1.6014E-7	28	1189	18	6292
macromolecule metabolic process	1.7609E-7	28	2349	24	6292
cellular response to stimulus	2.7784E-7	28	379	11	6292
regulation of transcription	3.1738E-7	28	384	11	6292
response to DNA damage stimulus	4.6727E-7	28	236	9	6292
transcription from RNA polymerase III promoter	5.4357E-7	28	38	5	6292
regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	6.9503E-7	28	415	11	6292
regulation of nitrogen compound metabolic process	7.1204E-7	28	416	11	6292
regulation of gene expression	1.397E-6	28	445	11	6292
regulation of macromolecule biosynthetic process	1.7807E-6	28	456	11	6292
cellular biosynthetic process	1.9584E-6	28	1567	19	6292
primary metabolic process	2.045E-6	28	2896	25	6292
regulation of cellular biosynthetic process	2.5051E-6	28	472	11	6292
regulation of biosynthetic process	2.558E-6	28	473	11	6292
cellular response to stress	2.6407E-6	28	290	9	6292
biosynthetic process	2.8072E-6	28	1602	19	6292
regulation of macromolecule metabolic process	3.4787E-6	28	488	11	6292
gene expression	3.5416E-6	28	1283	17	6292
double-strand break repair	4.2783E-6	28	57	5	6292
regulation of transcription from RNA polymerase II promoter	4.3631E-6	28	228	8	6292
regulation of primary metabolic process	5.7809E-6	28	514	11	6292
cellular metabolic process	5.8197E-6	28	3033	25	6292
transcription from RNA polymerase II promoter	8.6646E-6	28	335	9	6292
regulation of cellular metabolic process	8.6848E-6	28	536	11	6292
biological regulation	9.6069E-6	28	1213	16	6292
regulation of metabolic process	1.0568E-5	28	547	11	6292
metabolic process	1.4289E-5	28	3157	25	6292
regulation of transcription, DNA-dependent	1.486E-5	28	358	9	6292
DNA repair	1.5174E-5	28	192	7	6292
regulation of RNA metabolic process	1.6622E-5	28	363	9	6292
chromatin remodeling at centromere	1.9099E-5	28	2	2	6292
DNA metabolic process	2.012E-5	28	585	11	6292
cellular process	5.1428E-5	28	4426	28	6292
DNA conformation change	1.1288E-4	28	58	4	6292
transcription initiation	1.1288E-4	28	58	4	6292
negative regulation of transcription from RNA polymerase II promoter by pheromones	1.1396E-4	28	4	2	6292
negative regulation of gene-specific transcription from RNA polymerase II promoter	1.1396E-4	28	4	2	6292
negative regulation of gene-specific transcription	1.1396E-4	28	4	2	6292
negative regulation of transcription by pheromones	1.1396E-4	28	4	2	6292
response to stress	1.9679E-4	28	497	9	6292
response to stimulus	2.4442E-4	28	766	11	6292
transcription from RNA polymerase I promoter	2.9572E-4	28	30	3	6292
regulation of cellular process	3.4439E-4	28	796	11	6292
DNA packaging	3.5913E-4	28	32	3	6292
regulation of biological process	4.674E-4	28	824	11	6292
chromatin assembly or disassembly	4.6968E-4	28	35	3	6292
protein-DNA complex assembly	6.4806E-4	28	39	3	6292
negative regulation of transcription	6.8411E-4	28	164	5	6292
negative regulation of gene expression	6.8411E-4	28	164	5	6292
macromolecular complex subunit organization	7.4827E-4	28	357	7	6292
gene-specific transcription from RNA polymerase II promoter	8.4071E-4	28	10	2	6292
regulation of transcription from RNA polymerase II promoter by pheromones	8.4071E-4	28	10	2	6292
cellular response to pheromone	8.4071E-4	28	10	2	6292
regulation of gene-specific transcription from RNA polymerase II promoter	8.4071E-4	28	10	2	6292
regulation of transcription by pheromones	8.4071E-4	28	10	2	6292
negative regulation of macromolecule biosynthetic process	9.1855E-4	28	175	5	6292
transcription initiation from RNA polymerase III promoter	1.0247E-3	28	11	2	6292
negative regulation of nitrogen compound metabolic process	1.043E-3	28	180	5	6292
negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	1.043E-3	28	180	5	6292
negative regulation of biosynthetic process	1.2983E-3	28	189	5	6292
negative regulation of cellular biosynthetic process	1.2983E-3	28	189	5	6292
negative regulation of macromolecule metabolic process	1.393E-3	28	192	5	6292
regulation of gene-specific transcription	1.9348E-3	28	15	2	6292
DNA replication	1.98E-3	28	123	4	6292
negative regulation of cellular metabolic process	2.0292E-3	28	209	5	6292
negative regulation of metabolic process	2.0723E-3	28	210	5	6292
negative regulation of transcription from RNA polymerase II promoter	2.2796E-3	28	60	3	6292
chromosome segregation	2.2914E-3	28	128	4	6292
chromatin assembly	3.1165E-3	28	19	2	6292
cellular response to organic substance	3.4533E-3	28	20	2	6292
negative regulation of cellular process	4.4146E-3	28	250	5	6292
regulation of RNA polymerase II transcriptional preinitiation complex assembly	4.4501E-3	28	1	1	6292
regulation of transcription initiation from RNA polymerase II promoter	4.4501E-3	28	1	1	6292
histone H3-K79 methylation	4.4501E-3	28	1	1	6292
RNA polymerase II transcriptional preinitiation complex assembly	4.4501E-3	28	1	1	6292
transcription of nuclear rRNA large RNA polymerase I transcript	4.4501E-3	28	1	1	6292
termination of RNA polymerase I transcription	4.4501E-3	28	1	1	6292
protein complex biogenesis	4.5746E-3	28	155	4	6292
protein complex assembly	4.5746E-3	28	155	4	6292
negative regulation of biological process	4.6451E-3	28	253	5	6292
negative regulation of transcription, DNA-dependent	4.7884E-3	28	157	4	6292
negative regulation of RNA metabolic process	4.8978E-3	28	158	4	6292
cellular macromolecular complex subunit organization	5.1317E-3	28	259	5	6292
double-strand break repair via nonhomologous end joining	5.3782E-3	28	25	2	6292
cellular component assembly	6.0122E-3	28	385	6	6292
nucleosome organization	7.1991E-3	28	29	2	6292
macromolecular complex assembly	7.2304E-3	28	281	5	6292
DNA strand elongation	8.2002E-3	28	31	2	6292
DNA strand elongation involved in DNA replication	8.2002E-3	28	31	2	6292
cellular component biogenesis	8.7664E-3	28	694	8	6292
histone lysine methylation	8.8811E-3	28	2	1	6292
mitotic recombination	9.2603E-3	28	33	2	6292
negative regulation of gene expression, epigenetic	9.5663E-3	28	100	3	6292
gene silencing	9.5663E-3	28	100	3	6292
regulation of gene expression, epigenetic	9.5663E-3	28	100	3	6292
chromatin silencing	9.5663E-3	28	100	3	6292
non-recombinational repair	9.8121E-3	28	34	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
DNA-dependent ATPase activity	2.7033E-9	28	55	7	6292
ATPase activity	1.1259E-8	28	211	10	6292
nucleoside-triphosphatase activity	6.5245E-8	28	329	11	6292
hydrolase activity, acting on acid anhydrides	1.3456E-7	28	353	11	6292
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.3456E-7	28	353	11	6292
pyrophosphatase activity	1.3456E-7	28	353	11	6292
ATPase activity, coupled	2.8296E-6	28	149	7	6292
RNA polymerase activity	4.307E-4	28	34	3	6292
DNA-directed RNA polymerase activity	4.307E-4	28	34	3	6292
DNA binding	7.5685E-4	28	256	6	6292
catalytic activity	1.0676E-3	28	2150	18	6292
hydrolase activity	1.1142E-3	28	911	11	6292
phosphoribosylformylglycinamidine cyclo-ligase activity	4.4501E-3	28	1	1	6292
phosphoribosylamine-glycine ligase activity	4.4501E-3	28	1	1	6292
RNA polymerase I transcription termination factor activity	4.4501E-3	28	1	1	6292
TATA-binding protein binding	8.8811E-3	28	2	1	6292
nucleosome binding	8.8811E-3	28	2	1	6292
transcription termination factor activity	8.8811E-3	28	2	1	6292
DNA topoisomerase type I activity	8.8811E-3	28	2	1	6292

View Protein Complex Details

Complex Overview

Complex Member Proteins

Cellular Component Analysis

Biological Process Analysis

Molecular Function Analysis