YRC Public Data Repository - Protein Complex GO Analysis

Complex Overview

From Publication:	Ho Y. et al. (2002) Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature. 2002 Jan 10;415(6868):180-3.
Notes:	This molecular complex record represents a population of complexes co-purified by immunoprecipitation of FLAG-tagged Rpc40. The topolgies of protein complexes in this experiment are unknown.
Complex Size:	35 proteins

Complex Member Proteins

Protein	GO Cellular Component	GO Biological Process	GO Molecular Function
ACC1	endoplasmic reticulum membrane mitochondrion cytosol	nuclear envelope organization protein import into nucleus fatty acid biosynthetic process	acetyl-CoA carboxylase activity biotin carboxylase activity
ACH1	mitochondrion cytosol	acetate metabolic process acetyl-CoA metabolic process	acetyl-CoA hydrolase activity
ADH2	cytoplasm	fermentation ethanol metabolic process NADH oxidation	alcohol dehydrogenase (NAD) activity
ADR1	nucleus	regulation of carbohydrate metabolic process transcription peroxisome organization negative regulation of transcription from RNA polymerase II promoter by glucose	transcription factor activity
GCD11	multi-eIF complex ribosome eukaryotic translation initiation factor 2 complex	translational initiation	translation initiation factor activity
GFA1	cellular_component	cell wall chitin biosynthetic process	glutamine-fructose-6-phosphate transaminase (isomerizing) activity
GND1	cytoplasm mitochondrion	response to oxidative stress pentose-phosphate shunt, oxidative branch	phosphogluconate dehydrogenase (decarboxylating) activity
GUS1	cytoplasm methionyl glutamyl tRNA synthetase complex	glutamyl-tRNA aminoacylation	glutamate-tRNA ligase activity
IDH2	mitochondrial matrix mitochondrion	glutamate biosynthetic process isocitrate metabolic process tricarboxylic acid cycle	isocitrate dehydrogenase (NAD+) activity
ISA2	mitochondrial intermembrane space mitochondrion	iron ion transport response to drug biotin biosynthetic process	molecular_function
MDH1	mitochondrial matrix mitochondrion	malate metabolic process tricarboxylic acid cycle	L-malate dehydrogenase activity
MET18	nucleoplasm	telomere maintenance nucleotide-excision repair transcription from RNA polymerase II promoter methionine metabolic process	RNA polymerase II transcription factor activity
NGL2	intracellular	rRNA processing	endoribonuclease activity
PYC1	cytosol	gluconeogenesis NADPH regeneration	pyruvate carboxylase activity
PYC2	cytosol	gluconeogenesis NADPH regeneration	pyruvate carboxylase activity
RET1	DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity
RPA135	DNA-directed RNA polymerase I complex	transcription from RNA polymerase I promoter ribosome biogenesis	DNA-directed RNA polymerase activity
RPA190	DNA-directed RNA polymerase I complex	transcription from RNA polymerase I promoter	DNA-directed RNA polymerase activity
RPA49	DNA-directed RNA polymerase I complex	transcription from RNA polymerase I promoter regulation of cell size ribosome biogenesis	DNA-directed RNA polymerase activity
RPB5	DNA-directed RNA polymerase I complex DNA-directed RNA polymerase III complex DNA-directed RNA polymerase II, core complex	transcription from RNA polymerase III promoter transcription from RNA polymerase I promoter transcription from RNA polymerase II promoter	DNA-directed RNA polymerase activity
RPC19	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
RPC25	DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter	DNA-directed RNA polymerase 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
RPC82	DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter ribosome biogenesis	DNA-directed RNA polymerase activity
RPN3	proteasome regulatory particle, lid subcomplex	ubiquitin-dependent protein catabolic process	molecular_function
RPO26	DNA-directed RNA polymerase I complex DNA-directed RNA polymerase III complex DNA-directed RNA polymerase II, core complex	transcription from RNA polymerase III promoter transcription from RNA polymerase I promoter transcription from RNA polymerase II promoter	DNA-directed RNA polymerase activity
RPO31	DNA-directed RNA polymerase III complex	transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity
RVS167	actin cortical patch	vesicle-mediated transport bipolar cellular bud site selection response to osmotic stress endocytosis	cytoskeletal protein binding
SEC27	COPI vesicle coat	ER to Golgi vesicle-mediated transport retrograde vesicle-mediated transport, Golgi to ER	molecular_function
TBS1	nucleus cytoplasm mitochondrion	biological_process	molecular_function
TFP1	vacuolar proton-transporting V-type ATPase, V1 domain fungal-type vacuole membrane	protein metabolic process vacuolar acidification intron homing	proton-transporting ATPase activity, rotational mechanism endodeoxyribonuclease activity
TSA2	cytoplasm	response to oxidative stress	thioredoxin peroxidase activity peroxiredoxin activity
YFL042C	cellular_component	biological_process	molecular_function
YHR112C	cytoplasm	sulfur metabolic process	cystathionine beta-lyase 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
RNA polymerase complex	1.3882E-20	35	31	12	6292
DNA-directed RNA polymerase complex	1.3882E-20	35	31	12	6292
nuclear DNA-directed RNA polymerase complex	1.3882E-20	35	31	12	6292
DNA-directed RNA polymerase III complex	3.9338E-17	35	17	9	6292
DNA-directed RNA polymerase I complex	2.9086E-13	35	14	7	6292
nucleolar part	3.4067E-9	35	45	7	6292
membrane-enclosed lumen	2.4663E-7	35	700	16	6292
nuclear lumen	4.0075E-7	35	453	13	6292
organelle lumen	7.6452E-7	35	660	15	6292
intracellular organelle lumen	7.6452E-7	35	660	15	6292
nucleoplasm	1.0339E-6	35	264	10	6292
nucleoplasm part	5.1637E-6	35	245	9	6292
protein complex	3.5223E-5	35	1137	17	6292
nucleolus	1.3038E-4	35	211	7	6292
DNA-directed RNA polymerase II, core complex	1.916E-3	35	12	2	6292
macromolecular complex	3.3177E-3	35	1635	17	6292
nuclear part	4.4973E-3	35	1103	13	6292
intracellular organelle part	9.3065E-3	35	2282	20	6292
organelle part	9.3065E-3	35	2282	20	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
transcription from RNA polymerase III promoter	2.4387E-13	35	38	9	6292
transcription from RNA polymerase I promoter	1.6207E-10	35	30	7	6292
transcription, DNA-dependent	1.7564E-7	35	503	14	6292
RNA biosynthetic process	1.9874E-7	35	508	14	6292
transcription	5.5656E-7	35	552	14	6292
nitrogen compound metabolic process	9.3841E-7	35	1791	24	6292
cofactor metabolic process	1.442E-6	35	154	8	6292
cellular biosynthetic process	2.1211E-6	35	1567	22	6292
biosynthetic process	3.161E-6	35	1602	22	6292
coenzyme metabolic process	3.3261E-6	35	120	7	6292
cellular nitrogen compound metabolic process	3.9291E-6	35	1770	23	6292
cellular metabolic process	4.1682E-6	35	3033	30	6292
nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	1.0332E-5	35	1566	21	6292
metabolic process	1.164E-5	35	3157	30	6292
RNA metabolic process	1.6178E-5	35	954	16	6292
organic acid metabolic process	6.0658E-5	35	333	9	6292
oxoacid metabolic process	6.0658E-5	35	333	9	6292
carboxylic acid metabolic process	6.0658E-5	35	333	9	6292
cellular macromolecule biosynthetic process	6.2617E-5	35	1187	17	6292
macromolecule biosynthetic process	6.4031E-5	35	1189	17	6292
NADPH regeneration	6.8549E-5	35	15	3	6292
cellular ketone metabolic process	8.1766E-5	35	346	9	6292
nicotinamide nucleotide metabolic process	8.4905E-5	35	43	4	6292
pyridine nucleotide metabolic process	1.1095E-4	35	46	4	6292
NADP metabolic process	1.2154E-4	35	18	3	6292
acetyl-CoA metabolic process	1.685E-4	35	20	3	6292
gene expression	1.7318E-4	35	1283	17	6292
oxidoreduction coenzyme metabolic process	2.9397E-4	35	59	4	6292
nucleic acid metabolic process	5.9594E-4	35	1415	17	6292
primary metabolic process	6.3131E-4	35	2896	26	6292
monocarboxylic acid metabolic process	7.8964E-4	35	134	5	6292
small molecule metabolic process	1.9974E-3	35	760	11	6292
ribosome biogenesis	2.5263E-3	35	346	7	6292
cellular process	2.6951E-3	35	4426	32	6292
tricarboxylic acid cycle	3.0164E-3	35	15	2	6292
acetyl-CoA catabolic process	3.0164E-3	35	15	2	6292
ribonucleoprotein complex biogenesis	3.9121E-3	35	374	7	6292
nucleotide metabolic process	5.2515E-3	35	128	4	6292
nucleoside phosphate metabolic process	5.2515E-3	35	128	4	6292
coenzyme catabolic process	5.3639E-3	35	20	2	6292
cofactor catabolic process	6.4761E-3	35	22	2	6292
cellular carbohydrate biosynthetic process	9.0207E-3	35	78	3	6292
cellular macromolecule metabolic process	9.4596E-3	35	2285	20	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
RNA polymerase activity	5.3394E-20	35	34	12	6292
DNA-directed RNA polymerase activity	5.3394E-20	35	34	12	6292
nucleotidyltransferase activity	4.3435E-11	35	168	12	6292
ligase activity, forming carbon-carbon bonds	6.2849E-7	35	4	3	6292
transferase activity, transferring phosphorus-containing groups	1.3635E-6	35	420	12	6292
catalytic activity	1.3808E-6	35	2150	26	6292
pyruvate carboxylase activity	3.0063E-5	35	2	2	6292
transferase activity	1.9818E-4	35	797	13	6292
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	6.6527E-4	35	73	4	6292
oxidoreductase activity, acting on CH-OH group of donors	9.8536E-4	35	81	4	6292
biotin carboxylase activity	5.5626E-3	35	1	1	6292
glutamine-fructose-6-phosphate transaminase (isomerizing) activity	5.5626E-3	35	1	1	6292
acetyl-CoA hydrolase activity	5.5626E-3	35	1	1	6292
ligase activity	9.1482E-3	35	150	4	6292

View Protein Complex Details

Complex Overview

Complex Member Proteins

Cellular Component Analysis

Biological Process Analysis

Molecular Function Analysis