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 Srp1. The topolgies of protein complexes in this experiment are unknown.
Complex Size:	30 proteins

Complex Member Proteins

Protein	GO Cellular Component	GO Biological Process	GO Molecular Function
DIS3	cytoplasmic exosome (RNase complex) nuclear exosome (RNase complex) mitochondrion nuclear outer membrane	mRNA catabolic process polyadenylation-dependent ncRNA catabolic process	3'-5'-exoribonuclease activity
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
FIP1	mRNA cleavage and polyadenylation specificity factor complex	mRNA polyadenylation mRNA cleavage	RNA binding protein binding
HAS1	nuclear envelope nucleolus	ribosome biogenesis rRNA processing	RNA binding RNA-dependent ATPase activity ATP-dependent RNA helicase activity
HPR1	Cdc73/Paf1 complex THO complex	mRNA export from nucleus DNA recombination telomere maintenance response to DNA damage stimulus RNA elongation from RNA polymerase II promoter	nucleic acid binding
KAP95	cytoplasm nuclear pore	protein import into nucleus nuclear pore complex assembly	protein transmembrane transporter activity
MES1	cytoplasm methionyl glutamyl tRNA synthetase complex	methionyl-tRNA aminoacylation	methionine-tRNA ligase activity
MFT1	THO complex	mRNA export from nucleus DNA recombination telomere maintenance RNA elongation from RNA polymerase II promoter	nucleic acid binding
NAM8	commitment complex U1 snRNP	mRNA splice site selection nuclear mRNA splicing, via spliceosome	RNA binding mRNA binding
NOP6	nucleolus	rRNA processing	molecular_function
NUP1	nuclear pore	protein export from nucleus ribosomal protein import into nucleus mRNA export from nucleus rRNA export from nucleus nuclear envelope organization RNA export from nucleus nuclear pore organization snRNP protein import into nucleus mRNA-binding (hnRNP) protein import into nucleus snRNA export from nucleus protein import into nucleus tRNA export from nucleus NLS-bearing substrate import into nucleus	protein binding structural molecule activity
NUP2	nuclear chromatin mitochondrion nuclear pore	mRNA export from nucleus rRNA export from nucleus nuclear pore organization snRNP protein import into nucleus mRNA-binding (hnRNP) protein import into nucleus snRNA export from nucleus tRNA export from nucleus NLS-bearing substrate import into nucleus chromatin silencing protein export from nucleus chromatin silencing at telomere ribosomal protein import into nucleus	structural molecule activity
NUP60	nuclear pore	nucleocytoplasmic transport telomere maintenance protein import into nucleus, docking	structural constituent of nuclear pore
PAP1	mRNA cleavage and polyadenylation specificity factor complex nucleoplasm	mRNA export from nucleus mRNA polyadenylation	polynucleotide adenylyltransferase activity
PCT1	nuclear envelope nucleus Golgi apparatus	CDP-choline pathway phosphatidylcholine biosynthetic process	choline-phosphate cytidylyltransferase 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
RNT1	nuclear outer membrane nucleolus nucleoplasm	ribosome biogenesis	ribonuclease III activity
RRP4	cytoplasmic exosome (RNase complex) nuclear exosome (RNase complex) nuclear outer membrane	mRNA catabolic process	3'-5'-exoribonuclease activity RNA binding
RRP43	cytoplasmic exosome (RNase complex) nuclear exosome (RNase complex) nuclear outer membrane	mRNA catabolic process	3'-5'-exoribonuclease activity
RRP6	nuclear exosome (RNase complex) nuclear outer membrane	ribosome biogenesis mRNA catabolic process polyadenylation-dependent ncRNA catabolic process	3'-5'-exoribonuclease activity
RTT103	cellular_component	termination of RNA polymerase II transcription, poly(A)-coupled negative regulation of transposition, DNA-mediated	molecular_function
SIF2	nucleus histone deacetylase complex	negative regulation of transcription from RNA polymerase II promoter histone deacetylation chromatin silencing at telomere negative regulation of meiosis	transcription corepressor activity NAD-dependent histone deacetylase activity NAD-independent 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
SNU56	commitment complex U1 snRNP	nuclear mRNA splicing, via spliceosome	mRNA binding
SRP1	nucleus cytoplasm	nucleocytoplasmic transport	protein transmembrane transporter 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
THO2	nucleus THO complex	mRNA export from nucleus DNA recombination RNA elongation from RNA polymerase II promoter	nucleic acid binding DNA binding
TRA1	NuA4 histone acetyltransferase complex SLIK (SAGA-like) complex SAGA complex histone acetyltransferase complex	DNA repair histone acetylation regulation of transcription from RNA polymerase II promoter	histone acetyltransferase activity
UME1	nucleus	regulation of meiosis histone deacetylation	histone deacetylase activity transcription corepressor activity
YPR090W

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
nuclear part	1.1579E-13	30	1103	24	6292
nucleus	7.4655E-11	30	2041	27	6292
nuclear envelope	7.7673E-10	30	199	11	6292
protein complex	4.8053E-8	30	1137	19	6292
THO complex	3.901E-7	30	4	3	6292
macromolecular complex	5.2999E-7	30	1635	21	6292
nuclear exosome (RNase complex)	5.5285E-7	30	15	4	6292
exosome (RNase complex)	7.3469E-7	30	16	4	6292
endomembrane system	1.0334E-6	30	398	11	6292
intracellular organelle part	1.1623E-6	30	2282	24	6292
organelle part	1.1623E-6	30	2282	24	6292
envelope	1.067E-5	30	505	11	6292
organelle envelope	1.067E-5	30	505	11	6292
U2-type spliceosomal complex	2.0909E-5	30	12	3	6292
commitment complex	2.0909E-5	30	12	3	6292
cytoplasmic exosome (RNase complex)	2.0909E-5	30	12	3	6292
nucleoplasm	2.2606E-5	30	264	8	6292
nuclear lumen	2.7394E-5	30	453	10	6292
nuclear outer membrane	4.6209E-5	30	86	5	6292
nuclear membrane	8.2434E-5	30	97	5	6292
pore complex	9.7E-5	30	52	4	6292
nuclear pore	9.7E-5	30	52	4	6292
nucleoplasm part	1.1757E-4	30	245	7	6292
membrane-bounded organelle	2.975E-4	30	3771	27	6292
intracellular membrane-bounded organelle	2.975E-4	30	3771	27	6292
organelle lumen	6.4198E-4	30	660	10	6292
intracellular organelle lumen	6.4198E-4	30	660	10	6292
membrane-enclosed lumen	1.0238E-3	30	700	10	6292
spliceosomal complex	1.2128E-3	30	45	3	6292
outer membrane	1.3738E-3	30	178	5	6292
organelle outer membrane	1.3738E-3	30	178	5	6292
intracellular organelle	1.6705E-3	30	4070	27	6292
organelle	1.6796E-3	30	4071	27	6292
H4/H2A histone acetyltransferase complex	1.9301E-3	30	14	2	6292
NuA4 histone acetyltransferase complex	1.9301E-3	30	14	2	6292
mRNA cleavage and polyadenylation specificity factor complex	2.2205E-3	30	15	2	6292
membrane part	2.7978E-3	30	662	9	6292
U1 snRNP	2.8591E-3	30	17	2	6292
mRNA cleavage factor complex	3.959E-3	30	20	2	6292
nuclear membrane-endoplasmic reticulum network	4.3723E-3	30	232	5	6292
histone deacetylase complex	5.2251E-3	30	23	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
RNA metabolic process	1.3231E-12	30	954	22	6292
nucleic acid metabolic process	4.1387E-10	30	1415	23	6292
nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	3.5243E-9	30	1566	23	6292
cellular nitrogen compound metabolic process	4.9583E-9	30	1770	24	6292
nuclear transport	5.1529E-9	30	130	9	6292
nucleocytoplasmic transport	5.1529E-9	30	130	9	6292
nitrogen compound metabolic process	6.4216E-9	30	1791	24	6292
mRNA metabolic process	3.8014E-7	30	213	9	6292
mRNA export from nucleus	6.1665E-7	30	68	6	6292
mRNA transport	6.1665E-7	30	68	6	6292
cellular macromolecule metabolic process	1.1947E-6	30	2285	24	6292
RNA export from nucleus	1.6274E-6	30	80	6	6292
RNA transport	1.7518E-6	30	81	6	6292
nucleic acid transport	1.7518E-6	30	81	6	6292
establishment of RNA localization	1.7518E-6	30	81	6	6292
macromolecule metabolic process	2.1258E-6	30	2349	24	6292
gene expression	2.3146E-6	30	1283	18	6292
RNA localization	3.7119E-6	30	92	6	6292
nucleobase, nucleoside, nucleotide and nucleic acid transport	4.7626E-6	30	96	6	6292
histone deacetylation	6.831E-6	30	27	4	6292
nuclear export	7.1779E-6	30	103	6	6292
protein amino acid deacetylation	9.1836E-6	30	29	4	6292
mRNA catabolic process	1.578E-5	30	69	5	6292
transcription from RNA polymerase II promoter	1.6323E-5	30	335	9	6292
primary metabolic process	2.8017E-5	30	2896	25	6292
RNA catabolic process	3.2541E-5	30	80	5	6292
covalent chromatin modification	5.1635E-5	30	88	5	6292
histone modification	5.1635E-5	30	88	5	6292
transcription, DNA-dependent	6.7624E-5	30	503	10	6292
protein localization in nucleus	7.0647E-5	30	48	4	6292
protein import into nucleus	7.0647E-5	30	48	4	6292
nuclear import	7.0647E-5	30	48	4	6292
RNA biosynthetic process	7.3581E-5	30	508	10	6292
cellular metabolic process	7.3945E-5	30	3033	25	6292
transcription	1.4848E-4	30	552	10	6292
cellular macromolecular complex subunit organization	1.6648E-4	30	259	7	6292
metabolic process	1.6918E-4	30	3157	25	6292
nuclear pore organization	2.9572E-4	30	28	3	6292
cellular process	3.4809E-4	30	4426	29	6292
macromolecule localization	3.9945E-4	30	397	8	6292
polyadenylation-dependent RNA catabolic process	6.0455E-4	30	8	2	6292
polyadenylation-dependent ncRNA catabolic process	6.0455E-4	30	8	2	6292
mRNA processing	7.5828E-4	30	156	5	6292
intracellular transport	7.784E-4	30	553	9	6292
RNA elongation from RNA polymerase II promoter	7.963E-4	30	39	3	6292
chromosome organization	7.9917E-4	30	555	9	6292
chromatin modification	1.0602E-3	30	168	5	6292
macromolecular complex subunit organization	1.1662E-3	30	357	7	6292
DNA metabolic process	1.1698E-3	30	585	9	6292
RNA elongation	1.2128E-3	30	45	3	6292
establishment of localization in cell	1.3856E-3	30	599	9	6292
ribonucleoprotein complex biogenesis	1.531E-3	30	374	7	6292
protein import	1.5952E-3	30	108	4	6292
RNA processing	1.6793E-3	30	380	7	6292
DNA recombination	1.9473E-3	30	114	4	6292
chromatin silencing at telomere	2.1714E-3	30	55	3	6292
cellular localization	2.2853E-3	30	643	9	6292
nucleus organization	2.2869E-3	30	56	3	6292
chromatin organization	2.4553E-3	30	203	5	6292
regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	2.7841E-3	30	415	7	6292
regulation of nitrogen compound metabolic process	2.8224E-3	30	416	7	6292
cellular component organization	2.8549E-3	30	1582	15	6292
mRNA polyadenylation	3.5736E-3	30	19	2	6292
organelle organization	3.7143E-3	30	1127	12	6292
cellular component biogenesis	3.8672E-3	30	694	9	6292
regulation of transcription from RNA polymerase II promoter	4.059E-3	30	228	5	6292
transcription termination	4.3628E-3	30	21	2	6292
pore complex assembly	4.768E-3	30	1	1	6292
nuclear pore complex assembly	4.768E-3	30	1	1	6292
CDP-choline pathway	4.768E-3	30	1	1	6292
termination of RNA polymerase I transcription	4.768E-3	30	1	1	6292
regulation of meiosis	4.7849E-3	30	22	2	6292
regulation of meiotic cell cycle	4.7849E-3	30	22	2	6292
ribosome biogenesis	5.1074E-3	30	346	6	6292
protein localization in organelle	5.1258E-3	30	149	4	6292
ribosomal protein import into nucleus	5.2251E-3	30	23	2	6292
snRNP protein import into nucleus	5.2251E-3	30	23	2	6292
NLS-bearing substrate import into nucleus	5.2251E-3	30	23	2	6292
snRNA export from nucleus	5.2251E-3	30	23	2	6292
snRNA transport	5.2251E-3	30	23	2	6292
regulation of transcription, DNA-dependent	6.0289E-3	30	358	6	6292
mRNA-binding (hnRNP) protein import into nucleus	6.1593E-3	30	25	2	6292
regulation of RNA metabolic process	6.4472E-3	30	363	6	6292
RNA polyadenylation	6.6528E-3	30	26	2	6292
regulation of macromolecule metabolic process	6.8426E-3	30	488	7	6292
biological regulation	6.9077E-3	30	1213	12	6292
rRNA export from nucleus	7.1639E-3	30	27	2	6292
rRNA transport	7.1639E-3	30	27	2	6292
cellular macromolecule catabolic process	7.6552E-3	30	265	5	6292
tRNA export from nucleus	7.6922E-3	30	28	2	6292
tRNA transport	7.6922E-3	30	28	2	6292
regulation of transcription	8.4405E-3	30	384	6	6292
regulation of primary metabolic process	9.0432E-3	30	514	7	6292
mRNA 3'-end processing	9.3792E-3	30	31	2	6292
negative regulation of nitrogen compound metabolic process	9.9241E-3	30	180	4	6292
negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	9.9241E-3	30	180	4	6292
protein export from nucleus	9.975E-3	30	32	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
3'-5'-exoribonuclease activity	3.4926E-6	30	23	4	6292
exoribonuclease activity, producing 5'-phosphomonoesters	5.8383E-6	30	26	4	6292
exoribonuclease activity	5.8383E-6	30	26	4	6292
protein deacetylase activity	1.3767E-5	30	32	4	6292
histone deacetylase activity	1.3767E-5	30	32	4	6292
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	1.7637E-5	30	34	4	6292
3'-5' exonuclease activity	1.9847E-5	30	35	4	6292
deacetylase activity	1.9847E-5	30	35	4	6292
transcription corepressor activity	5.2542E-5	30	16	3	6292
exonuclease activity	5.9642E-5	30	46	4	6292
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	7.0647E-5	30	48	4	6292
binding	3.0783E-4	30	1294	15	6292
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	5.165E-4	30	80	4	6292
mRNA binding	5.7766E-4	30	35	3	6292
ribonuclease activity	6.151E-4	30	149	5	6292
macromolecule transmembrane transporter activity	7.7497E-4	30	9	2	6292
protein transmembrane transporter activity	7.7497E-4	30	9	2	6292
transcription cofactor activity	8.581E-4	30	40	3	6292
transcription factor binding	1.0616E-3	30	43	3	6292
transcription repressor activity	1.1356E-3	30	44	3	6292
nuclease activity	2.2504E-3	30	199	5	6292
lysine N-acetyltransferase activity	2.8591E-3	30	17	2	6292
histone acetyltransferase activity	2.8591E-3	30	17	2	6292
nucleic acid binding	2.9166E-3	30	666	9	6292
choline-phosphate cytidylyltransferase activity	4.768E-3	30	1	1	6292
ribonuclease III activity	4.768E-3	30	1	1	6292
RNA polymerase I transcription termination factor activity	4.768E-3	30	1	1	6292
RNA binding	6.7969E-3	30	367	6	6292
hydrolase activity	7.3963E-3	30	911	10	6292
methionine-tRNA ligase activity	9.5139E-3	30	2	1	6292
transcription termination factor activity	9.5139E-3	30	2	1	6292

View Protein Complex Details

Complex Overview

Complex Member Proteins

Cellular Component Analysis

Biological Process Analysis

Molecular Function Analysis