From Publication:  Qiu J, Noble WS (2008) Predicting CoComplexed Protein Pairs from Heterogeneous Data. PLoS Comput Biol 4(4): e1000054. doi:10.1371/journal.pcbi.1000054 
Notes:  Classfier did not use Gene Ontology annotations. [FDR: 0.021] [SVM Score: 0.411799579822] 
Complex Size:  2 proteins 
Protein 
GO Cellular Component  GO Biological Process  GO Molecular Function 
ATP14 



UPS2 



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 pvalue 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 pvalue less than or equal to 0.01.
GO Term 
Pvalue 
A 
B 
I 
T 
mitochondrial protontransporting ATP synthase complex, coupling factor F(o)  3.811E3  2  12  1  6292 
protontransporting ATP synthase complex, coupling factor F(o)  3.811E3  2  12  1  6292 
protontransporting twosector ATPase complex, protontransporting domain  6.0308E3  2  19  1  6292 
mitochondrial protontransporting ATP synthase complex  6.3477E3  2  20  1  6292 
protontransporting ATP synthase complex  6.3477E3  2  20  1  6292 
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 pvalue 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 pvalue less than or equal to 0.01.
GO Term 
Pvalue 
A 
B 
I 
T 
ATP synthesis coupled proton transport  6.3477E3  2  20  1  6292 
energy coupled proton transport, down electrochemical gradient  6.3477E3  2  20  1  6292 
ATP metabolic process  6.3477E3  2  20  1  6292 
ATP biosynthetic process  6.3477E3  2  20  1  6292 
purine ribonucleoside triphosphate biosynthetic process  6.9813E3  2  22  1  6292 
purine nucleoside triphosphate biosynthetic process  6.9813E3  2  22  1  6292 
proton transport  7.6148E3  2  24  1  6292 
ribonucleoside triphosphate biosynthetic process  7.6148E3  2  24  1  6292 
hydrogen transport  7.6148E3  2  24  1  6292 
purine ribonucleoside triphosphate metabolic process  8.5646E3  2  27  1  6292 
purine nucleoside triphosphate metabolic process  8.5646E3  2  27  1  6292 
nucleoside triphosphate biosynthetic process  8.5646E3  2  27  1  6292 
ribonucleoside triphosphate metabolic process  9.1975E3  2  29  1  6292 
monovalent inorganic cation transport  9.8303E3  2  31  1  6292 
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 pvalue 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 pvalue less than or equal to 0.01.
GO Term 
Pvalue 
A 
B 
I 
T 
hydrogen ion transporting ATP synthase activity, rotational mechanism  4.7627E3  2  15  1  6292 