About COFACTOR

COFACTOR generates structure-based function prediction using three independent structure-function library derived from PDB. The reliability of functional annotation is evaluated based on global and local structure similarity between query and template proteins.

User Input

The user must upload a PDB formatted structure file of query protein. User's have the option to either copy the PDB file in the provided form or upload the file using the browse button. If the PDB file contains multiple protein chains, first protein chain will be automatically selected by the program.
Providing an e-mail address is recommended for recieving the prediction results, else the user may opt to bookmark the web-link provided at the end of submission.

Prediction results

Evolutionarily conserved residues

This section contains information on evolutionary conservation of residues.

Structural analogs detected in PDB

This section contains list of top 10 structural analogs detected in PDB using TM-align and their structural superposition.

Enzyme Commission (EC) numbers

The section enlists top 5 enzyme homologs detected in PDB using COFACTOR global-local structure alignment procedure. Catalytic residues in query protein are also predicted based on active-site match of query and template proteins.

Gene Ontology (GO) terms

Top 10 functional homologs (annotated with GO terms) of query protein are enlisted in this section. Based on the assumption that each domain contributes independently to the protein function, GO terms ascribed to these templates are reconciled such that the consensus predictions identifies the intersection of function and provides specific annotation to the query protein.

Protein-ligand binding site predictions

This section contains top 10 predicted ligand binding sites in query protein.