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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14



COFACTOR is a structure, sequence, and protein-protein interaction (PPI) based method for biological function annotation of protein molecules. Starting from the 3D structural model, COFACTOR will thread the query through the BioLiP protein funtion database by local and global structure matches to identify functional sites and homologies. Functional insights, including Gene Ontology (GO), Enzyme Commission (EC), and ligand-binding sites, will be derived from the best functional homology templates. For GO, additional insights will be obtained from UniProt-GOA by sequence and sequence-profile alignments and from STRING by protein-protein interaction inferrals. The COFACTOR algorithm (as "I-TASSER_FUNCTION") was ranked as the best method for protein function prediction in the community-wide CASP9 experiments. Questions about the COFACTOR server can be posted at the Service System Discussion Board.

For a given target structure, the output of COFACTOR includes (see an illustrative example):

  • The top 10 closest structures in the PDB identified by TM-align
  • GO terms and the directed acyclic graphs associated with the target protein
  • EC numbers, active sites and the enzyme homolog structures of the target protein
  • Ligand binding site on target protein and the ligand-protein complex structures

[Example prediction] [Help] [Library] [Benchmark dataset] [Human uPE1 protein annotation] [Forum]
  • Structure of Query Protein (Mandatory, [30,1500] residues in PDB format)
      Copy and paste your structure file here    Sample input

      Or upload the stucture file from your local computer
  • Email: (Mandatory, where results will be sent to)

  • Job ID: (Optional, your given name to this protein)

    Advanced options [?]


  • References:

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