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ThreaDom (Threading-based Protein Domain Prediction)
is a template-based algorithm for protein domain boundary prediction.
Given a protein sequence, ThreaDom first threads the target through
the PDB library to identify protein template that have similar structure fold.
A domain conservation score (DCS) will be calculated for each residue which
combines information from template domain structure, terminal and internal gaps
and insertions.
Finally, the domain boundary information is derived from the DCS profile
distributions.
ThreaDom is designed to predict both continuous and discontinuous domains.
Note:
We recently developed three new servers for protein domain modeling:
- ThreaDomEx:
An extended algorithm of ThreaDom with the ability for modeling
discontinuous domains;
- FUpred:
Predicting domain boundary from contact-map, suitable for
proteins lacking homologous templates in PDB;
- DEMO:
Assemble individual domain structures into full-length protein model.
ThreaDom online
Click ThreaDom Dataset to download
the dataset of training and testing proteins.
Click Prediction of CASP8 to download
the domain prediction of CASP8 targets.
Click The source code package to download the source code of ThreaDom.
References:
Z Xue, D Xu, Y Wang, Y Zhang.
ThreaDom: Extracting Protein Domain Boundary Information from
Multiple Threading Alignments.
Bioinformatics, 29: i247-i256 (2013)
(Download the
PDF file).
