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News

  • Our Institute is retiring the following domains in web and email:
    ljcf.edu
    burnham-inst.org
    sanford-burnham.org
    sbmri.org
    burnham.org
    sanfordburnham.org


    Please replace them by sbpdiscovery.org

Welcome

Godzik labPhysicists, biologists and computer scientists meet together to understand proteins. If you want to know more about what (and how and why) we do, read on.

Research

Our research is focused on proteins. We try to combine insights from physics and biology to answer basic questions about the relation between the protein sequence and its structure and function. From physics we know that proteins are ruled by universal laws - at equilibrium they are at the free energy minimum. From biology we know that proteins come in families and studying relations in such families we can learn more about how changes in protein sequences influence their structures and functions. You may find more in our publications and bioinformatics servers.

See our new paper: Porta-Pardo E, Godzik A., Mutation drivers of immunological responses to cancer. Cancer Immunol Res. 2016 Jul 11. PubMed

New web servers

  • PDBflex: a database that explores the intrinsic flexibility of protein structures by analyzing structural variations between different depositions and chains in asymmetric unit of the same protein in PDB. It allows to easily identify regions and types of structural flexibility present in a protein of interest.
  • Cancer3D: a database that puts together information on somatic missense mutations from TCGA and CCLE, allowing users to explore two different cancer-related problems at the same time: drug sensitivity/biomarker identification and prediction of cancer drivers.
  • AIDA: an ab initio domain assembly server, which can identify domains in multi-domain proteins and then predict their 3D structures and relative spatial arrangements.
  • PubServer: a tool to automatically collect, filter and analyze publications associated with groups of homologous proteins.
  • ConSole: using modularity of contact maps to locate solenoid domains in protein structures.

Updated versions of our web servers:

  • POSA: a user-driven, interactive multiple protein structure alignment server.
  • FFAS-3D: improving fold recognition by including optimized structural features and template re-ranking.
  • XtalPred-RF: Improving the chances of successful protein structure determination with a random forest classifier