SPRING – Accurate Template Recognition for Protein Complex Structure

SPRING

:: DESCRIPTION

SPRING is a template-base algorithm for protein-protein structure prediction. It first threads one chain of the protein complex through the PDB library with the binding parters retrieved from the original oligomer entries. The complex models associated with another chain is deduced from a pre-calculated look-up table, with the best orientation selected by the SPRING-score which is a combination of threading Z-score, interface contacts, and TM-align match between monomer-to-dimer templates.

::DEVELOPER

Yang Zhang’s Research Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

J Chem Inf Model. 2013 Mar 25;53(3):717-25. doi: 10.1021/ci300579r. Epub 2013 Feb 27.
Mapping monomeric threading to protein-protein structure prediction.
Guerler A1, Govindarajoo B, Zhang Y.

MTMDAT-HADDOCK 201210 – High-throughput, Data-driven Protein Complex Structure Modelling

MTMDAT-HADDOCK 201210

:: DESCRIPTION

MTMDAT-HADDOCK facilitates fast and detailed evaluation of mass spectrometry data of limited proteolysis experiments to probe the tertiary structure of proteins and even complex formation with other proteins, ligands, and surfaces

::DEVELOPER

the Maria Sunnerhagen group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Windows/Linux

:: DOWNLOAD

MTMDAT-HADDOCK

:: MORE INFORMATION

Citation

BMC Struct Biol. 2012 Nov 15;12:29. doi: 10.1186/1472-6807-12-29.
MTMDAT-HADDOCK: high-throughput, protein complex structure modeling based on limited proteolysis and mass spectrometry.
Hennig J1, de Vries SJ, Hennig KD, Randles L, Walters KJ, Sunnerhagen M, Bonvin AM.

ConPlex – Evolutionary Analysis of Protein Complex Structure

ConPlex

:: DESCRIPTION

ConPlex is a web application for evolutionary analysis of protein complex structures. With given protein complex structures, ConPlex automatically identifies protein interfaces and carries out evolutionary conservation analyses for the identified regions.

::DEVELOPER

Structural Bioinformatics Laboratory, Pohang University of Science and Technology

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W450-6. doi: 10.1093/nar/gkq328. Epub 2010 Apr 30.
ConPlex: a server for the evolutionary conservation analysis of protein complex structures.
Choi YS1, Han SK, Kim J, Yang JS, Jeon J, Ryu SH, Kim S.