ZDOCK 3.0.2 / M-ZDOCK – Protein Docking

ZDOCK 3.0.2 / M-ZDOCK

:: DESCRIPTION

ZDOCK performs a full rigid-body search of docking orientations between two proteins.

M-ZDOCK is a program for predicting the structure of a radially symmetric multimer based on the structure of a subunit. It uses a fast Fourier transform (FFT) to search efficiently for the best position of adjacent subunits, then generates the multimer once the best position is found.

::DEVELOPER

Zlab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX

:: DOWNLOAD

 ZDOCK / M-ZDOCK

:: MORE INFORMATION

Citation

Bioinformatics. 2014 Mar 12. [Epub ahead of print]
ZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers.
Pierce BG1, Wiehe K, Hwang H, Kim BH, Vreven T, Weng Z.

Chen R, Li L, Weng Z.
ZDOCK: an initial-stage protein-docking algorithm.
Proteins. 2003 Jul 1;52(1):80-7.

Pierce B, Weng Z (2005)
M-ZDOCK: A Grid-based Approach for Cn Symmetric Multimer Docking.”
Bioinformatics 21(8), 1472-1476.

ContextShapes – Protein Docking and Partial Shape Matching

ContextShapes

:: DESCRIPTION

ContextShapes does rigid-body protein docking. It uses a novel contextshapes data structure to represent local surface regions/shapes on the protein. All critical points on both the receptor and ligand are represented via context shapes, and the best docking is found via pair-wise matching.

::DEVELOPER

Mohammed J. Zaki

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX

:: DOWNLOAD

 ContextShapes

:: MORE INFORMATION

Citation

Zujun Shentu, Mohammad Al Hasan, Chris Bystroff and Mohammad J. Zaki,
Context Shapes: Efficient Complementary Shape Matching for Protein-Protein Docking.
Proteins: Structure, Function and Bioinformatics, 70(3):1056-1073. Feb 2008