PI-LZerD specifications

Information


Unique identifier OMICS_29284
Name PI-LZerD
Alternative name Predicted Interface-Local 3D Zernike descriptor-based Docking algorithm
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data Two protein structures and PPI regions.
Output data The final ranked list.
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Daisuke Kihara

Additional information


http://kiharalab.org/proteindocking/PI-LZerD/README.html

Publication for Predicted Interface-Local 3D Zernike descriptor-based Docking algorithm

PI-LZerD citations

 (2)
library_books

Protein docking with predicted constraints

2015
PMCID: 4340843
PMID: 25722738
DOI: 10.1186/s13015-015-0036-6

[…] some success has been achieved in the prediction of interface regions, encompassing tens of amino acid residues on each partner, and these have been used to improve docking simulations. For example, PI-LZerD [] uses predicted interface regions as an additional filter in the first docking stage by selecting models consistent with the predicted regions. However, this information is not used to actu […]

library_books

Protein docking prediction using predicted protein protein interface

2012
BMC Bioinformatics
PMCID: 3287255
PMID: 22233443
DOI: 10.1186/1471-2105-13-7

[…] We have further benchmarked PI-LZerD on unbound docking cases. Out of 128 unbound docking cases in the protein-protein docking benchmark dataset 3.0 [], 118 cases were selected that are not longer than 800 residues and have an M […]

PI-LZerD institution(s)
Department of Computer Science, Purdue University, West Lafayette, IN, USA
PI-LZerD funding source(s)
Supported by grants from the National Institutes of Health (R01GM075004 and R01GM097528), National Science Foundation (EF0850009, DBI1262189, IOS1127027, IIS1319551), and National Research Foundation of Korea Grant funded by the Korean Government (NRF-2011- 220-C00004), and the Fulbright Science and Technology program.

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