CMASA pipeline

CMASA specifications


Unique identifier OMICS_22006
Alternative name Contact MAtrix based local Structural Alignment algorithm
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, C++
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Gong-Hua Li <>
  • person_outline Jing-Fei Huang <>

Publication for Contact MAtrix based local Structural Alignment algorithm

CMASA citation

PMCID: 4793309

[…] electrostatics are set to 1,000 steps, 1,000 k and true, respectively, which is the default setting in cdocker. the binding sphere of cdocker is defined around the local structure detected by cmasa. the center of binding sphere is set as the center of the local structure. and the radius of binding sphere is set as 10 å, which allows the free rotation of aspirin. if aspirin docked […]

CMASA institution(s)
State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China; Graduate School of Chinese Academy of Sciences, Beijing, China; Kunming Institute of Zoology-Chinese University of Hongkong Joint Research Center for Bio-resources and Human Disease Mechanisms, Kunming, China
CMASA funding source(s)
Supported by the National Basic Research Program of China (Grant No. 2007CB815705; 2009CB941300), the National Natural Science Foundation of China (Grant No. 30623007) and Chinese Academy of Sciences (Grant No. 2007211311091).

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