Accelerated protein structure comparison using TM-score-GPU

Bioinformatics

Volumn 28, Issue 16, 2012, Pages 2191-2192

  Hung, Ling Hong ^a   Samudrala, Ram ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN;

ALGORITHM; ARTICLE; BIOLOGY; CHEMISTRY; COMPUTER PROGRAM; METHODOLOGY; PROTEIN CONFORMATION;

ALGORITHMS; COMPUTATIONAL BIOLOGY; PROTEIN CONFORMATION; PROTEINS; SOFTWARE;

EID: 84865079620     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bts345     Document Type: Article

References (6)

1. Gerstein, M. and Levitt, M. (1998) Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins. Protein Sci., 7, 445-456.
2. Hung, L.H. et al. (2011) GPU-Q-J, a fast method for calculating root mean square deviation (RMSD) after optimal superposition. BMC Res. Notes., 4, 97.
3. Kabsch, W. (1976) A solution for the best rotation to relate two sets of vectors. Acta Crystallogr. A, 32, 922-923.
4. Liu, P. et al. (2010) Fast determination of the optimal rotational matrix for macromolecular superpositions. J. Comput. Chem., 31, 1561-1563.
5. Zhang, Y. and Skolnick, J. (2004) Scoring function for automated assessment of protein structure template quality. Proteins, 57, 702-710.
6. Zhang, Y. and Skolnick, J. (2005) TM-align: a protein structure alignment algorithm based on the TM-score. Nucleic Acids Res., 33, 2302-2309.