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URL: http://source.rcsb.org/jfatcatserver/ceHome.jsp
Proper Citation: Combinatorial Extension (CE) (RRID:SCR_007585)
Description: CE is a databases of alignments for all polypeptide chains. A representative set of proteins is available and kept current with the PDB, a method for calculating pairwise structure alignments. CE aligns two polypeptide chains using characteristics of their local geometry as defined by vectors between C alpha positions. Matches are termed aligned fragment pairs (AFPs). Heuristics are used in defining a set of optimal paths joining AFPs with gaps as needed. The path with the best RMSD is subject to dynamic programming to achieve an optimal alignment. For specific families of proteins additional characteristics are used to weight the alignment. Complete details are described in the paper (PDF format). Databases of alignments for all polypeptide chains and a representative set of proteins is available and kept current with the PDB
Abbreviations: CE
Synonyms: Combinatorial extension
Resource Type: data or information resource, database
Keywords: polypeptide, polypeptide chain, protein, protein alignment, protein structure
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