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Curr Opin Struct Biol. 2017 Jun;44:161-167. doi: 10.1016/j.sbi.2017.03.012. Epub 2017 Apr 28.

Protein structural motifs in prediction and design.

Author information

1
Institute for Quantitative Biomedical Sciences, Dartmouth College, Hanover, NH 03755, United States.
2
Institute for Quantitative Biomedical Sciences, Dartmouth College, Hanover, NH 03755, United States; Department of Computer Science, Dartmouth College, Hanover, NH 03755, United States. Electronic address: gevorg.grigoryan@dartmouth.edu.

Abstract

The Protein Data Bank (PDB) has been an integral resource for shaping our fundamental understanding of protein structure and for the advancement of such applications as protein design and structure prediction. Over the years, information from the PDB has been used to generate models ranging from specific structural mechanisms to general statistical potentials. With accumulating structural data, it has become possible to mine for more complete and complex structural observations, deducing more accurate generalizations. Motif libraries, which capture recurring structural features along with their sequence preferences, have exposed modularity in the structural universe and found successful application in various problems of structural biology. Here we summarize recent achievements in this arena, focusing on subdomain level structural patterns and their applications to protein design and structure prediction, and suggest promising future directions as the structural database continues to grow.

PMID:
28460216
PMCID:
PMC5513761
DOI:
10.1016/j.sbi.2017.03.012
[Indexed for MEDLINE]
Free PMC Article

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