AlloRep: A Repository of Sequence, Structural and Mutagenesis Data for the Lacl/GaIR Transcription Regulators

作者：Sousa Filipa L; Parente Daniel J; Shis David L; Hessman Jacob A; Chazelle Allen; Bennett Matthew R; Teichmann Sarah A; Swint Kruse Liskin^*

来源：Journal of Molecular Biology, 2016, 428(4): 671-678.

DOI：10.1016/j.jmb.2015.09.015

• transcription regulation
• variant database
• sequence alignment
• contact map
• allostery

Protein families evolve functional variation by accumulating point mutations at functionally important amino acid positions. Homologs in the Lacl/GaIR family of transcription regulators have evolved to bind diverse DNA sequences and allosteric regulatory molecules. In addition to playing key roles in bacterial metabolism, these proteins have been widely used as a model family for benchmarking structural and functional prediction algorithms. We have collected manually curated sequence alignments for >3000 sequences, in vivo phenotypic and biochemical data for >5750 Lacl/GaIR mutational variants, and noncovalent residue contact networks for 65 Lacl/GaIR homolog structures. Using this rich data resource, we compared the noncovalent residue contact networks of the Lacl/GaIR subfamilies to design and experimentally validate an allosteric mutant of a synthetic Lacl/GaIR repressor for use in biotechnology. The AlloRep database (freely available at www.AlloRep.org) is a key resource for future evolutionary studies of Lacl/GaIR homologs and for benchmarking computational predictions of functional change.

• 出版日期2016-2-22