Origins of specificity in protein-DNA recognition
Specific interactions between proteins and DNA are fundamental to many biological
processes. In this review, we provide a revised view of protein-DNA interactions that …
processes. In this review, we provide a revised view of protein-DNA interactions that …
Structural basis of substrate specificity in the serine proteases
Abstract Structure‐based mutational analysis of serine protease specificity has produced a
large database of information useful in addressing biological function and in establishing a …
large database of information useful in addressing biological function and in establishing a …
Protein–DNA interactions: amino acid conservation and the effects of mutations on binding specificity
NM Luscombe, JM Thornton - Journal of molecular biology, 2002 - Elsevier
We investigate the conservation of amino acid residue sequences in 21 DNA-binding
protein families and study the effects that mutations have on DNA-sequence recognition …
protein families and study the effects that mutations have on DNA-sequence recognition …
Biosynthesis of the aromatic amino acids
J Pittard, J Yang - EcoSal Plus, 2008 - Am Soc Microbiol
This chapter describes in detail the genes and proteins of Escherichia coli involved in the
biosynthesis and transport of the three aromatic amino acids tyrosine, phenylalanine, and …
biosynthesis and transport of the three aromatic amino acids tyrosine, phenylalanine, and …
DNA-binding specificity of NGFI-A and related zinc finger transcription factors
AH Swirnoff, J Milbrandt - Molecular and cellular biology, 1995 - Taylor & Francis
NGFI-A is the prototypic member of a family of immediate-early gene-encoded transcription
factors which includes NGFI-C, Egr3, and Krox20. These proteins possess highly …
factors which includes NGFI-C, Egr3, and Krox20. These proteins possess highly …
Computer simulation of protein− protein interactions
The use of computer simulations in investigations of protein− protein interactions is
discussed. First, crystallographic analyses of known protein− protein complexes are …
discussed. First, crystallographic analyses of known protein− protein complexes are …
Crystal structure of a bZIP/DNA complex at 2.2 Å: determinants of DNA specific recognition
W Keller, P König, TJ Richmond - Journal of molecular biology, 1995 - Elsevier
The X-ray structure of the GCN4-bZIP protein bound to DNA containing the ATF/CREB
recognition sequence has been refined at 2.2 Å. The water-mediated interactions between …
recognition sequence has been refined at 2.2 Å. The water-mediated interactions between …
Water at biomolecular binding interfaces
Z Li, T Lazaridis - Physical Chemistry Chemical Physics, 2007 - pubs.rsc.org
Water molecules are often found at the binding interface of biomolecular complexes
mediating the interaction between polar groups viahydrogen bonds, or simply filling space …
mediating the interaction between polar groups viahydrogen bonds, or simply filling space …
Predicting conserved water-mediated and polar ligand interactions in proteins using a K-nearest-neighbors genetic algorithm
Water-mediated ligand interactions are essential to biological processes, from product
displacement in thymidylate synthase to DNA recognition by Trp repressor, yet the structural …
displacement in thymidylate synthase to DNA recognition by Trp repressor, yet the structural …
Structural basis of dimerization and dual W-box DNA recognition by rice WRKY domain
X Cheng, Y Zhao, Q Jiang, J Yang, W Zhao… - Nucleic Acids …, 2019 - academic.oup.com
In rice, the critical regulator of the salicylic acid signalling pathway is OsWRKY45, a
transcription factor (TF) of the WRKY TF family that functions by binding to the W-box of gene …
transcription factor (TF) of the WRKY TF family that functions by binding to the W-box of gene …