The Binding Process of a Nonspecific Enzyme with DNA

Protein-DNA recognition of a nonspecific complex is modeled to understand the nature of the transient encounter states. We consider the structural and energetic features and the role of water in the DNA grooves in the process of protein-DNA recognition. Here we have used the nuclease domain of colic...

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Veröffentlicht in:	Biophysical journal 2011-09, Vol.101 (5), p.1139-1147
Hauptverfasser:	Chen, Chuanying, Pettitt, B. Montgomery
Format:	Artikel
Sprache:	eng
Schlagworte:	60 APPLIED LIFE SCIENCES Amino Acid Motifs Base Pairing BASIC BIOLOGICAL SCIENCES Binding sites Brownian motion colicins Colicins - chemistry Colicins - metabolism Deoxyribonucleases - metabolism Deoxyribonucleic acid DNA DNA - chemistry DNA - metabolism E coli Environmental Molecular Sciences Laboratory ENZYMES ESCHERICHIA COLI Escherichia coli - enzymology landscapes molecular dynamics Molecular Dynamics Simulation NUCLEASES Nucleic Acid Protein Binding Protein Structure, Tertiary PROTEINS SIMULATION Static Electricity Substrate Specificity Thermodynamics TRANSIENTS WATER
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