A model for initial DNA lesion recognition by NER and MMR based on local conformational flexibility
RJ Isaacs, HP Spielmann - DNA repair, 2004 - Elsevier
Initial recognition of DNA damage is the crucial but poorly understood first step in DNA
repair by the human nucleotide excision repair (NER) and mismatch repair (MMR) systems …
repair by the human nucleotide excision repair (NER) and mismatch repair (MMR) systems …
Indirect Readout of DNA Sequence by Proteins: The Roles of DNA Sequence‐Dependent Intrinsic and Extrinsic Forces
GB Koudelka, SA Mauro, M Ciubotaru - Progress in nucleic acid research …, 2006 - Elsevier
Publisher Summary This chapter discusses the recent insights into how DNA sequence
affects DNA structure and how solvent-mediated alterations in DNA structure may play a role …
affects DNA structure and how solvent-mediated alterations in DNA structure may play a role …
Control of DNA minor groove width and Fis protein binding by the purine 2-amino group
The width of the DNA minor groove varies with sequence and can be a major determinant of
DNA shape recognition by proteins. For example, the minor groove within the center of the …
DNA shape recognition by proteins. For example, the minor groove within the center of the …
Shaping the Borrelia burgdorferi genome: crystal structure and binding properties of the DNA‐bending protein Hbb
KW Mouw, PA Rice - Molecular microbiology, 2007 - Wiley Online Library
The genome of the Lyme disease‐causing spirochete Borrelia burgdorferi encodes only a
single polypeptide from the integration host factor (IHF)/HU or 'DNABII'family of nucleoid …
single polypeptide from the integration host factor (IHF)/HU or 'DNABII'family of nucleoid …
DNA sequence determinants controlling affinity, stability and shape of DNA complexes bound by the nucleoid protein Fis
SP Hancock, S Stella, D Cascio, RC Johnson - PLoS One, 2016 - journals.plos.org
The abundant Fis nucleoid protein selectively binds poorly related DNA sequences with
high affinities to regulate diverse DNA reactions. Fis binds DNA primarily through DNA …
high affinities to regulate diverse DNA reactions. Fis binds DNA primarily through DNA …
Molecular basis for lethal cross-talk between two unrelated bacterial transcription factors-the regulatory protein of a restriction-modification system and the repressor of …
A Wisniewska, E Wons, K Potrykus… - Nucleic Acids …, 2022 - academic.oup.com
Bacterial gene expression depends on the efficient functioning of global transcriptional
networks, however their interconnectivity and orchestration rely mainly on the action of …
networks, however their interconnectivity and orchestration rely mainly on the action of …
Effect of Salt Shock on Stability of λimm434 Lysogens
P Shkilnyj, GB Koudelka - Journal of bacteriology, 2007 - Am Soc Microbiol
The affinities of the bacteriophage 434 repressor for its various binding sites depend on the
type and/or concentration of monovalent cations. The ability of bacteriophage 434 repressor …
type and/or concentration of monovalent cations. The ability of bacteriophage 434 repressor …
Lone pair–π vs. σ-hole–π interactions in bromine head-containing oxacalix [2] arene [2] triazines
Two new bromine head-containing oxacalix [2] arene [2] triazines were designed and
synthesized. Owing to the bromine head and complementary V-shaped cavity, the solid state …
synthesized. Owing to the bromine head and complementary V-shaped cavity, the solid state …
Binding of the Bacillus subtilis LexA protein to the SOS operator
ES Groban, MB Johnson, P Banky… - Nucleic acids …, 2005 - academic.oup.com
Abstract The Bacillus subtilis LexA protein represses the SOS response to DNA damage by
binding as a dimer to the consensus operator sequence 5′-CGAACN4GTTCG-3′. To …
binding as a dimer to the consensus operator sequence 5′-CGAACN4GTTCG-3′. To …
Downstream DNA selectively affects a paused conformation of human RNA polymerase II
M Palangat, CT Hittinger, R Landick - Journal of molecular biology, 2004 - Elsevier
Transcriptional pausing by human RNA polymerase II (RNAPII) in the HIV-1 LTR is caused
principally by a weak RNA: DNA hybrid that allows rearrangement of reactive or catalytic …
principally by a weak RNA: DNA hybrid that allows rearrangement of reactive or catalytic …