Protein–DNA binding
DNA-binding protein - Wikipedia
DNA-binding proteins are proteins that have DNA-binding domains and thus have a specific or general affinity for single- or double-stranded DNA. ... Sequence- ...
The structure, function and evolution of proteins that bind DNA and ...
Key Points · DNA- and RNA-binding proteins (DRBPs) constitute a significant fraction of cellular proteins and have important roles in cells.
Methods for Detecting Protein-DNA Interactions - US
The ChIP assay method allows analysis of DNA–protein interactions in living cells by treating the cells with formaldehyde or other crosslinking reagents in ...
DNA Binding - an overview | ScienceDirect Topics
DNA binding refers to the process where a protein, such as AR, attaches to DNA after undergoing a significant conformational change, which is crucial for ...
DNA-Binding Motifs in Gene Regulatory Proteins - NCBI
Gene regulatory proteins recognize short stretches of double-helical DNA of defined sequence and thereby determine which of the thousands of genes in a cell ...
Protein–DNA binding: complexities and multi-protein codes
We review the complexities in protein–DNA binding found at multiple levels and discuss how they confound the idea of simple recognition codes.
Proteins Recognizing DNA: Structural Uniqueness and Versatility of ...
Proteins use a wide range of DNA-binding structural motifs, such as homeodomain (HD), helix-turn-helix (HTH), and high-mobility group box (HMG) to recognize DNA ...
DNA-Binding Proteins: Overview & Application - Excedr
DNA-binding proteins are proteins having an affinity for different DNA molecules. They contain DNA-binding sites to recognize and bind specific ...
DNA Binding - an overview | ScienceDirect Topics
Various proteins bind in the major groove of DNA molecules and perform a specific function. Examples of DNA-binding proteins include those involved in ...
Geometric deep learning of protein–DNA binding specificity - Nature
We present Deep Predictor of Binding Specificity (DeepPBS), a geometric deep-learning model designed to predict binding specificity from protein–DNA structure.
Protein:DNA Interactions - Promega Corporation
Chromatin immunoprecipitation (ChIP) is a method used to determine whether DNA-binding proteins, such as transcription factors, associate with a specific ...
An overview of the structures of protein-DNA complexes
As the name indicates, the DNA-binding domain consists of a loop leading out of the main body of the protein, followed by a small ß sheet, an a ...
Physicochemical models of protein–DNA binding with ... - PNAS
We introduce models that directly and precisely represent physicochemical readout, which is, importantly, not restricted to standard Watson–Crick base pairs.
Protein–DNA/RNA Interactions: An Overview of Investigation ...
The present review proposes an overview of the approaches most commonly employed in proteomics applications for the identification of nucleic acid-binding ...
DNA–protein interaction studies: a historical and comparative analysis
This review intends to provide a historical context and compile the methods that describe DNA–protein interactions according to the purpose of each approach.
Protein−DNA binding in the absence of specific base-pair recognition
We identify a new protein−DNA binding mechanism induced by DNA sequence symmetry in the absence of specific base-pair recognition.
Protein–DNA binding sites prediction based on pre-trained protein ...
We propose a novel approach called Contrastive Learning And Pre-trained Encoder (CLAPE), which combines a pre-trained protein language model and the ...
DNA Interactions with Proteins - News-Medical
During the process of complex formation, hydrogen bonds between the polar amino acids and the atoms of the DNA molecule augment the affinity of ...
Protein-DNA binding: data, tools & models
JASPAR is an open-access database of curated, non-redundant transcription factor (TF) binding profiles stored as position frequency matrices ( ...
Purification or Removal of DNA-Binding Proteins - Sigma-Aldrich
Remove ionically bound proteins by washing with 0.5 CV of 2 M NaCl for 10 to 15 min. Remove precipitated or denatured proteins by washing with 4 CV of 100 mM ...