Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
about
From sequence to structure and back again: approaches for predicting protein-DNA bindingQuantitative evaluation of protein-DNA interactions using an optimized knowledge-based potentialProtein-DNA binding specificity predictions with structural modelsQuantitative analysis of EGR proteins binding to DNA: assessing additivity in both the binding site and the protein.Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairsComputational structural analysis: multiple proteins bound to DNAUsing sequence-specific chemical and structural properties of DNA to predict transcription factor binding sitesComputational Structure-Based De Novo Design of Hypothetical Inhibitors against the Anti- Inflammatory Target COX-2Molecular dynamics of the DNA-binding domain of the papillomavirus E2 transcriptional regulator uncover differential properties for DNA target accommodation.Inference of expanded Lrp-like feast/famine transcription factor targets in a non-model organism using protein structure-based predictionPrediction of mono- and di-nucleotide-specific DNA-binding sites in proteins using neural networksExtensive protein and DNA backbone sampling improves structure-based specificity prediction for C2H2 zinc fingers.MD simulations of papillomavirus DNA-E2 protein complexes hints at a protein structural code for DNA deformation.DNA deformability changes of single base pair mutants within CDE binding sites in S. Cerevisiae centromere DNA correlate with measured chromosomal loss rates and CDE binding site symmetriesIdentification of DNA-binding protein target sequences by physical effective energy functions: free energy analysis of lambda repressor-DNA complexes.Evolutionary conservation of DNA-contact residues in DNA-binding domains.Insights into protein-DNA interactions through structure network analysisPrediction of TF target sites based on atomistic models of protein-DNA complexes.Local gene regulation details a recognition code within the LacI transcriptional factor family.Predicting conformational ensembles and genome-wide transcription factor binding sites from DNA sequences.An efficient algorithm for improving structure-based prediction of transcription factor binding sitesScaling behavior of nucleotide cluster in DNA sequencesA theoretical investigation of DNA dynamics and desolvation kinetics for zinc finger proteinZif268.A new method for evaluating the specificity of indirect readout in protein-DNA recognition.Biological consequences of tightly bent DNA: the other life of a macromolecular celebrity.Bullied no more: when and how DNA shoves proteins around.DNA phosphate crowding correlates with protein cationic side chain density and helical curvature in protein/DNA crystal structures.Novel approach for selecting the best predictor for identifying the binding sites in DNA binding proteins.Reprogramming homing endonuclease specificity through computational design and directed evolution.DNA structural properties in the classification of genomic transcription regulation elements.Evidence for a Strong Correlation Between Transcription Factor Protein Disorder and Organismic Complexity.Investigation of arc repressor DNA-binding specificity by comparative molecular dynamics simulations.A generalized conformational energy function of DNA derived from molecular dynamics simulations.Statistical analysis of structural determinants for protein-DNA-binding specificity.ReadOut: structure-based calculation of direct and indirect readout energies and specificities for protein-DNA recognition.3DTF: a web server for predicting transcription factor PWMs using 3D structure-based energy calculations.Specific minor groove solvation is a crucial determinant of DNA binding site recognitionAn all-atom knowledge-based energy function for protein-DNA threading, docking decoy discrimination, and prediction of transcription-factor binding profiles.Sequence-dependent DNA deformability studied using molecular dynamics simulations.Energetics of protein-DNA interactions.
P2860
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P2860
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
description
2004 nî lūn-bûn
@nan
2004年の論文
@ja
2004年学术文章
@wuu
2004年学术文章
@zh
2004年学术文章
@zh-cn
2004年学术文章
@zh-hans
2004年学术文章
@zh-my
2004年学术文章
@zh-sg
2004年學術文章
@yue
2004年學術文章
@zh-hant
name
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
@en
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
@nl
type
label
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
@en
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
@nl
prefLabel
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
@en
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition.
@nl
P2093
P1476
Intermolecular and intramolecular readout mechanisms in protein-DNA recognition
@en
P2093
Akinori Sarai
Jörg G Siebers
Samuel Selvaraj
P304
P356
10.1016/J.JMB.2004.01.033
P407
P577
2004-03-01T00:00:00Z