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Predicting indirect readout effects in protein-DNA interactions.

Predicting indirect readout effects in protein-DNA interactions.

http://www.wikidata.org/entity/Q34375170

about

3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy DNA dynamics and single-molecule biology Continued stabilization of the nuclear higher-order structure of post-mitotic neurons in vivo Segrosome structure revealed by a complex of ParR with centromere DNA The shape of the DNA minor groove directs binding by the DNA-bending protein Fis Using sequence-specific chemical and structural properties of DNA to predict transcription factor binding sites Analysis of in-vivo LacR-mediated gene repression based on the mechanics of DNA looping.Small local variations in B-form DNA lead to a large variety of global geometries which can accommodate most DNA-binding protein motifs Determination of the in vivo structural DNA loop organization in the genomic region of the rat albumin locus by means of a topological approach.Anomalous DNA binding by E2 regulatory protein driven by spacer sequence TATA.Role of microscopic flexibility in tightly curved DNA.A unified approach for allele frequency estimation, SNP detection and association studies based on pooled sequencing data using EM algorithms.Global analysis of ion dependence unveils hidden steps in DNA binding and bending by integration host factor.Residue correlation networks in nuclear receptors reflect functional specialization and the formation of the nematode-specific P-box Evolutionary variation of papillomavirus E2 protein and E2 binding sites.Interactions of the Metalloregulatory Protein SloR from Streptococcus mutans with Its Metal Ion Effectors and DNA Binding Site.Comprehensive comparison of the interaction of the E2 master regulator with its cognate target DNA sites in 73 human papillomavirus types by sequence statistics.Protein-DNA interactions: structural, thermodynamic and clustering patterns of conserved residues in DNA-binding proteins.Evolutionary and biophysical relationships among the papillomavirus E2 proteins.Poly(dA:dT) tracts: major determinants of nucleosome organization.The unique structure of A-tracts and intrinsic DNA bending.Cell-type-specific organization of nuclear DNA into structural looped domains.Proteins Recognizing DNA: Structural Uniqueness and Versatility of DNA-Binding Domains in Stem Cell Transcription Factors.Why Cortical Neurons Cannot Divide, and Why Do They Usually Die in the Attempt?A functional variant in the 5'-flanking region of the chicken serotonin transporter gene is associated with increased body weight and locomotor activity.Switching control of expression of ptsG from the Mlc regulon to the NagC regulon.The DNA sequence-dependence of nucleosome positioning in vivo and in vitro.Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning.A structural basis for cellular senescence.Molecular dynamics studies on free and bound targets of the bovine papillomavirus type I e2 protein: the protein binding effect on DNA and the recognition mechanism Targeted chemical wedges reveal the role of allosteric DNA modulation in protein-DNA assembly.DNA moves sequentially towards the nuclear matrix during DNA replication in vivo.Specific minor groove solvation is a crucial determinant of DNA binding site recognition The post-mitotic state in neurons correlates with a stable nuclear higher-order structure.Widespread transient Hoogsteen base pairs in canonical duplex DNA with variable energetics Functional specificity of a protein-DNA complex mediated by two arginines bound to the minor groove.Probing a label-free local bend in DNA by single molecule tethered particle motion.Parallels between DNA and collagen - comparing elastic models of the double and triple helix.Sequence-dependent cooperative binding of p53 to DNA targets and its relationship to the structural properties of the DNA targets.Protein flexibility directs DNA recognition by the papillomavirus E2 proteins.

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P2860

Predicting indirect readout effects in protein-DNA interactions.

http://www.wikidata.org/entity/Q34375170

description

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2004年の論文

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2004年論文

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2004年論文

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2004年論文

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2004年论文

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Predicting indirect readout effects in protein-DNA interactions.

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Predicting indirect readout effects in protein-DNA interactions.

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Predicting indirect readout effects in protein-DNA interactions.

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Predicting indirect readout effects in protein-DNA interactions.

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Predicting indirect readout effects in protein-DNA interactions.

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Proceedings of the National Academy of Sciences of the United States of America

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Predicting indirect readout effects in protein-DNA interactions.

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P2093

Donald M Crothers

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Rashmi S Hegde

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Yongli Zhang

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Zhiqun Xi

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Zippora Shakked

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P2860

The structural basis of DNA target discrimination by papillomavirus E2 proteins

DNA bending by an adenine-thymine tract and its role in gene regulation

Intrinsic bending and deformability at the T-A step of CCTTTAAAGG: a comparative analysis of T-A and A-T steps within A-tracts

Structural origins of adenine-tract bending

X-ray and solution studies of DNA oligomers and implications for the structural basis of A-tract-dependent curvature

Structural code for DNA recognition revealed in crystal structures of papillomavirus E2-DNA targets

Crystal structure of the E2 DNA-binding domain from human papillomavirus type 16: implications for its DNA binding-site selection mechanism

DNA sequence-dependent deformability deduced from protein-DNA crystal complexes

Signals for TBP/TATA box recognition.

Statistical mechanics of sequence-dependent circular DNA and its application for DNA cyclization

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