DNAproDB

An expanded database and web-based tool for structural analysis of DNA-protein complexes. A Database and Web Tool for Structural Analysis of DNA-Protein Complexes. DNAproDB automatically lays out nucleotide and residue interactions maps elegantly. Use the form below to search DNAproDB. DNAproDB is processing pipeline, web server and database which aims to assist researchers in performing structural analysis of DNA-protein complexes. DNAproDB is a database, structure processing pipeline and web-based visualization tool which makes structural analysis of DNA-protein complexes easy

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DNAproDB: an expanded database and web-based tool for structural analysis of DNA-protein complexes
PMID: 31612957

metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:30.717987

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• DNAproDB: an expanded database and web-based tool for structural analysis of DNA-protein complexes PubMed citations: 17.

  17 articles citing: DNAproDB: an expanded database and web-based tool for structural analysis of DNA-protein complexes

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  Structural Characterization of the Interaction of Hypoxia Inducible Factor-1 with Its Hypoxia Responsive Element at the -964G > A Variation Site of the HLA-G Promoter Region. PMID:34884849

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  Revealing A-T and G-C Hoogsteen base pairs in stressed protein-bound duplex DNA. PMID:34792150

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  The bacterial iron sensor IdeR recognizes its DNA targets by indirect readout. PMID:34417623

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  Structural and Biophysical Investigation of the Key Hotspots on the Surface of Epstein-Barr Nuclear Antigen 1 Essential for DNA Recognition and Pathogenesis. PMID:34268333

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  Structural insights into the functional divergence of WhiB-like proteins in Mycobacterium tuberculosis. PMID:34171298

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  A comparative study of protein-ssDNA interactions. PMID:33655206

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  Structure-based analyses of Salmonella RcsB variants unravel new features of the Rcs regulon. PMID:33638994

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  Molecular underpinnings of ssDNA specificity by Rep HUH-endonucleases and implications for HUH-tag multiplexing and engineering. PMID:33410911

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  Flanking sequence preference modulates de novo DNA methylation in the mouse genome. PMID:33290556

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  The RNA Polymerase α Subunit Recognizes the DNA Shape of the Upstream Promoter Element. PMID:33205945

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  Transcription Factor Binding Affinities and DNA Shape Readout. PMID:33163946

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  Structural insights into the mechanism of RNA recognition by the N-terminal RNA-binding domain of the SARS-CoV-2 nucleocapsid phosphoprotein. PMID:32837710

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  Landscape of DNA binding signatures of myocyte enhancer factor-2B reveals a unique interplay of base and shape readout. PMID:32738045

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  Crystal Structures of Ternary Complexes of MEF2 and NKX2-5 Bound to DNA Reveal a Disease Related Protein-Protein Interaction Interface. PMID:32681840

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  DSSR-enabled innovative schematics of 3D nucleic acid structures with PyMOL. PMID:32442277

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  DNA Readout Viewer (DRV): visualization of specificity determining patterns of protein-binding DNA segments. PMID:31793988

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  Toward a Mechanistic Understanding of DNA Methylation Readout by Transcription Factors. PMID:31689433

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dna

metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:30.717987

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nucleic acid structure analysis

metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:30.717987

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protein secondary structure

metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:30.717987

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protein structural motifs and surfaces

metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:30.717987

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small molecules

metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:30.717987

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dna nucleic acid structure analysis protein secondary structure protein structural motifs and surfaces small molecule