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DP-Bind specifications


Unique identifier OMICS_03581
Name DP-Bind
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Igor B. Kuznetsov <>

Publication for DP-Bind

DP-Bind in publications

PMCID: 5936033
PMID: 29728113
DOI: 10.1186/s12917-018-1465-5

[…] region within the n-terminus of vp1 contains high arginine content and might confer an ability to vp1 to bind and protect dna []. using online software, including psort ii (http://psort.hgc.jp) and dp-bind (lcg.rit.albany.edu/dp-bind/), the vp1 protein was analysed in this study. a total of four putative dna-binding motifs and two putative nlss were found and predicted within the cav vp1, […]

PMCID: 5557760
PMID: 28811474
DOI: 10.1038/s41467-017-00279-z

[…] out-competed the labeled fragment for binding to ptpa.fig. 5 , to further determine the dna-binding region within ptpa, we predicted residue positions of ptpa involved in interactions with dna by dp-bind (fig. ), a web server for sequence-based prediction of dna-binding residues in dna-binding proteins, and constructed three deletion mutants of ptpa (ptpa δ1-20, ptpa δ41-49, and ptpa δ65-75) […]

PMCID: 5372497
PMID: 28241484
DOI: 10.3390/ijms18030481

[…] (c). peak levels were found in the fetal kidney, spleen, and thymus, and the adult pancreas and liver (53–47-fold), and minimum levels were found in adult skeletal muscle and the brain (c)., dp-bind server (http://lcg.rit.albany.edu/dp-bind), a system for the sequence-based prediction of dna-binding residues in proteins, suggested that the c-terminal segment of nipbl isoform a (residues […]

PMCID: 5080701
PMID: 27782840
DOI: 10.1186/s12915-016-0318-6

[…] this minimal essential region for tis7-mediated activation of icln transcription. using bioinformatics prediction software (disis (www.predictprotein.org), bindn+ (http://bioinfo.ggc.org/bindn+/), dp-bind (http://lcg.rit.albany.edu/dp-bind/), and dnabindr (http://turing.cs.iastate.edu/preddna/); additional file : figure s2) we identified, with 70–80 % probability, three distinct dna-binding […]

PMCID: 4974476
PMID: 27465258
DOI: 10.1038/ncomms12301

[…] create a structural model for dream bound to dna (). consistent with reported footprinting data, lin54 contacts the minor groove and e2f-dp binds the major groove. the model shows that lin54 and e2f-dp bind the dna helix on opposite faces. we found that three or four base pairs is the closest the two dna sequence elements can be without steric clashes between the two bound dbds., […]

DP-Bind institution(s)
Gen*NY*Sis Center for Excellence in Cancer Genomics, Department of Epidemiology and Biostatistics, One Discovery Drive, University at Albany, Rensselaer, NY, USA

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