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Protocols

norsp specifications

Information


Unique identifier OMICS_21452
Name norsp
Interface Web user interface
Restrictions to use None
Input data A protein sequence proteins than contains more than 70 residues.
Input format FASTA, sequence in one-letter residue code
Output data Position of the NORS region in the context of the submitted sequence, A file including the intermediate data used by NORSp: secondary structure, solvent accessibility, transmembrane helices and coiled-coil prediction.
Output format TXT, HTML
Computer skills Basic
Maintained Yes

Maintainer


  • person_outline Burkhard Rost <>

Publications for norsp

norsp citations

 (8)
library_books

In Silico Computing of the Most Deleterious nsSNPs in HBA1 Gene

2016
PMCID: 4733110
PMID: 26824843
DOI: 10.1371/journal.pone.0147702

[…] structure of hba1 protein were 14.79% intermedia, 38.73% buried residues and 46.48% exposed residues ()., the structural annotations were done by online based predictprotein.org server [] and norsp (non-regular secondary structure), which identified 7 disordered regions in hba1 protein. compare to the native structure of hba1 protein, mutant g60v has 9 helixes with methionine and valine […]

library_books

Transcytosis in the blood–cerebrospinal fluid barrier of the mouse brain with an engineered receptor/ligand system

2015
PMCID: 4596253
PMID: 26491705
DOI: 10.1038/mtm.2015.37

[…] peptide (rsp) sequences of ngfr were purchased and the bamhi-xhoi fragment was inserted into a plasmid containing a multicloning site (mcs-plasmid). the ngfr open reading frame without the rsp (norsp-δngfr) was pcr amplified from the plasmid δngfr-2a-p47 (ref. ), as a ecori-noti fragment and inserted in the rsp-mcs-plasmid, in the same open reading frame as the rsp. the cohesin open reading […]

library_books

Cloud Prediction of Protein Structure and Function with PredictProtein for Debian

2013
PMCID: 3732596
PMID: 23971032
DOI: 10.1155/2013/398968

[…] unstructured loops—“norsnet” []; nuclear localization signals—“predictnls” []; protein-protein interaction sites—“profisis” []; disulfide bridges—“disulfinder” []; nonregular secondary structure—“norsp” []; pfam hits—“hmmer” [, ]; local complexity—“ncbi-seg” []; bacterial transmembrane beta barrels—“proftmb” []; coiled-coils—“ncoils” []; protein residue flexibility—“profbval” []; sequence […]

library_books

Actinidia DRM1 An Intrinsically Disordered Protein Whose mRNA Expression Is Inversely Correlated with Spring Budbreak in Kiwifruit

2013
PMCID: 3596386
PMID: 23516402
DOI: 10.1371/journal.pone.0057354

[…] molecular recognition feature predictor (α-morfs-ii) based on pondr fit prediction and a large positive data set , ., the prediction of potential disulphide bonding non-regular secondary structure (norsp), nuclear localisation sequence (nls); protein-protein binding and protein-dna binding was undertaken using the predictprotein server (technischen universität mϋnchen (tum), […]

library_books

Huntingtin facilitates polycomb repressive complex 2

2009
PMCID: 2807366
PMID: 19933700
DOI: 10.1093/hmg/ddp524

[…] the first multi-reference alignment were randomly chosen from the raw images., human huntingtin amino acid sequence (homo sapiens; np_002102) was analyzed for predicted secondary structure using: norsp () and prof (profile network prediction heidelberg) () from the predictprotein server (http://www.predictprotein.org/) (). huntingtin orthologues for the multiple sequence alignments: dog […]

library_books

Predicting disordered regions in proteins using the profiles of amino acid indices

2009
PMCID: 2648739
PMID: 19208144
DOI: 10.1186/1471-2105-10-S1-S42

[…] are called intrinsically unstructured or disordered proteins (iups or idps)., a number of protein disorder predictors have been developed by several groups, such as pondr [], ronn [,], disprot [,], norsp [,], dispro [], disopred and disopred2 [,], disembl [], iupred [], drip-pred [] and spritz [], and more recently dispssmp [], vsl1 and vsl2 [,], poodle-l [], poodle-s [], ucon [], prdos [] […]


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norsp institution(s)
CUBIC, Department of Biochemistry and Molecular Biophysics, Columbia University; Columbia University Center for Computational Biology and Bioinformatics (C2B2); North East Structural Genomics Consortium (NESG), Department of Biochemistry and Molecular Biophysics, Columbia University; Department of Pharmacology, Columbia University, New York, NY, USA
norsp funding source(s)
Supported by grants 1-P50- GM62413-01 and RO1-GM63029-01 from the National Institute of Health (NIH).

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