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PINE-NMR specifications

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Unique identifier OMICS_06815
Name PINE-NMR
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for PINE-NMR

PINE-NMR citations

 (4)
library_books

Dynamic intramolecular regulation of the histone chaperone nucleoplasmin controls histone binding and release

2017
Nat Commun
PMCID: 5738438
PMID: 29263320
DOI: 10.1038/s41467-017-02308-3

[…] ple resonance experiments was carried out on the 13c, 15n-labeled npm tail domain (hnca, hncacb, hnco, hn(co)ca, cbca(co)nh, hn(ca)co, and hbha(co)nh). resonances were assigned using a combination of pine nmr server predictions and manual inspection of the spectra. csps upon nacl and histone titration were calculated using the following equation:1\documentclass[12pt]{minimal} \usepackage{amsma […]

library_books

Solution Structure of the 2A Protease from a Common Cold Agent, Human Rhinovirus C2, Strain W12

2014
PLoS One
PMCID: 4061012
PMID: 24937088
DOI: 10.1371/journal.pone.0097198

[…] identified signals from additional backbone and side chain atoms. all peaks identified by automation were carefully validated by visual inspection. peak lists for each spectrum were exported to the pine-nmr server , which yielded automated resonance assignments for all but four of the backbone spin systems. the assignment probabilities were high for all but one residue, which was at 50%. […]

library_books

PONDEROSA, an automated 3D NOESY peak picking program, enables automated protein structure determination

2011
Bioinformatics
PMCID: 3106192
PMID: 21511715
DOI: 10.1093/bioinformatics/btr200

[…] (peak-picking of noe data enabled by restriction of shift assignments) software package described here bridges this gap and is meant to be used with an automated resonance assignment package such as pine-nmr introduced earlier by our group ()., ponderosa (supplementary fig. s1a) accepts resonance assignments in popular file formats (sparky; t.d. goddard and d. g. kneller, sparky 3; university […]

library_books

The Center for Eukaryotic Structural Genomics

2009
J Struct Funct Genomics
PMCID: 2705709
PMID: 19130299
DOI: 10.1007/s10969-008-9057-4

[…] analysis) then carries out probabilistic secondary structure determination., the separate data analysis steps (pistachio, lacs, and pecan) have now been fully integrated into a pipeline, called pine-nmr. pine handles input data from a wide variety of nmr experiments, including hcch tocsy (important for side chain assignments). pine is freely available from a web server […]


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PINE-NMR institution(s)
National Magnetics Resonance Facility at Madison, Biochemistry Department, University of Wisconsin-Madison, Madison, WI, USA

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