J Biomol NMR. 2004 Apr;28(4):341-55.

Assignment validation software suite for the evaluation and presentation of protein resonance assignment data.

Source

Department of Molecular Biology and Biochemistry, Center for Advanced Biotechnology and Medicine, Rutgers University, Piscataway, NJ 08854, USA.

Abstract

We present a set of utilities and graphical user interface (GUI) tools for evaluating the quality of protein resonance assignments. The Assignment Validation Software (AVS) suite, together with new GUI features in the AutoAssign software package, provides a set of reports and graphs for validating protein resonance assignment data before its use in structure analysis and/or submission to the BioMagResBank (BMRB). Input includes a listing of resonance assignments and a summary of sequential connectivity data (i.e. triple resonance, NOE, or other data) used in deriving the assignments. These tools are useful for evaluating the accuracy of protein resonance assignments determined by either automated or manual methods.

PMID:: 14872126; [PubMed - indexed for MEDLINE]

Publication Types, MeSH Terms, Substances, Grant Support

Publication Types

MeSH Terms

Substances

Grant Support

P50 GM62413/GM/NIGMS NIH HHS/United States

LinkOut - more resources

Full Text Sources

Other Literature Sources

COS Scholar Universe

Medical

MRI Scans - MedlinePlus Health Information

Supplemental Content

Related citations

Protein NMR structure determination with automated NOE assignment using the new software CANDID and the torsion angle dynamics algorithm DYANA. [J Mol Biol. 2002]
Protein NMR structure determination with automated NOE assignment using the new software CANDID and the torsion angle dynamics algorithm DYANA.
Herrmann T, Güntert P, Wüthrich K. J Mol Biol. 2002 May 24; 319(1):209-27.
Rapid analysis of protein backbone resonance assignments using cryogenic probes, a distributed Linux-based computing architecture, and an integrated set of spectral analysis tools. [J Struct Funct Genomics. 2002]
Rapid analysis of protein backbone resonance assignments using cryogenic probes, a distributed Linux-based computing architecture, and an integrated set of spectral analysis tools.
Monleón D, Colson K, Moseley HN, Anklin C, Oswald R, Szyperski T, Montelione GT. J Struct Funct Genomics. 2002; 2(2):93-101.
Automated amino acid side-chain NMR assignment of proteins using (13)C- and (15)N-resolved 3D [ (1)H, (1)H]-NOESY. [J Biomol NMR. 2008]
Automated amino acid side-chain NMR assignment of proteins using (13)C- and (15)N-resolved 3D [ (1)H, (1)H]-NOESY.
Fiorito F, Herrmann T, Damberger FF, Wüthrich K. J Biomol NMR. 2008 Sep; 42(1):23-33. Epub 2008 Aug 16.
Review Automated analysis of nuclear magnetic resonance assignments for proteins. [Curr Opin Struct Biol. 1995]
Review Automated analysis of nuclear magnetic resonance assignments for proteins.
Zimmerman DE, Montelione GT. Curr Opin Struct Biol. 1995 Oct; 5(5):664-73.
Review The BioTools Suite. A comprehensive suite of platform-independent bioinformatics tools. [Mol Biotechnol. 2001]
Review The BioTools Suite. A comprehensive suite of platform-independent bioinformatics tools.
Wishart DS, Fortin S. Mol Biotechnol. 2001 Sep; 19(1):59-77.

See reviews... See all...

Cited by 13 PubMed Central articles

A component of the Xanthomonadaceae type IV secretion system combines a VirB7 motif with a N0 domain found in outer membrane transport proteins. [PLoS Pathog. 2011]
A component of the Xanthomonadaceae type IV secretion system combines a VirB7 motif with a N0 domain found in outer membrane transport proteins.
Souza DP, Andrade MO, Alvarez-Martinez CE, Arantes GM, Farah CS, Salinas RK. PLoS Pathog. 2011 May; 7(5):e1002031. Epub 2011 May 12.
Backbone and Ile-δ1, Leu, Val methyl 1H, 13C and 15N NMR chemical shift assignments for human interferon-stimulated gene 15 protein. [Biomol NMR Assign. 2011]
Backbone and Ile-δ1, Leu, Val methyl 1H, 13C and 15N NMR chemical shift assignments for human interferon-stimulated gene 15 protein.
Yin C, Aramini JM, Ma LC, Cort JR, Swapna GV, Krug RM, Montelione GT. Biomol NMR Assign. 2011 Oct; 5(2):215-9. Epub 2011 May 5.
Solution NMR structure of the plasmid-encoded fimbriae regulatory protein PefI from Salmonella enterica serovar Typhimurium. [Proteins. 2011]
Solution NMR structure of the plasmid-encoded fimbriae regulatory protein PefI from Salmonella enterica serovar Typhimurium.
Aramini JM, Rossi P, Cort JR, Ma LC, Xiao R, Acton TB, Montelione GT. Proteins. 2011 Jan; 79(1):335-9.

See all...

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
Substance (MeSH Keyword)
PubChem chemical substance (submitted) records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

Assignment validation software suite for the evaluation and presentation of prot...
Assignment validation software suite for the evaluation and presentation of protein resonance assignment data.
J Biomol NMR. 2004 Apr ;28(4):341-55.

PubMed
Should boys with micropenis be reared as girls?
Should boys with micropenis be reared as girls?
J Pediatr. 1999 May ;134(5):537-8.

PubMed
Testosterone enanthate therapy is effective and independent of SRD5A2 and AR gen...
Testosterone enanthate therapy is effective and independent of SRD5A2 and AR gene polymorphisms in boys with micropenis.
J Urol. 2004 Jul ;172(1):319-24.

PubMed
Micropenis: does early treatment with testosterone do more harm than good?
Micropenis: does early treatment with testosterone do more harm than good?
J Urol. 1995 Aug ;154(2 Pt 2):825-9.

PubMed
Micropenis. I. Criteria, etiologies and classification.
Micropenis. I. Criteria, etiologies and classification.
Johns Hopkins Med J. 1980 Apr ;146(4):156-63.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Display Settings:

Send to: