Literature DB >> 9729785

Recommendations for the presentation of NMR structures of proteins and nucleic acids. IUPAC-IUBMB-IUPAB Inter-Union Task Group on the Standardization of Data Bases of Protein and Nucleic Acid Structures Determined by NMR Spectroscopy.

J L Markley1, A Bax, Y Arata, C W Hilbers, R Kaptein, B D Sykes, P E Wright, K Wüthrich.   

Abstract

The recommendations presented here are designed to support easier communication of NMR data and NMR structures of proteins and nucleic acids through unified nomenclature and reporting standards. Much of this document pertains to the reporting of data in journal articles; however, in the interest of the future development of structural biology, it is desirable that the bulk of the reported information be stored in computer-accessible form and be freely accessible to the scientific community in standardized formats for data exchange. These recommendations stem from an IUPAC-IUBMB-IUPAB inter-union venture with the direct involvement of ICSU and CODATA. The Task Group has reviewed previous formal recommendations and has extended them in the light of more recent developments in the field of biomolecular NMR spectroscopy. Drafts of the recommendations presented here have been examined critically by more than 50 specialists in the field and have gone through two rounds of extensive modification to incorporate suggestions and criticisms.

Mesh:

Substances:

Year:  1998        PMID: 9729785     DOI: 10.1023/a:1008290618449

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  23 in total

1.  Efficient computation of three-dimensional protein structures in solution from nuclear magnetic resonance data using the program DIANA and the supporting programs CALIBA, HABAS and GLOMSA.

Authors:  P Güntert; W Braun; K Wüthrich
Journal:  J Mol Biol       Date:  1991-02-05       Impact factor: 5.469

2.  Nomenclature Committee of the International Union of Biochemistry (NC-IUB). Nomenclature for incompletely specified bases in nucleic acid sequences. Recommendations 1984.

Authors: 
Journal:  Eur J Biochem       Date:  1985-07-01

3.  Representing an ensemble of NMR-derived protein structures by a single structure.

Authors:  M J Sutcliffe
Journal:  Protein Sci       Date:  1993-06       Impact factor: 6.725

4.  Conformational analysis of protein structures derived from NMR data.

Authors:  M W MacArthur; J M Thornton
Journal:  Proteins       Date:  1993-11

Review 5.  Straightening out the dihedral angles.

Authors:  J Clauwaert; J Z Xia
Journal:  Trends Biochem Sci       Date:  1993-09       Impact factor: 13.807

6.  Pseudo-structures for the 20 common amino acids for use in studies of protein conformations by measurements of intramolecular proton-proton distance constraints with nuclear magnetic resonance.

Authors:  K Wüthrich; M Billeter; W Braun
Journal:  J Mol Biol       Date:  1983-10-05       Impact factor: 5.469

Review 7.  The anatomy and taxonomy of protein structure.

Authors:  J S Richardson
Journal:  Adv Protein Chem       Date:  1981

8.  1H, 13C and 15N chemical shift referencing in biomolecular NMR.

Authors:  D S Wishart; C G Bigam; J Yao; F Abildgaard; H J Dyson; E Oldfield; J L Markley; B D Sykes
Journal:  J Biomol NMR       Date:  1995-09       Impact factor: 2.835

9.  Pyrrolidine ring puckering in cis and trans-proline residues in proteins and polypeptides. Different puckers are favoured in certain situations.

Authors:  E J Milner-White; L H Bell; P H Maccallum
Journal:  J Mol Biol       Date:  1992-12-05       Impact factor: 5.469

10.  The solution structure of eglin c based on measurements of many NOEs and coupling constants and its comparison with X-ray structures.

Authors:  S G Hyberts; M S Goldberg; T F Havel; G Wagner
Journal:  Protein Sci       Date:  1992-06       Impact factor: 6.725

View more
  157 in total

1.  The Protein Data Bank.

Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  Completeness of NOEs in protein structure: a statistical analysis of NMR.

Authors:  J F Doreleijers; M L Raves; T Rullmann; R Kaptein
Journal:  J Biomol NMR       Date:  1999-06       Impact factor: 2.835

3.  Solution structures of the cytoplasmic tail complex from platelet integrin alpha IIb- and beta 3-subunits.

Authors:  Aalim M Weljie; Peter M Hwang; Hans J Vogel
Journal:  Proc Natl Acad Sci U S A       Date:  2002-04-30       Impact factor: 11.205

4.  RefDB: a database of uniformly referenced protein chemical shifts.

Authors:  Haiyan Zhang; Stephen Neal; David S Wishart
Journal:  J Biomol NMR       Date:  2003-03       Impact factor: 2.835

5.  A use of Ramachandran potentials in protein solution structure determinations.

Authors:  Ivano Bertini; Gabriele Cavallaro; Claudio Luchinat; Irene Poli
Journal:  J Biomol NMR       Date:  2003-08       Impact factor: 2.835

6.  A procedure to validate and correct the 13C chemical shift calibration of RNA datasets.

Authors:  Thomas Aeschbacher; Mario Schubert; Frédéric H-T Allain
Journal:  J Biomol NMR       Date:  2012-01-18       Impact factor: 2.835

7.  NMR structure note: N-terminal domain of Thermus thermophilus CdnL.

Authors:  Aranzazu Gallego-García; Yasmina Mirassou; Montserrat Elías-Arnanz; S Padmanabhan; M Angeles Jiménez
Journal:  J Biomol NMR       Date:  2012-07-11       Impact factor: 2.835

8.  NMR backbone dynamics of VEK-30 bound to the human plasminogen kringle 2 domain.

Authors:  Min Wang; Mary Prorok; Francis J Castellino
Journal:  Biophys J       Date:  2010-07-07       Impact factor: 4.033

9.  NMR characterization of the Escherichia coli nitrogen regulatory protein IIANtr in solution and interaction with its partner protein, NPr.

Authors:  Guangshun Wang; Alan Peterkofsky; Paul A Keifer; Xia Li
Journal:  Protein Sci       Date:  2005-03-01       Impact factor: 6.725

10.  1H, 15N, and 13C chemical shift assignments of the Escherichia coli nitrogen regulatory phosphocarrier IIA(Ntr).

Authors:  Xia Li; Alan Peterkofsky; Guangshun Wang
Journal:  J Biomol NMR       Date:  2003-12       Impact factor: 2.835

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.