Literature DB >> 1841711

Improved efficiency of protein structure calculations from NMR data using the program DIANA with redundant dihedral angle constraints.

P Güntert1, K Wüthrich.   

Abstract

A new strategy for NMR structure calculations of proteins with the variable target function method (Braun, W. and Go, N. (1985) J. Mol. Biol., 186, 611) is described, which makes use of redundant dihedral angle constraints (REDAC) derived from preliminary calculations of the complete structure. The REDAC approach reduces the computation time for obtaining a group of acceptable conformers with the program DIANA 5-100-fold, depending on the complexity of the protein structure, and retains good sampling of conformation space.

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Year:  1991        PMID: 1841711     DOI: 10.1007/bf02192866

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


  19 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.  Calculation of protein conformations by proton-proton distance constraints. A new efficient algorithm.

Authors:  W Braun; N Go
Journal:  J Mol Biol       Date:  1985-12-05       Impact factor: 5.469

3.  The structure of the Antennapedia homeodomain determined by NMR spectroscopy in solution: comparison with prokaryotic repressors.

Authors:  Y Q Qian; M Billeter; G Otting; M Müller; W J Gehring; K Wüthrich
Journal:  Cell       Date:  1989-11-03       Impact factor: 41.582

4.  Protein structures in solution by nuclear magnetic resonance and distance geometry. The polypeptide fold of the basic pancreatic trypsin inhibitor determined using two different algorithms, DISGEO and DISMAN.

Authors:  G Wagner; W Braun; T F Havel; T Schaumann; N Go; K Wüthrich
Journal:  J Mol Biol       Date:  1987-08-05       Impact factor: 5.469

5.  Three-dimensional structure of rabbit liver [Cd7]metallothionein-2a in aqueous solution determined by nuclear magnetic resonance.

Authors:  A Arseniev; P Schultze; E Wörgötter; W Braun; G Wagner; M Vasák; J H Kägi; K Wüthrich
Journal:  J Mol Biol       Date:  1988-06-05       Impact factor: 5.469

6.  Determination of the complete three-dimensional structure of the alpha-amylase inhibitor tendamistat in aqueous solution by nuclear magnetic resonance and distance geometry.

Authors:  A D Kline; W Braun; K Wüthrich
Journal:  J Mol Biol       Date:  1988-12-05       Impact factor: 5.469

7.  Gene duplications in the structural evolution of chymotrypsin.

Authors:  A D McLachlan
Journal:  J Mol Biol       Date:  1979-02-15       Impact factor: 5.469

Review 8.  Distance geometry and related methods for protein structure determination from NMR data.

Authors:  W Braun
Journal:  Q Rev Biophys       Date:  1987-05       Impact factor: 5.318

9.  Protein structure determination in solution by nuclear magnetic resonance spectroscopy.

Authors:  K Wüthrich
Journal:  Science       Date:  1989-01-06       Impact factor: 47.728

10.  Structure determination of the Antp (C39----S) homeodomain from nuclear magnetic resonance data in solution using a novel strategy for the structure calculation with the programs DIANA, CALIBA, HABAS and GLOMSA.

Authors:  P Güntert; Y Q Qian; G Otting; M Müller; W Gehring; K Wüthrich
Journal:  J Mol Biol       Date:  1991-02-05       Impact factor: 5.469

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  87 in total

1.  Solution structure of hpTX2, a toxin from Heteropoda venatoria spider that blocks Kv4.2 potassium channel.

Authors:  C Bernard; C Legros; G Ferrat; U Bischoff; A Marquardt; O Pongs; H Darbon
Journal:  Protein Sci       Date:  2000-11       Impact factor: 6.725

2.  A recurrent RNA-binding domain is appended to eukaryotic aminoacyl-tRNA synthetases.

Authors:  B Cahuzac; E Berthonneau; N Birlirakis; E Guittet; M Mirande
Journal:  EMBO J       Date:  2000-02-01       Impact factor: 11.598

3.  Synthesis and NMR solution structure of an alpha-helical hairpin stapled with two disulfide bridges.

Authors:  P Barthe; S Rochette; C Vita; C Roumestand
Journal:  Protein Sci       Date:  2000-05       Impact factor: 6.725

4.  Conformational flexibility in calcitonin: the dynamic properties of human and salmon calcitonin in solution.

Authors:  P Amodeo; A Motta; G Strazzullo; M A Castiglione Morelli
Journal:  J Biomol NMR       Date:  1999-02       Impact factor: 2.835

5.  Paramagnetism-based versus classical constraints: an analysis of the solution structure of Ca Ln calbindin D9k.

Authors:  I Bertini; A Donaire; B Jiménez; C Luchinat; G Parigi; M Piccioli; L Poggi
Journal:  J Biomol NMR       Date:  2001-10       Impact factor: 2.835

6.  Efficiency of paramagnetism-based constraints to determine the spatial arrangement of alpha-helical secondary structure elements.

Authors:  Ivano Bertini; Marco Longinetti; Claudio Luchinat; Giacomo Parigi; Luca Sgheri
Journal:  J Biomol NMR       Date:  2002-02       Impact factor: 2.835

7.  Elongation of the BH8 beta-hairpin peptide: Electrostatic interactions in beta-hairpin formation and stability.

Authors:  M Ramírez-Alvarado; F J Blanco; L Serrano
Journal:  Protein Sci       Date:  2001-07       Impact factor: 6.725

8.  Functional glycan-free adhesion domain of human cell surface receptor CD58: design, production and NMR studies.

Authors:  Z Y Sun; V Dötsch; M Kim; J Li; E L Reinherz; G Wagner
Journal:  EMBO J       Date:  1999-06-01       Impact factor: 11.598

9.  Like-charged residues at the ends of oligoalanine sequences might induce a chain reversal.

Authors:  Joanna Makowska; Adam Liwo; Wioletta Zmudzińska; Agnieszka Lewandowska; Lech Chmurzyński; Harold A Scheraga
Journal:  Biopolymers       Date:  2011-12-09       Impact factor: 2.505

10.  Paramagnetism-based restraints for Xplor-NIH.

Authors:  Lucia Banci; Ivano Bertini; Gabriele Cavallaro; Andrea Giachetti; Claudio Luchinat; Giacomo Parigi
Journal:  J Biomol NMR       Date:  2004-03       Impact factor: 2.835

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