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Literature DB >> 22911464

Computer assignment of the backbone resonances of labelled proteins using two-dimensional correlation experiments.

N Morelle¹, B Brutscher, J P Simorre, D Marion.

Abstract

We present ALPS (Assignment for Labelled Protein Spectra), a flexible computer program for the automatic assignment of backbone NMR resonances of (15)N/(13)C-labelled proteins. The program constructs pseudoresidues from peak-picking lists of a set of two-dimensional triple resonance experiments and uses either a systematic search or a simulated annealing-based optimization to perform the assignment. This method has been successfully tested on two-dimensional triple resonance spectra of Rhodobacter capsulatus ferrocytochrome c (2) (116 amino acids).

Entities: Disease Species

Year: 1995 PMID： 22911464 DOI： 10.1007/BF00208806

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

13 in total

1. Efficient analysis of protein 2D NMR spectra using the software package EASY.

Authors: C Eccles; P Güntert; M Billeter; K Wüthrich
Journal: J Biomol NMR Date: 1991-07 Impact factor: 2.835

2. A computer-based protocol for semiautomated assignments and 3D structure determination of proteins.

Authors: R P Meadows; E T Olejniczak; S W Fesik
Journal: J Biomol NMR Date: 1994-01 Impact factor: 2.835

3. Use of fuzzy mathematics for complete automated assignment of peptide 1H 2D NMR spectra.

Authors: J Xu; S K Straus; B C Sanctuary; L Trimble
Journal: J Magn Reson B Date: 1994-01

4. Automated sequencing of amino acid spin systems in proteins using multidimensional HCC(CO)NH-TOCSY spectroscopy and constraint propagation methods from artificial intelligence.

Authors: D Zimmerman; C Kulikowski; L Wang; B Lyons; G T Montelione
Journal: J Biomol NMR Date: 1994-03 Impact factor: 2.835

5. Evaluation of an algorithm for the automated sequential assignment of protein backbone resonances: a demonstration of the connectivity tracing assignment tools (CONTRAST) software package.

Authors: J B Olson; J L Markley
Journal: J Biomol NMR Date: 1994-05 Impact factor: 2.835

6. Assignment of the 13C and 13CO resonances for Rhodobacter capsulatus ferrocytochrome c2 using double-resonance and triple-resonance NMR spectroscopy.

Authors: M Caffrey; B Brutscher; J P Simorre; J Fitch; M Cusanovich; D Marion
Journal: Eur J Biochem Date: 1994-04-01

7. Assignment of NMR spectra of proteins using triple-resonance two-dimensional experiments.

Authors: J P Simorre; B Brutscher; M S Caffrey; D Marion
Journal: J Biomol NMR Date: 1994-05 Impact factor: 2.835

8. The 13C chemical-shift index: a simple method for the identification of protein secondary structure using 13C chemical-shift data.

Authors: D S Wishart; B D Sykes
Journal: J Biomol NMR Date: 1994-03 Impact factor: 2.835

9. A novel approach for sequential assignment of 1H, 13C, and 15N spectra of proteins: heteronuclear triple-resonance three-dimensional NMR spectroscopy. Application to calmodulin.

Authors: M Ikura; L E Kay; A Bax
Journal: Biochemistry Date: 1990-05-15 Impact factor: 3.162

10. Assignments for the main-chain nuclear magnetic resonances and delineation of the secondary structure of the catalytic domain of human stromelysin-1 as obtained from triple-resonance 3D NMR experiments.

Authors: S R Van Doren; A V Kurochkin; Q Z Ye; L L Johnson; D J Hupe; E R Zuiderweg
Journal: Biochemistry Date: 1993-12-07 Impact factor: 3.162

16 in total

1. Variability in automated assignment of NOESY spectra and three-dimensional structure determination: a test case on three small disulfide-bonded proteins.

Authors: P Savarin; S Zinn-Justin; B Gilquin
Journal: J Biomol NMR Date: 2001-01 Impact factor: 2.835

2. Sequence-specific NMR assignment of proteins by global fragment mapping with the program MAPPER.

Authors: P Güntert; M Salzmann; D Braun; K Wüthrich
Journal: J Biomol NMR Date: 2000-10 Impact factor: 2.835

3. Backbone H(N), N, Calpha, C' and Cbeta assignment of the 25 kDa peptide methionine sulfoxide reductase from Erwinia chrysanthemi.

Authors: S Béraud; J P Chambost; B Bersch; P Gans; F Barras; D Marion
Journal: J Biomol NMR Date: 2001-05 Impact factor: 2.835

Review 4. Radial sampling for fast NMR: Concepts and practices over three decades.

Authors: Brian E Coggins; Ronald A Venters; Pei Zhou
Journal: Prog Nucl Magn Reson Spectrosc Date: 2010-07-30 Impact factor: 9.795

5. Assignment of the (1)H, (15)N and (13)C resonances of SufA from Escherichia coli involved in Fe-S cluster biosynthesis.

Authors: Nicolas Duraffourg; Sandrine Ollagnier-de Choudens; Marc Fontecave; Laurent Loiseau; Frédéric Barras; Dominique Marion; Laurence Blanchard
Journal: J Biomol NMR Date: 2004-11 Impact factor: 2.835