Literature DB >> 22911575

The program XEASY for computer-supported NMR spectral analysis of biological macromolecules.

C Bartels1, T H Xia, M Billeter, P Güntert, K Wüthrich.   

Abstract

A new program package, XEASY, was written for interactive computer support of the analysis of NMR spectra for three-dimensional structure determination of biological macromolecules. XEASY was developed for work with 2D, 3D and 4D NMR data sets. It includes all the functions performed by the precursor program EASY, which was designed for the analysis of 2D NMR spectra, i.e., peak picking and support of sequence-specific resonance assignments, cross-peak assignments, cross-peak integration and rate constant determination for dynamic processes. Since the program utilizes the X-window system and the Motif widget set, it is portable on a wide range of UNIX workstations. The design objective was to provide maximal computer support for the analysis of spectra, while providing the user with complete control over the final resonance assignments. Technically important features of XEASY are the use and flexible visual display of 'strips', i.e., two-dimensional spectral regions that contain the relevant parts of 3D or 4D NMR spectra, automated sorting routines to narrow down the selection of strips that need to be interactively considered in a particular assignment step, a protocol of resonance assignments that can be used for reliable bookkeeping, independent of the assignment strategy used, and capabilities for proper treatment of spectral folding and efficient transfer of resonance assignments between spectra of different types and different dimensionality, including projected, reduced-dimensionality triple-resonance experiments.

Year:  1995        PMID: 22911575     DOI: 10.1007/BF00417486

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


  17 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.  Protein secondary structure determination by NMR. Application with recombinant human cyclophilin.

Authors:  K Wüthrich; C Spitzfaden; K Memmert; H Widmer; G Wider
Journal:  FEBS Lett       Date:  1991-07-22       Impact factor: 4.124

3.  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

4.  A spectral correlation function for efficient sequential NMR assignments of uniformly (15)N-labeled proteins.

Authors:  C Bartels; K Wüthrich
Journal:  J Biomol NMR       Date:  1994-11       Impact factor: 2.835

5.  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

6.  Sequential assignment of 2D-NMR spectra of proteins using genetic algorithms.

Authors:  R Wehrens; C Lucasius; L Buydens; G Kateman
Journal:  J Chem Inf Comput Sci       Date:  1993 Mar-Apr

7.  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

8.  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

9.  The nuclear-magnetic-resonance solution structure of the mutant alpha-amylase inhibitor [R19L] Tendamistat and comparison with wild-type Tendamistat.

Authors:  J F O'Connell; R Bender; J W Engels; K P Koller; M Scharf; K Wüthrich
Journal:  Eur J Biochem       Date:  1994-03-15

10.  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

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  591 in total

1.  Magnetization transfer from laser-polarized xenon to protons located in the hydrophobic cavity of the wheat nonspecific lipid transfer protein.

Authors:  C Landon; P Berthault; F Vovelle; H Desvaux
Journal:  Protein Sci       Date:  2001-04       Impact factor: 6.725

2.  Structure of the soluble methane monooxygenase regulatory protein B.

Authors:  K J Walters; G T Gassner; S J Lippard; G Wagner
Journal:  Proc Natl Acad Sci U S A       Date:  1999-07-06       Impact factor: 11.205

3.  Refinement of the protein backbone angle psi in NMR structure calculations.

Authors:  R Sprangers; M J Bottomley; J P Linge; J Schultz; M Nilges; M Sattler
Journal:  J Biomol NMR       Date:  2000-01       Impact factor: 2.835

4.  1H, 13C and 15N backbone assignment and secondary structure of the 19 kDa diadenosine 5', 5'''-P1, P4-tetraphosphate hydrolase from Lupinus angustifolius L.

Authors:  J D Swarbrick; T Bashtannyk; D Maksel; R N Pau; K R Gayler; P R Gooley
Journal:  J Biomol NMR       Date:  2000-03       Impact factor: 2.835

5.  Efficient side-chain and backbone assignment in large proteins: application to tGCN5.

Authors:  Y Lin; G Wagner
Journal:  J Biomol NMR       Date:  1999-11       Impact factor: 2.835

6.  Backbone NMR assignment and secondary structure of the 19 kDa hemophore HasA.

Authors:  N Izadi-Pruneyre; N Wolff; C Castagné; M Czisch; C Wandersman; M Delepierre; A Lecroisey
Journal:  J Biomol NMR       Date:  1999-06       Impact factor: 2.835

7.  Triple resonance-based assignment for Abl SH(32) and its complex with a consolidated ligand.

Authors:  R Xu; S Cahill; D Cowburn
Journal:  J Biomol NMR       Date:  1999-06       Impact factor: 2.835

8.  NMR structure of the calreticulin P-domain.

Authors:  L Ellgaard; R Riek; T Herrmann; P Güntert; D Braun; A Helenius; K Wüthrich
Journal:  Proc Natl Acad Sci U S A       Date:  2001-03-06       Impact factor: 11.205

9.  NMR structure of the pheromone Er-22 from Euplotes raikovi.

Authors:  A Liu; P Luginbühl; O Zerbe; C Ortenzi; P Luporini; K Wüthrich
Journal:  J Biomol NMR       Date:  2001-01       Impact factor: 2.835

10.  NMR assignment of the A form of the pheromone-binding protein of Bombyx mori.

Authors:  R Horst; F Damberger; G Peng; L Nikonova; W S Leal; K Wüthrich
Journal:  J Biomol NMR       Date:  2001-01       Impact factor: 2.835

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