Literature DB >> 12522298

Program MULDER -- a tool for extracting torsion angles from NMR data.

Petr Padrta1, Vladimír Sklenár.   

Abstract

MULDER (Mostly UniversaL Dihedral angle ExtractoR) is a program for extraction of torsion angle information from NMR data. Currently, it can analyze two types of input data: The torsion angle data, where several (3)J-coupling constants and/or interatomic distances are combined in order to reduce the torsion angle ambiguity arising from solving the isolated Karplus (or distance) equation, and the sugar pucker data, where the dynamics of five-membered sugar rings is evaluated by postprocessing the results calculated from (3)J((HH)) coupling constants by program PSEUROT. Program MULDER can be used either as an alternative to r-MD programs in situations where only specific structural features are studied, or as a preparatory tool in connection with full r-MD structure calculation for extraction of unambiguous torsion angle restraints.

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Year:  2002        PMID: 12522298     DOI: 10.1023/a:1021656808607

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


  10 in total

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4.  Determination of stereospecific assignments, torsion-angle constraints, and rotamer populations in proteins using the program AngleSearch.

Authors:  V I Polshakov; T A Frenkiel; B Birdsall; A Soteriou; J Feeney
Journal:  J Magn Reson B       Date:  1995-07

5.  Crystallography & NMR system: A new software suite for macromolecular structure determination.

Authors:  A T Brünger; P D Adams; G M Clore; W L DeLano; P Gros; R W Grosse-Kunstleve; J S Jiang; J Kuszewski; M Nilges; N S Pannu; R J Read; L M Rice; T Simonson; G L Warren
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1998-09-01

6.  An A-type double helix of DNA having B-type puckering of the deoxyribose rings.

Authors:  L Trantírek; R Stefl; M Vorlícková; J Koca; V Sklenár; J Kypr
Journal:  J Mol Biol       Date:  2000-04-07       Impact factor: 5.469

7.  Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation.

Authors:  C Altona; M Sundaralingam
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8.  NMRPipe: a multidimensional spectral processing system based on UNIX pipes.

Authors:  F Delaglio; S Grzesiek; G W Vuister; G Zhu; J Pfeifer; A Bax
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Authors:  P Güntert; C Mumenthaler; K Wüthrich
Journal:  J Mol Biol       Date:  1997-10-17       Impact factor: 5.469

10.  Refinement of d(GCGAAGC) hairpin structure using one- and two-bond residual dipolar couplings.

Authors:  Petr Padrta; Richard Stefl; Lukás Králík; Lukás Zídek; Vladimir Sklenár
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  10 in total
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Review 3.  Developments in the Karplus equation as they relate to the NMR coupling constants of carbohydrates.

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Journal:  Adv Carbohydr Chem Biochem       Date:  2009       Impact factor: 12.200

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5.  Pyrrolidine nucleotide analogs with a tunable conformation.

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  5 in total

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