Literature DB >> 33936358

BaMORC: A Software Package for Accurate and Robust 13C Reference Correction of Protein NMR Spectra.

Xi Chen1,2, Andrey Smelter1,3, Hunter N B Moseley1,3,4,5.   

Abstract

We describe BaMORC, a software package that performs 13C chemical shifts reference correction for either assigned or unassigned peak lists derived from protein NMR spectra. BaMORC provides an intuitive command line interface that allows non-NMR experts to detect and correct 13C chemical shift referencing errors of unassigned peak lists at the very beginning of NMR data analysis, further lowering the bar of expertise required for effective protein NMR analysis. Furthermore, BaMORC provides an application programming interface for integration into sophisticated protein NMR data analysis pipelines, both before and after the protein resonance assignment step.

Entities:  

Keywords:  Chemical shift reference correction; Protein NMR; Software package

Year:  2019        PMID: 33936358      PMCID: PMC8087283          DOI: 10.1177/1934578X19849142

Source DB:  PubMed          Journal:  Nat Prod Commun        ISSN: 1555-9475            Impact factor:   1.496


  17 in total

1.  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

2.  CORCEMA refinement of the bound ligand conformation within the protein binding pocket in reversibly forming weak complexes using STD-NMR intensities.

Authors:  V Jayalakshmi; N Rama Krishna
Journal:  J Magn Reson       Date:  2004-05       Impact factor: 2.229

Review 3.  Using chemical shift perturbation to characterise ligand binding.

Authors:  Mike P Williamson
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2013-03-21       Impact factor: 9.795

4.  Complete relaxation and conformational exchange matrix (CORCEMA) analysis of NOESY spectra of interacting systems; two-dimensional transferred NOESY.

Authors:  H N Moseley; E V Curto; N R Krishna
Journal:  J Magn Reson B       Date:  1995-09

5.  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.

Authors:  J L Markley; A Bax; Y Arata; C W Hilbers; R Kaptein; B D Sykes; P E Wright; K Wüthrich
Journal:  J Biomol NMR       Date:  1998-07       Impact factor: 2.835

6.  Discovering high-affinity ligands for proteins: SAR by NMR.

Authors:  S B Shuker; P J Hajduk; R P Meadows; S W Fesik
Journal:  Science       Date:  1996-11-29       Impact factor: 47.728

7.  A fast and efficient python library for interfacing with the Biological Magnetic Resonance Data Bank.

Authors:  Andrey Smelter; Morgan Astra; Hunter N B Moseley
Journal:  BMC Bioinformatics       Date:  2017-03-17       Impact factor: 3.169

8.  Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications.

Authors:  Liya Wang; Hamid R Eghbalnia; Arash Bahrami; John L Markley
Journal:  J Biomol NMR       Date:  2005-05       Impact factor: 2.835

9.  Automatic 13C chemical shift reference correction for unassigned protein NMR spectra.

Authors:  Xi Chen; Andrey Smelter; Hunter N B Moseley
Journal:  J Biomol NMR       Date:  2018-08-10       Impact factor: 2.835

10.  BioMagResBank.

Authors:  Eldon L Ulrich; Hideo Akutsu; Jurgen F Doreleijers; Yoko Harano; Yannis E Ioannidis; Jundong Lin; Miron Livny; Steve Mading; Dimitri Maziuk; Zachary Miller; Eiichi Nakatani; Christopher F Schulte; David E Tolmie; R Kent Wenger; Hongyang Yao; John L Markley
Journal:  Nucleic Acids Res       Date:  2007-11-04       Impact factor: 16.971

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