Literature DB >> 26581513

Privateer: software for the conformational validation of carbohydrate structures.

Jon Agirre1, Javier Iglesias-Fernández2, Carme Rovira2,3, Gideon J Davies1, Keith S Wilson1, Kevin D Cowtan1.   

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Year:  2015        PMID： 26581513     DOI： 10.1038/nsmb.3115

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN： 1545-9985            Impact factor:   15.369


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  8 in total

1.  Data mining the protein data bank: automatic detection and assignment of carbohydrate structures.

Authors:  Thomas Lütteke; Martin Frank; Claus-W von der Lieth
Journal:  Carbohydr Res       Date:  2004-04-02       Impact factor: 2.104

2.  Version 1.2 of the Crystallography and NMR system.

Authors:  Axel T Brunger
Journal:  Nat Protoc       Date:  2007       Impact factor: 13.491

3.  Carbohydrate anomalies in the PDB.

Authors:  Jon Agirre; Gideon Davies; Keith Wilson; Kevin Cowtan
Journal:  Nat Chem Biol       Date:  2015-05       Impact factor: 15.040

4.  Features and development of Coot.

Authors:  P Emsley; B Lohkamp; W G Scott; K Cowtan
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24

5.  REFMAC5 for the refinement of macromolecular crystal structures.

Authors:  Garib N Murshudov; Pavol Skubák; Andrey A Lebedev; Navraj S Pannu; Roberto A Steiner; Robert A Nicholls; Martyn D Winn; Fei Long; Alexei A Vagin
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2011-03-18

6.  Automatic rebuilding and optimization of crystallographic structures in the Protein Data Bank.

Authors:  Robbie P Joosten; Krista Joosten; Serge X Cohen; Gert Vriend; Anastassis Perrakis
Journal:  Bioinformatics       Date:  2011-10-27       Impact factor: 6.937

7.  Overview of the CCP4 suite and current developments.

Authors:  Martyn D Winn; Charles C Ballard; Kevin D Cowtan; Eleanor J Dodson; Paul Emsley; Phil R Evans; Ronan M Keegan; Eugene B Krissinel; Andrew G W Leslie; Airlie McCoy; Stuart J McNicholas; Garib N Murshudov; Navraj S Pannu; Elizabeth A Potterton; Harold R Powell; Randy J Read; Alexei Vagin; Keith S Wilson
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2011-03-18

8.  pdb-care (PDB carbohydrate residue check): a program to support annotation of complex carbohydrate structures in PDB files.

Authors:  Thomas Lütteke; Claus-W von der Lieth
Journal:  BMC Bioinformatics       Date:  2004-06-04       Impact factor: 3.169
  8 in total
  153 in total

1.  Molecular Mechanism of Polysaccharide Acetylation by the Arabidopsis Xylan O-acetyltransferase XOAT1.

Authors:  Vladimir V Lunin; Hsin-Tzu Wang; Vivek S Bharadwaj; Markus Alahuhta; Maria J Peña; Jeong-Yeh Yang; Stephanie A Archer-Hartmann; Parastoo Azadi; Michael E Himmel; Kelley W Moremen; William S York; Yannick J Bomble; Breeanna R Urbanowicz
Journal:  Plant Cell       Date:  2020-04-30       Impact factor: 11.277

2.  Targeting HIV Env immunogens to B cell follicles in nonhuman primates through immune complex or protein nanoparticle formulations.

Authors:  Jacob T Martin; Christopher A Cottrell; Aleksandar Antanasijevic; Diane G Carnathan; Benjamin J Cossette; Chiamaka A Enemuo; Etse H Gebru; Yury Choe; Federico Viviano; Stephanie Fischinger; Talar Tokatlian; Kimberly M Cirelli; George Ueda; Jeffrey Copps; Torben Schiffner; Sergey Menis; Galit Alter; William R Schief; Shane Crotty; Neil P King; David Baker; Guido Silvestri; Andrew B Ward; Darrell J Irvine
Journal:  NPJ Vaccines       Date:  2020-08-05       Impact factor: 7.344

3.  Immunogenicity and structures of a rationally designed prefusion MERS-CoV spike antigen.

Authors:  Jesper Pallesen; Nianshuang Wang; Kizzmekia S Corbett; Daniel Wrapp; Robert N Kirchdoerfer; Hannah L Turner; Christopher A Cottrell; Michelle M Becker; Lingshu Wang; Wei Shi; Wing-Pui Kong; Erica L Andres; Arminja N Kettenbach; Mark R Denison; James D Chappell; Barney S Graham; Andrew B Ward; Jason S McLellan
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-14       Impact factor: 11.205

4.  Molecular Mechanism of the Flexible Glycan Receptor Recognition by Mumps Virus.

Authors:  Marie Kubota; Rei Matsuoka; Tateki Suzuki; Koji Yonekura; Yusuke Yanagi; Takao Hashiguchi
Journal:  J Virol       Date:  2019-07-17       Impact factor: 5.103

5.  Crystallographic insight into the evolutionary origins of xyloglucan endotransglycosylases and endohydrolases.

Authors:  Nicholas McGregor; Victor Yin; Ching-Chieh Tung; Filip Van Petegem; Harry Brumer
Journal:  Plant J       Date:  2017-02-11       Impact factor: 6.417

Review 6.  Forty years of collaborative computational crystallography.

Authors:  Jon Agirre; Eleanor Dodson
Journal:  Protein Sci       Date:  2017-10-24       Impact factor: 6.725

7.  Calcitonin Receptor N-Glycosylation Enhances Peptide Hormone Affinity by Controlling Receptor Dynamics.

Authors:  Sang-Min Lee; Yejin Jeong; John Simms; Margaret L Warner; David R Poyner; Ka Young Chung; Augen A Pioszak
Journal:  J Mol Biol       Date:  2020-02-06       Impact factor: 5.469

8.  The molecular basis of endolytic activity of a multidomain alginate lyase from Defluviitalea phaphyphila, a representative of a new lyase family, PL39.

Authors:  Shiqi Ji; Samuel R Dix; Adli A Aziz; Svetlana E Sedelnikova; Patrick J Baker; John B Rafferty; Per A Bullough; Svetomir B Tzokov; Jon Agirre; Fu-Li Li; David W Rice
Journal:  J Biol Chem       Date:  2019-10-17       Impact factor: 5.157

9.  High-resolution structure of a lytic polysaccharide monooxygenase from Hypocrea jecorina reveals a predicted linker as an integral part of the catalytic domain.

Authors:  Henrik Hansson; Saeid Karkehabadi; Nils Mikkelsen; Nicholai R Douglas; Steve Kim; Anna Lam; Thijs Kaper; Brad Kelemen; Katlyn K Meier; Stephen M Jones; Edward I Solomon; Mats Sandgren
Journal:  J Biol Chem       Date:  2017-09-12       Impact factor: 5.157

10.  Natively glycosylated HIV-1 Env structure reveals new mode for antibody recognition of the CD4-binding site.

Authors:  Harry B Gristick; Lotta von Boehmer; Anthony P West; Michael Schamber; Anna Gazumyan; Jovana Golijanin; Michael S Seaman; Gerd Fätkenheuer; Florian Klein; Michel C Nussenzweig; Pamela J Bjorkman
Journal:  Nat Struct Mol Biol       Date:  2016-09-12       Impact factor: 15.369
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