Literature DB >> 23663824

Sophisticated modeling uncovers atomic DNA structure in bacteriophage φ29 cavity.

Lennart Nilsson1.   

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Year:  2013        PMID： 23663824      PMCID： PMC3647174          DOI： 10.1016/j.bpj.2013.03.043

Source DB:  PubMed          Journal:  Biophys J        ISSN： 0006-3495            Impact factor:   4.033


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  13 in total

1.  Phi29 family of phages.

Authors:  W J Meijer; J A Horcajadas; M Salas
Journal:  Microbiol Mol Biol Rev       Date:  2001-06       Impact factor: 11.056

2.  A natural coarse graining for simulating large biomolecular motion.

Authors:  Holger Gohlke; M F Thorpe
Journal:  Biophys J       Date:  2006-06-30       Impact factor: 4.033

Review 3.  CHARMM: the biomolecular simulation program.

Authors:  B R Brooks; C L Brooks; A D Mackerell; L Nilsson; R J Petrella; B Roux; Y Won; G Archontis; C Bartels; S Boresch; A Caflisch; L Caves; Q Cui; A R Dinner; M Feig; S Fischer; J Gao; M Hodoscek; W Im; K Kuczera; T Lazaridis; J Ma; V Ovchinnikov; E Paci; R W Pastor; C B Post; J Z Pu; M Schaefer; B Tidor; R M Venable; H L Woodcock; X Wu; W Yang; D M York; M Karplus
Journal:  J Comput Chem       Date:  2009-07-30       Impact factor: 3.376

4.  A multiscale dynamic model of DNA supercoil relaxation by topoisomerase IB.

Authors:  Todd D Lillian; Maryna Taranova; Jeff Wereszczynski; Ioan Andricioaei; N C Perkins
Journal:  Biophys J       Date:  2011-04-20       Impact factor: 4.033

5.  Optimization of the CHARMM additive force field for DNA: Improved treatment of the BI/BII conformational equilibrium.

Authors:  Katarina Hart; Nicolas Foloppe; Christopher M Baker; Elizabeth J Denning; Lennart Nilsson; Alexander D Mackerell
Journal:  J Chem Theory Comput       Date:  2012-01-10       Impact factor: 6.006

6.  Communication: Origin of the contributions to DNA structure in phages.

Authors:  Christopher G Myers; B Montgomery Pettitt
Journal:  J Chem Phys       Date:  2013-02-21       Impact factor: 3.488

7.  Structural ensemble and dynamics of toroidal-like DNA shapes in bacteriophage ϕ29 exit cavity.

Authors:  Andrew D Hirsh; Maryna Taranova; Troy A Lionberger; Todd D Lillian; Ioan Andricioaei; N C Perkins
Journal:  Biophys J       Date:  2013-05-07       Impact factor: 4.033

8.  Role of channel lysines and the "push through a one-way valve" mechanism of the viral DNA packaging motor.

Authors:  Huaming Fang; Peng Jing; Farzin Haque; Peixuan Guo
Journal:  Biophys J       Date:  2012-01-03       Impact factor: 4.033

9.  Structure of Bacillus subtilis bacteriophage phi 29 and the length of phi 29 deoxyribonucleic acid.

Authors:  D L Anderson; D D Hickman; B E Reilly
Journal:  J Bacteriol       Date:  1966-05       Impact factor: 3.490

Review 10.  Viral capsids: mechanical characteristics, genome packaging and delivery mechanisms.

Authors:  W H Roos; I L Ivanovska; A Evilevitch; G J L Wuite
Journal:  Cell Mol Life Sci       Date:  2007-06       Impact factor: 9.261
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