Linked Life Data

19583439

Source:http://linkedlifedata.com/resource/pubmed/id/19583439

Statements in which the resource exists as a subject.
PredicateObject
rdf:type
lifeskim:mentions
pubmed:issue
2
pubmed:dateCreated
2009-7-8
pubmed:abstractText
The present work reports a 0.1 micros molecular dynamics simulation of a bovine rhodopsin dimer based on a recently reported semi-empirical model obtained by fitting two monomers from the crystal structure to atomic force microscopy maps (Fotiadis et al. Curr Opin Struct Biol 16, 252, 2006). The simulation shows that the quaternary arrangement is stable although subtle rearrangements in its tertiary elements are observed during the first 60 ns of the trajectory. The comparison with a parallel 0.1 micros simulation of a single monomer in the same conditions and using the same protocol allows the study of subunit-subunit interactions on the dimer interface together with the structural effects associated to the dimer formation. The present study describes the interface of a TM4/TM5-TM4/TM5 dimer at an atomistic level including an analysis of the energy contributions to the interaction of each part of the protein involved. We also compare the differences in the structure of the single monomer with those of the dimer subunits with the aim of understanding the changes required for the dimer formation.
pubmed:language
eng
pubmed:journal
pubmed:citationSubset
IM
pubmed:chemical
pubmed:status
MEDLINE
pubmed:month
Oct
pubmed:issn
1538-0254
pubmed:author
pubmed:issnType
Electronic
pubmed:volume
27
pubmed:owner
NLM
pubmed:authorsComplete
Y
pubmed:pagination
127-47
pubmed:meshHeading
pubmed:year
2009
pubmed:articleTitle
Structural rearrangements of rhodopsin subunits in a dimer complex: a molecular dynamics simulation study.
pubmed:affiliation
Departament d'Enginyeria Química, Technical University of Catalonia (UPC) E.T.S. d'Enginyeria Industrial de Barcelona, Diagonal 647, Barcelona E-08028, Spain.
pubmed:publicationType
Journal Article, Research Support, Non-U.S. Gov't