TY - JOUR
T1 - The database of macromolecular motions
T2 - New features added at the decade mark
AU - Flores, Samuel
AU - Echols, Nathaniel
AU - Milburn, Duncan
AU - Hespenheide, Brandon
AU - Keating, Kevin
AU - Lu, Jason
AU - Wells, Stephen
AU - Yu, Eric Z
AU - Thorpe, Michael
AU - Gerstein, Mark
PY - 2006
Y1 - 2006
N2 - The database of molecular motions, MolMovDB (http://molmovdb.org), has been in existence for the past decade. It classifies macromolecular motions and provides tools to interpolate between two conformations (the Morph Server) and predict possible motions in a single structure. In 2005, we expanded the services offered on MolMovDB. In particular, we further developed the Morph Server to produce improved interpolations between two submitted structures. We added support for multiple chains to the original adiabatic mapping interpolation, allowing the analysis of subunit motions. We also added the option of using FRODA interpolation, which allows for more complex pathways, potentially overcoming steric barriers. We added an interface to a hinge prediction service, which acts on single structures and predicts likely residue points for flexibility. We developed tools to relate such points of flexibility in a structure to particular key residue positions, i.e. active sites or highly conserved positions. Lastly, we began relating our motion classification scheme to function using descriptions from the Gene Ontology Consortium.
AB - The database of molecular motions, MolMovDB (http://molmovdb.org), has been in existence for the past decade. It classifies macromolecular motions and provides tools to interpolate between two conformations (the Morph Server) and predict possible motions in a single structure. In 2005, we expanded the services offered on MolMovDB. In particular, we further developed the Morph Server to produce improved interpolations between two submitted structures. We added support for multiple chains to the original adiabatic mapping interpolation, allowing the analysis of subunit motions. We also added the option of using FRODA interpolation, which allows for more complex pathways, potentially overcoming steric barriers. We added an interface to a hinge prediction service, which acts on single structures and predicts likely residue points for flexibility. We developed tools to relate such points of flexibility in a structure to particular key residue positions, i.e. active sites or highly conserved positions. Lastly, we began relating our motion classification scheme to function using descriptions from the Gene Ontology Consortium.
UR - http://dx.doi.org/10.1093/nar/gkj046
U2 - 10.1093/nar/gkj046
DO - 10.1093/nar/gkj046
M3 - Article
C2 - 16381870
SN - 1362-4962
VL - 34
SP - D296-D301
JO - Nucleic Acids Research
JF - Nucleic Acids Research
IS - Supplement 1
ER -