RIBFIND: a web server for identifying rigid bodies in protein structures and to aid flexible fitting into cryo EM maps.
BACKGROUND
To better analyze low-resolution cryo electron microscopy maps of macromolecular assemblies, component atomic structures frequently have to be flexibly fitted into them. Reaching an optimal fit and preventing the fitting process from getting trapped in local minima can be significantly improved by identifying appropriate rigid bodies (RBs) in the fitted component.


RESULTS
Here we present the RIBFIND server, a tool for identifying RBs in protein structures. The server identifies RBs in proteins by calculating spatial proximity between their secondary structural elements.


BACKGROUND
The RIBFIND web server and its standalone program are available at http://ribfind.ismb.lon.ac.uk.


BACKGROUND
a.pandurangan@mail.cryst.bbk.ac.uk


BACKGROUND
Supplementary data are available at Bioinformatics online.
Department of Crystallography/Biological Sciences, Institute of Structural and Molecular Biology, Birkbeck College, University of London, London WC1E 7HX, UK. a.pandurangan@mail.cryst.bbk.ac.uk
Arun Prasad
AP
Pandurangan
Maya
M
Topf
D020285:Cryoelectron Microscopy; D029968:Escherichia coli Proteins / Q000737:chemistry; D020407:Internet; D033902:Periplasmic Binding Proteins / Q000737:chemistry; D017433:Protein Structure, Secondary; D012984:Software
D029968:Escherichia coli Proteins; D033902:Periplasmic Binding Proteins; C028003:RbsB protein, E coli