Three-days HADDOCK workshop in Vilnius
LINK
Description
HADDOCK is an information-driven docking program developed at Utrecht University, which is widely used in the structural biology community and has demonstrated a strong performance in the blind docking competition CAPRI.
The workshop will be given by Prof. Alexandre Bonvin with a number of his group members. It will consist of lectures in the morning and hands-on sessions on computers in the afternoon.
Sign ups are limited to 20 people. For these, experience with Linux is a requisite. The workshop will cover various aspects of the modelling of biomolecular...
markber
Conferences
0
02-26-2012 10:22 PM
[KPWU blog] Things must be changed before Protein-RNA docking using Haddock
Things must be changed before Protein-RNA docking using Haddock
Just a note for RNA-protein docking using Haddock 2.1 System: Mac OS 10.6.8, CNS 1.3, Haddock 2.1 1. RNA (or DNA) nomenclature in CNS is not same as the names in PDB. e.g. ACU in PDB = ADE CYT URI in CNS The “nucleic acid builder” developed in David *Case group can generate template structure http://stats.wordpress.com/b.gif?host=kpwu.wordpress.com&blog=76132&post=655&subd=kpwu&ref=&feed=1
Go to KPWU blog to read complete post.
nmrlearner
News from NMR blogs
0
02-23-2012 07:38 AM
A Grid-enabled web portal for NMR structure refinement with AMBER.
A Grid-enabled web portal for NMR structure refinement with AMBER.
A Grid-enabled web portal for NMR structure refinement with AMBER.
Bioinformatics. 2011 Jul 14;
Authors: Bertini I, Case DA, Ferella L, Giachetti A, Rosato A
MOTIVATION: The typical workflow for NMR structure determination involves collecting thousands of conformational restraints, calculating a bundle of 20-40 conformers in agreement with them and refining the energetics of these conformers. The structure calculation step employs simulated annealing based on molecular dynamics...
nmrlearner
Journal club
0
07-16-2011 07:28 PM
[KPWU blog] HADDOCK on iMac and a quick benchmark
HADDOCK on iMac and a quick benchmark
Recently I requested a copy of HADDOCK from Dr. Alexandre Bonvin in order to generate some docked dimers for my colleagues. They are working on some dimeric proteins but they have no idea how to obtain the dimeric conformation from homologous known structures. I spent few days reading the threads in the HADDOCK discussion group http://stats.wordpress.com/b.gif?host=kpwu.wordpress.com&blog=76132&post=285&subd=kpwu&ref=&feed=1
Go to KPWU blog to read complete post.
nmrlearner
News from NMR blogs
0
03-29-2011 09:01 PM
NMR Software
NMR SoftwareLinuxNMR
Programs are listed sequentially, according to the normal order of use in a typical NMR structure determination project. Rather than providing detailed tutorials on the use of the various programs, a few comments on the general use of each program are provided, as well as the literature citations and links to the original documentation.
Auto-assignment programs
AutoAssign
AutoAssign is a constraint-based expert system for automating the analysis of backbone resonance assignments using NMR spectra of small proteins. Zimmerman, D.E., Kulikowski, C.A., Huang, Y.,...
HADDOCK Software web portal
Linear Mode
