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Parrot: Traditional density modification (c.f. The statistical dm calculation is far harder to analyse.
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Traditional density modification still has much to offer.īy contrast with Pirate: Other developers have not on the whole had much success with Pirate. Builds 2.8A structures where RESOLVE fails.ĬCP4 DevMeet Buccaneer and density modificationĬlemens: Iteration of buccaneer and solomon shows promise. Currently using it for tricky MR rebuild at 2.7A 1 commercial MR structure rebuilt at York at 3.1A (structures published without citation - grrr.) User reports: 2 novel structures built at 3.6A The benefit of using larger rigid groups. Particularly with good data but poor resolution. Buccaneer will also build structures where ARP/wARP fails. With ARP/wARP: From my tests and user reports buccaneer will build most structures which ARP/wARP will build. Use of Se atoms, MR model in sequencing. Multi-threading (for dual/quad core machines)īuccaneer 1.2+ Rebuilding cis-peptides, pep-flips, pep-rots.
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The buccaneer software for automated model building of protein structures across a broad range of resolutions.īuccaneer 1.0 (for CCP4 v6.1) A few, very major developments: Buccaneer-Refmac pipeline NCS auto-completion Improved sequencing Kevin Cowtan, īuccaneer 1.1 (ready for release after 6.1) Improved linking of nearby chains Improved numbering of output chains Improved sidechain fitting: Use Richardson rotamer library Favour more probable sidechain rotamers Rudimentary chi1 refinement Prune clashing side chains Optionally fix the model in the ASU General performance improvements (33%) (nearly)ĭecide what to do about ligand developments.īuccaneer/refmac recycling to make better use of refmac. GUI pipeline options for waters, blast, etc.Ĭoot goals: Integrate wincoot. Model Building, Refinement and Ligands Kevin Cowtan, Garib Murshudov, Paul Emsley Raj Pannu Nick FurnhamĤ sets of goals: Buccaneer goals Refmac goals Coot goals Collaborative goals Kevin Cowtan, īuccaneer goals: Improve chain numbering (done, 6.1) Improve sidechain building (done, 6.1) Fix model position (done, 6.1)
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Populated with a few demonstration pages to provide ideas and inspiration.ĬCP4 DevMeet CCP4 Wiki And Kevin said. Don't know about support, I haven't needed it! Took 2 attempts, but the new host seems good. A wiki has been setup and configured using an external web hosting service. Provide a framework for updating the documentation. (No legal ramifications for us) Kevin Cowtan, (vs our more restricted aims) Independent. Addressed by Kay Diedrichs with the CCP4 community wiki! Provide a forum for useful BB discussions to be collected. Provide a forum for useful BB discussions to be collected. Original aims (as I understand them): Provide a framework for updating the documentation. We strongly recommend using the latest official release (or a nightly build) if possible.Kevin Cowtan, CCP4 Wiki Maintainer: YOU These are provided for backwards compatibility and historical purposes only, and are completely unsupported. You may download older versions of PHENIX here. The PHENIX graphical interface includes extensions for Coot and PyMOL. Using these builds, please contact us at Request download instructions Wanting the latest features and bug fixes.
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These use the mostĬurrent source code available recommended for users PHENIX installers are built nightly for all platforms. University of Cambridge, Duke University, LANL, LBNL includes the Phenix GUI. Phenix development release with contributions from
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Obtain a password for downloading Phenix via email. Python-based Hierarchical ENvironment for Integrated Xtallography