eman1_programs_procpdb
Table of Contents
procpdb.py
This program is for performing simple operations on PDB files
Usage
procpdb.py <infile> [<outfile>] [rot=<alt,az,phi>] [trans=<dx,dy,dz>] [posttrans=<dx,dy,dz>] [centeratoms] [centerelec] [centermass] [animorph=<n>,<apix>,<vecfile>] [apix=<A/pix>] [split] [include=[helix,sheet,other] [chains=<chainltr>]
Parameters
| <infile> | Input file | ||
| [<outfile>] | Output file | ||
| [rot=<alt,az,phi>] | Rotation in EMAN convention | ||
| [trans=<dx,dy,dz>] | Translate (before rotation) | ||
| [posttrans=<dx,dy,dz>] | Post-translation | ||
| [centeratoms] | Center based on the mean atom position | ||
| [centerelec] | Center based on the center of electron charge | ||
| [centermass] | Center based on the center of mass | ||
| [animorph=<n>,<apix>,<vecfile>] | This will use a morph vector file (segment3d) to morph atom positions | ||
| [apix=<A/pix>] | multiply trans by apix | ||
| [split] | Split file at TER records. Results imperfect. | ||
| [include=[helix,sheet,other] | [include=[helix,sheet,other]] | ||
| [chains=<chainltr>] | eg - “ABO”, for extracting a portion of a complex |
Description
Simple program for manipulating PDB files in the EMAN convention
EMAN Manual page, generated Mon Jan 8 17:35:59 2007
eman1_programs_procpdb.txt · Last modified: by steveludtke