• EMAN1
• Programs
• ProcPDB

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

• Expected "=" to follow "infile"

  Expected "=" to follow "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