User friendly PDB (Protein Data Bank) file editor with graphic user interface
To Download : http://bioinformatics.org/pdbeditor/PDBEditor.jar
Run by : java -jar PDBEditor.jar
Tool for protein crystallographers to expedite selective edit / data extraction / analysis of their PDB files
Runs on any operating system supported by Java 6 (Windows, MacOS, Linux)
< Java 6 is required - download FREE from http://www.java.com >
General Features
- Search and edit (in parallel) coordinates based on conditions user specifies
- Quickly extract and write selected data in tab delimited format to analyze in spreadsheet or other statistical programs using clipboard action (cut + copy + paste)
- Quickly amend atoms and spacegroup by clipboard action
- Manipulate atoms in fractional coordinates
- Edit spacegroup and calculate SCALE matrix
- Arrange / sort / correct atom orderings
Extended Features
- Selectively generate symmetry mates in user defined condition to analyze packing of atoms in protein crystal to help aid choosing molecular replacement solutions
- Selectively analyze atom distances to expedite calculation of interaction distances
- Selectively rotate / translate atoms
- Selectively analyze stats (average, standard deviation, maximum, minimum) of atom's coordinates, B-factor, occupancy, etc.
- Extract sequence from atoms in FASTA format