DESCRIBE -- describe proteins

ATOM_FILES = $\langle{\tt string:0}\rangle$	''	complete or partial atom filenames
ATOM_FILES_DIRECTORY = $\langle{\tt string:1}\rangle$	'./'	input atom files directory list (e.g., 'dir1:dir2:dir3:./:/')
ALIGN_CODES = $\langle{\tt string:0}\rangle$	'all'	codes of proteins in the alignment

Requirements:

[alignment]

Description:

This command outputs basic data about the proteins whose atom filenames are specified by ATOM_FILES or ALIGN_CODES. An alternative specification of the proteins to be described can be provided by the alignment in memory; i.e., READ_ALIGNMENT followed by DESCRIBE will describe all the proteins in the alignment. This command is useful for preparation before comparative modeling because it summarizes disulfides, cis-prolines, charges, chain breaks, etc. When an alignment is given, results depending only on the amino acid sequences are still written out even if some atom files do not exist.

Example:

# Example for: DESCRIBE

# Describe the sequences and structures in the alignment.

READ_ALIGNMENT FILE = 'toxin.ali', ALIGN_CODES = '2ctx' '2abx'
DESCRIBE