Registered File Types

File types that have been registered in Chimera can be opened from:

the system command line upon startup; the type can be specified by a suffix that is part of the filename or by prefix:filename, where prefix is not part of the filename (the default is Python)
the Command Line (using the command open); the type is specified as described above, except that the default is PDB
the Chimera Open File Dialog (File... Open) and other open/save dialogs

If a tool-specific type of file is opened, the associated tool will be executed or started (if it has not been started already).

Registered File Types
type	prefix	suffix	contents	associated tool (if any)
Aligned FASTA	afasta:	.afasta .afa .fasta .fa	sequence alignment	Multalign Viewer
Aligned NBRF/PIR	pir:	.pir	sequence alignment	Multalign Viewer
APBS potential	apbs:	.dx	electrostatic potential calculated with Adaptive Poisson-Boltzmann Solver (APBS)	Volume Viewer
BRIX or DSN6	dsn6:	.brix .omap	crystallographic density map used by O	Volume Viewer
CCP4 or MRC	mrc:	.ccp4 .mrc	crystallographic or EM density map	Volume Viewer
Chimera commands	cmd: com:	.cmd .com	commands (and optionally, comment lines starting with #)
Chimera demo	demo:	.src	instructions to Chimera and explanatory text for the demo viewer	Demo
Chimera markers	markers:	.cmm	markers placed in 3D	Volume Path Tracer
Chimera web data	chimerax:	.chimerax	instructions on data files to open, commands and code to execute (can have a Chimera demo embedded)
Clustal ALN	aln:	.aln .clustal .clustalw .clustalx	sequence alignment	Multalign Viewer
CNS or XPLOR	xplor:	.cns .xplor	unformatted ASCII density map	Volume Viewer
DelPhi or GRASP	delphi:	.phi	electrostatic potential calculated with DelPhi (the academic version; see also DelPhiController) or GRASP	Volume Viewer
DMS or MS	dms: ms:	.dms .ms	dot molecular surface	Read MS/DMS
DOCK scoring grid	dock:	.bmp .cnt .nrg	DOCK 4 bump, contact, and energy scoring grids (not interchangeable; gridname.bmp required for reading gridname.cnt and/or gridname.nrg)	Volume Viewer
Gaussian formatted checkpoint	fchk: gaussian:	.fchk	molecular structure
GCG MSF	msf:	.msf	sequence alignment	Multalign Viewer
GCG RSF	rsf:	.rsf	sequence alignment	Multalign Viewer
Mol2	mol2:	.mol2	molecular structure
MPOSE	mpose:	.mpose	molecular structure	MPOSE
NDB	ndb:		nucleic acid structure (PDB format but identified by NDB ID)
NetCDF	netcdf:	.nc	3D data	Volume Viewer
PDB	pdb:	.pdb .ent	molecular structure
Priism	priism:	.xyzw	3D light and electron microscope data	Volume Viewer
Python	python: py: chimera:	.py .pyc .pyo .pyw	Python code
SCOP	scop:		protein domain structure (PDB format but identified by SCOP domain ID)
SPIDER	spider:	.spi	electron microscope density map	Volume Viewer
Stockholm	pfam: hmmer:	.pfam .sto	sequence alignment	Multalign Viewer
TOM toolbox EM density map	tom_em:	.em	electron microscope density map	Volume Viewer
VRML	vrml:	.vrml .wrl	graphical object