Automated Glycan Building

Command

Syntax:

Simple Example:

Advanced Example:

Attempt to build N-glycans into ABCD.cif with structure factors.

Options

Describe what each option is used for:

-pdbin

Path to input model file.

Formats accepted: PDB, mmCIF, CIF

Required

-mtzin

Path to input MTZ or SF CIF file (may be gzipped).

Required

-pdbout

Path to output CIF file.

Default: sails-model-out.cif

-mtzout

Path to output MTZ file.

Default: sails-refln-out.mtz

-logout

Path to output MTZ file.

Default: sails-log.json

-cycles

Number of internal cycles to run.

Default: 2

-n-glycan

Build N-glycans into the given structure

Default Option

-c-glycan

Build C-glycans (tryptophan mannosylation) into the given structure

-colin-fo

Comma separated SF observations and associated uncertainty.

Default: FP,SIGFP

-colin-fwt

Comma separated SF weight and associated phase.

If supplied, Sails will not recalculate the map prior to the first cycle.

Advanced

-v

Verbose output

-h

Displays help.

--version

Displays version.