The ihm.cross_linkers
Python module¶
Chemical descriptors of commonly-used cross-linkers.
Each of these is an instance of the ihm.ChemDescriptor
class,
and so can be used anywhere these objects are required, generally for
ihm.restraint.CrossLinkRestraint
.
- ihm.cross_linkers.dss¶
DSS cross-linker that links a primary amine with another primary amine (non-water-soluble).
- ihm.cross_linkers.dsg¶
DSG cross-linker that links a primary amine with another primary amine (non-water-soluble).
- ihm.cross_linkers.bs3¶
BS3 cross-linker that links a primary amine with another primary amine (water-soluble).
- ihm.cross_linkers.dsso¶
DSSO cross-linker that links a primary amine with another primary amine (non-water-soluble). It is similar to DSS but can be cleaved in the gas phase using collision-induced dissociation.
- ihm.cross_linkers.edc¶
EDC cross-linker that links a carboxyl group with a primary amine.
- ihm.cross_linkers.dhso¶
DHSO (dihydrazide sulfoxide) MS-cleavable cross-linker that links carboxyl groups, described in Gutierrez et al, 2016.
- ihm.cross_linkers.bmso¶
BMSO (bismaleimide sulfoxide) MS-cleavable cross-linker that links cysteines, described in Gutierrez et al, 2018.
- ihm.cross_linkers.sda¶
SDA (NHS-Diazirine) (succinimidyl 4,4′-azipentanoate) cross-linker that links primary amines with nearly any other functional group via long-wave UV-light activation.
- ihm.cross_linkers.photo_leucine¶
L-photo-leucine. Non-canonical amino acid incorporated at leucine positions that links leucine to any other functional group via long-wave UV-light activation. See Suchanek et al, 2005.
- ihm.cross_linkers.dsbu¶
dsbu (disuccinimidyl dibutyric urea) cross-linker that links a primary amine with another primary amine (non-water-soluble). Cleavable in the gas phase using collision-induced dissociation. See Müller et al, 2011.
- ihm.cross_linkers.phoX¶
PhoX cross-linker that links a primary amine with another primary amine. The spacer group contains a phosphonate group, making the cross-linker IMAC-enrichable. Also known by the name DSPP. See Steigenberger et al, 2019.
- ihm.cross_linkers.tbuphoX¶
Tert-butyl PhoX cross-linker. Similar to PhoX, but containing a tert-butyl group that renders the cross-linker cell permeable. See Jiang et al, 2021.