StandardizeHistidineNames: Standardize Histidine Names

In vanddraabe: Identification and Statistical Analysis of Conserved Waters Near Proteins

Description

Standardize the various three-letter histine residue names to HIS.

Usage

StandardizeHistidineNames(residue.names)

Arguments

residue.names

A vector of strings containing the three-letter residue names (strings)

Details

The various three-letter histidine residue names ("HID", "HIE", "HIP", "HSD", "HSE", "HSP") used to indicate the different protonation states are converted to the standard "HIS" residue name. This function is part of the aaStandardizeNames().

NOTE: This is a non-public function.

Value

vector of three-letter residue names with standardized histidine residue names

Author(s)

Emilio Xavier Esposito [e-mail]

See Also

Other utilities: ConservationSet, DetermineChainsOfInterest, ExtractFileTimeStamp, ExtractPDBids, FileTimeStamp, HasXWaters, Nearby, ProtHetWatIndices, RescaleValues, RetainChainsOfInterest, ReturnPDBfullPath, StandardizeAsparticAcidNames, StandardizeCysteineNames, StandardizeGlutamicAcidNames, StandardizeLysineNames, TimeSpan, UniqueAtomHashes, aaStandardizeNames, getAtomTypeCounts, getResTypeCounts, res2xyz, resAtomType2AtomClass, write.basic.pdb, write.conservedWaters.pdb

Examples

  ## Not run: 
  residue.names <- c("HIS", "HID", "HIE", "HIP", "HSD", "HSE", "HSP",
                     "CYS", "CYM", "CYX", "ASP", "ASH", "GLU", "GLH",
                     "LYS", "LYN")
  StandardizeHistidineNames(residue.names)
  # [1] "HIS" "HIS" "HIS" "HIS" "HIS" "HIS" "HIS" "CYS" "CYM" "CYX"
  #     "ASP" "ASH" "GLU" "GLH" "LYS" "LYN"
  
## End(Not run)

vanddraabe documentation built on June 8, 2019, 1:03 a.m.