Concatenate Multiple PDB Objects

Usage

cat.pdb(..., renumber=FALSE, rechain=TRUE)

Arguments

...
two or more PDB structure objects obtained from read.pdb.
renumber
logical, if ‘TRUE’ residues will be renumbered.
rechain
logical, if ‘TRUE’ molecules will be assigned new chain identifiers.

Description

Produce a new concatenated PDB object from two or more smaller PDB objects.

Details

This is a basic utility function for creating a concatenated PDB object based on multipe smaller PDB objects.

Value

Returns an object of class "pdb". See read.pdb for further details.

References

Grant, B.J. et al. (2006) Bioinformatics 22, 2695--2696.

Examples

## Read a PDB file from the RCSB online database
pdb1 <- read.pdb("1etl")



  Note: Accessing on-line PDB file



pdb2 <- read.pdb("1hel")



  Note: Accessing on-line PDB file




## Concat
new.pdb <- cat.pdb(pdb1, pdb2, pdb1, rechain=TRUE, renumber=TRUE)

## Write to file
write.pdb(new.pdb, file="concat.pdb")

See also

read.pdb, atom.select, write.pdb, trim.pdb

Author

Lars Skjaerven