read_pdb: Read Protein Data Bank (PDB) file

In BoSSA: A Bunch of Structure and Sequence Analysis

Description

Read Protein Data Bank (PDB) file

Usage

read_protdb(X)

Arguments

X	The path/name of a pdb file.

Value

The output is a list of objects

header	The header of the pdb file
compound	A data frame summarizing the CMPND part of the pdb file. This include the molecule ID, the molecule name and the chain ID
atom	A data frame with the atom type, the amino acid, the amino acid number, the chain and the euclidian X, Y, Z coordinates of the atoms
sequence	A list with the numbering of the amino acid and the amino acid sequence for each chain

Author(s)

pierre lefeuvre

References

http://www.rcsb.org/pdb/home/home.do

Examples

pdb_file <- system.file("extdata", "1L2M.pdb", package = "BoSSA")
pdb <- read_protdb(pdb_file)
pdb

Example output

Read 2055 items
protdb object
VIRAL PROTEIN 22-FEB-02 1L2M 

BoSSA documentation built on Oct. 23, 2020, 7:55 p.m.