Module pdb

Package de.grogra.ext.pdb.model

Class AminoSequence

java.lang.Object

de.grogra.ext.pdb.model.AminoSequence

public class AminoSequence
extends Object

Author:

fdill, mdube This class models a protein which is a whole pdb file. It holds the single amino acids in a vector. RH20060629 changed variable name 'enum' to 'e' to avoid problems with java 1.5

Field Summary

Fields

Modifier and Type	Field	Description
static int	numberOfSequences	a counter for statistics.

Constructor Summary

Constructors

Constructor	Description
AminoSequence()

Method Summary

Modifier and Type	Method	Description
void	addAminoAcid(AminoAcid acid)
Vector	getAminoAcids()
void	textOutput()	Prints the current sequence with the amino acid names and the atom names to the standard output.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Details

numberOfSequences

public static int numberOfSequences

a counter for statistics. Is incremented with every creation.

Constructor Details

AminoSequence

public AminoSequence()

Method Details

getAminoAcids

public Vector getAminoAcids()

Returns:

- a vector containing the amino acids belonging to this sequence.

addAminoAcid

public void addAminoAcid(AminoAcid acid)

Parameters:

acid - - an acid to be added to this sequence

textOutput

public void textOutput()

Prints the current sequence with the amino acid names and the atom names to the standard output.