Package org.biojava.nbio.structure.io

Class SSBondImpl

java.lang.Object

org.biojava.nbio.structure.io.SSBondImpl

All Implemented Interfaces:

Serializable, Cloneable, PDBRecord

public class SSBondImpl
extends Object
implements PDBRecord, Cloneable

A simple bean to store disulfide bridge information, the SSBOND records in the PDB files. The two residues specified here are CYS residues that form a Disulfide bridge.

Author:

Andreas Prlic

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor	Description
SSBondImpl()

Method Summary

Modifier and Type	Method	Description
SSBondImpl	clone()
boolean	equals(Object obj)
String	getChainID1()
String	getChainID2()
String	getInsCode1()
String	getInsCode2()
String	getResnum1()
String	getResnum2()
int	getSerNum()
static List<SSBondImpl>	getSsBondListFromBondList(List<Bond> bonds)
int	hashCode()
void	setChainID1(String chainID1)
void	setChainID2(String chainID2)
void	setInsCode1(String insCode1)
void	setInsCode2(String insCode2)
void	setResnum1(String resnum1)
void	setResnum2(String resnum2)
void	setSerNum(int serNum)	get serial number of this SSBOND in PDB file
String	toPDB()	Returns a PDB file like representation of this record.
void	toPDB(StringBuffer buf)	Append the PDB representation of this SSBOND to the provided StringBuffer
static SSBondImpl	toSsBond(Bond bond)	Converts the given Bond object into a SSBondImpl.
String	toString()

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Detail

SSBondImpl

public SSBondImpl()

Method Detail

toPDB

public String toPDB()

Description copied from interface: PDBRecord

Returns a PDB file like representation of this record.

Specified by:

toPDB in interface PDBRecord

Returns:

a String providing a PDB file like representation of the record.

toPDB

public void toPDB(StringBuffer buf)

Append the PDB representation of this SSBOND to the provided StringBuffer

Specified by:

toPDB in interface PDBRecord

Parameters:

buf - a StringBuffer to print the PDB representation to

getInsCode1

public String getInsCode1()

setInsCode1

public void setInsCode1(String insCode1)

getInsCode2

public String getInsCode2()

setInsCode2

public void setInsCode2(String insCode2)

getSerNum

public int getSerNum()

setSerNum

public void setSerNum(int serNum)

get serial number of this SSBOND in PDB file

Parameters:

serNum -

clone

public SSBondImpl clone()

Overrides:

clone in class Object

getChainID1

public String getChainID1()

setChainID1

public void setChainID1(String chainID1)

getChainID2

public String getChainID2()

setChainID2

public void setChainID2(String chainID2)

getResnum1

public String getResnum1()

setResnum1

public void setResnum1(String resnum1)

getResnum2

public String getResnum2()

setResnum2

public void setResnum2(String resnum2)

toString

public String toString()

Overrides:

toString in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object

equals

public boolean equals(Object obj)

Overrides:

equals in class Object

getSsBondListFromBondList

public static List<SSBondImpl> getSsBondListFromBondList(List<Bond> bonds)

toSsBond

public static SSBondImpl toSsBond(Bond bond)

Converts the given Bond object into a SSBondImpl.

Returns:

Throws:

IllegalArgumentException - if this Bond is not between two CYS residues