org.biojava3.aaproperties
Class Constraints

java.lang.Object
  org.biojava3.aaproperties.Constraints

public class Constraints
extends java.lang.Object

This class is used to support the implementation of properties stated in IPeptideProperties. It initializes several values that would be needed for the computation of properties such as

Molecular weight
Instability index
Hydropathy value
pKa

Version:

2011.05.21

Author:

kohchuanhock

See Also:

IPeptideProperties

Field Summary

static AminoAcidCompound	A
static java.util.Map<AminoAcidCompound,java.lang.Double>	aa2CTerminalPka
static java.util.Map<AminoAcidCompound,java.lang.Double>	aa2ExtinctionCoefficient
static java.util.Map<AminoAcidCompound,java.lang.Double>	aa2Hydrophathicity
static java.util.Map<AminoAcidCompound,java.lang.Double>	aa2MolecularWeight
static java.util.Map<AminoAcidCompound,java.lang.Double>	aa2NTerminalPka
static java.util.Map<AminoAcidCompound,java.lang.Double>	aa2PKa
static AminoAcidCompound	C
static AminoAcidCompound	D
static java.util.Map<java.lang.String,java.lang.Double>	diAA2Instability
static AminoAcidCompound	E
static AminoAcidCompound	F
static AminoAcidCompound	G
static AminoAcidCompound	H
static AminoAcidCompound	I
static AminoAcidCompound	K
static AminoAcidCompound	L
static AminoAcidCompound	M
static AminoAcidCompound	N
static AminoAcidCompound	P
static AminoAcidCompound	Q
static AminoAcidCompound	R
static AminoAcidCompound	S
static AminoAcidCompound	T
static AminoAcidCompound	V
static AminoAcidCompound	W
static AminoAcidCompound	Y

Constructor Summary

Constraints()

Method Summary

static void	initExtinctionCoefficient() Does the initialization of extinction coefficient based on http://au.expasy.org/tools/protparam-doc.html
static void	initMolecularWeight() Does the initialization of molecular weights based on http://au.expasy.org/tools/findmod/findmod_masses.html#AA

Methods inherited from class java.lang.Object

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

Field Detail

A

public static AminoAcidCompound A

R

public static AminoAcidCompound R

N

public static AminoAcidCompound N

D

public static AminoAcidCompound D

C

public static AminoAcidCompound C

E

public static AminoAcidCompound E

Q

public static AminoAcidCompound Q

G

public static AminoAcidCompound G

H

public static AminoAcidCompound H

I

public static AminoAcidCompound I

L

public static AminoAcidCompound L

K

public static AminoAcidCompound K

M

public static AminoAcidCompound M

F

public static AminoAcidCompound F

P

public static AminoAcidCompound P

S

public static AminoAcidCompound S

T

public static AminoAcidCompound T

W

public static AminoAcidCompound W

Y

public static AminoAcidCompound Y

V

public static AminoAcidCompound V

aa2ExtinctionCoefficient

public static java.util.Map<AminoAcidCompound,java.lang.Double> aa2ExtinctionCoefficient

aa2MolecularWeight

public static java.util.Map<AminoAcidCompound,java.lang.Double> aa2MolecularWeight

aa2Hydrophathicity

public static java.util.Map<AminoAcidCompound,java.lang.Double> aa2Hydrophathicity

aa2PKa

public static java.util.Map<AminoAcidCompound,java.lang.Double> aa2PKa

diAA2Instability

public static java.util.Map<java.lang.String,java.lang.Double> diAA2Instability

aa2NTerminalPka

public static java.util.Map<AminoAcidCompound,java.lang.Double> aa2NTerminalPka

aa2CTerminalPka

public static java.util.Map<AminoAcidCompound,java.lang.Double> aa2CTerminalPka

Constructor Detail

Constraints

public Constraints()

Method Detail

initMolecularWeight

public static void initMolecularWeight()

Does the initialization of molecular weights based on http://au.expasy.org/tools/findmod/findmod_masses.html#AA

initExtinctionCoefficient

public static void initExtinctionCoefficient()

Does the initialization of extinction coefficient based on http://au.expasy.org/tools/protparam-doc.html