Module residue

Returns the alpha carbon of a _Residue object or None if not available

Parameters:

• res (schrodinger.structure._Residue) - The residue to inspect for an alpha carbon

Returns: schrodinger.structure._Atom or None

An atom in the residue or None

DSSP_CODES

Value:

{'B': 'residue in isolated Beta-bridge', 'C': 'coil', 'E': 'extended strand in parallel and/or anti-parallel Beta sheet con formation', 'G': '3-turn helix', 'H': '4-turn helix', 'I': '5-turn helix', 'S': 'bend (non-hydrogen-bond based)', ...

ALANINE

Value:

ResidueType("A", "ALA", "Alanine", hydrophobicity= 1.80, hydrophilicit y=-0.50, helix_propensity= HELIX_PROPENSITY.LIKELY, beta_strand_propen sity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 6.00)

ARGININE

Value:

ResidueType("R", "ARG", "Arginine", hydrophobicity=-4.50, hydrophilici ty= 3.00, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_strand_p ropensity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 10.76 )

ASPARAGINE

Value:

ResidueType("N", "ASN", "Asparagine", hydrophobicity=-3.50, hydrophili city= 0.20, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_strand _propensity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 5.4 1)

ASPARTIC_ACID

Value:

ResidueType("D", "ASP", "Aspartic acid", hydrophobicity=-3.50, hydroph ilicity= 3.00, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_str and_propensity= BETA_STRAND_PROPENSITY.STRAND_FORMING, isoelectric_poi nt= 2.77)

CYSTEINE

Value:

ResidueType("C", "CYS", "Cysteine", hydrophobicity= 2.50, hydrophilici ty=-1.00, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_strand_p ropensity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 5.07)

GLUTAMIC_ACID

Value:

ResidueType("E", "GLU", "Glutamic acid", hydrophobicity=-3.50, hydroph ilicity= 3.00, helix_propensity= HELIX_PROPENSITY.LIKELY, beta_strand_ propensity= BETA_STRAND_PROPENSITY.STRAND_FORMING, isoelectric_point= 3.22)

GLUTAMINE

Value:

ResidueType("Q", "GLN", "Glutamine", hydrophobicity=-3.50, hydrophilic ity= 0.20, helix_propensity= HELIX_PROPENSITY.LIKELY, beta_strand_prop ensity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 5.65)

GLYCINE

Value:

ResidueType("G", "GLY", "Glycine", hydrophobicity=-0.40, hydrophilicit y= 0.00, helix_propensity= HELIX_PROPENSITY.HELIX_BREAKING, beta_stran d_propensity= BETA_STRAND_PROPENSITY.STRAND_FORMING, isoelectric_point = 5.97)

HISTIDINE

Value:

ResidueType("H", "HIS", "Histidine", hydrophobicity=-3.20, hydrophilic ity=-0.50, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_strand_ propensity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 7.59 )

ISOLEUCINE

Value:

ResidueType("I", "ILE", "Isoleucine", hydrophobicity= 4.50, hydrophili city=-1.80, helix_propensity= HELIX_PROPENSITY.WEAK, beta_strand_prope nsity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 6.02 )

LEUCINE

Value:

ResidueType("L", "LEU", "Leucine", hydrophobicity= 3.80, hydrophilicit y=-1.80, helix_propensity= HELIX_PROPENSITY.LIKELY, beta_strand_propen sity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 5.98)

LYSINE

Value:

ResidueType("K", "LYS", "Lysine", hydrophobicity=-3.90, hydrophilicity = 3.00, helix_propensity= HELIX_PROPENSITY.LIKELY, beta_strand_propens ity= BETA_STRAND_PROPENSITY.STRAND_FORMING, isoelectric_point= 9.74)

METHIONINE

Value:

ResidueType("M", "MET", "Methionine", hydrophobicity= 1.90, hydrophili city=-1.30, helix_propensity= HELIX_PROPENSITY.LIKELY, beta_strand_pro pensity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 5. 74)

PHENYLALANINE

Value:

ResidueType("F", "PHE", "Phenylalanine", hydrophobicity= 2.80, hydroph ilicity=-2.50, helix_propensity= HELIX_PROPENSITY.WEAK, beta_strand_pr opensity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 5 .48)

PROLINE

Value:

ResidueType("P", "PRO", "Proline", hydrophobicity=-1.60, hydrophilicit y= 0.00, helix_propensity= HELIX_PROPENSITY.HELIX_BREAKING, beta_stran d_propensity= BETA_STRAND_PROPENSITY.STRAND_FORMING, isoelectric_point = 6.30)

SERINE

Value:

ResidueType("S", "SER", "Serine", hydrophobicity=-0.80, hydrophilicity = 0.30, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_strand_pro pensity= BETA_STRAND_PROPENSITY.AMBIVALENT, isoelectric_point= 5.58)

THREONINE

Value:

ResidueType("T", "THR", "Threonine", hydrophobicity=-0.70, hydrophilic ity=-0.40, helix_propensity= HELIX_PROPENSITY.AMBIVALENT, beta_strand_ propensity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 5.60)

TRYPTOPHAN

Value:

ResidueType("W", "TRP", "Tryptophan", hydrophobicity=-0.90, hydrophili city=-3.40, helix_propensity= HELIX_PROPENSITY.WEAK, beta_strand_prope nsity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 5.89 )

TYROSINE

Value:

ResidueType("Y", "TYR", "Tyrosine", hydrophobicity=-1.30, hydrophilici ty=-2.30, helix_propensity= HELIX_PROPENSITY.HELIX_BREAKING, beta_stra nd_propensity= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_poi nt= 5.66)

VALINE

Value:

ResidueType("V", "VAL", "Valine", hydrophobicity= 4.20, hydrophilicity =-1.50, helix_propensity= HELIX_PROPENSITY.WEAK, beta_strand_propensit y= BETA_STRAND_PROPENSITY.STRAND_BREAKING, isoelectric_point= 5.96)

STD_AMINO_ACIDS

Value:

[ALANINE, CYSTEINE, ASPARTIC_ACID, GLUTAMIC_ACID, PHENYLALANINE, GLYCI NE, HISTIDINE, ISOLEUCINE, LYSINE, LEUCINE, METHIONINE, ASPARAGINE, PR OLINE, GLUTAMINE, ARGININE, SERINE, THREONINE, VALINE, TRYPTOPHAN, TYR OSINE, UNKNOWN]

AMINO_ACIDS_THREE_LETTER

Value:

{res.long_code: res for res in AMINO_ACIDS}

AMINO_ACIDS_ONE_AND_THREE_LETTER

Value:

residue.AMINO_ACIDS_ONE_AND_THREE_LETTER