Class Residue

x.__init__(...) initializes x; see help(type(x)) for signature

Parameters:

• residue_type (ResidueType) - The kind of the residue
• inscode (str) - The insertion code
• resnum (int) - PDB residue number
• origin (object) - Optional code indicating the provenance of the residue

Overrides: object.__init__

Returns the short code for the residue

Overrides: object.__str__

repr(x)

Overrides: object.__repr__

(inherited documentation)

Returns the similarity between the residue and a reference residue

Parameters:

• ref_res (schrodinger.application.msv.domain.residue.Residue) - The reference residue
• similarity_matrix - The scoring matrix to use

Returns: float

The similarity score (between 0.0 and 1.0) between the residue and the reference residue

Return the identity between the residue and a reference residue

Parameters:

• ref_res (schrodinger.application.msv.domain.residue.Residue) - The reference residue

Returns: float

The identity score (either 0.0 or 1.0) between the residue and the reference residue

Return a float scoring the homology between the sequence and a reference sequence, assuming that they're already aligned

The homology criterion is based on "side chain chemistry" descriptor matching.

Parameters:

• ref_res (schrodinger.application.msv.domain.residue.Residue) - The reference residue

Returns: float

The homology score (either 0.0 or 1.0) between the residue and the reference residue

rescode

Get Method:

unreachable.rescode(self)

short_code

Get Method:

unreachable.short_code(self)

long_code

Get Method:

unreachable.long_code(self)

hydrophobicity

Get Method:

unreachable.hydrophobicity(self) - Returns: A float representing the hydrophobicity for the ResidueType on the Kyte-Doolittle scale, if available; otherwise None

hydrophilicity

Get Method:

unreachable.hydrophilicity(self) - Returns: A float representing the hydrophilicity for the ResidueType on the Hopp-Woods scale, if available; otherwise None

helix_propensity

Get Method:

unreachable.helix_propensity(self) - Returns: A float representing the helix propensity for the ResidueType of the residue

beta_strand_propensity

Get Method:

unreachable.beta_strand_propensity(self) - Returns: A float representing the beta strand propensity for the ResidueType of the residue

ss_prediction_psipred

Returns a DSSP code matching the secondary structure prediction for the residue or None. Value is calculated from thePsiPred backend.

Get Method:

unreachable.ss_prediction_psipred(self) - Returns a DSSP code matching the secondary structure prediction for the residue or None.

Set Method:

unreachable.ss_prediction_psipred(self, value)

ss_prediction_sspro

Returns a DSSP code matching the secondary structure prediction for the residue or None. Value is calculated from the SSpro backend.

Get Method:

unreachable.ss_prediction_sspro(self) - Returns a DSSP code matching the secondary structure prediction for the residue or None.

Set Method:

unreachable.ss_prediction_sspro(self, value)

isoelectric_point

Get Method:

unreachable.isoelectric_point(self) - Returns: A float representing the isoelectric point value for the ResidueType of the residue