Learning biophysically-motivated parameters for alpha helix prediction

BMC Bioinformatics

Table 4 Sets of features that are emitted by transitions in the FSM.

Sets of features emitted by FSM transition
Label	Features	Description
#0	0	Coil defined as zero-energy
#1	$\sum_{i = - 3}^{+ 3} C_{R_{n + i - 1}}^{i - 1}$	End of helix processing (C-cap)
#2	$H_{R_{n}} + \sum_{i = - 3}^{+ 3} N_{R_{n + i - 1}}^{i - 1}$	Start of helix processing (N-cap)
#3	$H_{R_{n}}$	Normal helix residue
#4	$H_{R_{n}}$ + A	Helix after very short coil
#5	$H_{R_{n}}$ + B	Helix after short coil

R_idenotes the residue at position i in the protein, and n is the current position of the FSM.

ISSN: 1471-2105