Table 1

Sequence parameters

Protein feature

Number of features

Calculated with

Remarks and references


Amino acid residue composition

40

In-house script

Numbers and percentages of 20 amino acid residues

Numbers and percentages of positive residues, negative residues, all charged residues, net charges

8

In-house script

Sequence length

1

Predicted isoelectric point

1

ProtParam

[37]

Number of C/H/N/O/S atoms

5

ProtParam

[37]

Instability index

1

ProtParam

Predicted based on dipeptide composition [37]

Instability class

1

ProtParam

Proteins with predicted in vivo half life ≥ 40 hrs considered as stable [37]

Aliphatic index

1

ProtParam

[37]

Gravy hydropathy index

1

ProtParam

[37]

Predicted percentage of sheet, helix and coil

3

psipred

[40]

Predicted percentage of buried/exposed residues

2

Accpro

[47]

Predicted disordered regions including length of the longest coil, length of all coils, percentage of the longest coil, percentage of all coils; and corresponding features for rem465 and hotloop

12

disembl

[24]

Tripeptide features

(5 * 5 * 5)

125

In-house script


Fang et al. BMC Chemical Biology 2009 9:5   doi:10.1186/1472-6769-9-5

Open Data