HeliStatistiX is a python v2.7 tool that allows to compute tilt angles of helices and packing angles of helices in interactions, mainly.

The full results of the analysis are part of Chapter 4 of my Pharm.D. thesis [FR].

Contact: [email protected]

Input

1. Put the .pdb files downloaded from OPM database in the same folder as the script of HeliStatistiX

2. Write a file named config containing 3 lines:

• PDB codes of the proteins analyzed separated by ',' (comma)

   E.g., 1dxr,1e12,1eys,
  

• Subunits of each protein separated by ',' and by ';' to separate proteins

   E.g., L,M;A;L,M;
  

• Beginning and end of each helix (these information can be taken from OPM database). The start and end of each helix are separated by ',' Helices are separated by ':', Subunits are separated by '/' ,Proteins are separated by ';'

   E.g., 33,54:85,106:116,138:171,192:228,251/53,74:111,133:143,165:199,220:263,284;27,50:63,82:106,123:134,153:159,180:199,221:227,250;33,54:92,114:124,146:179,200:237,258/55,75:112,133:143,165:197,220:264,283;3,24:38,57:70,87:98,117:122,141:163,180:190,211/24,41:60,81;
  

Ouput

2 files :

1. Tilt_angles.csv

2. Packing_angles.csv

Tilt_angles.csv contains :

• The tilt angle,

• The helix length in amino acids number,

• The helix length in Angstrom,

• The mean hydrophobicity of the helix,

• The hydrophobic moment of Eisenberg,

• The number of neighbor helices,

• The number of kinks,

• The greatest angle of kink (relative to the helix axis),

• The composition of aminoacids of the first tour

• The composition of aminoacids of the last tour

Packing_angles.csv contains :

• The packing angle between a couple of helices in interaction,

• The helix orientation (A/P),

• Number of contacts between helices (based on Chothia definition),

• The minimum distance between the centers of each helix,

• The length of the connexion loop,

• The number of kinks totalized by both helices

• The hydrophobic moment of Eisenberg of each helix