PDBsum entry 3nmd Go to PDB code:  Tunnel analysis for: 3nmd calculated with MOLE 2.0 PDB id 3nmd Tunnels calculated on whole structure Tunnels calculated excluding ligands View options MOLEonline 2.0 manipulation and visualization with HETATM: without HETATM:   2 tunnels, coloured by tunnel radius 4 tunnels, coloured by tunnel radius 4 tunnels, coloured as in list below Tunnels are interior spaces connected with the protein surrounding. Only channels longer than 15 Å are shown. Tunnels Free R Length HPathy HPhob Polar Rel Mut Residue..type Ligands Radius 1 1.18 1.39 17.7 0.35 -0.04 10.9 72 1 1 1 5 0 0 0  MSE 41 B MSE 41 C 2 1.19 1.39 18.9 0.23 0.05 18.7 72 2 2 1 5 0 0 0  MSE 41 B MSE 41 C 3 1.19 1.39 27.7 1.65 0.64 12.3 74 2 3 1 6 0 0 0  MSE 41 B MSE 41 C HEZ 57 C 4 1.17 1.39 35.0 1.30 0.48 14.7 75 2 5 1 6 0 0 0  MSE 41 B MSE 41 C Residue-type_colouring Positive Negative Neutral Aliphatic Aromatic Pro & Gly Cysteine H,K,R D,E S,T,N,Q A,V,L,I,M F,Y,W P,G C Acknowledgement Tunnels were calculated by MOLE 2.0 program version 2.5.13.11.08 and visualized using Pymol 0.97rc.