PDBsum entry 5u1d Go to PDB code:  Tunnel analysis for: 5u1d calculated with MOLE 2.0 PDB id 5u1d Tunnels calculated on whole structure Tunnels calculated excluding ligands View options MOLEonline 2.0 manipulation and visualization with HETATM: without HETATM:   3 tunnels, coloured by tunnel radius 3 tunnels, coloured by tunnel radius 3 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 1.05 1.81 54.4 0.24 0.18 12.8 81 5 2 5 13 3 0 0   2 1.19 3.46 73.8 0.20 0.01 7.0 75 4 0 7 11 3 4 0   3 1.19 2.03 74.4 0.02 0.06 11.7 73 5 2 5 10 3 1 1   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.