PDBsum entry 5upd

Tunnel analysis for: 5upd calculated with

MOLE 2.0

PDB id

5upd

Tunnels calculated on whole structure

Tunnels calculated excluding ligands

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MOLEonline 2.0 manipulation
and
visualization
with HETATM:

without HETATM:

1 tunnel, 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

1.41

1.68

15.2

-0.03

0.37

11.9

55

1

0

1

1

5

1

1

UNX 1318 A

2

1.52

2.87

17.2

0.23

0.25

12.1

58

1

2

2

2

4

1

1

UNX 1318 A

3

1.13

1.18

19.8

-0.03

-0.07

2.9

70

2

3

2

1

1

3

6

UNX 1315 A UNX 1316 A

4

1.11

1.18

22.4

-0.36

-0.19

6.6

77

3

1

3

2

1

2

6

UNX 1315 A UNX 1316 A

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.