PDBsum entry 3d9d

Tunnel analysis for: 3d9d calculated with

MOLE 2.0

PDB id

3d9d

Tunnels calculated on whole structure

Tunnels calculated excluding ligands

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MOLEonline 2.0 manipulation
and
visualization
with HETATM:

without HETATM:

6 tunnels, coloured by tunnel radius

7 tunnels, coloured by tunnel radius

7 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

1.19

2.39

21.6

1.22

0.39

9.2

84

1

3

2

8

1

0

0

2

1.17

2.41

22.6

1.31

0.42

8.9

84

1

3

2

8

1

0

0

3

1.24

2.44

18.7

1.86

0.64

6.6

84

1

2

2

8

1

0

0

4

1.41

1.69

16.1

-1.22

-0.49

9.8

73

0

2

2

1

1

1

0

5

1.39

1.69

16.4

-1.74

-0.83

8.8

80

0

2

2

0

0

1

0

6

1.29

1.38

17.3

-0.56

0.02

8.5

80

1

0

2

2

2

0

0

7

1.36

1.35

19.3

-0.82

-0.43

19.6

77

2

5

0

3

2

0

0

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.