PDBsum entry 2pdp

Tunnel analysis for: 2pdp calculated with

MOLE 2.0

PDB id

2pdp

Tunnels calculated on whole structure

Tunnels calculated excluding ligands

View options

MOLEonline 2.0 manipulation
and
visualization
with HETATM:

without HETATM:

1 tunnel, 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

2.06

2.31

16.0

-1.56

-0.17

19.4

75

3

2

3

2

3

1

0

NAP 500 A

2

1.90

1.91

16.6

-1.64

-0.15

19.6

74

3

2

2

2

3

1

0

NAP 500 A

3

1.99

4.91

18.2

-0.47

1.11

7.4

55

1

1

1

1

7

1

1

NAP 500 A 393 600 A

4

1.98

4.92

18.5

-0.40

1.14

6.5

52

1

1

0

1

7

1

1

NAP 500 A 393 600 A

5

1.44

1.54

30.8

-0.09

0.84

6.2

57

2

2

1

3

7

0

1

NAP 500 A 393 600 A

6

1.44

1.53

31.1

-0.14

0.85

7.1

56

2

2

0

3

7

0

1

NAP 500 A 393 600 A

7

1.21

1.55

25.7

-1.16

-0.38

16.2

89

3

1

2

2

1

1

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.