PDBsum entry 5dbm

Tunnel analysis for: 5dbm calculated with

MOLE 2.0

PDB id

5dbm

Tunnels calculated on whole structure

Tunnels calculated excluding ligands

View options

MOLEonline 2.0 manipulation
and
visualization
with HETATM:

without HETATM:

4 tunnels, coloured by tunnel radius

10 tunnels, coloured by tunnel radius

10 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

1.29

1.37

15.4

-2.34

-0.41

17.5

71

1

2

3

2

1

1

0

2

1.58

1.57

15.4

2.16

0.64

3.3

77

1

2

0

6

2

2

0

58N 1201 B

3

1.46

1.46

17.1

-1.60

-0.38

10.4

70

1

4

2

2

4

3

0

4

1.57

1.58

17.6

1.79

0.56

4.3

77

1

2

0

6

2

2

0

58N 1201 B

5

1.52

1.52

20.0

-0.85

-0.47

10.4

78

2

2

2

5

2

6

0

6

1.34

1.34

22.1

-1.42

-0.27

13.3

61

2

3

3

4

3

3

0

7

1.48

1.54

16.3

2.15

0.63

3.3

79

1

2

1

6

3

2

0

58N 1201 A

8

1.46

1.54

20.5

1.67

0.50

4.8

77

1

2

0

6

3

2

0

58N 1201 A

9

1.37

1.55

23.9

1.47

0.33

3.4

76

0

3

2

7

3

3

0

58N 1201 A

10

1.38

1.38

18.1

0.86

0.31

1.7

85

0

0

4

7

1

3

0

58N 1201 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.