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PDBsum entry 9nnh
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Top Page protein dna_rna ligands Protein-protein interface(s) pores links
Pore analysis for: 9nnh calculated with MOLE 2.0 PDB id
9nnh
Pores calculated on whole structure Pores calculated excluding ligands
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30 pores, coloured by radius 30 pores, coloured by radius 30 pores, coloured as in
list below
Pores are connected internal spaces going through the structure. Only pores longer than 25 Å are shown.
Pores
Free R
Length
HPathy
HPhob
Polar
Rel Mut
Residue..type
Ligands
Radius
1 1.65 1.65 58.4 -0.68 -0.54 10.6 93 1 1 1 3 0 0 0  DT 71 M DA 72 M DC 73 M DG 74 M U 58 X G 59 X A
60 X A 61 X C 62 X U 64 X A 65 X
2 2.12 2.19 67.6 -0.78 -0.17 13.7 77 3 7 3 4 3 1 0  DG 5 N DA 7 N DA 8 N DA 63 N DC 64 N DC 66 N
3 2.01 2.05 74.2 -1.67 -0.67 20.6 80 7 9 4 3 1 1 0  U 27 L G 29 L U 30 L G 32 L A 40 L G 41 L C 42 L
C 43 L A 44 L G 45 L A 46 L U 54 L U 55 L DG 5 N
DA 63 N DC 64 N
4 2.23 3.08 77.0 -1.05 -0.46 14.4 87 3 3 6 6 2 0 0  DA 22 N DA 23 N DC 24 N DC 25 N DT 48 N DG 49 N
5 1.43 1.45 78.4 -1.10 -0.55 10.7 84 3 2 7 4 1 2 0  DA 8 N DG 9 N DC 10 N DG 11 N DA 12 N DA 13 N DA
14 N DA 22 N DA 23 N DA 52 N DC 53 N DA 54 N DC
55 N DA 62 N DA 63 N
6 1.96 2.14 81.8 -1.74 -0.55 20.3 80 8 4 2 1 2 0 0  DT 71 M DA 72 M DC 73 M DG 74 M DT 75 M DT 76 M U
27 X A 28 X G 29 X U 30 X G 32 X U 39 X A 40 X G
41 X C 42 X U 55 X U 57 X U 58 X G 59 X A 60 X A
61 X C 62 X
7 2.24 2.36 81.0 -0.99 -0.24 19.7 83 7 5 2 3 1 1 0  DA 69 M DA 70 M DT 71 M DA 72 M DC 73 M DG 74 M
DT 75 M DT 76 M DA 28 N DG 29 N DG 31 N DA 32 N
DG 34 N DA 35 N DG 38 N DA 39 N U 57 X U 58 X G
59 X A 60 X A 61 X C 62 X A 65 X
8 1.43 1.43 87.3 -0.95 -0.43 15.3 75 3 2 0 2 1 1 0  DA 69 M DA 70 M DT 71 M DA 72 M DC 73 M DG 74 M
DT 75 M DT 76 M DA 22 N DA 23 N DA 32 N DG 33 N
DG 34 N DA 35 N DC 41 N DT 42 N DC 43 N U 57 X U
58 X G 59 X A 60 X A 61 X C 62 X A 65 X
9 1.89 2.04 94.5 -2.08 -0.65 24.2 84 15 7 4 3 0 1 0  DA 28 N DG 29 N DG 31 N DG 38 N DA 39 N U 27 X A
28 X G 29 X U 30 X G 32 X A 40 X G 41 X C 42 X U
54 X U 55 X
10 2.01 2.19 100.4 -1.44 -0.46 18.1 79 8 5 5 6 2 2 0  U 27 L G 29 L U 30 L G 32 L A 40 L G 41 L C 42 L
C 43 L A 44 L G 45 L A 46 L U 54 L U 55 L DG 5 N
DA 7 N DA 8 N DC 64 N DC 66 N
11 3.60 3.60 101.3 -1.18 -0.27 21.7 86 8 6 3 5 1 0 0  DA 69 M DA 70 M DT 71 M DA 72 M DC 73 M DA 28 N
DG 29 N DG 31 N DA 32 N DG 34 N DA 35 N DG 38 N D
A 39 N U 64 X A 65 X
12 2.04 2.04 108.9 -1.24 -0.55 11.8 83 3 5 9 3 2 2 0  DG 6 N DA 7 N DA 8 N DC 10 N DG 11 N DA 12 N DA
13 N DA 14 N DA 22 N DA 23 N DA 52 N DC 53 N DA
54 N DC 55 N DT 56 N DT 57 N DT 58 N DC 59 N DG
60 N
13 1.44 1.44 107.6 -1.11 -0.44 17.8 83 4 3 1 4 1 0 0  DA 69 M DA 70 M DT 71 M DA 72 M DC 73 M DA 22 N D
A 23 N DA 32 N DG 33 N DG 34 N DA 35 N DC 41 N DT
42 N DC 43 N U 64 X A 65 X
14 1.43 1.44 109.6 -1.53 -0.60 19.2 84 9 7 6 4 2 0 0  DA 22 N DA 23 N DA 28 N DG 29 N DG 31 N DA 32 N
DG 33 N DG 34 N DG 38 N DA 39 N DC 41 N DT 42 N
DC 43 N
15 1.45 1.65 111.8 -1.69 -0.59 21.8 90 10 7 9 5 1 1 0  ADP 601 F DA 22 N DA 23 N DT 42 N DC 43 N DG 44 N
DG 45 N
16 1.49 1.49 118.9 -1.56 -0.55 22.2 81 8 10 3 7 1 0 0  DT 71 M DA 72 M DC 73 M U 27 X A 28 X G 29 X U 38
X U 39 X A 40 X G 41 X A 65 X
17 2.06 3.47 132.6 -1.23 -0.45 16.5 82 6 7 12 7 3 2 0  DG 11 N DA 12 N DA 13 N DA 14 N DA 22 N DA 23 N D
A 52 N DC 53 N DA 54 N DC 55 N DT 56 N DT 57 N
18 1.37 1.37 143.4 -1.91 -0.63 19.0 84 13 10 16 4 4 3 0  ADP 601 F DA 8 N DG 9 N DC 10 N DG 11 N DA 12 N
DG 20 N DC 21 N DG 45 N DA 54 N DA 62 N DA 63 N U
48 X U 50 X
19 1.95 1.95 155.3 -1.62 -0.69 17.1 81 10 6 8 2 1 3 0  U 27 L G 29 L U 30 L G 32 L A 40 L G 41 L C 42 L
C 43 L A 44 L G 45 L A 46 L U 54 L U 55 L DG 5 N
DG 6 N DA 7 N DC 10 N DG 11 N DA 12 N DA 13 N DA
14 N DA 22 N DA 23 N DA 52 N DC 53 N DA 54 N DC
55 N DT 56 N DT 57 N DT 58 N DC 59 N DG 60 N DA
62 N
20 2.05 3.32 153.2 -1.43 -0.50 22.3 81 8 13 7 8 3 0 0  DG 5 N DG 6 N DT 16 N DG 17 N DT 56 N DT 57 N DT
58 N DC 59 N DG 60 N DA 62 N DA 63 N DC 64 N
21 1.32 1.58 157.9 -1.37 -0.26 19.4 80 13 11 9 12 5 4 0  U 50 X
22 1.42 1.42 157.2 -1.42 -0.49 21.7 77 9 11 2 6 2 0 0  DA 69 M DA 70 M DT 71 M DA 22 N DA 23 N DA 32 N
DG 33 N DG 34 N DA 35 N DC 41 N DT 42 N DC 43 N U
27 X A 28 X G 29 X U 38 X U 39 X A 40 X G 41 X
23 1.77 1.88 173.9 -1.96 -0.62 19.2 84 14 13 17 3 5 3 0  ADP 601 F DG 6 N DA 7 N DA 8 N DC 10 N DG 11 N DA
12 N DG 20 N DC 21 N DG 45 N DA 54 N DC 55 N DT
56 N DT 57 N DT 58 N DC 59 N DG 60 N U 48 X U 50 X
24 1.31 1.63 180.4 -1.54 -0.40 15.4 82 11 10 13 11 4 3 0  DC 21 N DA 22 N DA 23 N DA 52 N DC 53 N DA 54 N
25 1.30 2.02 187.8 -1.25 -0.23 16.3 82 11 10 12 14 5 4 0  
26 1.29 2.09 204.1 -1.39 -0.33 22.1 81 15 13 6 14 4 3 0  DA 28 N DG 29 N DG 31 N DG 38 N DA 39 N
27 1.73 1.78 201.5 -1.08 -0.44 18.3 89 12 11 10 12 1 0 0  DT 18 N DC 19 N DG 46 N DT 47 N DT 48 N DG 49 N
DC 50 N
28 1.36 1.35 211.7 -1.37 -0.56 17.1 87 12 10 18 11 1 2 0  DA 8 N DG 9 N DC 10 N DG 11 N DA 12 N DG 20 N DC
21 N DG 46 N DT 47 N DT 48 N DA 54 N DA 62 N DA
63 N
29 1.55 1.48 238.9 -1.48 -0.47 22.6 86 14 15 15 13 2 0 0  DG 17 N DT 18 N DC 19 N DG 46 N DT 47 N DT 48 N
DG 49 N DC 50 N DT 57 N
30 1.82 1.77 262.9 -1.25 -0.58 17.6 87 12 14 11 12 1 0 0  DG 6 N DA 7 N DA 8 N DT 16 N DG 17 N DT 18 N DC
19 N DG 46 N DT 47 N DT 48 N DG 49 N DC 50 N DT
56 N DT 57 N DT 58 N DC 59 N

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
Pores were calculated by MOLE 2.0 program version 2.5.13.11.08 and visualized using Pymol 0.97rc.
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