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PDBsum entry 6b6h
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Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 6b6h calculated with MOLE 2.0 PDB id
6b6h
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 1.86 1.86 40.8 -2.33 -0.50 29.9 73 8 2 1 5 1 2 0  
2 1.28 2.71 77.9 0.99 0.11 4.6 77 2 2 3 15 0 1 1  DA 35 1 DG 36 1 DT 40 1 DT 41 1 DA 48 2 DA 49 2
DG 50 2
3 1.19 1.20 82.6 -0.67 -0.18 15.4 85 8 5 5 12 2 0 0  DA 4 1 DA 5 1 DT 6 1 DG 7 1 DT 8 1 DT 85 2 DT 86
2 DT 87 2 DA 88 2 CMP 301 G
4 1.12 2.68 87.3 1.24 0.44 7.5 72 3 3 2 16 3 1 1  
5 1.51 1.52 91.6 -1.55 -0.42 20.9 83 8 5 1 5 1 2 1  
6 1.51 1.53 97.2 -2.24 -0.56 26.5 85 11 9 4 7 1 1 1  
7 1.33 1.32 104.0 -1.58 -0.53 23.3 84 11 9 1 8 0 0 0  DT 40 1 DT 41 1 DT 46 2 DC 47 2 DA 48 2 DA 49 2
8 1.68 1.65 124.9 -0.28 -0.05 12.7 81 7 5 9 14 4 1 1  CMP 301 G
9 2.97 3.07 125.7 -1.41 -0.42 23.2 78 16 12 1 7 0 2 2  DA 59 1 DT 60 1 DG 61 1 DT 34 2 DG 35 2
10 1.33 1.35 136.4 0.22 0.04 11.1 82 4 6 9 20 1 1 0  CMP 301 G
11 1.93 1.93 134.5 -2.12 -0.65 19.9 85 19 8 16 7 1 3 0  DG 16 2 DT 17 2 GTP 1 3 DA 2 3 DG 3 3
12 1.87 1.86 142.9 -1.93 -0.53 22.8 81 14 6 9 7 3 4 0  DG 80 1 DA 81 1 DC 82 1 DG 83 1 DC 84 1 DG 2 2 DC
3 2 DC 4 2
13 2.37 2.61 145.4 -2.56 -0.67 25.2 83 19 10 12 3 2 3 0  DC 78 1 DT 79 1 DG 80 1 DA 81 1 DC 82 1 DG 83 1
DC 84 1 DG 2 2 DC 3 2 DC 4 2 DG 5 2 DC 6 2 DG 7 2
DT 8 2 DC 9 2 DG 11 2 DG 16 2 DT 17 2 GTP 1 3
14 1.70 2.01 147.1 -2.34 -0.55 28.0 85 17 12 9 5 1 2 0  
15 1.41 1.71 154.4 -0.60 -0.25 16.7 80 12 9 5 22 0 1 1  DA 35 1 DG 36 1 DT 46 2 DC 47 2 DA 48 2 DA 49 2
16 0.85 0.77 162.4 -1.62 -0.40 24.8 86 17 9 7 11 1 3 0  
17 1.34 1.34 164.0 -0.52 -0.21 11.8 77 7 2 4 10 3 1 1  DA 26 1 DA 35 1 DG 36 1 DT 40 1 DT 41 1 DA 48 2 D
A 49 2 DG 50 2 DT 58 2 DT 59 2
18 1.54 2.85 167.2 -1.90 -0.58 25.2 84 14 9 7 8 1 3 0  
19 1.34 1.65 174.8 -0.54 -0.23 16.6 73 17 8 3 21 0 2 3  DA 35 1 DG 36 1 DC 47 1 DC 48 1 DA 59 1 DT 60 1
DG 61 1 DT 34 2 DG 35 2 DT 46 2 DC 47 2 DA 48 2 D
A 49 2
20 1.34 1.35 191.7 -0.89 -0.34 15.2 80 13 5 8 11 3 1 1  DA 4 1 DA 5 1 DT 6 1 DG 7 1 DT 8 1 DA 14 1 DG 15
1 DG 77 2 DA 78 2 DT 79 2 DC 80 2 DT 85 2 DT 86 2
DT 87 2 DA 88 2
21 1.33 1.33 214.8 -0.89 -0.35 14.0 85 9 5 12 14 1 2 0  DA 26 1 DA 35 1 DG 36 1 DT 40 1 DT 41 1 DA 48 2 D
A 49 2 DG 50 2 DT 58 2 DT 59 2 CMP 301 G
22 1.89 1.89 225.0 -1.56 -0.50 19.5 79 25 15 17 13 2 5 2  DA 59 1 DT 60 1 DG 61 1 DG 16 2 DT 17 2 DA 18 2
DG 19 2 DT 34 2 DG 35 2 DA 36 2 GTP 1 3 DA 2 3 DG
3 3
23 1.36 1.36 233.2 -1.61 -0.55 19.0 81 24 12 18 15 2 4 0  DT 40 1 DT 41 1 DC 47 1 DC 48 1 DG 16 2 DT 17 2 D
A 18 2 DG 19 2 DT 46 2 DC 47 2 DA 48 2 DA 49 2
GTP 1 3 DA 2 3 DG 3 3
24 1.74 2.18 240.5 -1.05 -0.34 18.1 80 18 9 6 17 3 1 1  DA 26 1 DA 35 1 DG 36 1 DT 46 2 DC 47 2 DA 48 2 D
A 49 2 DT 58 2 DT 59 2
25 1.57 1.88 255.4 -0.81 -0.36 13.8 80 22 10 19 28 1 4 1  DA 35 1 DG 36 1 DC 47 1 DC 48 1 DG 16 2 DT 17 2 D
A 18 2 DG 19 2 DT 46 2 DC 47 2 DA 48 2 DA 49 2
GTP 1 3 DA 2 3 DG 3 3
26 1.73 2.28 261.0 -0.97 -0.31 18.2 74 23 8 4 16 3 2 3  DA 26 1 DA 35 1 DG 36 1 DC 47 1 DC 48 1 DA 59 1
DT 60 1 DG 61 1 DT 34 2 DG 35 2 DT 46 2 DC 47 2 D
A 48 2 DA 49 2 DT 58 2 DT 59 2
27 1.28 1.28 267.9 -1.95 -0.56 22.0 84 27 18 16 16 2 7 1  DA 75 1 DG 76 1 DG 86 1 DC 87 1 DG 88 1 DC 6 2 DG
7 2 DG 16 2 DT 17 2 GTP 1 3
28 1.20 1.17 269.5 -1.55 -0.70 16.8 81 16 7 7 4 1 1 0  DA 4 1 DA 5 1 DT 6 1 DG 7 1 DT 8 1 DA 14 1 DG 15
1 DA 16 1 DT 17 1 DA 26 1 DG 27 1 DA 35 1 DG 36 1
DT 40 1 DT 41 1 DA 48 2 DA 49 2 DG 50 2 DT 58 2
DT 59 2 DA 66 2 DA 67 2 DA 76 2 DG 77 2 DA 78 2
DT 79 2 DC 80 2 DT 85 2 DT 86 2 DT 87 2 DA 88 2
29 1.66 1.76 291.3 -1.12 -0.40 17.9 85 19 12 14 21 1 2 0  DA 26 1 DA 35 1 DG 36 1 DT 46 2 DC 47 2 DA 48 2 D
A 49 2 DT 58 2 DT 59 2 DG 60 2 CMP 301 G
30 1.55 1.58 311.8 -1.06 -0.37 17.8 79 23 11 12 20 1 3 2  DA 26 1 DA 35 1 DG 36 1 DC 47 1 DC 48 1 DA 59 1
DT 60 1 DG 61 1 DT 34 2 DG 35 2 DT 46 2 DC 47 2 D
A 48 2 DA 49 2 DT 58 2 DT 59 2 CMP 301 G

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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