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PDBsum entry 3rmb
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Top Page protein dna_rna ligands Protein-protein interface(s) pores links
Pore analysis for: 3rmb calculated with MOLE 2.0 PDB id
3rmb
Pores calculated on whole structure Pores calculated excluding ligands
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43 pores, coloured by radius 43 pores, coloured by radius 43 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 2.01 2.01 30.0 -2.52 -0.88 30.2 81 3 6 1 0 0 0 0  
2 2.75 4.40 30.9 -0.93 -0.09 20.0 83 3 5 3 2 3 0 0  
3 3.01 3.25 32.0 -1.53 -0.37 17.5 86 2 3 3 2 1 0 0  DC 1 G DG 2 G CTG 4 G DG 5 G DA 6 G DA 7 G DT 111
H DT 112 H
4 2.94 3.08 38.5 -1.69 -0.56 18.9 86 2 3 5 1 2 0 0  DC 1 G DG 2 G DC 3 G CTG 4 G DT 111 H DT 112 H DA
114 H
5 2.91 2.92 46.2 -0.98 -0.43 10.8 83 4 2 4 2 2 0 0  DC 1 I DG 2 I DC 3 I CTG 4 I DT 111 J DT 112 J DC
113 J DA 114 J
6 2.96 2.96 46.4 -0.74 -0.03 22.5 82 3 4 0 4 1 0 0  DG 2 G DC 3 G CTG 4 G DG 5 G DA 6 G DA 7 G DT 112
H DC 113 H DA 114 H
7 1.71 1.86 56.1 -2.28 -0.69 27.4 83 7 8 5 2 1 0 0  
8 2.91 2.93 64.1 -1.39 -0.24 14.9 82 6 4 4 2 2 0 0  DC 1 I DG 2 I DG 5 I DT 111 J
9 2.96 2.96 64.7 -1.58 -0.39 21.2 84 5 7 4 4 2 0 0  DC 1 G DT 111 H DT 112 H DC 113 H DA 114 H
10 1.72 1.90 65.7 -2.25 -0.76 26.6 79 11 8 2 1 0 0 0  
11 3.47 3.47 68.3 -0.97 -0.11 16.1 78 6 2 2 4 3 0 0  DG 2 I DC 3 I CTG 4 I DG 5 I DT 111 J DT 112 J DC
113 J DA 114 J
12 2.60 4.31 71.4 -1.21 -0.31 16.3 84 6 4 7 4 5 0 0  DC 1 I DG 2 I DC 3 I CTG 4 I DT 111 J DT 112 J DC
113 J DA 114 J
13 3.03 3.32 80.1 -0.73 -0.26 13.2 83 4 4 7 4 4 0 0  DC 1 G DG 2 G DC 3 G CTG 4 G DT 111 H DT 112 H DA
114 H
14 1.57 1.57 86.0 -0.75 -0.42 13.2 81 5 6 3 2 2 3 0  DG 5 G DA 6 G DA 7 G DG 9 G DA 10 G DC 11 G DA 12
G DC 102 H DG 103 H DG 104 H DT 108 H DC 109 H DA
110 H DT 111 H
15 2.53 4.38 90.0 -1.43 -0.21 18.2 83 8 5 7 4 5 0 0  DC 1 I DG 2 I DG 5 I DT 111 J
16 1.44 1.50 95.8 -0.40 -0.16 10.8 80 5 1 2 2 2 2 0  DG 5 G DA 6 G DA 7 G DA 10 G DC 11 G DA 12 G DC
102 H DT 108 H DC 109 H DA 110 H DT 111 H
17 1.29 1.29 30.1 -1.55 -0.34 17.6 75 3 2 1 0 2 0 0  
18 2.36 2.50 33.3 -0.90 -0.12 16.8 85 1 4 4 2 3 1 0  
19 3.72 4.01 34.3 -1.99 -0.46 21.8 87 2 3 5 2 2 0 0  DC 1 E DG 2 E CTG 4 E DG 5 E DT 111 F
20 3.19 4.93 34.7 -0.69 -0.08 9.9 82 1 5 3 2 3 2 0  
21 2.38 2.46 37.6 -1.61 -0.42 20.4 85 2 5 4 1 3 0 0  
22 1.33 1.33 47.1 0.13 -0.14 11.3 99 2 0 2 6 0 0 0  DA 10 E DC 11 E DA 12 E DC 102 F DG 103 F
23 3.68 3.67 47.4 -1.34 -0.48 19.1 84 3 4 2 1 1 1 0  DG 2 E DC 3 E CTG 4 E DG 5 E DA 6 E DA 7 E DT 111
F DT 112 F DC 113 F DA 114 F
24 2.36 2.50 47.5 -2.08 -0.52 22.6 86 2 4 6 1 2 1 0  DC 1 E DG 2 E CTG 4 E DG 5 E DA 6 E DA 7 E DT 108
F DT 111 F
25 1.29 1.30 48.2 -2.32 -0.50 24.2 78 7 4 4 1 2 0 1  
26 1.30 1.30 52.0 -0.95 -0.01 15.6 73 5 2 0 2 2 1 0  DG 2 E DA 7 E
27 3.19 4.76 54.4 -1.63 -0.30 15.8 84 3 3 6 2 4 1 0  DC 1 E DG 2 E CTG 4 E DG 5 E DA 6 E DA 7 E DT 108
F DT 111 F
28 1.32 1.32 55.6 -1.36 -0.62 14.9 85 4 0 2 0 0 1 0  DA 7 E DA 10 E DC 11 E DA 12 E DC 102 F DG 103 F
DG 107 F DT 108 F DC 109 F
29 2.31 2.46 69.8 -2.02 -0.60 23.8 87 5 9 9 0 3 0 0  DC 1 E DG 2 E DC 3 E CTG 4 E DT 111 F DT 112 F DC
113 F DA 114 F
30 1.34 1.34 72.0 -0.33 -0.35 11.5 90 4 4 4 4 1 1 0  DG 9 E DA 10 E DC 11 E DG 103 F DG 104 F DC 105 F
DT 106 F
31 1.30 1.37 71.7 -2.26 -0.55 24.9 85 8 5 6 3 2 0 0  DC 17 K DG 18 K DG 101 L
32 3.18 4.72 76.8 -1.90 -0.49 20.3 85 6 8 9 1 5 0 0  DC 1 E DG 2 E DC 3 E CTG 4 E DT 111 F DT 112 F DC
113 F DA 114 F
33 1.92 1.92 113.8 -1.35 -0.27 14.9 86 3 4 9 5 5 2 0  DC 1 E DG 2 E CTG 4 E DG 5 E DT 111 F
34 1.25 1.26 39.2 0.01 -0.12 5.9 74 1 0 2 3 2 1 0  DG 2 K DC 3 K CTG 4 K DG 5 K DC 113 L DA 114 L
35 2.98 2.98 42.9 -0.89 -0.12 11.7 75 3 2 1 1 2 0 0  DC 1 K DG 2 K DC 3 K CTG 4 K DG 5 K DC 113 L DA
114 L
36 2.47 2.65 83.7 -1.46 -0.30 18.2 81 5 4 8 2 6 0 0  DT 111 L DT 112 L DC 113 L DA 114 L
37 1.23 1.25 97.8 -0.53 -0.29 7.7 81 3 0 7 4 3 4 0  DG 2 K DC 3 K CTG 4 K DG 5 K DA 7 K DA 10 K DC 11
K DA 12 K DG 13 K DC 14 K DG 107 L DT 108 L DC
109 L
38 1.31 1.28 103.0 -1.03 -0.17 14.1 81 6 4 10 7 7 1 0  DG 2 K DC 3 K CTG 4 K DG 5 K DT 111 L DT 112 L
39 1.32 1.32 104.0 -0.94 -0.33 12.4 77 6 1 4 1 4 3 0  DG 2 K CTG 4 K DG 5 K DA 7 K DA 10 K DC 11 K DA
12 K DG 13 K DC 14 K DG 107 L DT 108 L DC 109 L
DT 111 L DT 112 L DC 113 L DA 114 L
40 1.43 1.43 110.6 0.31 0.21 10.7 81 5 5 5 12 6 1 0  DC 113 L DA 114 L
41 1.16 1.28 33.6 -1.43 -0.73 16.0 88 3 2 2 0 0 1 0  DG 9 I DA 10 I DC 11 I DG 104 J DC 105 J
42 1.33 1.35 34.4 -1.31 -0.62 15.0 85 4 0 3 0 1 1 0  DA 10 I DC 11 I DA 12 I DG 13 I DC 14 I DG 103 J
DT 106 J DG 107 J DT 108 J
43 1.34 1.35 35.2 -1.25 -0.44 12.0 80 5 0 3 0 2 1 0  DA 10 I DC 11 I DG 103 J DT 108 J DC 109 J

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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