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PDBsum entry 4y52
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Top Page protein dna_rna metals Protein-protein interface(s) pores links
Pore analysis for: 4y52 calculated with MOLE 2.0 PDB id
4y52
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 2.21 2.29 32.0 -0.65 -0.49 7.8 79 3 0 1 3 0 1 0  DA 7 N DG 14 N DC 5 T DG 6 T DA 7 T DT 8 T
2 2.94 2.94 37.1 -0.73 -0.82 5.5 100 0 1 3 0 0 0 0  DA 7 N DT 8 N DC 9 N DG 10 N DA 9 T DA 10 T DG 11
T DC 12 T
3 2.17 2.36 38.1 -0.78 -0.52 8.7 81 4 0 1 3 0 1 0  DT 6 N DG 14 N DG 6 T DA 7 T DT 8 T
4 2.61 2.61 44.0 -0.69 -0.75 5.4 76 1 0 1 0 0 2 0  DA 7 N DT 8 N DC 9 N DG 10 N DG 11 N DA 13 N DG
14 N DG 6 T DA 7 T DT 8 T DA 9 T DA 10 T DG 11 T
DC 12 T
5 1.83 1.87 58.2 -2.10 -0.65 21.6 80 7 4 5 0 1 5 0  DG 14 N DG 6 T
6 3.62 3.62 61.2 -1.33 -0.67 15.5 85 4 5 3 3 1 0 0  DG 3 N DC 4 N DT 5 N DT 8 T DA 9 T DG 14 T DA 15
T DC 16 T
7 2.86 3.28 62.9 -1.44 -0.72 11.1 89 5 1 4 3 0 2 0  DG 3 N DT 5 N DT 6 N DA 7 N DT 8 N DC 9 N DT 8 T
DA 9 T DA 10 T DG 11 T DC 12 T
8 2.78 3.74 68.3 -1.01 -0.49 14.6 81 6 4 3 8 0 2 0  DG 3 N DC 4 N DT 5 N DG 14 N DG 6 T DT 8 T DG 14
T DA 15 T DC 16 T
9 1.27 1.27 68.7 -2.14 -0.71 17.2 86 6 4 6 2 1 1 0  DG 3 N DT 5 N DT 6 N DT 8 T DA 9 T
10 1.88 1.91 69.4 -1.39 -0.47 16.7 82 7 3 4 4 1 4 0  DG 3 N DT 5 N DT 6 N DT 8 T DA 9 T
11 1.26 1.27 70.0 -1.84 -0.50 17.0 82 5 5 7 4 1 3 0  DG 14 N DG 6 T DT 8 T DA 9 T
12 1.35 1.33 76.4 -1.88 -0.73 13.1 89 3 3 7 1 0 2 0  DG 10 N DG 11 N DT 12 N DA 13 N DG 14 N DC 5 T DG
6 T DA 7 T DT 8 T DA 9 T DA 10 T
13 2.71 2.70 77.3 -1.21 -0.66 10.3 86 5 1 4 4 0 2 0  DG 3 N DA 7 N DT 8 N DC 9 N DC 5 T DG 6 T DA 7 T
DT 8 T DA 9 T DA 10 T DG 11 T DC 12 T
14 2.75 2.75 78.0 -1.88 -0.61 18.6 83 9 5 6 5 0 3 0  DC 1 N G 4 R DA 9 T DA 10 T DG 11 T DG 17 T DA 18
T 1CC 19 T DC 20 T
15 1.78 1.86 79.1 -1.09 -0.39 15.3 83 6 3 4 6 1 4 0  DA 7 N DC 5 T DG 6 T DA 7 T DT 8 T
16 2.56 2.61 81.4 -1.39 -0.45 18.9 82 8 5 4 6 1 4 0  DG 3 N DC 4 N DT 5 N DG 14 T DA 15 T DC 16 T
17 1.38 1.48 82.9 -1.46 -0.35 25.0 84 6 9 2 6 2 5 0  
18 1.35 1.32 83.1 -1.74 -0.66 14.4 85 6 4 6 4 1 1 0  DG 3 N DA 7 N DC 5 T DG 6 T DA 7 T DT 8 T DA 9 T
19 2.57 2.62 90.1 -1.55 -0.47 16.8 83 7 3 7 7 1 6 0  DA 7 N DT 8 N DC 9 N DT 8 T DA 9 T DA 10 T DG 11
T DC 12 T
20 1.43 1.37 96.2 -1.94 -0.46 20.4 83 8 6 9 6 2 5 0  DT 8 T DA 9 T
21 1.23 1.45 104.2 -1.45 -0.41 18.5 84 6 6 8 6 3 5 0  DG 10 N DT 8 T DA 9 T
22 1.99 1.99 114.9 -1.61 -0.64 18.4 82 9 7 4 4 0 2 0  DC 1 N DC 9 N DG 10 N DG 11 N DT 12 N DA 13 N DG
14 N G 4 R DC 5 T DG 6 T DA 7 T DT 8 T DA 9 T DA
10 T DG 11 T DG 17 T DA 18 T 1CC 19 T DC 20 T
23 1.37 2.68 116.2 -1.88 -0.53 21.4 89 12 6 9 6 0 2 0  DC 1 N DA 9 T DA 10 T DG 11 T DG 14 T
24 2.72 2.72 114.3 -1.63 -0.50 17.8 79 11 5 6 10 0 5 0  DC 1 N DG 14 N G 4 R DG 6 T DT 8 T DA 9 T DA 10 T
DG 11 T DG 17 T DA 18 T 1CC 19 T DC 20 T
25 1.34 2.47 153.0 -1.69 -0.60 20.9 88 12 9 7 5 0 1 0  DC 1 N DC 9 N DG 10 N DG 11 N DT 12 N DA 13 N DG
14 N DC 5 T DG 6 T DA 7 T DT 8 T DA 9 T DA 10 T
DG 11 T DG 14 T
26 1.45 2.67 152.4 -1.68 -0.48 20.0 84 14 6 9 11 0 4 0  DC 1 N DG 14 N DG 6 T DT 8 T DA 9 T DA 10 T DG 11
T DG 14 T
27 1.23 1.44 151.9 -1.47 -0.47 19.4 86 13 12 8 8 1 3 0  DC 1 N DC 9 N DG 10 N DG 11 N DT 12 N DA 13 N DG
14 N DC 5 T DG 6 T DA 7 T DT 8 T DA 9 T DA 10 T
DG 11 T
28 1.32 1.52 153.1 -1.45 -0.44 17.8 85 15 8 8 12 1 4 0  DC 1 N DG 3 N DA 7 N DC 5 T DG 6 T DA 7 T DT 8 T
DA 9 T DA 10 T DG 11 T
29 1.69 1.75 167.5 -1.38 -0.44 18.0 80 12 15 9 15 3 8 0  DG 14 N DG 6 T DT 8 T DA 9 T DA 10 T DG 11 T
30 2.72 2.92 186.9 -1.51 -0.46 19.3 81 16 13 13 13 2 5 0  DG 14 N DG 6 T DT 8 T DA 9 T DA 10 T DG 11 T

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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