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PDBsum entry 1j5o
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Top Page protein dna_rna Protein-protein interface(s) pores links
Pore analysis for: 1j5o calculated with MOLE 2.0 PDB id
1j5o
Pores calculated on whole structure Pores calculated excluding ligands
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26 pores, coloured by radius 26 pores, coloured by radius 26 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 1.19 1.19 29.7 -0.15 -0.06 6.9 74 0 3 1 3 3 0 0  DA 801 T DT 802 T
2 1.18 1.31 30.5 0.04 0.00 6.0 88 0 2 2 2 2 1 0  
3 1.55 1.54 48.1 -1.47 -0.69 16.5 86 2 1 0 1 0 0 0  DT 828 P DT 829 P DC 830 P DG 832 P DG 833 P DC
834 P DA 801 T DT 802 T DG 803 T DG 804 T DC 805
T DG 806 T DC 808 T DC 809 T DG 810 T DA 811 T DA
812 T
4 1.41 1.40 58.2 -0.86 -0.42 17.3 81 7 4 1 5 1 1 0  DC 830 P DG 831 P DG 832 P DA 801 T DT 802 T DG
803 T DG 804 T DC 805 T
5 1.40 1.40 66.3 -0.93 -0.34 18.6 83 4 3 1 6 1 1 0  DT 828 P DT 829 P DC 830 P DG 832 P DG 804 T DC
805 T DG 806 T DC 808 T DC 809 T DG 810 T DA 811
T DA 812 T
6 1.36 1.38 67.7 -0.82 -0.31 10.1 90 3 1 8 3 1 1 0  
7 1.41 1.41 68.2 -1.10 -0.49 19.9 80 7 7 1 5 1 1 0  DT 829 P DC 830 P DG 804 T DC 805 T DA 814 T DG
815 T DG 816 T DG 817 T DA 818 T DC 819 T
8 1.22 1.22 76.6 -1.48 -0.40 15.1 74 3 4 3 3 3 1 0  DT 828 P DT 829 P DC 830 P DG 832 P DA 838 P DA
801 T DT 802 T DG 803 T DG 804 T DC 805 T DG 806
T DC 808 T DC 809 T DG 810 T DA 811 T DA 812 T
9 1.23 1.23 78.6 -1.51 -0.52 17.1 74 6 8 3 2 3 1 0  DT 829 P DC 830 P DA 838 P DA 801 T DT 802 T DG
803 T DG 804 T DC 805 T DA 814 T DG 815 T DG 816
T DG 817 T DA 818 T DC 819 T
10 2.59 2.75 80.6 -1.81 -0.70 24.5 81 6 5 0 2 0 0 0  DT 828 P DT 829 P DC 830 P DG 832 P DG 806 T DC
808 T DC 809 T DG 810 T DA 811 T DA 812 T DG 815
T DG 816 T DG 817 T DA 818 T DC 819 T
11 1.34 1.35 82.9 -0.06 -0.26 6.3 88 2 2 10 8 2 1 0  
12 1.22 2.42 107.9 -0.81 -0.09 19.6 84 10 5 6 10 3 1 0  
13 1.70 3.33 112.2 -1.65 -0.42 21.7 77 11 8 1 5 5 2 0  DT 829 P DC 830 P DG 806 T DG 815 T DG 816 T DG
817 T DA 818 T DC 819 T
14 1.19 1.69 118.1 -1.30 -0.41 16.9 76 9 9 5 7 6 1 0  DT 829 P DC 830 P DA 838 P DA 801 T DT 802 T DG
803 T DG 804 T DC 805 T
15 1.39 3.60 122.1 -1.43 -0.44 10.2 87 5 4 10 7 6 0 0  DC 825 P DT 826 P DG 827 P DG 816 T DG 817 T DA
818 T DC 819 T
16 1.46 1.50 130.9 -1.41 -0.39 18.1 78 11 5 2 4 5 2 0  DT 829 P DC 830 P DG 832 P DG 833 P DC 834 P DA
801 T DT 802 T DG 803 T DG 804 T DC 805 T DG 806 T
17 1.40 1.40 141.4 -1.17 -0.30 18.6 80 12 7 3 9 6 3 0  DT 829 P DC 830 P DG 804 T DC 805 T DG 806 T
18 1.77 3.16 150.7 -1.58 -0.40 20.9 80 10 5 2 5 5 2 0  DT 828 P DT 829 P DC 830 P DG 832 P DG 806 T DC
808 T DC 809 T DG 810 T DA 811 T DA 812 T
19 1.38 1.39 151.8 -1.41 -0.32 17.1 76 11 8 5 6 8 3 0  DT 829 P DC 830 P DA 838 P DA 801 T DT 802 T DG
803 T DG 804 T DC 805 T DG 806 T
20 1.29 2.39 156.9 -1.84 -0.40 25.1 78 12 9 2 6 6 1 0  DT 828 P DT 829 P DC 830 P DG 832 P DG 806 T DC
808 T DC 809 T DG 810 T DA 811 T DA 812 T
21 1.14 2.53 155.8 -1.67 -0.35 20.4 80 12 8 9 6 4 4 0  
22 1.16 2.27 170.1 -1.72 -0.42 21.8 80 11 12 9 6 6 5 0  
23 1.10 2.35 173.8 -1.23 -0.25 18.0 81 12 8 8 8 6 3 0  
24 1.17 2.28 177.5 -1.49 -0.38 19.0 82 11 10 10 6 6 3 0  
25 1.30 2.36 280.6 -1.17 -0.32 17.4 78 16 15 11 14 10 5 0  DT 829 P DC 830 P DG 804 T DC 805 T DG 806 T
26 1.29 2.33 285.8 -1.57 -0.36 18.8 78 16 16 13 8 11 5 0  DT 829 P DC 830 P DA 838 P DA 801 T DT 802 T DG
803 T DG 804 T DC 805 T DG 806 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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