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PDBsum entry 5w2c
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Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 5w2c calculated with MOLE 2.0 PDB id
5w2c
Pores calculated on whole structure Pores calculated excluding ligands
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15 pores, coloured by radius 24 pores, coloured by radius 24 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 1.11 1.35 26.7 0.03 -0.23 3.3 92 1 1 3 4 1 0 0  DA 10 T DT 11 T
2 3.33 3.33 26.7 -0.80 -0.40 13.4 83 3 2 2 2 1 0 0  DG 11 P DA 12 P LDG 6 T DC 8 T DG 9 T DA 10 T DT
11 T
3 1.48 1.60 34.4 -1.76 -0.29 25.8 86 7 2 2 6 0 0 0  DT 9 P DC 10 P DA 4 T
4 2.32 2.32 43.0 -1.74 -0.34 25.3 83 8 5 2 3 1 0 0  MG 601 B GOL 604 B DZ4 606 B DC 13 P LDG 6 T DT 7
T DC 8 T
5 2.24 2.24 47.9 -0.52 -0.33 6.6 86 4 0 6 3 2 4 0  DT 3 D DA 4 D DT 5 D DC 2 T
6 2.60 2.84 48.1 -0.73 0.01 14.3 77 8 4 2 4 2 4 0  GOL 604 B DT 3 D DC 2 T LDG 6 T DT 7 T
7 2.23 2.23 53.1 -1.35 -0.47 17.9 83 8 4 4 1 2 1 0  GOL 604 B DC 2 D DT 3 D DA 4 D DT 5 D LDG 6 D LDG
6 T DT 7 T
8 2.31 2.31 53.4 -1.45 -0.39 18.1 87 5 4 4 4 2 0 0  MG 601 B GOL 604 B DZ4 606 B DG 11 P DA 12 P DC
13 P LDG 6 T DT 7 T DC 8 T DG 9 T DA 10 T DT 11 T
9 2.20 2.20 56.1 -1.29 -0.41 17.1 81 6 4 3 2 3 0 0  MG 601 A GOL 604 A DZ4 608 A DG 11 C DA 12 C DC
13 C LDG 6 D DT 7 D DC 8 D DG 9 D DA 10 D DT 11 D
10 3.14 3.14 59.4 -1.88 -0.50 25.7 80 9 7 3 3 1 0 0  GOL 604 A GOL 604 B DG 11 C DA 12 C LDG 6 D DT 7
D DC 8 D DG 9 D DA 10 D DT 11 D LDG 6 T DT 7 T
11 2.34 2.61 62.6 -0.68 -0.10 12.8 80 8 3 3 3 3 4 0  MG 601 A GOL 604 A DZ4 608 A DC 13 C DT 3 D DT 5
D LDG 6 D DT 7 D DC 2 T
12 2.34 2.47 65.2 -0.63 -0.06 10.9 82 8 3 3 4 2 4 0  MG 601 B GOL 604 B DZ4 606 B DT 3 D DC 13 P DC 2
T DT 5 T LDG 6 T DT 7 T
13 2.24 2.24 66.3 -1.17 -0.53 12.9 86 8 3 5 0 3 1 0  MG 601 A GOL 604 A DZ4 608 A DC 13 C DC 2 D DT 3
D DA 4 D DT 5 D LDG 6 D DT 7 D
14 2.60 2.85 66.9 -0.45 -0.02 10.4 80 7 3 4 5 3 4 0  GOL 604 A DG 11 C DA 12 C DT 3 D LDG 6 D DT 7 D
DC 8 D DG 9 D DA 10 D DT 11 D DC 2 T
15 2.39 2.56 69.3 -2.27 -0.46 30.1 78 13 11 2 2 3 0 0  MG 601 A GOL 604 A DZ4 608 A GOL 604 B DC 13 C DT
5 D LDG 6 D DT 7 D LDG 6 T DT 7 T
16 2.25 2.25 71.9 -0.85 -0.42 12.2 85 7 3 6 2 3 1 0  GOL 604 A DG 11 C DA 12 C DC 2 D DT 3 D DA 4 D DT
5 D LDG 6 D DT 7 D DC 8 D DG 9 D DA 10 D DT 11 D
17 2.24 2.24 75.1 -0.93 -0.36 11.3 84 8 3 5 1 3 3 0  MG 601 B GOL 604 B DZ4 606 B DC 2 D DT 3 D DA 4 D
DT 5 D DC 13 P DT 5 T LDG 6 T DT 7 T
18 1.38 1.56 84.0 -1.58 -0.46 18.7 83 11 5 6 3 2 3 0  GOL 604 B DT 3 T DA 4 T DT 5 T LDG 6 T DT 7 T
19 1.37 1.55 85.6 -1.22 -0.54 9.8 88 7 1 10 3 2 5 0  DC 2 D DT 3 D DA 4 D DT 5 D DT 3 T DA 4 T DT 5 T
20 2.41 2.58 93.5 -1.98 -0.36 26.4 81 14 13 4 4 5 0 0  MG 601 A GOL 604 A DZ4 608 A MG 601 B GOL 604 B
DZ4 606 B DC 13 C DT 5 D LDG 6 D DT 7 D DC 13 P
DT 5 T LDG 6 T DT 7 T
21 1.47 1.61 102.7 -1.23 -0.45 14.4 84 10 4 8 4 3 3 0  GOL 604 A DG 11 C DA 12 C LDG 6 D DT 7 D DC 8 D
DG 9 D DA 10 D DT 11 D DT 3 T DA 4 T DT 5 T LDG 6
T
22 1.45 1.44 102.3 -1.60 -0.49 16.5 86 11 5 8 4 2 4 0  MG 601 B GOL 604 B DZ4 606 B DC 13 P DT 3 T DA 4
T DT 5 T LDG 6 T DT 7 T
23 1.45 1.46 109.2 -1.45 -0.42 15.9 83 12 5 7 3 4 4 0  MG 601 A GOL 604 A DZ4 608 A DC 13 C DT 5 D LDG 6
D DT 7 D DT 3 T DA 4 T DT 5 T
24 1.74 3.73 132.7 -1.87 -0.55 20.8 82 14 11 6 5 2 0 0  GOL 604 A MG 601 B GOL 604 B DZ4 606 B DA 8 C DT
9 C DC 10 C DG 11 C DA 12 C LDG 6 D DT 7 D DC 8 D
DG 9 D DA 10 D DT 11 D DC 12 D DC 13 D DG 14 D DC
13 P DT 5 T LDG 6 T DT 7 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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