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PDBsum entry 5iyc
Go to PDB code: 
Top Page protein dna_rna metals Protein-protein interface(s) pores links
Pore analysis for: 5iyc calculated with MOLE 2.0 PDB id
5iyc
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 1.87 2.21 34.5 -2.19 -0.54 21.0 78 3 3 2 0 1 1 0  
2 1.59 1.60 80.9 -1.99 -0.20 27.0 79 11 4 3 5 2 1 0  
3 1.25 1.53 114.8 -1.80 -0.53 22.0 83 10 8 5 3 2 3 1  DA 83 Y DG 84 Y
4 1.75 1.75 125.5 -2.39 -0.60 24.2 84 12 9 8 10 4 2 0  DG 62 X DA 36 Y DG 37 Y
5 2.24 2.24 159.2 -1.07 -0.30 17.0 79 10 7 6 10 4 0 0  DG 30 X DT 31 X DT 32 X DT 33 X DT 34 X DT 35 X
DT 37 X DT 38 X DT 41 X DC 59 X DG 60 X DA 61 X
DG 37 Y DT 38 Y DG 39 Y DT 40 Y
6 1.62 2.56 164.4 -1.78 -0.38 26.1 81 17 9 6 8 1 0 0  DG 6 X DC 7 X DG 8 X DT 34 X DT 35 X DT 36 X DT
37 X DC 67 Y DG 84 Y DC 86 Y DG 87 Y DC 88 Y
7 1.65 2.52 175.6 -1.10 -0.27 20.3 80 14 11 6 14 2 0 0  DG 30 X DT 31 X DT 32 X DT 33 X DT 34 X DT 35 X
DT 36 X DT 37 X
8 1.79 2.03 173.5 -1.16 -0.05 18.9 76 12 11 8 13 11 7 0  
9 2.62 4.12 171.4 -2.37 -0.61 26.5 83 16 19 12 2 4 1 0  DG 26 X DG 27 X
10 1.82 1.85 175.7 -1.54 -0.33 23.7 82 11 9 7 11 2 2 1  DG 6 X DC 7 X DG 8 X DG 84 Y DC 86 Y DG 87 Y DC
88 Y
11 1.75 1.79 183.6 -1.64 -0.46 21.1 81 16 8 7 7 3 0 0  DG 6 X DC 7 X DG 8 X DT 34 X DT 35 X DT 36 X DT
37 X DT 38 X DT 39 X DT 41 X DC 59 X DG 60 X DA
61 X DG 37 Y DT 38 Y DG 39 Y DT 40 Y DC 66 Y DC
67 Y DG 84 Y DC 86 Y DG 87 Y DC 88 Y
12 1.79 1.70 187.4 -1.07 -0.29 20.1 80 12 12 9 14 2 1 1  DG 19 X
13 2.08 2.06 197.6 -2.07 -0.55 25.8 80 15 22 8 4 5 2 0  DG 26 X DG 27 X DA 83 Y DG 84 Y
14 2.03 2.15 196.2 -1.84 -0.52 23.9 83 15 18 12 7 3 1 0  DG 26 X DG 27 X DG 28 X DC 29 X
15 1.34 3.19 207.8 -1.08 -0.27 16.8 80 12 13 13 18 7 2 0  DG 30 X DT 31 X DT 32 X DT 33 X DT 34 X DT 35 X
DT 37 X DT 38 X DT 39 X DT 41 X
16 1.63 2.51 209.2 -2.22 -0.45 24.9 81 26 11 12 11 6 0 0  DT 36 X DT 37 X DT 38 X DT 41 X DT 42 X DT 45 X
DT 46 X DC 51 X DG 37 Y DT 38 Y DT 40 Y
17 2.16 4.41 213.6 -1.47 -0.14 23.6 78 18 17 6 11 8 3 0  
18 1.31 2.32 210.9 -1.66 -0.42 21.7 81 17 13 15 15 4 2 0  DT 34 X DT 35 X DT 36 X DT 38 X DT 39 X DC 66 Y
DC 67 Y DG 87 Y DC 88 Y
19 1.87 1.85 222.4 -1.60 -0.46 23.1 80 14 21 8 9 4 2 0  DG 26 X DG 27 X DG 28 X DC 29 X DA 83 Y DG 84 Y
20 1.70 2.48 217.3 -1.82 -0.42 25.4 81 20 12 9 14 1 2 1  DT 34 X DT 35 X DT 36 X DT 37 X DC 67 Y
21 1.55 1.60 220.0 -1.61 -0.51 20.9 82 17 13 8 9 3 2 0  DG 6 X DC 7 X DG 8 X DT 34 X DT 35 X DT 36 X DT
37 X DT 38 X DT 39 X DT 41 X DT 42 X DT 45 X DT
46 X DC 51 X DG 62 X DA 36 Y DG 37 Y DT 38 Y DT
40 Y DC 66 Y DC 67 Y DG 84 Y DC 86 Y DG 87 Y DC
88 Y
22 1.27 1.23 230.9 -1.41 -0.19 21.3 78 19 14 8 13 10 4 0  
23 2.55 2.84 228.4 -1.92 -0.59 21.2 83 19 14 12 3 5 1 0  DG 26 X DG 27 X DG 28 X DC 29 X DG 30 X DT 31 X
DT 32 X DT 33 X DT 34 X DT 35 X DT 37 X DT 38 X
DT 41 X DC 59 X DG 60 X DA 61 X DG 37 Y DT 38 Y
DG 39 Y DT 40 Y
24 1.94 1.99 241.2 -1.41 -0.24 21.7 81 26 20 15 21 9 4 0  
25 2.66 3.65 236.5 -1.66 -0.48 21.4 81 19 11 10 13 3 2 1  DT 34 X DT 35 X DT 36 X DT 37 X DT 38 X DT 39 X
DT 41 X DC 59 X DG 60 X DA 61 X DG 37 Y DT 38 Y
DG 39 Y DT 40 Y DC 66 Y DC 67 Y
26 2.63 3.51 245.0 -1.81 -0.48 23.1 83 19 15 14 13 4 2 1  DG 22 X DT 23 X DG 24 X DG 26 X DG 27 X DG 28 X
DG 63 Y DC 64 Y DC 67 Y DC 68 Y
27 1.79 2.99 265.5 -1.71 -0.39 22.6 79 22 24 13 13 11 7 0  DA 83 Y DG 84 Y
28 1.37 3.01 272.4 -1.76 -0.51 22.8 83 19 18 15 14 4 3 0  DG 6 X DC 7 X DG 8 X DT 34 X DT 35 X DT 36 X DT
38 X DT 39 X DC 66 Y DC 67 Y DG 84 Y DC 86 Y DG
87 Y DC 88 Y
29 2.71 3.04 264.8 -1.86 -0.62 20.8 83 20 19 13 6 5 3 0  DG 26 X DG 27 X DG 28 X DC 29 X DG 30 X DT 31 X
DT 32 X DT 33 X DT 34 X DT 35 X DT 37 X DT 38 X
DT 41 X DT 42 X DT 45 X DT 46 X DC 51 X DG 62 X D
A 36 Y DG 37 Y DT 38 Y DT 40 Y
30 1.11 1.93 327.5 -2.25 -0.55 25.5 81 20 26 16 9 6 6 0  

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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