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PDBsum entry 6y5e
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Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 6y5e calculated with MOLE 2.0 PDB id
6y5e
Pores calculated on whole structure Pores calculated excluding ligands
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25 pores, coloured by radius 21 pores, coloured by radius 21 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 2.53 2.53 37.4 -1.29 -0.51 18.5 77 4 0 0 1 0 1 0  DT 2 I DC 73 I DG 74 I DC 75 I DG 73 J DA 74 J DC
75 J DA 76 J DG 77 J DC 78 J
2 1.78 1.78 54.5 -0.59 -0.56 9.2 96 2 0 4 2 1 0 0  DA 52 I DC 121 I DC 122 I DA 123 I DG 124 I DG
125 I DC 126 I DC 128 I DG 129 I DT 130 I DA 22 J
DC 23 J DA 24 J DC 25 J DG 26 J DT 27 J DG 33 J D
A 34 J
3 1.38 1.48 59.9 -1.15 -0.59 11.3 74 5 0 0 1 0 3 0  DG 70 I DT 71 I DA 72 I DC 73 I DT 148 I DG 149 I
DA 9 J DG 77 J DC 78 J DC 84 J DG 85 J
4 2.97 3.11 65.0 -1.99 -0.56 22.6 87 7 0 4 1 1 0 0  DA 42 I DA 52 I DT 115 I DT 118 I DA 127 I DC 128
I DG 129 I DA 22 J DG 32 J DG 33 J DA 34 J DG 35
J DA 36 J DC 37 J DG 106 J DC 107 J DT 108 J
5 1.70 1.94 67.2 -1.94 -0.58 24.2 79 8 1 0 1 1 0 0  DA 42 I DT 115 I DT 118 I DC 121 I DC 122 I DA
123 I DG 124 I DG 125 I DC 126 I DG 32 J DG 33 J
DA 34 J DG 35 J DA 36 J DC 37 J
6 2.55 2.55 68.0 -2.26 -0.57 26.5 79 10 1 0 0 1 0 0  DA 32 I DA 33 I DT 34 I DT 35 I DG 36 I DG 37 I
DT 41 I DA 42 I DT 115 I DG 117 I DT 118 I DG 32
J DG 33 J DA 34 J DG 35 J DA 36 J DC 37 J DG 41 J
DG 42 J DC 114 J DG 115 J DA 116 J DC 117 J DC
118 J
7 2.53 2.53 80.1 -1.89 -0.59 21.3 88 8 0 5 2 2 0 0  DG 24 I DG 25 I DC 26 I DA 32 I DA 33 I DT 34 I
DT 35 I DG 36 I DG 37 I DA 106 I DT 107 I DT 108
I DG 42 J DC 52 J DG 115 J DA 116 J DC 117 J DC
118 J DA 124 J DG 125 J DG 127 J DG 128 J DC 129 J
8 2.57 2.57 91.0 -1.65 -0.67 18.6 87 10 1 4 1 0 0 0  DA 32 I DA 33 I DT 34 I DT 35 I DG 36 I DG 37 I
DT 41 I DA 42 I DA 52 I DG 117 I DT 118 I DA 127
I DC 128 I DA 22 J DG 32 J DG 41 J DG 42 J DG 106
J DC 107 J DT 108 J DC 114 J DG 115 J DA 116 J DC
117 J DC 118 J
9 1.81 2.08 97.8 -1.59 -0.67 19.2 81 10 2 0 1 0 0 0  DA 32 I DA 33 I DT 34 I DT 35 I DG 36 I DG 37 I
DT 41 I DA 42 I DG 117 I DT 118 I DC 121 I DC 122
I DA 123 I DG 124 I DG 125 I DC 126 I DG 32 J DG
33 J DA 34 J DG 41 J DG 42 J DC 114 J DG 115 J DA
116 J DC 117 J DC 118 J
10 1.53 1.47 98.0 -1.45 -0.58 17.6 75 6 1 0 2 0 2 0  DA 63 I DA 64 I DC 65 I DG 66 I DC 67 I DA 68 I
DG 70 I DT 71 I DA 72 I DC 73 I DG 74 I DA 138 I
DT 148 I DG 149 I DT 150 I DA 9 J DG 11 J DT 12 J
DA 83 J DC 84 J DG 85 J DT 86 J DG 87 J DC 88 J
11 1.38 2.78 100.7 -0.76 -0.40 11.7 79 6 0 1 5 0 4 0  PTD 202 E DT 2 I DG 70 I DT 71 I DA 72 I DC 73 I
DG 74 I DG 76 I DT 148 I DG 149 I DA 9 J DG 73 J
DA 83 J DC 84 J DG 85 J
12 2.62 2.68 110.0 -2.10 -0.50 21.7 81 7 3 5 4 0 2 0  PTD 201 E DC 73 I DA 136 I DT 137 I DA 138 I DT
139 I DT 12 J DA 13 J DT 14 J DG 77 J DC 78 J
13 2.06 2.28 121.4 -2.27 -0.46 29.0 77 16 10 6 3 2 1 1  DA 63 I DA 136 I DT 137 I DA 138 I DT 139 I DT 12
J DA 13 J DT 14 J DA 15 J DT 16 J PTD 602 K
14 2.51 2.51 156.4 -2.27 -0.50 30.6 80 20 6 3 4 1 0 0  PTD 201 E PTD 201 F DA 32 I DA 33 I DT 34 I DT 35
I DG 36 I DG 37 I DC 73 I DA 106 I DT 107 I DT
108 I DG 42 J DA 43 J DG 44 J DT 45 J DC 78 J DC
114 J DG 115 J DA 116 J DC 117 J DC 118 J
15 1.57 1.52 162.3 -1.12 -0.59 12.5 81 8 2 5 3 0 2 0  DA 52 I DC 56 I DC 57 I DG 66 I DC 67 I DG 70 I
DT 71 I DA 72 I DC 73 I DG 74 I DC 128 I DG 129 I
DT 148 I DG 149 I DA 9 J DA 22 J DA 83 J DC 84 J
DG 85 J DT 92 J DA 93 J DA 94 J DG 95 J DC 96 J
DG 97 J
16 2.60 2.64 159.5 -1.75 -0.53 23.6 83 16 6 7 6 2 0 0  PTD 201 E PTD 201 F DG 24 I DG 25 I DC 26 I DC 73
I DA 106 I DT 107 I DT 45 J DC 52 J DC 78 J DA
124 J DG 125 J DG 127 J DG 128 J DC 129 J
17 2.99 3.29 162.2 -1.34 -0.69 14.5 90 13 1 10 3 1 0 0  PTD 301 H DG 24 I DG 25 I DC 26 I DA 32 I DT 41 I
DA 42 I DA 52 I DA 106 I DT 107 I DT 108 I DG 117
I DT 118 I DT 137 I DA 138 I DT 20 J DG 21 J DA
22 J DG 32 J DG 41 J DG 42 J DC 52 J DC 96 J DG
97 J DG 106 J DC 107 J DT 108 J DC 117 J DC 118 J
DA 124 J DG 125 J DG 127 J DG 128 J DC 129 J
18 1.97 2.19 171.2 -1.86 -0.60 19.3 85 12 4 10 5 0 3 0  PTD 201 E DT 2 I DA 52 I DC 128 I DA 136 I DT 137
I DA 13 J DT 14 J DA 22 J DG 73 J DA 74 J DC 75 J
DA 76 J DC 96 J
19 1.44 1.48 200.5 -1.76 -0.49 21.6 78 18 9 5 4 2 4 1  DG 70 I DT 71 I DA 72 I DC 73 I DC 143 I DA 144 I
DT 145 I DC 146 I DC 147 I DT 148 I DG 149 I DT
150 I DA 9 J DA 13 J DT 14 J DA 15 J DC 84 J DG
85 J
20 2.03 2.28 203.3 -2.25 -0.45 26.8 79 21 13 9 6 2 3 1  PTD 201 E DC 73 I DA 13 J DT 14 J DA 15 J DG 77 J
DC 78 J PTD 602 K
21 1.73 2.17 206.3 -1.84 -0.55 21.9 82 19 12 13 6 2 1 1  DC 121 I DC 122 I DA 123 I DG 124 I DG 125 I DC
133 I DA 15 J DT 16 J DA 17 J DT 18 J DC 25 J DG
26 J DG 33 J DA 34 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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