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PDBsum entry 1p3b
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Top Page protein dna_rna Protein-protein interface(s) pores links
Pore analysis for: 1p3b calculated with MOLE 2.0 PDB id
1p3b
Pores calculated on whole structure Pores calculated excluding ligands
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27 pores, coloured by radius 27 pores, coloured by radius 27 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 3.43 3.43 25.8 -2.18 -0.62 25.9 74 5 0 0 0 0 0 0  DA 29 I DA 102 I DG 103 I DT 104 I DG 185 J DG
186 J DA 187 J DA 188 J DA 189 J DT 191 J DC 260 J
2 2.08 2.08 26.4 -2.32 -0.37 33.7 79 4 1 0 1 0 1 0  DC 60 I DA 61 I DT 62 I DG 63 I DG 135 I DA 153 J
DT 154 J DC 230 J DA 231 J
3 4.10 4.13 28.8 -1.74 -0.69 21.0 85 3 1 2 1 0 0 0  DC 49 I DG 59 I DG 134 I DG 135 I DT 154 J DG 164
J DT 239 J DG 240 J DA 241 J
4 1.47 1.47 29.0 -0.65 -0.72 7.1 93 2 0 1 1 0 0 0  DC 22 I DT 23 I DG 31 I DT 264 J DT 265 J DT 266
J DG 267 J
5 3.00 3.23 29.8 -0.74 -0.41 10.1 91 4 0 1 2 1 1 0  DA 110 I DA 111 I DT 112 I DA 113 I DC 114 I DA
115 I DA 175 J DA 176 J DG 177 J DT 178 J DA 187
J DA 188 J
6 2.83 3.07 33.7 -1.65 -0.66 18.3 81 3 1 2 2 0 0 0  DG 18 I DT 92 I DT 93 I DA 99 I DT 198 J DC 199 J
DG 205 J DC 206 J DG 280 J DG 281 J
7 3.03 3.35 42.9 -1.96 -0.34 26.1 84 5 2 4 2 2 0 0  DG 39 I DC 49 I DG 164 J DA 175 J DA 176 J DG 240
J DA 241 J DA 248 J
8 1.80 1.80 45.4 -0.91 -0.74 8.8 78 5 0 2 0 1 2 0  DG 39 I DT 120 I DG 121 I DG 122 I DT 169 J DA
174 J DA 175 J DA 176 J
9 3.02 3.02 48.3 -0.96 -0.20 15.7 88 7 1 6 5 2 0 0  DT 20 I DT 21 I DC 22 I DA 29 I DG 185 J DC 260 J
DT 269 J
10 1.83 1.83 49.1 -1.78 -0.70 21.2 85 5 1 1 0 0 1 0  DC 12 I DC 13 I DT 14 I DT 20 I DT 21 I DT 276 J
DG 277 J DC 278 J DA 279 J DG 280 J DG 281 J DT
282 J
11 1.40 1.40 50.5 -0.91 -0.71 10.5 91 4 0 2 1 0 0 0  DA 27 I DA 28 I DA 29 I DA 30 I DG 31 I DG 103 I
DT 104 I DG 185 J DG 186 J DC 260 J DT 264 J DT
265 J DT 266 J DG 267 J
12 1.83 1.83 50.9 -1.29 -0.60 14.9 88 3 0 3 3 0 0 0  DA 17 I DG 18 I DA 19 I DT 20 I DT 21 I DT 92 I
DT 93 I DA 99 I DT 198 J DC 199 J DT 276 J DG 277
J DA 279 J DG 280 J
13 2.81 2.90 56.0 -0.93 -0.33 13.8 89 6 0 6 5 2 0 0  DT 20 I DT 21 I DC 22 I DA 102 I DA 187 J DA 188
J DA 189 J DT 191 J DT 269 J
14 3.15 3.18 58.8 -0.79 -0.40 13.5 92 5 1 5 5 1 0 0  DG 18 I DT 20 I DT 21 I DC 22 I DT 92 I DG 205 J
DC 206 J DG 267 J DT 269 J DG 280 J DG 281 J
15 3.29 3.29 62.9 -1.66 -0.56 19.1 87 9 2 6 2 1 0 0  DG 18 I DA 29 I DT 92 I DG 185 J DG 205 J DC 206
J DC 260 J DG 280 J DG 281 J
16 2.82 2.91 63.4 -1.60 -0.59 17.9 89 8 1 7 2 1 0 0  DG 18 I DT 92 I DA 102 I DA 187 J DA 188 J DA 189
J DT 191 J DG 205 J DC 206 J DG 280 J DG 281 J
17 2.81 2.81 65.7 -0.46 -0.35 9.2 88 5 0 6 7 1 0 0  DG 18 I DT 20 I DT 21 I DC 22 I DT 92 I DT 93 I
DT 198 J DC 199 J DG 267 J DT 269 J
18 2.81 2.81 69.8 -1.39 -0.52 15.5 83 9 1 7 4 1 0 0  DG 18 I DA 29 I DT 92 I DT 93 I DG 185 J DT 198 J
DC 199 J DC 260 J
19 2.85 2.85 70.3 -1.39 -0.55 15.1 86 8 0 8 4 1 0 0  DG 18 I DT 92 I DT 93 I DA 102 I DA 187 J DA 188
J DA 189 J DT 191 J DT 198 J DC 199 J
20 2.25 2.41 77.7 -1.51 -0.56 17.0 78 8 0 2 2 0 2 0  DC 9 I DC 10 I DA 72 I DA 73 I DC 215 J DG 216 J
DA 279 J DG 280 J DG 281 J DT 282 J DT 288 J DT
289 J DG 290 J
21 2.36 2.36 80.2 -1.00 -0.67 9.7 86 2 1 4 1 0 0 0  DC 49 I DC 50 I DA 51 I DT 52 I DC 53 I DA 54 I D
A 55 I DT 239 J DG 240 J DA 241 J DT 242 J DG 243
J DG 244 J DA 245 J
22 2.64 3.51 92.6 -1.35 -0.13 17.8 84 11 5 12 7 7 2 0  DT 20 I DT 21 I DC 22 I DC 49 I DG 164 J DG 240 J
DA 241 J DA 248 J DT 269 J
23 1.88 2.21 101.1 -1.61 -0.53 18.0 80 10 1 2 5 0 3 0  DC 69 I DG 71 I DA 72 I DA 73 I DT 74 I DA 133 I
DG 134 I DG 135 I DT 142 I DT 143 I DG 144 I DA
153 J DT 154 J DC 155 J DC 156 J DG 216 J DT 220
J DT 221 J
24 2.59 2.71 102.8 -2.03 -0.41 26.2 81 18 3 5 5 2 0 0  DG 39 I DA 72 I DC 114 I DA 175 J DA 176 J DG 216
J
25 2.64 3.23 107.3 -1.78 -0.33 20.5 84 14 6 12 4 7 2 0  DG 18 I DC 49 I DT 92 I DG 164 J DG 205 J DC 206
J DG 240 J DA 241 J DA 248 J DG 280 J DG 281 J
26 2.62 2.72 119.9 -2.22 -0.43 27.1 81 19 5 7 5 3 0 0  DA 29 I DA 72 I DA 73 I DG 185 J DG 216 J
27 1.86 1.86 138.1 -1.44 -0.44 16.5 85 15 5 11 5 6 4 0  DA 17 I DG 18 I DA 19 I DT 20 I DT 21 I DT 92 I
DT 120 I DG 121 I DG 122 I DT 169 J DA 174 J DA
175 J DA 176 J DT 276 J DG 277 J DA 279 J DG 280 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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