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PDBsum entry 1p3f
Go to PDB code: 
Top Page protein dna_rna Protein-protein interface(s) pores links
Pore analysis for: 1p3f calculated with MOLE 2.0 PDB id
1p3f
Pores calculated on whole structure Pores calculated excluding ligands
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20 pores, coloured by radius 20 pores, coloured by radius 20 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 3.49 3.49 27.1 -0.87 -0.75 9.6 72 2 0 0 0 0 0 0  DC 26 I DA 27 I DA 28 I DA 29 I DG 103 I DT 104 I
DG 185 J DC 193 J DA 259 J DC 260 J DT 269 J DA
270 J
2 2.85 2.85 28.5 -0.75 -0.63 5.0 81 1 0 2 1 0 0 0  DA 17 I DG 18 I DC 89 I DT 90 I DT 91 I DT 92 I
DT 93 I DG 94 I DT 198 J DC 199 J DT 208 J DG 209
J
3 2.75 2.75 28.8 -1.19 -0.56 13.9 92 4 1 4 1 1 0 0  DA 102 I DA 187 J DA 188 J DT 191 J DC 195 J DT
269 J
4 3.69 3.69 29.2 -0.89 -0.65 10.9 94 2 1 2 1 0 0 0  DA 28 I DA 29 I DA 102 I DG 103 I DG 185 J DC 195
J DA 259 J DC 260 J DT 269 J
5 3.67 3.67 31.0 -0.44 -0.70 5.0 99 1 1 2 1 0 0 0  DC 26 I DA 27 I DA 28 I DA 102 I DG 103 I DT 104
I DC 193 J DC 195 J DT 269 J DA 270 J
6 3.22 3.22 31.8 -1.03 -0.65 9.4 93 2 0 5 2 0 0 0  DG 18 I DC 89 I DT 90 I DT 91 I DT 92 I DT 93 I
DC 195 J DT 198 J DC 199 J DT 208 J DG 209 J DT
269 J
7 3.44 3.44 33.7 -0.07 -0.50 4.8 100 2 0 4 3 0 0 0  DC 49 I DC 50 I DG 121 I DT 123 I DA 124 I DG 164
J DT 166 J DT 167 J DT 169 J DA 170 J DG 240 J
8 3.22 3.22 35.2 -0.57 -0.72 4.2 81 1 0 2 1 0 0 0  DG 18 I DC 89 I DT 90 I DT 91 I DT 92 I DT 93 I
DT 198 J DC 199 J DG 204 J DG 205 J DT 208 J DG
209 J DG 280 J DG 281 J
9 3.46 3.46 37.2 -1.01 -0.74 10.9 75 3 0 0 0 0 0 0  DC 26 I DA 27 I DA 28 I DA 102 I DG 103 I DT 104
I DA 187 J DA 188 J DA 189 J DT 191 J DC 193 J DT
269 J DA 270 J
10 2.35 2.35 39.6 -0.60 -0.51 11.1 97 1 0 2 3 0 0 0  DC 47 I DT 48 I DC 49 I DG 121 I DT 123 I DA 124
I DT 166 J DT 167 J DT 169 J DA 170 J DC 172 J DA
248 J DG 249 J DT 250 J DT 251 J
11 2.35 2.35 39.8 -1.20 -0.75 12.7 97 3 0 5 0 0 0 0  DC 47 I DT 48 I DC 49 I DC 50 I DT 123 I DA 124 I
DG 164 J DC 172 J DG 240 J DA 248 J DG 249 J DT
250 J
12 3.38 3.37 43.8 -2.09 -0.71 19.9 83 5 2 3 0 0 1 0  DC 49 I DA 133 I DG 134 I DT 142 I DC 155 J DC
156 J DG 164 J DT 239 J DG 240 J
13 2.92 3.06 52.6 -1.71 -0.60 18.6 87 5 0 1 1 1 0 0  DT 32 I DG 33 I DT 34 I DG 39 I DG 40 I DA 41 I D
A 42 I DA 43 I DC 47 I DC 172 J DA 173 J DA 174 J
DA 248 J DG 249 J DT 250 J DT 251 J DT 252 J DA
256 J DA 257 J DT 265 J DT 266 J DG 267 J
14 2.86 3.13 60.8 -1.81 -0.66 19.9 92 8 1 8 1 1 0 0  DG 39 I DG 40 I DC 49 I DC 50 I DA 113 I DC 114 I
DA 115 I DC 116 I DG 164 J DA 174 J DA 175 J DA
176 J DG 177 J DG 240 J DA 248 J DG 249 J DT 250 J
15 2.76 2.76 64.0 -1.75 -0.73 18.9 93 3 2 5 1 0 0 0  DT 6 I DA 7 I DG 18 I DC 84 I DA 85 I DT 92 I DC
195 J DG 205 J DC 206 J DT 269 J DA 270 J DG 280
J DG 281 J
16 2.52 3.10 72.2 -2.90 -0.46 35.7 75 14 5 2 3 2 2 0  DG 39 I DG 40 I DC 47 I DC 172 J DA 173 J DA 174
J DA 175 J DT 250 J DT 251 J DT 252 J
17 2.80 2.77 74.3 -1.44 -0.65 16.9 93 5 1 6 4 1 0 0  DT 37 I DT 38 I DG 39 I DG 40 I DC 49 I DA 113 I
DC 114 I DT 120 I DG 121 I DT 123 I DA 124 I DT
166 J DT 167 J DT 169 J DA 170 J DA 174 J DA 175
J DA 248 J DG 249 J DT 250 J DA 259 J DC 260 J
18 2.89 3.13 83.9 -1.64 -0.65 16.5 91 8 0 8 2 2 0 0  DT 32 I DG 33 I DT 34 I DA 41 I DA 42 I DA 43 I
DC 49 I DC 50 I DG 164 J DG 240 J DA 248 J DA 256
J DA 257 J DT 265 J DT 266 J DG 267 J
19 2.57 2.80 84.5 -1.51 -0.30 17.9 84 12 4 11 4 6 1 0  DC 49 I DC 50 I DA 102 I DG 164 J DC 195 J DG 240
J DA 248 J DT 269 J
20 2.50 3.10 91.2 -2.32 -0.45 27.9 81 15 5 8 4 4 2 0  DC 49 I DC 50 I DG 164 J DG 240 J DA 248 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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