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PDBsum entry 8cgi
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Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 8cgi calculated with MOLE 2.0 PDB id
8cgi
Pores calculated on whole structure Pores calculated excluding ligands
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21 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 2.78 2.90 30.9 -0.93 -0.34 13.2 76 3 0 1 3 1 0 0  A 996 A G 1006 A U 1007 A U 1009 A U 1010 A C
1011 A U 1017 A C 1037 A C 1038 A G 1039 A
2 2.24 2.24 33.1 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  C 930 A C 931 A U 1085 A U 1086 A G 1087 A G 1088
A G 1089 A U 1090 A G 1094 A C 1096 A C 1097 A A
1105 A G 1106 A G 1108 A A 1110 A C 1389 A MG
1611 A
3 2.78 2.90 34.2 -0.75 -0.50 7.6 77 1 0 1 1 1 0 0  G 1002 A G 1003 A U 1009 A U 1010 A C 1011 A U
1017 A G 1018 A A 1019 A G 1020 A A 1021 A C 1038
A G 1039 A U 1040 A
4 1.29 1.31 34.4 -1.08 -0.49 14.8 80 3 0 1 2 1 1 0  A 996 A C 1037 A A 1257 A G 1258 A A 1271 A U
1313 A U 1315 A G 1316 A A 1360 A
5 2.24 2.24 36.5 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  C 1096 A A 1105 A G 1106 A C 1109 A A 1110 A A
1111 A C 1112 A C 1113 A C 1114 A U 1115 A U 1116
A A 1117 A C 1119 A C 1120 A U 1121 A U 1122 A U
1123 A A 1146 A C 1147 A U 1148 A C 1149 A A 1150
A A 1151 A G 1153 A G 1154 A A 1155 A G 1156 A C
1158 A U 1159 A
6 3.71 3.83 38.1 -0.12 -0.44 7.2 74 2 0 0 3 1 0 0  A 996 A G 1002 A G 1003 A G 1006 A U 1007 A U
1009 A U 1017 A G 1018 A A 1019 A G 1020 A A 1021
A C 1037 A C 1038 A G 1039 A U 1040 A
7 2.21 2.21 39.9 -0.90 -0.75 9.6 77 2 0 0 0 0 0 0  A 1117 A U 1118 A C 1119 A C 1120 A U 1121 A U
1122 A U 1123 A U 1126 A G 1127 A C 1128 A C 1140
A C 1141 A G 1142 A A 1146 A C 1147 A U 1148 A C
1149 A A 1150 A A 1151 A A 1251 A A 1252 A A 1280
A C 1281 A C 1282 A
8 1.15 1.15 40.6 -0.78 -0.37 17.9 72 6 1 0 4 0 0 0  U 1009 A U 1010 A C 1011 A A 1012 A G 1013 A MG
1632 A
9 3.02 3.02 42.1 -0.86 -0.36 13.8 70 2 1 0 1 2 0 0  C 1054 A C 1071 A G 1072 A G 1104 A A 1105 A G
1106 A G 1193 A U 1194 A C 1195 A A 1196 A
10 1.28 1.31 62.8 -0.71 -0.74 7.9 86 3 0 1 1 0 0 0  U 1126 A G 1127 A C 1128 A C 1140 A C 1141 A G
1142 A A 1250 A A 1251 A G 1258 A C 1259 A G 1260
A G 1270 A A 1271 A C 1281 A C 1282 A A 1285 A U
1286 A A 1287 A U 1313 A C 1314 A U 1315 A G 1316
A U 1354 A G 1355 A G 1361 A A 1362 A MG 1628 A
11 2.67 2.67 62.6 -0.60 -0.72 6.7 67 1 0 0 0 1 0 0  G 933 A C 934 A A 935 A C 936 A A 937 A A 938 A C
940 A G 941 A 5MC 967 A A 968 A C 1063 A U 1065 A
C 1066 A C 1096 A A 1105 A G 1106 A C 1109 A A
1110 A A 1111 A C 1112 A C 1114 A C 1158 A U 1159
A U 1183 A G 1184 A G 1186 A G 1187 A U 1341 A C
1342 A C 1383 A C 1384 A G 1385 A MG 1614 A
12 1.94 2.17 63.4 -1.41 -0.72 11.7 85 4 1 2 0 0 1 0  A 996 A C 1037 A U 1126 A G 1127 A C 1128 A C
1140 A C 1141 A A 1251 A A 1252 A G 1253 A A 1254
A A 1256 A A 1257 A G 1278 A G 1279 A A 1280 A C
1281 A C 1282 A MG 1616 A
13 1.70 1.70 63.2 -0.74 -0.76 9.0 83 2 2 0 1 0 0 0  C 940 A G 941 A G 942 A U 1126 A G 1127 A C 1128
A C 1140 A C 1141 A G 1142 A U 1235 A A 1236 A C
1237 A A 1238 A A 1239 A U 1240 A G 1241 A G 1242
A C 1243 A A 1250 A A 1251 A G 1270 A C 1281 A C
1282 A A 1285 A U 1286 A A 1287 A C 1325 A U 1326
A C 1336 A G 1337 A C 1352 A G 1353 A U 1354 A G
1355 A U 1364 A
14 1.67 1.67 66.1 -0.46 -0.81 3.6 102 1 0 2 0 0 0 0  U 1126 A G 1127 A C 1128 A C 1140 A C 1141 A G
1142 A G 1241 A C 1243 A G 1244 A C 1245 A U 1247
A A 1250 A A 1251 A G 1270 A C 1281 A C 1282 A A
1285 A U 1286 A A 1287 A A 1288 A A 1289 A G 1290
A U 1291 A G 1292 A C 1293 A U 1295 A C 1325 A U
1326 A G 1353 A U 1354 A G 1355 A K 1641 A
15 1.75 1.75 70.0 -1.17 -0.75 11.3 91 4 1 3 1 0 0 0  U 1116 A A 1117 A U 1126 A G 1127 A C 1128 A C
1140 A C 1141 A G 1142 A C 1149 A A 1150 A G 1175
A A 1176 A G 1177 A G 1178 A G 1181 A G 1184 A G
1185 A A 1251 A A 1252 A A 1280 A C 1281 A C 1282
A G 1347 A G 1370 A
16 1.71 1.71 73.8 -1.62 -0.62 18.4 83 8 3 2 2 1 0 0  A 1046 A G 1047 A C 1054 A G 1058 A C 1059 A U
1060 A G 1193 A U 1194 A C 1195 A A 1196 A A 1197
A A 1204 A U 1205 A
17 1.39 1.39 74.8 -0.92 -0.65 9.2 71 4 0 1 1 2 0 0  A 949 A U 950 A U 1126 A G 1127 A C 1128 A C 1140
A C 1141 A G 1142 A U 1224 A A 1225 A C 1226 A U
1235 A A 1250 A A 1251 A G 1270 A C 1281 A C 1282
A A 1285 A U 1286 A A 1287 A A 1306 A U 1307 A C
1322 A A 1324 A C 1325 A U 1326 A G 1353 A U 1354
A G 1355 A U 1364 A MG 1636 A K 1638 A
18 2.42 2.42 80.7 -0.86 -0.76 9.5 88 3 3 1 1 0 0 0  C 940 A G 941 A G 942 A A 996 A C 1037 A U 1235 A
A 1236 A C 1237 A A 1238 A A 1239 A U 1240 A G
1241 A G 1242 A C 1243 A A 1254 A G 1255 A A 1256
A A 1257 A G 1258 A C 1259 A G 1260 A G 1270 A C
1284 A A 1285 A C 1325 A U 1326 A C 1336 A G 1337
A C 1352 A G 1353 A U 1354 A G 1355 A G 1356 A A
1357 A C 1359 A G 1361 A A 1362 A A 1363 A U 1364
A MG 1628 A
19 2.64 2.64 85.3 -0.74 -0.79 6.5 98 2 1 3 0 0 0 0  A 996 A C 1037 A G 1241 A C 1243 A G 1244 A C
1245 A U 1247 A A 1254 A G 1255 A A 1256 A A 1257
A G 1258 A C 1259 A G 1260 A G 1270 A C 1284 A A
1285 A U 1286 A A 1288 A A 1289 A G 1290 A U 1291
A G 1292 A C 1293 A U 1295 A C 1325 A U 1326 A G
1353 A U 1354 A G 1355 A G 1356 A A 1357 A C 1359
A G 1361 A A 1362 A MG 1628 A K 1641 A
20 1.83 1.82 88.8 -1.61 -0.61 17.6 77 9 5 2 1 3 0 0  A 1046 A G 1047 A G 1058 A C 1059 A U 1060 A C
1071 A G 1072 A A 1105 A G 1106 A G 1193 A U 1194
A A 1204 A U 1205 A
21 1.32 1.32 88.8 -0.91 -0.69 9.1 88 5 1 1 3 0 0 0  C 1054 A C 1059 A U 1060 A G 1061 A U 1065 A C
1096 A A 1105 A G 1106 A C 1109 A A 1110 A A 1111
A C 1112 A C 1114 A C 1158 A U 1159 A U 1183 A G
1184 A G 1186 A G 1187 A A 1188 A U 1189 A G 1190
A G 1193 A U 1194 A C 1195 A A 1196 A A 1197 A
22 1.47 1.46 89.8 -0.98 -0.76 10.9 79 4 2 0 0 0 0 0  C 1096 A A 1105 A G 1106 A C 1109 A A 1110 A A
1111 A C 1112 A C 1113 A C 1114 A U 1115 A U 1116
A A 1117 A U 1118 A C 1119 A G 1127 A C 1128 A G
1138 A G 1139 A C 1149 A A 1150 A A 1151 A G 1153
A G 1154 A A 1155 A G 1156 A C 1158 A U 1159 A U
1247 A A 1248 A C 1249 A A 1250 A A 1251 A A 1252
A A 1280 A G 1290 A U 1291 A G 1292 A C 1293 A
23 1.43 1.40 92.3 -0.97 -0.69 9.6 79 5 1 2 1 2 0 0  A 949 A U 950 A A 996 A C 1037 A U 1224 A A 1225
A C 1226 A U 1235 A A 1254 A G 1255 A A 1256 A A
1257 A G 1258 A C 1259 A G 1260 A G 1270 A C 1284
A A 1285 A A 1306 A U 1307 A C 1322 A A 1324 A C
1325 A U 1326 A G 1353 A U 1354 A G 1355 A G 1356
A A 1357 A C 1359 A G 1361 A A 1362 A A 1363 A U
1364 A MG 1628 A MG 1636 A K 1638 A
24 2.26 2.26 90.6 -0.69 -0.77 7.1 87 2 0 1 0 0 0 0  C 930 A C 931 A C 932 A U 1085 A U 1086 A G 1087
A U 1090 A U 1091 A G 1094 A U 1095 A C 1096 A A
1105 A G 1106 A G 1108 A A 1110 A C 1172 A U 1173
A G 1174 A G 1175 A A 1176 A G 1177 A G 1178 A G
1181 A G 1182 A A 1377 A G 1387 A C 1388 A MG
1611 A
25 1.40 1.40 92.9 -0.72 -0.78 7.5 79 4 1 0 0 0 0 0  C 1096 A A 1105 A G 1106 A C 1109 A A 1110 A A
1111 A C 1112 A C 1113 A C 1114 A U 1115 A U 1116
A A 1117 A U 1118 A C 1119 A U 1126 A G 1127 A C
1128 A C 1140 A C 1141 A G 1142 A C 1149 A A 1150
A A 1151 A G 1153 A G 1154 A A 1155 A G 1156 A C
1158 A U 1159 A A 1251 A A 1252 A A 1280 A C 1281
A C 1282 A
26 2.43 2.43 116.1 -0.57 -0.78 5.5 79 3 0 0 0 0 0 0  C 930 A C 931 A G 933 A C 934 A C 1066 A G 1088 A
G 1089 A U 1090 A U 1091 A A 1111 A C 1112 A C
1113 A C 1114 A U 1115 A U 1116 A A 1117 A U 1118
A C 1119 A U 1126 A G 1127 A C 1128 A C 1140 A C
1141 A G 1142 A C 1149 A A 1150 A A 1151 A G 1153
A G 1154 A A 1155 A G 1156 A C 1172 A U 1173 A G
1174 A G 1182 A U 1183 A G 1184 A G 1185 A G 1186
A G 1187 A A 1251 A A 1252 A A 1280 A C 1281 A C
1282 A U 1345 A A 1346 A A 1377 A C 1389 A
27 1.45 1.67 117.9 -1.22 -0.58 16.5 84 11 3 2 4 1 0 0  G 933 A C 934 A A 1046 A G 1047 A G 1058 A C 1059
A U 1060 A G 1061 A U 1065 A C 1066 A G 1174 A G
1175 A A 1176 A G 1177 A G 1178 A G 1181 A G 1182
A U 1183 A G 1185 A G 1186 A G 1187 A A 1188 A U
1189 A G 1190 A A 1204 A U 1205 A U 1345 A A 1346
A A 1377 A MG 1614 A
28 1.48 1.64 125.4 -1.09 -0.59 14.8 84 9 3 2 5 1 0 0  C 930 A C 931 A G 933 A C 934 A A 996 A C 1037 A
G 1058 A C 1059 A U 1060 A G 1061 A U 1065 A C
1066 A G 1088 A G 1089 A U 1090 A U 1091 A C 1172
A U 1173 A G 1174 A G 1182 A U 1183 A G 1185 A G
1186 A G 1187 A A 1188 A U 1189 A G 1190 A C 1203
A A 1204 A U 1345 A A 1346 A A 1377 A C 1389 A MG
1614 A
29 1.43 1.44 124.7 -1.28 -0.73 11.1 83 7 2 2 0 0 1 0  A 996 A C 1037 A C 1096 A A 1105 A G 1106 A C
1109 A A 1110 A A 1111 A C 1112 A C 1113 A C 1114
A U 1115 A U 1116 A A 1150 A A 1151 A G 1153 A G
1154 A A 1155 A G 1156 A C 1158 A U 1159 A A 1252
A G 1253 A A 1254 A A 1256 A A 1257 A G 1278 A G
1279 A A 1280 A MG 1616 A
30 1.45 1.45 127.4 -1.17 -0.58 16.2 84 9 4 1 4 1 0 0  A 1046 A G 1047 A G 1058 A C 1059 A U 1060 A G
1061 A U 1065 A C 1096 A A 1105 A G 1106 A C 1109
A A 1110 A A 1111 A C 1112 A C 1114 A C 1158 A U
1159 A U 1183 A G 1184 A G 1186 A G 1187 A A 1188
A U 1189 A G 1190 A A 1204 A U 1205 A

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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