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PDBsum entry 5lmn
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Top Page protein dna_rna metals Protein-protein interface(s) pores links
Pore analysis for: 5lmn calculated with MOLE 2.0 PDB id
5lmn
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 3.90 3.90 35.6 -1.22 -0.62 14.6 67 2 0 0 1 1 0 0  U 531 A G 953 A G 954 A C 962 A G 963 A A 964 A A
965 A A 969 A C 1051 A U 1052 A C 1230 A A 1339 A
A 1340 A U 37 Y G 38 Y U 39 Y
2 2.19 2.19 46.8 -1.21 -0.44 17.5 82 6 1 1 4 1 1 0  C 528 A G 529 A G 530 A U 531 A A 532 A U 534 A C
1051 A U 1052 A C 1054 A A 1055 A U 1196 A
3 2.88 2.88 60.0 -0.47 -0.79 4.3 72 1 0 0 0 0 0 0  G 671 A U 672 A G 673 A G 674 A A 675 A A 676 A U
677 A C 679 A C 680 A C 681 A G 698 A C 699 A G
700 A A 702 A G 703 A A 704 A U 705 A A 706 A C
707 A C 708 A G 709 A G 710 A G 711 A A 712 A G
713 A G 714 A G 774 A C 784 A G 785 A G 786 A MG
1708 A
4 2.58 2.58 72.7 -0.48 -0.79 4.0 101 1 0 2 1 0 0 0  A 665 A U 669 A G 670 A G 671 A U 672 A G 713 A G
714 A A 715 A A 716 A C 717 A A 722 A U 723 A C
732 A A 733 A G 774 A C 805 A C 806 A G 1525 A G
1526 A U 1532 A A 1534 A C 1535 A C 1536 A U 1537
A C 23 Y A 24 Y A 25 Y G 27 Y A 28 Y
5 1.23 1.45 76.4 -1.84 -0.28 16.2 74 10 2 4 2 4 1 0  A 860 A G 1072 A U 1073 A G 1074 A C 1075 A C
1076 A G 1077 A U 1078 A A 1105 A MG 1714 A
6 2.49 2.49 81.5 -1.04 -0.48 14.4 81 7 0 1 5 1 1 0  C 528 A U 534 A A 923 A C 924 A G 966 A U 1194 A
C 1195 A U 1196 A A 1339 A A 1340 A G 1385 A G
1386 A C 1397 A A 1398 A C 1399 A C 1400 A U 37 Y
G 38 Y
7 3.14 3.14 83.3 -0.23 -0.41 4.9 72 2 0 0 2 2 2 0  U 677 A U 678 A C 679 A G 690 A G 691 A G 698 A C
699 A A 704 A U 705 A C 784 A G 785 A G 786 A G
799 A G 800 A G 1089 A U 1532 A A 1534 A C 1535 A
C 1536 A U 1537 A C 23 Y A 24 Y A 25 Y G 27 Y A
28 Y G 29 Y A 32 Y
8 1.95 1.95 84.1 -0.88 -0.78 9.4 81 3 1 0 0 0 0 0  G 929 A C 930 A C 931 A C 932 A G 933 A C 934 A U
1065 A G 1088 A G 1089 A U 1090 A U 1091 A A 1111
A C 1112 A C 1114 A C 1115 A C 1116 A G 1117 A C
1118 A C 1119 A G 1120 A U 1121 A A 1123 A G 1131
A A 1146 A C 1147 A U 1148 A C 1149 A U 1150 A A
1151 A C 1153 A G 1154 A G 1156 A C 1172 A G 1173
A G 1174 A G 1182 A A 1183 A G 1184 A G 1185 A G
1186 A G 1187 A A 1346 A U 1380 A A 1534 A C 1535
A C 1536 A MG 1701 A C 23 Y A 24 Y A 25 Y
9 2.29 2.29 96.0 -0.52 -0.73 6.0 77 2 0 0 2 0 0 0  G 926 A G 928 A G 1089 A A 1339 A A 1340 A U 1341
A C 1382 A C 1383 A C 1384 A G 1385 A C 1400 A A
1503 A A 1507 A A 1531 A U 1532 A A 1534 A C 1535
A C 1536 A U 1537 A C 23 Y A 24 Y A 25 Y G 27 Y A
28 Y U 31 Y A 32 Y A 33 Y A 34 Y A 35 Y U 37 Y G
38 Y
10 2.52 2.52 98.4 -1.08 -0.50 10.9 72 7 1 4 3 2 1 0  A 923 A C 924 A G 966 A C 1071 A G 1072 A A 1105
A G 1193 A U 1194 A C 1195 A U 1196 A A 1339 A A
1340 A G 1385 A G 1386 A C 1397 A A 1398 A C 1399
A C 1400 A U 37 Y G 38 Y
11 1.93 2.43 108.5 -0.92 -0.64 10.9 69 5 1 0 2 1 2 0  G 858 A A 859 A A 860 A C 866 A G 867 A U 920 A U
921 A G 922 A A 923 A C 924 A G 925 A G 926 A C
1076 A G 1077 A G 1082 A A 1339 A A 1340 A G 1385
A G 1386 A G 1387 A C 1388 A C 1389 A U 1390 A U
1391 A C 1400 A A 35 Y U 37 Y G 38 Y
12 2.71 2.93 118.3 -0.84 -0.69 10.4 77 5 3 0 2 1 1 0  G 654 A A 655 A C 656 A G 657 A G 658 A U 659 A G
660 A G 661 A G 662 A A 663 A G 664 A A 665 A G
667 A G 668 A U 669 A G 670 A G 671 A U 672 A G
714 A A 715 A A 716 A A 733 A G 734 A C 735 A C
736 A A 737 A C 738 A U 740 A U 743 A C 744 A C
745 A A 746 A C 747 A C 748 A G 774 A C 806 A C
826 A U 827 A A 828 A G 829 A G 851 A MG 1682 A
MG 1683 A
13 1.92 1.92 121.9 -0.69 -0.74 6.7 63 2 0 0 0 2 0 0  U 531 A C 924 A G 933 A C 934 A A 935 A G 963 A A
964 A A 965 A G 966 A C 967 A A 968 A C 1051 A U
1052 A G 1053 A C 1054 A C 1063 A U 1065 A A 1111
A C 1112 A C 1114 A C 1115 A C 1116 A G 1117 A C
1118 A C 1119 A G 1120 A U 1121 A A 1123 A G 1131
A A 1146 A C 1147 A U 1148 A C 1149 A U 1150 A A
1151 A C 1153 A G 1154 A G 1156 A A 1183 A G 1184
A G 1185 A G 1186 A G 1187 A U 1194 A C 1195 A U
1196 A G 1198 A C 1344 A G 1385 A G 1386 A A 1398
A C 1399 A C 1400 A MG 1701 A U 39 Y
14 2.73 2.94 125.7 -1.12 -0.70 12.6 80 7 1 1 1 0 1 0  U 723 A U 827 A A 828 A G 829 A G 830 A U 831 A C
832 A U 833 A C 834 A U 841 A C 848 A C 849 A U
850 A G 851 A U 870 A U 1532 A A 1534 A C 1535 A
C 1536 A U 1537 A C 23 Y A 24 Y A 25 Y G 26 Y G
27 Y A 28 Y
15 3.04 3.05 126.3 -1.01 -0.66 12.5 83 11 0 0 3 0 1 0  U 420 A U 421 A C 422 A U 512 A C 513 A C 514 A A
532 A C 995 A A 996 A G 1002 A C 1006 A C 1007 A
C 1008 A G 1017 A C 1018 A C 1019 A U 1020 A G
1021 A C 1038 A C 1039 A U 1040 A C 1045 A A 1046
A G 1047 A G 1048 A A 1204 A U 1205 A G 1206 A G
1207 A C 1208 A C 1209 A
16 3.06 3.06 134.9 -0.83 -0.64 10.1 83 7 0 1 4 1 1 0  U 14 A G 15 A A 16 A G 527 A C 528 A U 534 A U
723 A C 856 A C 857 A C 866 A G 867 A G 886 A G
887 A A 915 A G 916 A G 917 A A 918 A A 919 A G
1392 A U 1393 A A 1394 A C 1397 A C 1403 A C 1404
A C 1490 A G 1491 A C 1509 A U 1510 A U 1528 A G
1529 A G 1530 A A 1531 A U 1532 A A 1534 A C 1535
A C 1536 A U 1537 A MG 1656 A MG 1666 A C 23 Y A
24 Y A 25 Y G 26 Y G 27 Y A 28 Y
17 1.92 2.02 135.2 -1.13 -0.53 14.3 78 10 1 1 6 2 3 0  U 13 A U 14 A G 15 A A 16 A G 527 A C 528 A U 534
A G 858 A A 859 A A 860 A C 866 A G 867 A A 915 A
G 916 A G 917 A A 918 A A 919 A U 920 A C 1076 A
G 1077 A G 1082 A U 1391 A G 1392 A U 1393 A A
1394 A C 1395 A A 1396 A C 1397 A C 1403 A MG
1644 A MG 1666 A MG 1706 A
18 2.43 2.43 135.9 -0.54 -0.77 5.1 88 2 0 2 1 0 0 0  A 665 A U 669 A G 670 A G 671 A U 672 A G 713 A G
714 A A 715 A A 716 A C 717 A U 723 A C 732 A A
733 A G 774 A C 805 A C 806 A C 856 A C 857 A C
866 A G 867 A A 919 A U 920 A U 921 A G 922 A A
923 A C 924 A G 925 A G 926 A A 1339 A A 1340 A G
1385 A G 1386 A G 1387 A C 1388 A C 1389 A U 1390
A U 1391 A G 1392 A U 1393 A C 1400 A G 1525 A G
1526 A C 1527 A U 1528 A G 1529 A A 1531 A MG
1646 A A 35 Y U 37 Y G 38 Y
19 1.93 1.93 137.4 -0.81 -0.63 10.0 83 7 0 1 4 1 1 0  C 528 A U 534 A A 923 A C 924 A G 933 A C 934 A A
935 A G 966 A C 967 A A 968 A C 1063 A U 1065 A A
1111 A C 1112 A C 1114 A C 1115 A C 1116 A G 1117
A C 1118 A C 1119 A G 1120 A U 1121 A A 1123 A G
1131 A A 1146 A C 1147 A U 1148 A C 1149 A U 1150
A A 1151 A C 1153 A G 1154 A G 1156 A A 1183 A G
1184 A G 1185 A G 1186 A G 1187 A U 1194 A C 1195
A U 1196 A C 1344 A G 1385 A G 1386 A C 1397 A A
1398 A C 1399 A MG 1701 A
20 2.79 2.96 155.1 -0.51 -0.59 6.6 78 5 1 2 2 2 2 0  A 665 A U 677 A U 678 A C 679 A G 690 A G 691 A G
698 A C 699 A A 704 A U 705 A G 718 A C 719 A G
721 A A 722 A U 723 A G 724 A G 725 A C 726 A G
727 A A 729 A A 733 A C 784 A G 785 A G 786 A G
799 A G 800 A G 818 A C 822 A G 823 A C 824 A G
825 A C 826 A U 827 A A 828 A G 829 A G 851 A G
852 A G 853 A G 854 A G 855 A U 870 A U 871 A C
1527 A A 28 Y
21 2.51 2.51 157.1 -0.77 -0.68 8.8 86 8 0 3 4 1 1 0  U 14 A G 15 A A 16 A G 527 A C 528 A U 534 A A
665 A U 669 A G 670 A G 671 A U 672 A G 714 A A
715 A A 716 A C 717 A U 723 A C 732 A A 733 A G
774 A C 805 A C 806 A C 856 A C 857 A C 866 A G
867 A G 886 A G 887 A A 915 A G 916 A G 917 A A
918 A A 919 A G 1392 A U 1393 A A 1394 A C 1397 A
C 1403 A C 1404 A C 1490 A G 1491 A C 1509 A U
1510 A G 1525 A G 1526 A C 1527 A U 1528 A G 1529
A G 1530 A A 1531 A MG 1656 A MG 1666 A
22 2.31 2.31 164.3 -0.67 -0.75 6.2 68 3 0 1 0 2 1 0  U 531 A C 924 A G 933 A C 934 A A 935 A G 963 A A
964 A A 965 A G 966 A C 967 A A 968 A C 1051 A U
1052 A G 1053 A C 1054 A C 1063 A U 1065 A A 1111
A C 1112 A C 1114 A C 1115 A C 1116 A C 1118 A G
1127 A A 1130 A C 1137 A G 1138 A C 1140 A U 1150
A A 1151 A A 1152 A C 1153 A G 1154 A G 1156 A A
1183 A G 1184 A G 1185 A G 1186 A G 1187 A U 1194
A C 1195 A U 1196 A G 1198 A A 1248 A C 1249 A A
1250 A A 1251 A A 1252 A G 1253 A A 1280 A U 1281
A G 1283 A A 1285 A A 1286 A C 1344 A G 1385 A G
1386 A A 1398 A C 1399 A C 1400 A MG 1701 A U 39 Y
23 1.88 2.07 170.2 -0.75 -0.71 8.2 69 5 1 0 1 1 2 0  G 858 A A 859 A A 860 A C 866 A G 867 A U 920 A U
921 A G 922 A A 923 A C 924 A G 925 A G 926 A G
933 A C 934 A A 935 A G 966 A C 967 A A 968 A C
1063 A U 1065 A C 1076 A G 1077 A G 1082 A A 1111
A C 1112 A C 1114 A C 1115 A C 1116 A G 1117 A C
1118 A C 1119 A G 1120 A U 1121 A A 1123 A G 1131
A A 1146 A C 1147 A U 1148 A C 1149 A U 1150 A A
1151 A C 1153 A G 1154 A G 1156 A A 1183 A G 1184
A G 1185 A G 1186 A G 1187 A C 1344 A G 1385 A G
1386 A G 1387 A C 1388 A C 1389 A U 1390 A U 1391
A C 1400 A MG 1701 A
24 1.23 1.47 182.7 -0.98 -0.78 8.6 83 7 3 4 0 1 0 0  U 14 A G 15 A G 527 A C 528 A G 530 A U 531 A A
532 A G 664 A A 665 A G 667 A G 668 A U 669 A G
670 A G 671 A A 716 A C 717 A U 723 A C 732 A A
733 A G 734 A C 735 A C 736 A A 737 A C 738 A C
805 A C 806 A C 856 A C 857 A C 866 A G 867 A G
886 A G 887 A A 915 A G 916 A G 917 A A 918 A A
919 A C 1051 A U 1052 A C 1054 A A 1055 A U 1196
A G 1392 A U 1393 A A 1394 A C 1397 A C 1403 A C
1404 A C 1490 A G 1491 A C 1509 A U 1510 A G 1525
A G 1526 A C 1527 A U 1528 A G 1529 A G 1530 A A
1531 A MG 1656 A MG 1666 A
25 3.14 3.14 188.7 -0.66 -0.55 8.7 81 9 0 3 5 3 3 0  U 14 A G 15 A A 16 A G 527 A C 528 A U 534 A A
665 A U 677 A U 678 A C 679 A G 690 A G 691 A G
698 A C 699 A A 704 A U 705 A G 718 A C 719 A G
721 A A 722 A U 723 A A 733 A C 784 A G 785 A G
786 A G 799 A G 800 A C 856 A C 857 A C 866 A G
867 A G 886 A G 887 A A 915 A G 916 A G 917 A A
918 A A 919 A G 1392 A U 1393 A A 1394 A C 1397 A
C 1403 A C 1404 A C 1490 A G 1491 A C 1509 A U
1510 A C 1527 A U 1528 A G 1529 A G 1530 A A 1531
A MG 1656 A MG 1666 A A 28 Y
26 2.07 2.22 198.2 -1.04 -0.61 13.7 82 15 0 1 5 0 1 0  U 420 A U 421 A C 422 A U 512 A C 513 A C 514 A A
532 A C 995 A A 996 A C 1045 A A 1046 A G 1047 A
G 1048 A A 1130 A C 1137 A G 1138 A A 1204 A U
1205 A G 1206 A G 1207 A C 1208 A C 1209 A A 1248
A C 1249 A U 1257 A G 1258 A C 1259 A C 1260 A A
1261 A C 1262 A C 1270 A G 1271 A G 1272 A A 1286
A A 1287 A U 1315 A G 1316 A C 1317 A
27 1.21 1.50 210.9 -0.93 -0.64 8.2 76 9 2 2 2 2 2 0  G 926 A G 928 A A 937 A A 938 A G 939 A C 940 A G
941 A G 942 A A 949 A G 1089 A C 1234 A U 1235 A
A 1236 A C 1237 A U 1307 A C 1320 A C 1321 A G
1323 A A 1324 A C 1325 A C 1336 A G 1337 A A 1340
A U 1341 A U 1351 A C 1352 A G 1353 A C 1354 A G
1355 A G 1356 A A 1363 A i:A C 1363 A U 1364 A G
1365 A C 1382 A C 1383 A C 1384 A A 1503 A A 1507
A A 1531 A U 1532 A A 1534 A C 1535 A C 1536 A U
1537 A C 23 Y A 24 Y A 25 Y G 27 Y A 28 Y U 31 Y
A 32 Y A 33 Y A 34 Y A 35 Y
28 1.94 2.10 234.4 -1.12 -0.58 14.8 73 14 9 1 4 4 3 0  G 129 A i:A U 129 A C 132 A U 133 A A 134 A C 135
A C 136 A C 137 A G 138 A G 139 A G 142 A G 189 A
i:H U 189 A i:E U 189 A i:F C 218 A C 219 A U 222
A C 224 A C 225 A G 226 A G 227 A G 299 A A 300 A
C 449 A A 452 A A 453 A C 454 A C 455 A G 471 A G
474 A G 475 A G 476 A A 477 A C 479 A U 480 A U
565 A C 596 A G 597 A U 598 A C 599 A C 600 A A
632 A G 633 A C 634 A G 635 A U 636 A G 637 A A
860 A G 861 A C 862 A G 1077 A U 1078 A
29 2.34 2.34 236.8 -0.68 -0.77 7.1 83 6 1 1 0 0 0 0  U 118 A A 119 A A 120 A G 122 A U 133 A A 134 A C
135 A C 136 A C 137 A G 138 A G 139 A G 142 A C
218 A C 219 A C 221 A U 222 A U 223 A C 224 A C
233 A C 245 A G 247 A C 248 A U 249 A A 250 A U
252 A U 261 A A 262 A A 263 A G 265 A C 267 A C
268 A G 284 A C 314 A G 319 A C 320 A C 322 A G
324 A A 325 A G 326 A A 327 A C 328 A C 449 A A
452 A A 453 A C 454 A C 455 A G 471 A G 474 A G
475 A G 476 A A 477 A C 479 A U 480 A G 668 A U
669 A G 670 A G 671 A U 672 A G 714 A A 715 A A
716 A C 732 A A 733 A C 762 A G 763 A C 764 A G
765 A A 766 A A 767 A G 774 A C 806 A A 807 A C
810 A C 811 A C 812 A G 895 A C 896 A C 897 A G
898 A C 1426 A G 1475 A G 1476 A MG 1668 A
30 2.33 2.33 278.9 -0.85 -0.66 10.0 81 12 1 2 6 2 1 0  U 14 A G 15 A A 16 A A 50 A G 52 A A 116 A G 117
A U 118 A A 120 A G 122 A U 133 A A 134 A C 135 A
C 136 A C 137 A G 138 A G 139 A G 142 A C 218 A C
219 A C 221 A U 222 A U 223 A C 224 A C 233 A C
241 A C 242 A A 243 A U 261 A A 262 A A 263 A G
265 A C 267 A C 268 A G 286 A U 287 A C 314 A G
318 A G 319 A C 320 A C 322 A G 324 A A 325 A G
326 A A 327 A C 328 A C 449 A A 452 A A 453 A C
454 A C 455 A G 471 A G 474 A G 475 A G 476 A A
477 A C 479 A U 480 A G 527 A C 528 A U 534 A A
572 A A 573 A A 574 A U 884 A G 885 A G 886 A G
887 A G 888 A A 889 A G 890 A A 907 A A 908 A A
909 A A 915 A G 916 A A 1394 A C 1397 A C 1403 A
C 1404 A G 1423 A C 1424 A U 1425 A C 1479 A C
1490 A G 1491 A U 1510 A MG 1656 A MG 1666 A MG
1668 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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