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PDBsum entry 5lms
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Top Page protein dna_rna metals Protein-protein interface(s) pores links
Pore analysis for: 5lms calculated with MOLE 2.0 PDB id
5lms
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 2.58 2.66 25.9 -0.80 -0.76 8.2 83 1 0 0 0 0 0 0  U 65 A G 97 A U 202 A C 381 A A 452 A A 453 A C
454 A C 455 A C 456 A C 457 A G 460 A C 470 A G
471 A G 474 A G 475 A G 476 A A 477 A U 480 A
2 2.24 4.11 47.7 -2.19 -0.63 26.0 80 4 3 2 1 1 0 0  U 646 A C 647 A A 648 A G 649 A G 650 A C 651 A G
752 A A 753 A C 754 A
3 1.71 1.71 69.9 -1.26 -0.73 10.6 77 4 2 2 2 1 1 0  U 1091 A A 1092 A A 1093 A U 1095 A C 1098 A G
1099 A C 1100 A U 1159 A G 1160 A C 1161 A A 1168
A A 1169 A A 1170 A G 1171 A C 1172 A G 1173 A G
1174 A G 1175 A G 1178 A G 1181 A G 1182 A A 1183
A
4 1.92 2.40 83.0 -1.23 -0.66 14.7 83 6 1 0 1 0 0 0  U 580 A G 581 A G 585 A C 586 A G 587 A U 646 A C
647 A A 648 A U 723 A G 724 A G 727 A A 728 A A
729 A G 731 A U 743 A C 744 A G 755 A C 756 A U
757 A G 758 A G 818 A C 822 A G 823 A G 853 A G
854 A G 855 A C 856 A U 1528 A U 1532 A
5 2.92 2.92 82.4 -0.90 -0.75 8.7 80 7 0 2 0 0 1 0  G 660 A G 661 A G 662 A G 664 A A 665 A G 666 A G
667 A G 668 A U 669 A A 716 A C 717 A U 723 A C
732 A A 733 A G 734 A C 736 A A 737 A C 738 A U
740 A A 767 A C 805 A C 806 A C 856 A G 1525 A G
1526 A C 1527 A U 1528 A G 1530 A U 1532 A
6 1.93 2.35 86.4 -1.49 -0.60 17.9 78 9 1 0 1 0 1 0  U 580 A G 581 A G 585 A C 586 A G 587 A U 646 A C
647 A A 648 A A 655 A C 656 A G 657 A G 658 A G
661 A G 662 A U 743 A C 744 A C 745 A G 755 A C
756 A U 757 A G 758 A G 823 A C 824 A
7 1.76 1.76 89.1 -1.33 -0.54 16.9 77 0 0 0 0 0 0 0  U 5 A G 6 A C 237 A G 238 A G 292 A G 293 A G 299
A A 300 A G 301 A C 596 A G 597 A G 610 A A 611 A
C 612 A C 613 A A 614 A C 615 A G 629 A G 630 A G
631 A A 632 A G 633 A C 634 A G 635 A U 646 A C
647 A
8 1.63 1.73 89.9 -1.08 -0.72 10.8 82 6 0 3 1 1 0 0  C 934 A A 935 A C 936 A A 937 A A 938 A G 939 A U
1065 A A 1092 A A 1093 A U 1095 A C 1098 A G 1099
A C 1100 A A 1110 A A 1111 A C 1112 A C 1158 A U
1159 A G 1160 A C 1161 A A 1168 A A 1169 A A 1170
A G 1171 A A 1183 A G 1184 A G 1185 A G 1186 A G
1187 A A 1339 A A 1340 A U 1341 A C 1342 A G 1343
A C 1344 A C 1383 A C 1384 A
9 2.82 2.82 95.3 -0.86 -0.63 11.0 85 7 0 1 4 1 0 0  U 14 A G 15 A A 16 A G 527 A C 528 A G 529 A U
534 A A 572 A A 573 A C 856 A C 857 A C 866 A G
867 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 A 1396 A C 1397
A C 1403 A C 1404 A C 1490 A G 1491 A U 1528 A G
1529 A G 1530 A A 1531 A
10 2.44 2.44 103.1 -1.08 -0.62 11.0 88 7 0 4 4 1 0 0  C 528 A G 529 A U 534 A C 924 A G 925 A A 938 A G
939 A G 966 A U 1194 A C 1195 A U 1196 A A 1339 A
A 1340 A U 1341 A C 1383 A C 1384 A G 1385 A G
1386 A C 1397 A A 1398 A C 1399 A C 1400 A A 33 Y
A 34 Y A 35 Y G 31 Z OMC 32 Z U 33 Z C 34 Z C 39
Z C 40 Z C 41 Z
11 1.81 3.68 103.1 -1.26 -0.71 14.8 73 0 0 0 0 0 0 0  U 5 A G 6 A G 7 A G 299 A A 300 A U 565 A G 566 A
C 612 A C 613 A A 614 A C 615 A G 629 A G 630 A G
631 A C 856 A C 857 A G 858 A A 859 A A 860 A G
861 A C 862 A U 863 A C 866 A G 867 A G 876 A A
919 A U 920 A C 1076 A G 1077 A U 1078 A G 1082 A
U 1391 A G 1392 A U 1528 A G 1529 A A 1531 A
12 1.78 2.14 105.3 -0.51 -0.47 10.9 82 10 1 3 5 0 0 0  A 665 A G 668 A A 716 A C 717 A U 723 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 C 805 A C 806 A A 807 A C 808 A G 809 A C
810 A C 811 A C 856 A G 1525 A G 1526 A C 1527 A
U 1528 A G 1530 A U 1532 A
13 1.78 1.78 108.3 -1.10 -0.70 11.8 84 5 2 2 2 0 1 0  U 1091 A A 1092 A A 1093 A U 1095 A C 1098 A G
1099 A C 1100 A U 1159 A G 1160 A C 1161 A A 1168
A A 1169 A A 1170 A G 1171 A C 1172 A G 1173 A G
1174 A G 1175 A G 1182 A A 1183 A C 1378 A G 1379
A U 1380 A C 1536 A U 1537 A C 1538 A C 1539 A U
1540 A U 1541 A A 20 Y G 21 Y G 22 Y
14 1.73 2.09 108.5 -0.86 -0.41 15.2 78 13 1 3 5 0 1 0  G 661 A G 662 A G 664 A A 665 A G 666 A G 667 A G
668 A U 669 A C 732 A A 733 A G 734 A C 736 A A
737 A C 738 A U 740 A C 762 A G 763 A C 764 A G
765 A A 766 A A 767 A C 806 A A 807 A C 808 A G
809 A C 810 A C 811 A
15 1.81 3.86 115.0 -1.38 -0.70 16.0 72 0 0 0 0 0 0 0  U 5 A G 6 A G 7 A G 299 A A 300 A U 565 A G 566 A
G 568 A C 569 A C 612 A C 613 A A 614 A C 615 A G
629 A G 630 A G 631 A A 655 A C 656 A G 657 A G
658 A G 661 A G 662 A U 743 A C 744 A C 745 A G
821 A C 822 A G 823 A C 824 A G 825 A G 852 A G
853 A U 871 A A 872 A A 873 A G 874 A C 875 A G
876 A C 877 A G 878 A
16 2.30 2.30 114.6 -0.87 -0.63 10.3 86 6 0 1 4 1 0 0  C 528 A G 529 A U 534 A C 924 A G 925 A G 926 A G
928 A G 929 A C 930 A C 931 A G 966 A U 1194 A C
1195 A U 1196 A U 1380 A U 1381 A C 1382 A C 1383
A C 1384 A G 1385 A G 1386 A C 1397 A A 1398 A C
1399 A C 1400 A C 1535 A C 1536 A U 1537 A C 1538
A C 1539 A U 1540 A U 1541 A A 20 Y G 21 Y G 22 Y
17 1.27 1.72 115.8 -1.55 -0.64 14.9 80 10 1 6 2 0 0 0  G 1072 A U 1073 A U 1095 A C 1096 A C 1098 A G
1099 A C 1100 A G 1104 A A 1105 A G 1106 A C 1109
A A 1110 A U 1159 A G 1160 A C 1161 A A 1168 A A
1169 A A 1170 A G 1171 A
18 1.82 1.98 132.3 -0.90 -0.55 13.9 78 8 4 1 6 1 1 0  U 5 A G 6 A C 237 A G 238 A G 292 A G 293 A G 299
A A 300 A G 301 A C 596 A G 597 A G 610 A A 611 A
C 612 A C 613 A A 614 A C 615 A G 629 A G 630 A G
631 A A 632 A G 633 A C 634 A G 635 A U 646 A C
647 A A 648 A
19 1.80 1.80 140.4 -1.00 -0.71 10.6 87 5 2 3 3 0 1 0  U 723 A C 856 A U 1091 A A 1092 A A 1093 A U 1095
A C 1098 A G 1099 A C 1100 A U 1159 A G 1160 A C
1161 A A 1168 A A 1169 A A 1170 A G 1171 A C 1172
A G 1173 A G 1174 A G 1175 A G 1182 A A 1183 A C
1378 A G 1379 A U 1380 A U 1528 A G 1530 A U 1532
A A 1534 A C 1535 A C 1536 A U 1537 A G 22 Y A 24
Y G 26 Y G 27 Y A 28 Y
20 1.82 1.89 143.3 -1.43 -0.66 15.0 82 14 3 3 4 2 1 0  C 528 A G 529 A U 534 A C 924 A C 934 A A 935 A G
966 A C 967 A A 968 A C 1063 A G 1064 A U 1065 A
G 1181 A G 1182 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 A 1346 A G 1385 A G 1386 A C 1397 A A 1398 A C
1399 A C 1400 A
21 2.24 2.40 149.7 -1.16 -0.61 12.3 83 10 0 3 5 2 0 0  C 528 A G 529 A U 534 A G 688 A G 693 A A 694 A A
695 A A 696 A U 697 A G 698 A C 699 A G 700 A U
788 A U 789 A C 924 A G 925 A G 966 A U 1194 A C
1195 A U 1196 A A 1340 A U 1341 A C 1383 A C 1384
A G 1385 A G 1386 A C 1397 A A 1398 A C 1399 A C
1400 A A 33 Y A 34 Y A 35 Y U 24 Z G 31 Z OMC 32
Z U 33 Z C 34 Z C 39 Z C 40 Z C 41 Z
22 1.71 1.74 157.1 -0.63 -0.59 9.7 79 7 3 1 5 0 2 0  U 65 A G 97 A U 129 A G 129 A i:A C 131 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 A 140 A G 189 A i:H U 189 A i:E U 202 A C
218 A C 219 A C 221 A U 222 A C 224 A C 225 A G
226 A G 227 A A 228 A C 381 A A 382 A C 455 A C
456 A C 470 A G 471 A G 594 A G 595 A C 596 A G
637 A U 646 A C 647 A A 648 A
23 1.89 1.89 165.7 -0.90 -0.70 8.9 81 8 0 2 2 1 0 0  G 688 A G 693 A A 694 A A 695 A A 696 A U 697 A G
698 A C 699 A G 700 A U 788 A U 789 A G 925 A G
926 A G 928 A C 930 A C 931 A C 932 A U 1090 A U
1091 A A 1092 A A 1093 A U 1095 A C 1098 A G 1099
A C 1100 A U 1159 A G 1160 A C 1161 A A 1168 A A
1169 A A 1170 A G 1171 A C 1172 A G 1173 A G 1182
A A 1183 A A 1340 A U 1341 A U 1380 A U 1381 A C
1382 A C 1383 A C 1384 A G 1385 A G 1386 A A 33 Y
A 34 Y A 35 Y U 24 Z G 31 Z OMC 32 Z U 33 Z C 34
Z C 39 Z C 40 Z C 41 Z
24 1.84 2.14 188.2 -0.78 -0.51 12.4 81 15 2 3 10 1 1 0  U 14 A G 15 A A 16 A G 527 A C 528 A G 529 A U
534 A A 574 A G 575 A G 576 A G 577 A G 760 A G
761 A C 762 A G 763 A C 764 A G 765 A G 809 A C
810 A C 811 A C 812 A A 814 A A 815 A A 819 A G
881 A C 882 A G 887 A G 890 A C 897 A C 904 A U
905 A A 915 A A 1394 A A 1396 A C 1397 A C 1403 A
C 1404 A G 1405 A C 1490 A G 1491 A C 1509 A U
1510 A G 1511 A
25 1.03 1.09 198.5 -0.91 -0.53 12.0 85 9 2 2 8 2 1 0  C 528 A G 529 A G 530 A U 534 A G 953 A G 954 A A
965 A C 1054 A U 1196 A G 1198 A C 1397 A U 39 Y
G 19 Z U 20 Z A 21 Z G 22 Z C 23 Z U 24 Z C 25 Z
G 26 Z U 27 Z C 28 Z G 29 Z G 30 Z A 35 Z U 36 Z
A 37 Z A 38 Z C 39 Z C 41 Z G 42 Z A 43 Z A 44 Z
U 47 Z C 56 Z A 57 Z MG 101 Z
26 1.63 3.77 224.7 -1.22 -0.63 15.3 78 5 5 3 4 2 2 0  U 65 A G 97 A G 128 A G 129 A i:A U 129 A C 131 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 A 140 A U 202 A C 218 A C 219 A C
221 A U 222 A C 224 A C 225 A G 226 A G 227 A A
228 A U 229 A C 381 A A 382 A C 455 A C 456 A C
470 A G 471 A G 604 A U 605 A C 615 A G 616 A G
617 A G 627 A G 628 A
27 2.15 2.25 250.2 -0.58 -0.77 6.0 70 2 1 0 2 0 0 0  A 50 A G 52 A A 53 A C 54 A A 55 A U 56 A C 58 A
A 59 A G 61 A U 62 A U 65 A G 97 A G 98 A U 99 A
C 100 A A 116 A G 117 A U 202 A C 242 A A 243 A U
244 A G 286 A U 287 A A 338 A C 339 A U 340 A C
341 A C 342 A A 349 A G 350 A G 351 A U 359 A A
360 A A 382 A A 383 A G 384 A C 385 A C 386 A C
456 A A 572 A A 573 A A 574 A A 819 A C 856 A C
857 A C 866 A G 867 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 G 917 A A 918 A A 919 A G 1392 A U 1393 A A
1394 A G 1423 A C 1424 A C 1479 A C 1509 A U 1510
A U 1528 A G 1529 A G 1530 A A 1531 A
28 2.83 2.83 314.1 -0.60 -0.71 5.1 74 3 1 3 2 2 0 0  A 50 A G 52 A A 53 A C 54 A A 55 A U 56 A C 58 A
A 59 A G 61 A U 62 A U 65 A G 97 A G 98 A U 99 A
C 100 A A 116 A G 117 A U 202 A U 287 A A 338 A C
339 A U 340 A C 341 A C 342 A A 349 A G 350 A G
351 A U 359 A A 360 A A 382 A A 383 A G 384 A C
385 A C 386 A C 456 A C 924 A G 925 A A 938 A G
939 A G 966 A U 1194 A C 1195 A U 1196 A A 1339 A
A 1340 A U 1341 A C 1383 A C 1384 A G 1385 A G
1386 A C 1397 A A 1398 A C 1399 A C 1400 A G 1401
A C 1402 A C 1403 A C 1404 A G 1405 A U 1406 A C
1407 A A 1408 A C 1409 A G 1410 A C 1411 A A 1413
A U 1414 A G 1415 A G 1423 A C 1424 A C 1479 A G
1480 A U 1481 A G 1482 A G 1487 A G 1488 A G 1489
A C 1490 A G 1491 A A 1492 A A 1493 A A 33 Y A 34
Y A 35 Y G 31 Z OMC 32 Z U 33 Z C 34 Z C 39 Z C
40 Z C 41 Z
29 1.97 1.97 316.0 -0.61 -0.73 5.3 77 5 2 4 1 2 0 0  A 50 A G 52 A A 116 A G 117 A U 118 A A 120 A G
122 A C 123 A G 124 A G 126 A G 127 A G 128 A G
129 A i:A U 129 A C 131 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 A 140 A C
218 A C 219 A C 221 A U 222 A C 224 A C 225 A G
226 A G 227 A A 228 A U 229 A G 230 A G 231 A G
232 A C 233 A C 234 A U 252 A C 267 A C 268 A U
287 A A 313 A G 318 A G 319 A C 320 A A 382 A C
449 A A 452 A A 453 A C 454 A C 455 A C 470 A G
471 A G 474 A G 475 A G 476 A A 477 A U 480 A C
924 A G 925 A A 938 A G 939 A G 966 A U 1194 A C
1195 A U 1196 A A 1339 A A 1340 A U 1341 A C 1383
A C 1384 A G 1385 A G 1386 A C 1397 A A 1398 A C
1399 A C 1400 A G 1401 A C 1402 A C 1403 A C 1404
A G 1405 A U 1406 A C 1407 A A 1408 A C 1409 A G
1410 A C 1411 A A 1413 A U 1414 A G 1415 A G 1423
A C 1424 A U 1425 A C 1426 A C 1479 A G 1480 A U
1481 A G 1482 A G 1487 A G 1488 A G 1489 A C 1490
A G 1491 A A 1492 A A 1493 A A 33 Y A 34 Y A 35 Y
G 31 Z OMC 32 Z U 33 Z C 34 Z C 39 Z C 40 Z C 41 Z
30 1.03 1.09 406.2 -0.67 -0.67 7.6 77 6 3 1 5 2 1 0  A 50 A G 52 A A 53 A C 54 A A 55 A U 56 A C 58 A
A 59 A G 61 A U 62 A U 65 A G 97 A G 98 A U 99 A
C 100 A A 116 A G 117 A U 202 A U 287 A A 338 A C
339 A U 340 A C 341 A C 342 A A 349 A G 350 A G
351 A U 359 A A 360 A A 382 A A 383 A G 384 A C
385 A C 386 A C 456 A G 953 A G 954 A A 965 A U
1196 A C 1397 A A 1398 A C 1400 A G 1401 A C 1402
A C 1403 A C 1404 A G 1405 A U 1406 A C 1407 A A
1408 A C 1409 A G 1410 A C 1411 A A 1413 A U 1414
A G 1415 A G 1423 A C 1424 A C 1479 A G 1480 A U
1481 A G 1482 A G 1487 A G 1488 A G 1489 A C 1490
A G 1491 A A 1492 A A 1493 A U 39 Y G 19 Z U 20 Z
A 21 Z G 22 Z C 23 Z U 24 Z C 25 Z G 26 Z U 27 Z
C 28 Z G 29 Z G 30 Z A 35 Z U 36 Z A 37 Z A 38 Z
C 39 Z C 41 Z G 42 Z A 43 Z A 44 Z U 47 Z C 56 Z
A 57 Z MG 101 Z

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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