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PDBsum entry 1j5e
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Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 1j5e calculated with MOLE 2.0 PDB id
1j5e
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 3.32 3.32 49.4 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  U 129 A G 129 A i: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 A 141 A
G 190 A i:G U 190 A i:D U 190 A i:E C 218 A C 219
A C 221 A U 222 A U 223 A C 224 A C 225 A G 226 A
G 227 A A 460 A UNX 1691 A
2 3.21 3.21 51.2 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  G 57 A C 58 A A 59 A U 62 A C 63 A G 64 A G 69 A
G 70 A C 73 A C 74 A G 75 A C 76 A U 90 A C 91 A
C 92 A G 93 A U 95 A G 96 A G 97 A U 98 A C 99 A
U 368 A C 369 A C 370 A G 371 A C 372 A C 385 A C
386 A U 387 A G 388 A
3 1.73 1.77 51.7 -1.18 -0.63 15.4 83 3 2 1 3 0 1 0  U 652 A A 653 A C 747 A C 748 A C 749 A U 827 A A
828 A G 829 A U 839 A U 850 A G 851 A G 858 A A
859 A
4 3.46 3.46 58.0 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  U 118 A A 119 A A 120 A G 122 A C 123 A G 124 A G
127 A G 128 A U 129 A G 129 A i:A C 131 A U 190 A
i:D U 190 A i:E G 190 A i:G G 227 A A 228 A U 229
A G 230 A G 231 A G 232 A C 233 A U 252 A C 267 A
C 268 A G 284 A C 312 A A 313 A C 314 A G 319 A C
320 A C 328 A G 1421 A G 1422 A G 1423 A C 1424 A
U 1425 A C 1426 A U 1427 A A 1468 A G 1469 A G
1470 A G 1471 A U 1472 A A 1473 A UNX 1637 A UNX
1640 A
5 2.71 2.71 61.8 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  G 858 A A 859 A C 866 A G 867 A G 887 A G 888 A G
890 A U 891 A A 892 A G 902 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 1404 A G
1405 A C 1509 A U 1510 A G 1511 A U 1512 A G 1520
A G 1529 A G 1530 A UNX 1606 A UNX 1721 A
6 2.51 2.51 68.9 -0.55 -0.79 5.2 83 1 0 0 0 0 0 0  G 57 A C 58 A A 59 A U 62 A C 63 A G 64 A U 65 A
G 96 A G 97 A U 98 A C 99 A C 137 A G 138 A G 139
A C 201 A U 202 A C 218 A C 219 A U 368 A C 369 A
C 370 A G 371 A C 372 A C 381 A A 382 A A 383 A C
385 A C 386 A U 387 A G 388 A C 455 A C 456 A A
460 A C 461 A G 462 A
7 2.49 2.49 75.1 -0.56 -0.78 5.3 83 1 0 0 0 0 0 0  G 64 A U 65 A G 69 A G 70 A C 73 A C 74 A G 75 A
C 76 A U 90 A C 91 A C 92 A G 93 A U 95 A G 96 A
C 137 A G 138 A G 139 A C 201 A U 202 A C 218 A C
219 A C 381 A A 382 A C 455 A C 456 A A 460 A C
461 A G 462 A
8 2.77 2.89 92.4 -1.55 -0.67 18.1 70 8 6 1 0 3 3 0  UNX 71 A U 190 A i:D U 190 A i:E C 237 A G 299 A
A 300 A C 564 A U 565 A G 566 A C 596 A G 597 A G
633 A C 634 A G 635 A U 636 A G 637 A G 858 A A
859 A A 860 A G 861 A C 862 A U 863 A G 867 A C
1076 A G 1077 A U 1078 A
9 2.34 2.34 100.5 -0.95 -0.73 9.8 73 4 1 1 0 0 1 0  U 652 A A 653 A 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 671 A C
732 A A 733 A G 734 A C 735 A C 736 A U 740 A U
743 A C 744 A C 745 A C 747 A C 748 A C 749 A A
766 A A 767 A C 770 A G 771 A U 772 A G 773 A U
801 A A 802 A G 803 A U 804 A C 805 A C 806 A A
807 A C 808 A G 809 A C 810 A UNX 1566 A UNX 1573
A UNX 1576 A UNX 1594 A UNX 1595 A UNX 1710 A
10 2.72 2.72 105.1 -0.59 -0.65 6.6 68 4 0 0 1 1 1 0  U 190 A i:D U 190 A i:E C 237 A G 238 A U 239 A C
240 A C 241 A C 242 A A 243 A U 244 A G 281 A G
301 A G 302 A A 574 A G 575 A G 576 A G 577 A C
596 A G 597 A A 632 A G 633 A C 634 A G 635 A U
636 A G 637 A G 760 A A 815 A G 881 A C 882 A G
890 A U 891 A A 892 A G 902 A U 905 A G 906 A U
1510 A G 1511 A U 1512 A UNX 1574 A UNX 1580 A
11 2.31 2.31 113.0 -0.56 -0.66 6.2 68 4 0 0 1 1 1 0  U 190 A i:D U 190 A i:E C 237 A G 238 A U 239 A C
240 A C 241 A C 242 A A 243 A U 244 A G 281 A G
301 A G 302 A C 596 A G 597 A A 632 A G 633 A C
634 A G 635 A U 636 A G 637 A G 760 A G 761 A C
762 A G 763 A C 764 A G 765 A C 770 A G 771 A U
772 A G 773 A U 801 A A 802 A G 803 A U 804 A C
805 A C 806 A A 807 A C 808 A G 809 A C 810 A C
811 A C 812 A C 882 A G 895 A C 896 A C 897 A G
903 A C 904 A U 905 A G 906 A UNX 1594 A UNX 1595
A UNX 1710 A
12 2.86 2.86 133.7 -0.51 -0.74 5.2 66 1 1 0 1 1 0 0  G 117 A C 242 A U 244 A G 286 A U 287 A G 317 A C
337 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 U 891 A A 892 A G
902 A A 907 A A 908 A G 1421 A G 1422 A G 1423 A
C 1424 A U 1425 A G 1469 A G 1470 A G 1471 A U
1472 A A 1473 A G 1474 A C 1478 A C 1479 A U 1510
A G 1511 A U 1512 A UNX 1637 A UNX 1659 A
13 2.23 2.23 137.6 -1.17 -0.74 13.2 72 6 6 1 0 2 1 0  U 5 A G 6 A G 29 A U 30 A G 44 A U 45 A G 57 A C
58 A UNX 71 A C 295 A U 296 A G 297 A G 299 A A
300 A G 306 A C 307 A C 308 A C 355 A A 356 A U
368 A C 369 A C 370 A G 371 A G 388 A C 390 A G
391 A G 392 A A 393 A C 400 A U 565 A G 566 A A
611 A C 612 A C 623 A C 624 A G 630 A G 858 A A
859 A A 860 A G 861 A C 862 A U 863 A G 867 A C
1076 A G 1077 A U 1078 A UNX 1579 A
14 1.68 3.09 147.0 -1.76 -0.52 19.4 80 6 4 4 5 4 0 0  U 125 A G 126 A G 127 A G 128 A U 129 A G 129 A i:
A C 131 A U 190 A i:D U 190 A i:E G 190 A i:G G
227 A A 228 A U 229 A G 230 A G 231 A C 436 A U
437 A G 438 A C 488 A C 489 A G 490 A G 491 A G
492 A G 494 A U 605 A G 606 A A 608 A C 615 A G
616 A G 617 A C 618 A U 619 A G 625 A U 626 A G
627 A G 628 A UNX 1560 A
15 1.70 1.75 151.6 -0.97 -0.69 11.3 85 7 1 0 3 1 0 0  A 8 A G 9 A A 10 A G 11 A A 26 A G 27 A G 28 A G
29 A U 30 A G 44 A U 45 A G 57 A C 58 A C 295 A U
296 A G 297 A A 298 A G 306 A C 307 A C 308 A C
355 A A 356 A U 368 A C 369 A C 370 A G 371 A G
388 A C 390 A G 391 A G 392 A A 393 A C 400 A G
506 A C 507 A C 508 A U 512 A C 513 A C 514 A G
515 A U 516 A U 531 A A 532 A U 534 A G 557 A G
558 A C 623 A C 624 A G 1207 A C 1208 A C 1209 A
UNX 1683 A UNX 1689 A
16 2.32 2.32 157.3 -0.55 -0.75 5.7 67 2 1 0 1 1 0 0  G 117 A C 242 A A 243 A U 244 A G 286 A U 287 A G
317 A C 337 A G 760 A G 761 A C 762 A G 763 A C
764 A G 765 A C 770 A G 771 A U 772 A G 773 A U
801 A A 802 A G 803 A U 804 A C 805 A C 806 A A
807 A C 808 A G 809 A C 810 A C 811 A C 812 A C
882 A G 895 A C 896 A C 897 A G 903 A C 904 A U
905 A G 906 A A 907 A A 908 A G 1421 A G 1422 A G
1423 A C 1424 A U 1425 A G 1469 A G 1470 A G 1471
A U 1472 A A 1473 A G 1474 A C 1478 A C 1479 A
UNX 1594 A UNX 1595 A UNX 1637 A UNX 1710 A
17 2.19 2.19 160.5 -0.62 -0.78 6.2 74 4 0 0 0 0 0 0  G 57 A C 58 A A 59 A G 61 A U 62 A C 99 A A 101 A
A 120 A C 121 A G 122 A C 240 A C 241 A C 242 A A
243 A U 244 A U 252 A C 267 A C 268 A C 277 A G
281 A A 282 A C 283 A C 314 A A 315 A G 316 A G
319 A C 320 A C 328 A A 329 A C 330 A G 331 A G
332 A G 333 A G 350 A G 351 A U 368 A C 369 A C
370 A G 371 A C 372 A C 386 A U 387 A G 388 A G
760 A G 761 A C 762 A G 763 A C 764 A G 765 A C
770 A G 771 A U 772 A G 773 A U 801 A A 802 A G
803 A U 804 A C 805 A C 806 A A 807 A C 808 A G
809 A C 810 A C 811 A C 812 A C 882 A G 895 A C
896 A C 897 A G 903 A C 904 A U 905 A G 906 A UNX
1594 A UNX 1595 A UNX 1710 A
18 2.06 2.06 164.9 -0.52 -0.76 5.2 63 1 1 0 2 1 0 0  G 57 A C 58 A A 59 A G 61 A U 62 A C 99 A A 101 A
G 117 A U 118 A A 119 A A 120 A G 122 A C 242 A U
244 A U 252 A G 265 A C 267 A C 268 A G 284 A G
286 A U 287 A C 314 A A 315 A G 316 A G 318 A G
319 A C 320 A C 328 A A 329 A C 330 A G 331 A G
332 A G 333 A G 350 A G 351 A U 368 A C 369 A C
370 A G 371 A C 372 A C 386 A U 387 A G 388 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 U 891 A A 892 A G 902 A A
907 A A 908 A G 1423 A C 1424 A U 1425 A C 1426 A
C 1478 A C 1479 A U 1510 A G 1511 A U 1512 A UNX
1659 A UNX 1674 A
19 1.15 1.56 163.2 -1.06 -0.49 12.6 75 11 1 1 6 3 2 0  U 14 A G 15 A A 16 A A 415 A G 416 A C 417 A C
418 A C 419 A U 420 A U 421 A C 422 A U 427 A G
428 A A 430 A A 431 A G 500 A U 512 A C 513 A C
514 A G 527 A C 528 A G 530 A A 532 A U 534 A G
538 A A 539 A G 540 A G 541 A G 542 A C 543 A G
544 A C 545 A C 1397 A C 1402 A A 1493 A UNX 1605
A UNX 1683 A
20 2.30 2.30 167.5 -0.62 -0.76 6.7 70 2 2 0 1 1 0 0  G 117 A C 242 A A 243 A U 244 A G 286 A U 287 A G
317 A C 337 A G 576 A G 577 A C 578 A G 579 A U
580 A U 652 A A 653 A G 654 A A 655 A C 656 A U
743 A C 744 A C 745 A A 746 A C 747 A C 748 A C
749 A U 757 A G 758 A A 759 A G 760 A G 761 A C
762 A C 822 A G 823 A C 824 A U 839 A U 850 A G
851 A G 852 A C 882 A C 904 A U 905 A G 906 A A
907 A A 908 A G 1421 A G 1422 A G 1423 A C 1424 A
U 1425 A G 1469 A G 1470 A G 1471 A U 1472 A A
1473 A C 1478 A C 1479 A UNX 1553 A UNX 1637 A
21 1.80 3.10 176.0 -1.18 -0.60 12.6 79 6 3 3 4 3 0 0  G 41 A G 42 A C 43 A G 44 A U 45 A G 57 A C 58 A
C 355 A A 356 A U 368 A C 369 A C 370 A G 371 A G
388 A C 390 A G 391 A G 392 A A 393 A G 394 A C
395 A C 436 A U 437 A G 438 A A 439 A A 440 A C
442 A C 443 A C 444 A U 486 A A 487 A C 489 A G
490 A G 491 A G 492 A G 494 A UNX 1560 A UNX 1687
A
22 1.48 1.48 179.0 -1.03 -0.74 12.6 74 5 6 0 1 1 1 0  U 5 A G 6 A G 29 A U 30 A G 44 A U 45 A G 57 A C
58 A C 295 A U 296 A G 297 A G 299 A A 300 A G
306 A C 307 A C 308 A C 355 A A 356 A U 368 A C
369 A C 370 A G 371 A G 388 A C 390 A G 391 A G
392 A A 393 A C 400 A U 565 A G 566 A G 567 A G
568 A C 569 A A 611 A C 612 A C 623 A C 624 A G
630 A U 652 A A 653 A C 747 A C 748 A C 749 A G
821 A C 822 A G 823 A C 824 A G 825 A C 826 A U
827 A U 839 A U 850 A G 851 A G 852 A U 870 A U
871 A A 872 A A 873 A G 874 A C 875 A G 876 A C
877 A UNX 1570 A UNX 1579 A UNX 1611 A
23 2.97 4.20 188.6 -1.11 -0.74 12.8 74 8 7 1 1 2 1 0  U 5 A UNX 71 A U 125 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 A
141 A C 218 A C 219 A C 221 A U 222 A U 223 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 299 A A 300 A A 460 A U 565 A G
566 A A 602 A U 603 A G 604 A U 605 A G 606 A A
608 A G 628 A G 629 A G 630 A G 631 A G 858 A A
859 A A 860 A G 861 A C 862 A U 863 A G 867 A C
1076 A G 1077 A U 1078 A UNX 1626 A UNX 1666 A
UNX 1676 A UNX 1691 A UNX 1713 A
24 1.54 1.59 202.5 -1.00 -0.79 10.5 86 7 3 4 0 0 0 0  U 652 A A 653 A G 654 A A 655 A G 693 A U 723 A G
724 A G 725 A G 727 A A 728 A A 729 A G 731 A U
743 A C 744 A C 745 A A 746 A C 747 A C 748 A C
749 A G 818 A C 822 A G 823 A C 824 A U 839 A U
850 A G 851 A G 852 A G 853 A G 854 A G 855 A G
926 A G 928 A C 936 A A 937 A A 938 A G 939 A C
940 A G 941 A G 942 A C 1237 A A 1238 A G 1241 A
C 1242 A C 1243 A A 1289 A G 1290 A G 1291 A U
1292 A G 1293 A G 1294 A C 1336 A G 1337 A U 1341
A C 1342 A U 1351 A C 1352 A C 1382 A C 1383 A A
1503 A A 1507 A C 1527 A U 1528 A G 1530 A A 1531
A A 1534 A C 1539 A U 1540 A UNX 1550 A UNX 1557
A UNX 1583 A UNX 1587 A UNX 1636 A
25 2.24 2.24 204.4 -0.51 -0.76 5.1 66 1 1 0 1 1 0 0  G 117 A U 118 A A 119 A A 120 A G 122 A C 123 A G
124 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 A 141 A C 218 A C 219 A C
221 A U 222 A U 223 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 242 A U 244 A U 252 A C 267 A C 268 A G
284 A G 286 A U 287 A C 312 A A 313 A C 314 A G
318 A G 319 A C 320 A C 328 A A 460 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 U 891 A A 892 A G 902 A A 907 A A
908 A G 1423 A C 1424 A U 1425 A C 1426 A C 1478
A C 1479 A U 1510 A G 1511 A U 1512 A UNX 1659 A
UNX 1676 A UNX 1691 A UNX 1713 A
26 1.20 1.61 211.7 -1.09 -0.55 13.7 74 12 1 0 6 2 1 0  A 415 A G 416 A C 417 A C 418 A C 419 A U 420 A U
421 A C 422 A U 427 A G 428 A A 430 A A 431 A G
500 A C 513 A C 514 A G 538 A A 539 A G 540 A G
541 A G 542 A C 543 A G 544 A C 545 A A 996 A U
997 A G 998 A C 999 A U 1000 A A 1001 A G 1002 A
G 1003 A G 1003 A i:A A 1004 A U 1025 A G 1026 A
C 1027 A G 1031 A G 1032 A G 1033 A G 1034 A A
1035 A C 1037 A C 1038 A A 1046 A G 1047 A A 1204
A U 1205 A G 1206 A G 1207 A C 1208 A UNX 1568 A
UNX 1683 A
27 2.07 2.07 218.7 -0.73 -0.76 7.4 83 5 3 3 3 0 0 0  G 41 A G 42 A C 43 A G 44 A U 45 A G 46 A C 47 A
C 48 A U 49 A A 50 A A 51 A G 52 A U 114 A G 115
A A 116 A G 117 A G 286 A U 287 A A 288 A C 308 A
G 317 A C 337 A A 353 A C 355 A A 356 A C 366 A C
390 A G 391 A G 392 A A 393 A G 394 A C 395 A C
436 A U 437 A G 438 A A 439 A A 440 A C 442 A C
443 A C 444 A U 486 A A 487 A C 489 A G 490 A G
491 A G 492 A G 494 A G 1421 A G 1422 A G 1423 A
C 1424 A U 1425 A G 1469 A G 1470 A G 1471 A U
1472 A A 1473 A UNX 1560 A UNX 1637 A UNX 1687 A
28 1.14 1.53 223.3 -1.55 -0.47 20.2 76 17 4 1 9 2 1 0  A 415 A G 416 A C 417 A C 418 A C 419 A U 420 A U
421 A C 422 A U 427 A G 428 A A 430 A A 431 A G
500 A C 513 A C 514 A G 538 A A 539 A G 540 A G
541 A G 542 A C 543 A G 544 A C 545 A A 996 A U
997 A A 1046 A G 1047 A A 1204 A U 1205 A G 1206
A G 1207 A C 1208 A U 1257 A UNX 1683 A
29 2.10 2.92 233.6 -1.59 -0.68 18.4 77 13 11 4 4 3 1 0  U 5 A G 6 A UNX 71 A C 295 A U 296 A G 297 A G
299 A A 300 A C 436 A U 437 A G 438 A C 488 A C
489 A G 490 A G 491 A G 492 A G 494 A U 565 A G
566 A A 611 A C 612 A C 613 A A 614 A C 615 A G
617 A C 618 A U 619 A C 620 A A 621 A A 622 A C
623 A G 630 A G 858 A A 859 A A 860 A G 861 A C
862 A U 863 A G 867 A C 1076 A G 1077 A U 1078 A
UNX 1560 A UNX 1579 A UNX 1624 A
30 1.61 1.61 244.5 -0.86 -0.73 8.9 79 10 2 5 2 1 1 0  U 652 A A 653 A G 654 A A 655 A G 693 A U 723 A G
724 A G 725 A G 727 A A 728 A A 729 A G 731 A U
743 A C 744 A C 745 A A 746 A C 747 A C 748 A C
749 A G 818 A C 822 A G 823 A C 824 A U 839 A U
850 A G 851 A G 852 A G 853 A G 854 A G 855 A G
926 A G 928 A C 936 A A 937 A A 938 A G 939 A C
940 A G 941 A G 942 A C 1234 A U 1235 A A 1236 A
C 1237 A U 1307 A G 1312 A C 1320 A G 1323 A A
1324 A C 1325 A C 1336 A G 1337 A U 1341 A C 1342
A U 1351 A C 1352 A G 1353 A C 1354 A G 1355 A G
1356 A C 1362 A A 1363 A U 1364 A G 1365 A C 1382
A C 1383 A A 1503 A A 1507 A C 1527 A U 1528 A G
1530 A A 1531 A A 1534 A C 1539 A U 1540 A UNX
1550 A UNX 1557 A UNX 1583 A UNX 1587 A UNX 1617
A UNX 1620 A UNX 1628 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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