spacer
spacer

PDBsum entry 4dv7
Go to PDB code: 
Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 4dv7 calculated with MOLE 2.0 PDB id
4dv7
Pores calculated on whole structure Pores calculated excluding ligands
View options
MOLEonline 2.0 manipulation
and
visualization
with HETATM:
without HETATM:
 
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 2.96 2.96 28.5 -0.41 -0.78 3.4 50 0 0 0 0 1 0 0  C 245 A G 286 A U 287 A C 893 A G 894 A A 907 A A
908 A G 1415 A G 1416 A G 1417 A G 1423 A G 1476
A C 1477 A C 1478 A C 1479 A G 1480 A MG 1751 A
2 2.47 2.63 33.1 -0.74 -0.73 6.9 65 1 0 0 0 0 1 0  G 671 A U 672 A G 673 A G 674 A A 675 A G 709 A G
710 A G 711 A A 712 A G 713 A G 714 A A 715 A G
774 A C 806 A
3 2.71 2.71 35.2 -0.75 -0.78 7.0 83 1 0 1 0 0 0 0  C 137 A G 138 A U 202 A G 216 A C 218 A C 219 A C
381 A A 382 A C 455 A C 456 A C 457 A C 458 A G
459 A A 460 A C 461 A G 462 A MG 1688 A
4 3.69 3.69 37.3 -1.25 -0.75 11.8 76 2 0 1 0 0 0 0  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 736 A A 737 A C 738 A U
740 A C 806 A U 833 A C 834 A U 835 A G 836 A G
837 A C 840 A MG 1682 A MG 1711 A
5 2.59 2.76 38.8 -0.89 -0.49 13.9 78 5 1 2 2 1 0 0  G 661 A G 662 A U 833 A C 834 A U 835 A G 836 A G
837 A C 840 A MG 1872 A
6 3.69 3.69 49.0 -1.46 -0.68 16.7 72 4 1 0 0 0 1 0  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 736 A A 737 A C
738 A U 740 A C 806 A MG 1682 A MG 1711 A MG 1782
A
7 3.70 3.77 56.5 -0.54 -0.78 5.2 72 1 0 0 0 0 0 0  M2G 966 A 5MC 967 A C 1195 A U 1196 A C 1384 A G
1385 A C 1397 A A 1398 A C 1399 A 5MC 1400 A G
1401 A 4OC 1402 A C 1403 A 5MC 1404 A G 1405 A U
1406 A A 1408 A C 1409 A G 1410 A C 1411 A C 1412
A U 1485 A G 1486 A G 1487 A G 1488 A G 1489 A C
1490 A G 1491 A A 1493 A G 1494 A C 1543 A U 1544
A SRY 1601 A
8 1.17 1.41 74.9 -0.95 -0.43 12.6 77 8 0 1 2 2 0 0  C 25 A G 286 A U 287 A A 520 A G 521 A C 522 A A
523 A G 524 A C 525 A A 553 A C 554 A C 555 A G
557 A A 908 A A 909 A G 1423 A C 1478 A C 1479 A
G 1480 A
9 1.19 1.42 87.1 -1.24 -0.51 12.3 79 8 1 1 0 2 1 0  U 420 A U 421 A C 422 A C 503 A C 504 A C 511 A U
512 A C 513 A C 514 A A 520 A G 521 A C 522 A A
523 A A 532 A A 533 A U 534 A A 535 A C 536 A G
537 A G 538 A A 539 A G 1206 A MG 1638 A MG 1657
A MG 1719 A
10 2.72 2.72 89.2 -0.60 -0.78 5.8 77 2 0 0 0 0 0 0  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 141 A G 146 A C 177 A C 178 A A
179 A U 180 A G 181 A G 184 A A 185 A C 186 A G
190 A i:H G 190 A i:G U 190 A i:J G 190 A i:I G
190 A i:K U 190 A i:L G 191 A U 192 A C 193 A C
218 A C 219 A C 221 A U 222 A C 224 A C 225 A G
226 A A 460 A A 1451 A C 1452 A MG 1661 A MG 1720
A
11 1.76 1.76 97.4 -1.08 -0.70 12.2 82 7 1 0 1 0 1 0  U 12 A U 13 A U 14 A G 15 A A 16 A U 420 A U 421
A C 422 A G 505 A U 512 A C 513 A C 514 A C 526 A
7MG 527 A C 528 A A 532 A U 534 A A 535 A G 915 A
G 1206 A C 1397 A C 1403 A 5MC 1404 A G 1405 A U
1406 A A 1408 A C 1409 A G 1410 A C 1411 A C 1412
A U 1485 A G 1486 A G 1487 A G 1488 A G 1489 A C
1490 A G 1491 A A 1493 A SRY 1601 A MG 1643 A
12 2.35 2.35 101.0 -0.67 -0.78 6.9 70 3 1 0 0 1 0 0  C 242 A A 243 A U 244 A C 245 A G 286 A U 287 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 G 760 A G 761 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 G 809 A C 810 A C 811 A C 812 A C
882 A C 883 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 1423 A C 1478 A C
1479 A G 1480 A MG 1694 A MG 1751 A
13 2.71 2.71 103.3 -0.65 -0.74 6.2 78 2 0 1 1 0 0 0  C 58 A G 61 A U 62 A C 63 A G 64 A U 65 A G 97 A
U 98 A C 99 A A 101 A G 102 A G 146 A G 147 A G
148 A A 149 A C 150 A A 151 A A 152 A U 164 A C
165 A G 166 A G 167 A C 177 A C 201 A U 202 A G
216 A A 382 A A 383 A C 386 A C 456 A C 457 A C
458 A G 459 A A 460 A C 461 A C 1448 A C 1449 A U
1450 A A 1451 A G 1454 A G 1455 A C 1459 A MG
1652 A MG 1717 A
14 1.85 1.85 105.3 -0.77 -0.77 7.3 85 3 0 1 0 0 0 0  U 669 A G 670 A G 671 A U 672 A G 693 A G 714 A A
715 A A 716 A C 717 A C 732 A A 733 A G 774 A A
790 A G 791 A C 795 A C 796 A C 805 A C 806 A G
926 A C 1383 A C 1384 A G 1385 A 5MC 1400 A U
1506 A A 1507 A G 1525 A G 1526 A C 1527 A G 1530
A C 1539 A PSU 1540 A PSU 1541 A U 1542 A C 1543
A U 1544 A MG 1610 A MG 1753 A MG 1778 A
15 2.98 3.12 106.2 -0.57 -0.79 5.6 70 1 1 0 0 1 0 0  C 242 A A 243 A C 245 A G 286 A U 287 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 G 916 A G 917 A A
1394 A C 1403 A 5MC 1404 A G 1405 A U 1406 A 5MC
1407 A A 1408 A C 1409 A G 1410 A C 1411 A C 1412
A G 1423 A C 1478 A C 1479 A G 1480 A G 1486 A G
1487 A G 1488 A G 1489 A C 1490 A G 1491 A A 1493
A U 1510 A SRY 1601 A MG 1645 A MG 1751 A
16 2.45 2.45 107.5 -0.82 -0.77 7.9 76 2 0 1 0 0 0 0  C 245 A A 246 A G 247 A C 248 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 C 806 A A 807 A G 809 A C 810 A C
811 A C 812 A G 894 A G 895 A C 897 A G 898 A G
1417 A A 1418 A G 1476 A C 1477 A C 1478 A MG
1747 A
17 2.82 2.82 118.9 -0.69 -0.78 6.5 86 2 0 1 0 0 0 0  U 669 A G 670 A G 671 A U 672 A G 714 A A 715 A A
716 A C 717 A C 732 A A 733 A G 774 A C 805 A C
806 A G 890 A G 1405 A U 1406 A 5MC 1407 A A 1408
A G 1486 A G 1487 A G 1488 A A 1507 A G 1508 A C
1509 A U 1510 A G 1511 A U 1512 A G 1516 A G 1517
A MA6 1518 A MA6 1519 A G 1520 A G 1521 A U 1522
A G 1523 A G 1525 A G 1526 A C 1527 A G 1530 A MG
1610 A
18 2.19 2.19 120.8 -0.28 -0.72 3.8 63 1 0 0 2 0 0 0  G 117 A U 118 A A 119 A A 120 A G 122 A G 146 A G
147 A G 148 A A 149 A C 150 A U 164 A C 165 A G
166 A G 167 A C 177 A C 178 A C 233 A U 252 A G
265 A C 267 A G 286 A U 287 A C 314 A A 315 A G
316 A G 319 A C 320 A C 328 A A 329 A G 333 A C
334 A C 335 A C 336 A C 337 A G 348 A A 349 A G
350 A G 351 A G 1423 A C 1424 A U 1425 A C 1426 A
G 1435 A C 1448 A C 1449 A U 1450 A A 1451 A G
1454 A G 1455 A C 1459 A A 1460 A G 1461 A C 1478
A MG 1818 A MG 1843 A
19 2.40 2.40 122.0 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  G 117 A U 118 A A 119 A A 120 A G 122 A C 123 A G
124 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 141 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 G 265 A C 267 A G 286 A U
287 A C 312 A A 313 A C 314 A G 319 A C 328 A A
460 A G 1423 A C 1424 A U 1425 A C 1426 A C 1478
A MG 1660 A MG 1705 A MG 1720 A MG 1768 A MG 1794
A MG 1840 A
20 3.01 3.01 124.3 -0.62 -0.78 6.2 70 2 1 0 0 1 0 0  U 14 A C 242 A A 243 A C 245 A G 286 A U 287 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 G 915 A G
916 A G 917 A M2G 966 A 5MC 967 A C 1195 A U 1196
A C 1384 A G 1385 A A 1394 A C 1397 A A 1398 A C
1399 A 5MC 1400 A G 1401 A 4OC 1402 A C 1403 A
5MC 1404 A G 1423 A C 1478 A C 1479 A G 1480 A C
1490 A G 1491 A G 1494 A U 1510 A C 1543 A U 1544
A SRY 1601 A MG 1645 A MG 1751 A
21 1.22 1.38 134.1 -0.92 -0.60 10.1 79 7 0 0 1 1 0 0  C 23 A U 24 A A 520 A G 521 A C 522 A A 523 A G
524 A C 525 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 908 A C
912 A A 913 A G 916 A G 917 A A 1394 A C 1403 A
5MC 1404 A G 1405 A U 1406 A 5MC 1407 A A 1408 A
C 1409 A G 1410 A C 1411 A C 1412 A G 1486 A G
1487 A G 1488 A G 1489 A C 1490 A G 1491 A A 1493
A U 1510 A MG 1645 A MG 1655 A
22 2.70 2.70 133.4 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  U 723 A G 724 A G 727 A A 729 A G 731 A G 818 A A
819 A C 822 A G 823 A C 824 A G 825 A U 831 A U
833 A C 834 A U 835 A C 840 A C 848 A C 849 A U
850 A G 851 A G 852 A G 853 A G 854 A G 855 A C
856 A C 857 A G 867 A C 868 A U 870 A U 871 A A
872 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 G 928 A G 929 A C 1384 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 5MC 1400 A U 1528 A
G 1529 A C 1543 A U 1544 A MG 1727 A MG 1743 A MG
1793 A MG 1835 A MG 1841 A
23 2.43 2.70 139.8 -0.50 -0.59 8.7 79 4 1 0 5 1 1 0  A 119 A G 238 A U 239 A C 240 A C 241 A G 286 A U
287 A C 290 A C 291 A G 292 A A 300 A G 301 A G
302 A U 304 A C 564 A U 565 A G 567 A G 568 A C
569 A A 632 A G 821 A C 822 A G 823 A C 824 A G
825 A C 826 A U 831 A U 833 A C 834 A U 835 A C
840 A C 848 A C 849 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 G 876 A C
877 A A 908 A A 909 A G 1423 A C 1478 A C 1479 A
G 1480 A MG 1626 A MG 1633 A MG 1712 A MG 1795 A
MG 1835 A MG 1849 A
24 3.11 3.11 146.0 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  G 570 A U 723 A G 724 A G 727 A A 729 A G 731 A G
818 A A 819 A C 822 A G 823 A C 824 A G 825 A U
831 A U 833 A C 834 A U 835 A C 840 A C 848 A C
849 A U 850 A G 851 A G 852 A G 853 A G 854 A G
855 A C 856 A C 866 A G 867 A C 868 A U 870 A U
871 A A 872 A G 887 A G 916 A G 917 A A 918 A A
919 A U 1393 A A 1394 A C 1403 A 5MC 1404 A G
1405 A U 1406 A 5MC 1407 A A 1408 A C 1409 A G
1410 A C 1411 A C 1412 A G 1486 A G 1487 A G 1488
A G 1489 A C 1490 A G 1491 A A 1493 A C 1509 A U
1510 A U 1528 A G 1529 A G 1530 A MG 1645 A MG
1743 A MG 1758 A MG 1835 A
25 1.17 1.49 185.2 -1.17 -0.65 13.7 77 14 5 1 1 2 1 0  U 5 A G 6 A G 7 A C 25 A A 26 A G 27 A G 28 A G
29 A U 30 A U 296 A G 297 A G 299 A A 300 A A 520
A G 521 A C 522 A A 523 A G 524 A C 525 A C 549 A
G 550 A U 551 A U 552 A A 553 A C 554 A U 565 A G
566 A G 567 A G 568 A C 569 A A 611 A C 612 A G
630 A G 631 A G 821 A C 822 A G 823 A C 824 A G
825 A C 826 A U 831 A U 833 A C 834 A U 835 A C
840 A C 848 A C 849 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 MG 1696 A MG 1712 A MG 1715 A MG
1736 A MG 1788 A MG 1795 A MG 1835 A
26 1.23 1.51 200.8 -0.85 -0.55 9.9 80 11 0 1 1 3 1 0  C 23 A U 24 A A 520 A G 521 A C 522 A A 523 A G
524 A C 525 A A 573 A A 574 A U 677 A U 678 A C
679 A C 680 A C 681 A G 682 A G 683 A A 684 A G
685 A G 690 A G 691 A G 693 A C 699 A G 700 A A
702 A G 703 A U 705 A A 706 A C 796 A G 799 A G
800 A U 884 A G 885 A G 886 A G 887 A G 888 A A
889 A G 890 A A 908 A C 912 A A 913 A G 1405 A A
1507 A G 1508 A C 1509 A U 1510 A G 1511 A U 1512
A MA6 1519 A G 1520 A G 1521 A U 1522 A G 1523 A
MG 1610 A MG 1655 A
27 1.60 1.65 209.7 -0.83 -0.36 13.7 79 10 8 5 12 2 3 0  U 13 A U 14 A G 15 A A 16 A C 526 A 7MG 527 A C
528 A G 915 A U 1070 A C 1071 A G 1072 A A 1105 A
C 1113 A C 1153 A G 1154 A G 1155 A C 1192 A G
1193 A U 1194 A C 1397 A C 1403 A 5MC 1404 A G
1405 A U 1406 A A 1408 A C 1409 A G 1410 A C 1411
A C 1412 A U 1485 A G 1486 A G 1487 A G 1488 A G
1489 A C 1490 A G 1491 A A 1493 A SRY 1601 A MG
1643 A MG 1817 A
28 2.58 4.68 237.5 -1.01 -0.75 11.6 75 7 5 0 1 1 1 0  U 5 A G 7 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 141 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 299 A A 300 A A
460 A U 565 A G 566 A G 567 A G 568 A C 569 A C
601 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 821 A C
822 A G 823 A C 824 A G 825 A C 826 A U 831 A U
833 A C 834 A U 835 A C 840 A C 848 A C 849 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 MG 1660 A
MG 1705 A MG 1712 A MG 1720 A MG 1768 A MG 1794 A
MG 1795 A MG 1835 A MG 1840 A MG 1860 A
29 1.54 1.58 255.3 -0.98 -0.45 14.9 80 10 9 7 13 2 2 0  G 568 A C 569 A G 821 A C 822 A G 823 A C 824 A G
825 A C 826 A U 831 A U 833 A C 834 A U 835 A C
840 A C 848 A C 849 A U 850 A G 851 A G 852 A G
861 A C 862 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 G 1072 A U 1073 A G
1074 A C 1075 A C 1076 A G 1077 A U 1078 A A 1105
A C 1113 A C 1153 A G 1154 A G 1155 A MG 1712 A
MG 1776 A MG 1795 A MG 1817 A MG 1835 A
30 1.67 1.65 367.2 -1.12 -0.52 15.4 79 17 13 7 14 3 3 0  U 5 A G 7 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 141 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 299 A A 300 A A
460 A U 565 A G 566 A C 600 A C 601 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 861 A C 862 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 C 1112 A C 1113 A C 1153 A G 1154 A G
1155 A MG 1660 A MG 1705 A MG 1708 A MG 1720 A MG
1768 A MG 1794 A MG 1817 A MG 1840 A MG 1860 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.
spacer
spacer