spacer
spacer

PDBsum entry 1vs5
Go to PDB code: 
Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 1vs5 calculated with MOLE 2.0 PDB id
1vs5
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 4.15 4.15 39.5 -0.51 -0.79 4.7 89 1 0 0 0 0 0 0  A 51 A C 52 A A 116 A G 117 A U 118 A A 119 A A
120 A U 121 A G 237 A U 252 A A 253 A G 275 A G
276 A C 277 A G 278 A A 279 A C 280 A G 281 A A
282 A U 283 A C 284 A U 317 A G 318 A G 319 A U
1424 A U 1425 A G 1426 A
2 2.91 2.91 40.1 -1.37 -0.68 13.9 80 3 0 0 0 0 1 0  A 665 A C 719 A G 721 A G 722 A G 727 A G 731 A C
732 A G 733 A G 818 A U 855 A C 856 A C 857 A G
1526 A U 1527 A U 1528 A G 1529 A
3 2.63 2.63 52.1 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  C 1412 A A 1413 A U 1414 A G 1415 A G 1416 A G
1417 A A 1418 A G 1419 A U 1420 A G 1421 A G 1422
A G 1473 A U 1474 A G 1475 A A 1476 A U 1477 A U
1478 A C 1479 A A 1480 A U 1481 A G 1482 A MG
1602 A
4 4.13 4.13 56.4 -0.52 -0.79 4.8 89 1 0 0 0 0 0 0  A 119 A A 120 A U 121 A G 237 A U 252 A A 253 A G
275 A G 276 A C 277 A G 278 A A 279 A C 280 A G
281 A A 282 A U 283 A C 284 A G 319 A G 1422 A G
1423 A U 1424 A U 1425 A G 1426 A A 1468 A C 1469
A U 1470 A U 1471 A U 1472 A G 1473 A U 1474 A
5 2.74 2.74 60.1 -0.51 -0.81 4.8 96 0 1 0 0 0 0 0  U 137 A G 138 A A 139 A U 140 A A 143 A U 218 A U
219 A A 382 A G 454 A G 455 A A 456 A U 458 A A
459 A U 467 A A 468 A C 469 A C 470 A U 471 A U
472 A
6 2.69 2.69 61.1 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  U 244 A A 246 A G 275 A G 276 A C 277 A G 278 A A
279 A A 572 A A 573 A A 574 A G 575 A C 576 A G
577 A A 583 A G 760 A G 761 A A 815 A C 857 A C
866 A G 867 A C 882 A G 887 A G 890 A U 905 A G
917 A A 918 A A 919 A G 1392 A U 1393 A A 1394 A
C 1509 A C 1510 A G 1529 A G 1530 A MG 1571 A
7 2.13 2.16 63.4 -1.00 -0.71 8.4 74 2 2 1 0 1 1 0  A 246 A G 247 A G 275 A G 276 A C 277 A G 278 A A
279 A A 583 A G 668 A A 716 A U 717 A A 718 A C
719 A G 721 A G 722 A C 732 A G 733 A G 760 A G
761 A U 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 G 809 A C 810 A C
811 A C 896 A C 897 A G 898 A G 1525 A
8 3.61 3.61 70.4 -0.15 -0.51 6.5 76 2 1 0 3 1 0 0  G 241 A G 242 A A 243 A U 244 A A 246 A G 275 A G
276 A C 277 A G 278 A A 279 A C 286 A A 583 A A
759 A G 760 A G 761 A C 882 A A 906 A A 907 A A
908 A A 909 A C 1412 A A 1413 A U 1414 A C 1479 A
A 1480 A U 1481 A G 1482 A
9 1.83 2.33 81.5 -1.38 -0.34 17.7 76 5 1 3 2 4 0 0  G 693 A A 694 A A 695 A A 938 A G 939 A A 1534 A
10 1.80 1.92 82.0 -0.77 -0.61 8.9 69 4 0 0 0 1 1 0  G 925 A G 926 A G 966 A C 967 A A 969 A C 970 A G
971 A G 1231 A U 1232 A G 1233 A C 1234 A U 1235
A A 1285 A C 1325 A U 1326 A G 1353 A U 1354 A U
1364 A G 1365 A C 1366 A C 1383 A C 1384 A G 1385
A C 1400 A A 1503 A G 1505 A A 1507 A A 1534 A
11 3.27 3.27 86.8 -0.23 -0.63 3.8 83 0 1 1 2 1 2 0  A 50 A A 51 A C 52 A A 116 A G 117 A C 286 A U
287 A A 288 A U 317 A A 338 A A 909 A C 910 A A
1410 A C 1411 A C 1412 A A 1413 A U 1414 A G 1423
A U 1424 A C 1479 A A 1480 A G 1491 A A 1492 A A
1493 A
12 2.39 2.40 92.0 -0.62 -0.75 6.7 82 3 0 0 0 0 0 0  A 51 A C 52 A A 116 A G 117 A U 118 A A 119 A A
120 A U 121 A G 122 A C 132 A U 133 A G 134 A C
135 A U 137 A G 138 A A 139 A U 140 A A 143 A U
218 A U 219 A G 220 A C 221 A C 222 A A 223 A U
224 A C 233 A U 252 A U 261 A A 262 A C 267 A U
268 A U 317 A G 318 A G 319 A A 320 A A 321 A C
322 A G 324 A A 325 A G 326 A C 328 A U 1424 A U
1425 A G 1426 A U 1436 A MG 1581 A
13 2.78 2.78 96.4 -0.61 -0.76 5.5 65 1 0 0 0 0 1 0  U 14 A U 244 A A 246 A G 275 A G 276 A C 277 A G
278 A A 279 A G 527 A C 528 A G 530 A A 572 A A
573 A A 574 A G 575 A C 576 A G 577 A A 583 A G
760 A G 761 A A 815 A C 882 A G 886 A G 887 A G
890 A U 905 A A 914 A A 915 A U 916 A G 917 A C
1054 A A 1196 A A 1394 A C 1397 A C 1403 A C 1404
A U 1490 A C 1510 A MG 1571 A
14 3.25 3.25 98.1 -0.11 -0.57 4.0 85 1 0 1 4 1 2 0  G 241 A G 242 A A 243 A U 244 A A 246 A G 275 A G
276 A C 277 A G 278 A A 279 A C 286 A A 583 A A
759 A G 760 A G 761 A C 882 A A 906 A A 907 A A
908 A A 909 A C 910 A A 1410 A C 1411 A C 1412 A
A 1413 A U 1414 A C 1479 A A 1480 A G 1491 A A
1492 A A 1493 A
15 2.70 2.70 99.4 -0.10 -0.57 4.9 76 2 1 0 3 1 0 0  G 241 A G 242 A C 286 A U 562 A A 572 A A 573 A A
574 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 C 1412 A A 1413 A U 1414 A C 1479
A A 1480 A U 1481 A G 1482 A C 1509 A C 1510 A G
1529 A G 1530 A MG 1571 A
16 2.72 2.72 99.5 -0.07 -0.63 3.8 75 1 1 0 3 1 0 0  A 50 A A 51 A C 52 A A 116 A G 117 A G 241 A G
242 A C 286 A U 287 A A 288 A U 317 A A 338 A U
562 A A 572 A A 573 A A 574 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 G 917 A A 918 A A
919 A G 1392 A U 1393 A A 1394 A G 1423 A U 1424
A C 1479 A C 1509 A C 1510 A G 1529 A G 1530 A MG
1571 A
17 2.04 2.38 99.1 -1.39 -0.56 16.7 82 8 3 3 5 1 2 0  A 676 A U 677 A U 678 A G 691 A U 692 A G 693 A A
706 A U 707 A C 708 A U 709 A A 1534 A
18 1.88 1.88 104.6 -0.51 -0.77 5.5 86 2 1 0 2 0 0 0  A 649 A G 650 A C 651 A U 652 A U 653 A G 654 A A
655 A G 656 A G 722 A U 723 A A 746 A G 748 A A
749 A C 750 A U 751 A G 752 A C 826 A U 827 A G
829 A G 830 A A 831 A G 832 A G 833 A A 845 A G
846 A G 847 A C 848 A G 849 A U 850 A G 851 A U
854 A
19 3.23 3.23 104.0 -0.34 -0.72 3.1 87 0 0 1 1 1 2 0  C 893 A A 907 A A 908 A A 909 A C 910 A A 1410 A
C 1411 A C 1412 A A 1413 A U 1414 A G 1415 A G
1416 A G 1417 A A 1418 A G 1419 A U 1420 A G 1421
A G 1422 A G 1473 A U 1474 A G 1475 A A 1476 A U
1477 A U 1478 A C 1479 A A 1480 A G 1491 A A 1492
A A 1493 A
20 1.85 1.88 112.9 -1.23 -0.69 13.1 85 8 0 1 1 0 1 0  G 886 A G 887 A G 888 A G 890 A C 912 A A 915 A U
916 A C 1403 A C 1404 A G 1405 A A 1410 A C 1411
A U 1490 A G 1491 A A 1492 A A 1493 A A 1507 A A
1508 A C 1509 A C 1510 A G 1511 A U 1512 A C 1520
A C 1521 A U 1522 A G 1523 A C 1524 A A 1534 A MG
1588 A
21 2.69 2.69 114.1 -0.24 -0.73 3.4 90 1 0 0 2 0 0 0  G 242 A U 244 A U 245 A U 562 A A 572 A A 573 A A
574 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 892 A C
893 A A 907 A A 908 A G 917 A A 918 A A 919 A G
1392 A U 1393 A A 1394 A G 1415 A G 1416 A G 1417
A A 1418 A G 1419 A U 1420 A G 1421 A G 1422 A G
1473 A U 1474 A G 1475 A A 1476 A U 1477 A U 1478
A C 1479 A C 1509 A C 1510 A G 1529 A G 1530 A MG
1571 A
22 2.02 2.38 115.9 -0.87 -0.76 8.8 79 3 2 1 1 0 1 0  A 246 A G 247 A G 275 A G 276 A C 277 A G 278 A A
279 A A 583 A G 668 A G 669 A G 670 A G 671 A U
672 A A 673 A G 674 A A 675 A A 676 A U 677 A C
708 A U 709 A G 710 A G 711 A A 712 A G 713 A G
714 A A 715 A C 732 A G 733 A G 760 A G 761 A U
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 896 A C
897 A G 898 A
23 2.43 2.43 118.3 -0.81 -0.76 8.2 87 4 0 1 0 0 0 0  G 925 A G 926 A G 933 A C 934 A A 935 A G 966 A C
1063 A U 1065 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 C
1128 A C 1149 A A 1150 A A 1151 A G 1153 A G 1154
A G 1156 A U 1183 A G 1184 A G 1186 A G 1187 A A
1188 A A 1250 A A 1251 A A 1252 A A 1280 A C 1281
A U 1286 A A 1287 A U 1341 A C 1342 A C 1344 A C
1383 A C 1384 A G 1385 A C 1400 A A 1503 A G 1505
A A 1507 A A 1534 A MG 1548 A
24 2.40 2.48 120.0 -0.51 -0.74 5.8 95 2 0 1 1 0 0 0  A 120 A U 121 A U 123 A C 124 A U 125 A G 126 A G
127 A G 128 A A 129 A A 131 A C 132 A U 133 A G
134 A C 135 A U 137 A G 138 A A 139 A U 140 A A
143 A U 218 A U 219 A G 220 A C 221 A C 222 A U
224 A C 225 A G 226 A G 227 A A 228 A U 229 A G
230 A U 231 A C 233 A C 234 A C 235 A A 236 A G
237 A A 238 A U 239 A G 275 A G 276 A C 277 A G
278 A A 279 A C 280 A G 281 A A 282 A U 605 A
25 2.84 2.84 128.6 -0.51 -0.60 9.0 78 7 1 0 4 1 0 0  A 50 A A 51 A C 52 A A 116 A G 117 A G 241 A G
242 A C 286 A U 287 A A 288 A U 317 A U 562 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 1405 A G
1423 A U 1424 A C 1479 A A 1507 A A 1508 A C 1509
A C 1510 A G 1511 A U 1512 A C 1520 A C 1521 A U
1522 A G 1523 A C 1524 A A 1534 A MG 1588 A
26 2.79 2.79 132.1 -0.53 -0.53 10.2 79 8 1 0 4 1 0 0  G 241 A G 242 A C 286 A U 562 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 G 1405 A C 1412 A A
1413 A U 1414 A C 1479 A A 1480 A U 1481 A G 1482
A A 1507 A A 1508 A C 1509 A C 1510 A G 1511 A U
1512 A C 1520 A C 1521 A U 1522 A G 1523 A C 1524
A A 1534 A MG 1588 A
27 2.38 2.42 135.4 -0.97 -0.72 9.6 79 5 2 1 1 1 1 0  A 665 A G 669 A G 670 A G 671 A U 672 A A 673 A G
674 A A 675 A A 676 A U 677 A C 708 A U 709 A G
710 A G 711 A A 712 A G 713 A G 714 A A 715 A A
716 A U 717 A G 727 A G 731 A C 732 A G 733 A C
806 A G 818 A U 855 A C 856 A C 857 A G 1525 A G
1526 A U 1527 A U 1528 A G 1529 A
28 2.84 2.84 134.9 -0.34 -0.66 5.4 72 2 1 0 3 1 1 0  U 14 A A 50 A A 51 A C 52 A A 116 A G 117 A G 241
A G 242 A C 286 A U 287 A A 288 A U 317 A A 338 A
G 527 A C 528 A G 530 A U 562 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 914 A A 915 A U
916 A G 917 A C 1054 A A 1196 A A 1394 A C 1397 A
C 1403 A C 1404 A G 1423 A U 1424 A C 1479 A U
1490 A C 1510 A MG 1571 A
29 2.78 2.78 140.1 -0.71 -0.69 9.0 84 7 0 0 3 0 0 0  G 242 A U 244 A U 245 A U 562 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 892 A C 893 A A 907 A A 908 A G 1405 A G
1415 A G 1416 A G 1417 A A 1418 A G 1419 A U 1420
A G 1421 A G 1422 A U 1474 A G 1475 A A 1476 A U
1477 A U 1478 A C 1479 A A 1507 A A 1508 A C 1509
A C 1510 A G 1511 A U 1512 A C 1520 A C 1521 A U
1522 A G 1523 A C 1524 A A 1534 A MG 1588 A
30 2.88 2.88 149.4 -0.39 -0.71 4.8 80 2 0 0 2 0 1 0  U 14 A G 242 A U 244 A U 245 A G 527 A C 528 A G
530 A U 562 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
892 A C 893 A A 907 A A 908 A A 914 A A 915 A U
916 A G 917 A C 1054 A A 1196 A A 1394 A C 1397 A
C 1403 A C 1404 A G 1415 A G 1416 A G 1417 A A
1418 A G 1419 A U 1420 A G 1421 A G 1422 A G 1473
A U 1474 A G 1475 A A 1476 A U 1477 A U 1478 A C
1479 A U 1490 A C 1510 A MG 1571 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