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PDBsum entry 1q81
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Top Page protein dna_rna ligands metals Protein-protein interface(s) tunnels links
Tunnel analysis for: 1q81 calculated with MOLE 2.0 PDB id
1q81
Tunnels calculated on whole structure Tunnels calculated excluding ligands
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24 tunnels, coloured by tunnel radius 23 tunnels, coloured by tunnel radius 23 tunnels, coloured as in
list below
Tunnels are interior spaces connected with the protein surrounding. Only channels longer than 15 Å are shown.
Tunnels
Free R
Length
HPathy
HPhob
Polar
Rel Mut
Residue..type
Ligands
Radius
1 1.24 1.24 81.6 -0.69 -0.81 4.5 93 1 0 4 0 0 0 0  G 13 A C 14 A G 531 A C 534 A C 613 A A 1367 A U
1368 A A 1369 A U 1371 A A 1372 A G 1373 A A 1732
A A 1733 A G 2045 A G 2046 A C 2047 A A 2062 A U
2063 A C 2086 A C 2087 A C 2088 A A 2089 A G 2090
A G 2091 A U 2648 A A 2649 A U 2650 A C 2651 A G
2656 A G 2657 A A 2840 A MG 8061 A
2 1.23 1.23 91.5 -0.76 -0.79 5.7 88 2 0 2 0 0 0 0  G 836 A U 837 A C 838 A C 839 A A 841 A C 842 A C
847 A C 848 A C 849 A U 850 A G 1373 A A 1375 A G
1376 A C 1377 A G 1378 A A 1693 A A 1732 A A 1733
A C 1735 A A 1737 A C 1738 A G 1739 A G 1756 A U
1757 A U 1758 A A 1759 A C 1816 A U 1817 A C 1818
A G 2045 A G 2046 A A 2089 A G 2090 A G 2091 A U
2648 A G 2656 A G 2657 A C 2751 A C 2752 A G 2753
A A 2840 A MG 8071 A
3 1.22 1.22 98.0 -1.01 -0.70 7.3 77 2 0 2 0 1 0 0  DC 75 5 PPU 76 5 C 838 A A 1732 A A 1733 A C 1735
A G 2045 A G 2046 A A 2089 A G 2090 A G 2091 A G
2099 A A 2100 A A 2103 A C 2104 A G 2284 A G 2285
A G 2286 A A 2486 A C 2487 A G 2529 A C 2530 A G
2540 A U 2541 A A 2612 A G 2613 A C 2614 A U 2619
A U 2620 A A 2637 A G 2646 A C 2647 A U 2648 A G
2656 A G 2657 A A 2840 A MG 8088 A MG 8099 A
4 1.25 1.25 104.5 -0.68 -0.82 4.4 90 1 1 4 0 0 0 0  G 13 A C 14 A C 15 A A 16 A G 17 A C 18 A U 19 A
G 20 A U 510 A A 519 A A 520 A U 522 A C 523 A A
524 A G 525 A U 526 A A 1321 A U 1338 A A 1367 A
U 1368 A A 1369 A U 1371 A A 1372 A G 1373 A A
1732 A A 1733 A G 2045 A G 2046 A C 2047 A C 2087
A C 2088 A A 2089 A G 2090 A G 2091 A U 2648 A A
2649 A U 2650 A C 2651 A G 2656 A G 2657 A A 2840
A MG 8061 A
5 1.27 1.27 107.4 -0.79 -0.78 6.2 91 2 0 2 1 0 0 0  U 1371 A A 1372 A G 1373 A A 1732 A A 1733 A G
2045 A G 2046 A C 2047 A C 2084 A C 2086 A C 2087
A C 2088 A A 2089 A G 2090 A G 2091 A U 2648 A A
2649 A U 2650 A C 2651 A U 2652 A A 2653 A C 2654
A U 2655 A G 2656 A G 2657 A G 2658 A U 2659 A A
2664 A U 2669 A G 2670 A U 2671 A A 2811 A A 2812
A A 2816 A G 2817 A A 2818 A C 2819 A A 2840 A C
2844 A
6 1.23 1.23 108.8 -0.88 -0.72 6.7 77 2 0 2 0 1 0 0  C 838 A A 1732 A A 1733 A C 1735 A G 2045 A G
2046 A A 2089 A G 2090 A G 2091 A G 2099 A A 2100
A A 2103 A C 2104 A C 2105 A C 2106 A G 2285 A G
2286 A C 2287 A C 2472 A U 2473 A A 2474 A A 2538
A G 2540 A G 2611 A A 2612 A G 2613 A C 2614 A U
2620 A U 2621 A C 2629 A A 2635 A C 2636 A A 2637
A C 2644 A U 2645 A G 2646 A C 2647 A U 2648 A G
2656 A G 2657 A A 2840 A MG 8088 A MG 8099 A
7 1.27 1.27 109.5 -0.94 -0.77 8.1 86 4 0 2 0 0 0 0  U 1371 A A 1372 A G 1373 A A 1732 A A 1733 A G
2045 A G 2046 A C 2047 A C 2084 A C 2086 A C 2087
A C 2088 A A 2089 A G 2090 A G 2091 A U 2648 A A
2649 A U 2650 A C 2651 A U 2652 A A 2653 A C 2654
A U 2655 A G 2656 A G 2657 A G 2658 A U 2659 A U
2669 A G 2670 A A 2812 A G 2828 A G 2829 A U 2830
A A 2840 A C 2844 A G 2845 A G 2847 A G 2848 A U
2849 A G 2909 A
8 1.26 1.26 123.5 -0.91 -0.79 7.7 86 4 3 4 0 0 1 0  G 1235 A U 1371 A A 1372 A G 1373 A A 1732 A A
1733 A G 2045 A G 2046 A C 2047 A A 2083 A C 2084
A C 2086 A C 2087 A C 2088 A A 2089 A G 2090 A G
2091 A U 2648 A A 2649 A U 2650 A C 2651 A U 2652
A A 2653 A C 2654 A U 2655 A G 2656 A G 2657 A A
2675 A C 2676 A A 2677 A A 2678 A G 2679 A G 2771
A G 2772 A C 2803 A C 2804 A A 2805 A G 2809 A A
2813 A A 2840 A
9 1.24 1.24 139.4 -0.74 -0.80 6.2 88 2 2 3 0 0 1 0  G 1235 A U 1371 A A 1372 A G 1373 A A 1732 A A
1733 A G 2045 A G 2046 A C 2047 A A 2083 A C 2084
A C 2086 A C 2087 A C 2088 A A 2089 A G 2090 A G
2091 A U 2550 A G 2558 A G 2578 A U 2648 A A 2649
A U 2650 A C 2651 A U 2652 A A 2653 A C 2654 A U
2655 A G 2656 A G 2657 A A 2677 A A 2678 A G 2679
A A 2680 A A 2681 A G 2683 A A 2684 A C 2685 A U
2705 A A 2706 A C 2707 A C 2769 A A 2800 A A 2801
A C 2802 A C 2803 A A 2805 A G 2809 A A 2813 A A
2840 A
10 1.23 1.23 141.2 -1.42 -0.66 13.9 81 8 2 6 3 1 0 0  A 466 A G 467 A A 476 A U 488 A A 489 A A 497 A A
498 A G 499 A A 513 A G 514 A C 838 A U 845 A A
1427 A C 1428 A A 1732 A A 1733 A C 1735 A G 2045
A G 2046 A A 2089 A G 2090 A G 2091 A G 2099 A A
2100 A G 2540 A G 2611 A A 2612 A G 2613 A C 2614
A C 2644 A U 2645 A G 2646 A C 2647 A U 2648 A G
2656 A G 2657 A A 2840 A MG 8088 A MG 8099 A
11 1.23 1.23 142.3 -0.65 -0.72 4.9 77 2 0 2 0 1 0 0  A 788 A C 789 A A 827 A G 828 A A 829 A G 830 A U
831 A G 836 A C 838 A C 839 A U 845 A A 846 A C
847 A C 848 A U 850 A A 1406 A A 1407 A U 1408 A
C 1534 A G 1535 A C 1536 A C 1537 A U 1539 A A
1642 A C 1643 A U 1645 A G 1646 A G 1647 A G 1648
A A 1682 A G 1695 A U 1696 A U 1698 A C 1699 A C
1700 A A 1701 A A 1732 A A 1733 A C 1735 A G 1837
A U 1838 A G 2045 A G 2046 A A 2089 A G 2090 A G
2091 A U 2645 A G 2646 A C 2647 A U 2648 A G 2656
A G 2657 A A 2840 A NA 8361 A NA 8379 A
12 1.25 1.25 147.1 -1.12 -0.81 12.0 84 4 6 3 0 0 1 0  C 1228 A A 1231 A G 1235 A U 1371 A A 1372 A G
1373 A A 1732 A A 1733 A G 2045 A G 2046 A C 2047
A A 2083 A C 2084 A C 2086 A C 2087 A C 2088 A A
2089 A G 2090 A G 2091 A U 2550 A C 2551 A C 2552
A A 2576 A A 2577 A G 2578 A U 2648 A A 2649 A U
2650 A C 2651 A U 2652 A A 2653 A C 2654 A U 2655
A G 2656 A G 2657 A A 2677 A A 2678 A G 2679 A G
2773 A U 2774 A A 2775 A A 2776 A A 2792 A A 2793
A G 2794 A C 2795 A G 2809 A A 2813 A A 2840 A
13 1.24 1.24 149.3 -0.67 -0.79 5.4 100 3 0 6 0 0 0 0  G 13 A C 14 A C 15 A A 16 A G 17 A U 522 A U 1279
A G 1299 A G 1300 A C 1301 A G 1302 A C 1303 A G
1319 A U 1320 A A 1321 A G 1322 A A 1331 A C 1332
A U 1333 A A 1345 A U 1346 A U 1347 A A 1348 A G
1349 A U 1350 A A 1367 A U 1368 A A 1369 A U 1371
A A 1372 A G 1373 A A 1732 A A 1733 A G 2045 A G
2046 A C 2047 A C 2061 A A 2062 A C 2087 A C 2088
A A 2089 A G 2090 A G 2091 A U 2648 A A 2649 A U
2650 A C 2651 A G 2656 A G 2657 A A 2840 A MG
8061 A MG 8109 Z
14 1.22 1.22 154.0 -0.99 -0.73 9.1 82 6 1 3 0 1 0 0  A 767 A U 768 A C 770 A G 771 A G 772 A A 773 A C
838 A U 845 A U 866 A A 867 A G 868 A G 869 A U
883 A C 884 A G 887 A U 888 A C 889 A C 890 A A
1458 A A 1459 A G 1460 A U 1461 A C 1474 A G 1475
A A 1476 A C 1477 A U 1478 A A 1479 A U 1480 A G
1481 A A 1482 A A 1732 A A 1733 A C 1735 A G 1837
A C 1862 A G 1863 A C 1864 A G 2045 A G 2046 A A
2089 A G 2090 A G 2091 A G 2099 A A 2100 A C 2477
A U 2478 A G 2540 A G 2611 A A 2612 A G 2613 A C
2614 A C 2644 A U 2645 A G 2646 A C 2647 A U 2648
A G 2656 A G 2657 A A 2840 A MG 8088 A MG 8099 A
15 1.29 1.29 164.3 -0.84 -0.79 8.6 86 3 4 3 1 0 1 0  U 1120 A G 1121 A G 1131 A A 1132 A A 1133 A G
1223 A G 1224 A C 1225 A G 1226 A C 1227 A C 1228
A A 1230 A A 1231 A A 1232 A G 1235 A A 1236 A U
1371 A A 1372 A G 1373 A A 1732 A A 1733 A G 2045
A G 2046 A C 2047 A A 2083 A C 2084 A C 2086 A C
2087 A C 2088 A A 2089 A G 2090 A G 2091 A U 2550
A C 2551 A C 2552 A A 2577 A G 2578 A U 2648 A A
2649 A U 2650 A C 2651 A U 2652 A A 2653 A C 2654
A U 2655 A G 2656 A G 2657 A A 2677 A A 2678 A G
2679 A G 2809 A A 2813 A A 2840 A MG 8025 A A
3080 B G 3090 B C 3091 B G 3092 B C 3095 B C 3096
B
16 1.28 1.28 165.4 -0.92 -0.79 8.7 87 5 2 4 0 0 0 0  A 1372 A G 1373 A C 1374 A A 1381 A G 1382 A U
1383 A A 1393 A C 1394 A C 1396 A C 1397 A G 1410
A A 1411 A C 1421 A G 1438 A G 1496 A G 1497 A U
1503 A A 1504 A U 1505 A C 1545 A C 1570 A G 1571
A A 1572 A G 1619 A C 1620 A G 1621 A G 1622 A G
1634 A U 1635 A C 1680 A A 1685 A C 1720 A C 1721
A U 1722 A C 1725 A G 1726 A G 1727 A A 1732 A A
1733 A G 2045 A G 2046 A C 2047 A C 2049 A A 2089
A G 2090 A G 2091 A U 2648 A G 2656 A G 2657 A A
2840 A MG 8029 A
17 1.24 1.25 167.3 -0.79 -0.69 8.2 74 7 1 2 1 3 0 0  U 115 A A 117 A G 118 A A 119 A A 131 A A 132 A A
767 A U 768 A C 770 A G 771 A G 772 A A 773 A C
774 A C 838 A U 845 A A 867 A G 868 A G 869 A U
883 A C 884 A G 887 A U 888 A C 889 A C 890 A C
1462 A A 1463 A U 1464 A A 1465 A C 1474 A G 1475
A U 1480 A G 1481 A A 1732 A A 1733 A C 1735 A G
1837 A G 2045 A G 2046 A A 2089 A G 2090 A G 2091
A G 2099 A A 2100 A C 2477 A U 2478 A G 2540 A G
2611 A A 2612 A G 2613 A C 2614 A C 2644 A U 2645
A G 2646 A C 2647 A U 2648 A G 2656 A G 2657 A A
2840 A MG 8088 A MG 8099 A
18 1.30 1.30 220.8 -0.74 -0.79 7.5 86 3 4 3 1 0 1 0  A 913 A A 914 A C 915 A A 929 A C 930 A G 941 A U
942 A A 943 A C 1033 A G 1034 A G 1046 A U 1047 A
G 1048 A C 1049 A C 1051 A A 1058 A G 1059 A C
1060 A C 1061 A U 1062 A G 1063 A U 1064 A G 1065
A U 1066 A U 1120 A C 1126 A U 1128 A C 1129 A U
1130 A A 1231 A A 1232 A G 1235 A A 1236 A U 1237
A C 1238 A U 1371 A A 1372 A G 1373 A A 1732 A A
1733 A G 2045 A G 2046 A C 2047 A G 2068 A A 2083
A C 2084 A C 2086 A C 2087 A C 2088 A A 2089 A G
2090 A G 2091 A C 2393 A U 2492 A C 2493 A G 2524
A G 2525 A U 2550 A C 2551 A C 2552 A A 2577 A G
2578 A U 2648 A A 2649 A U 2650 A C 2651 A U 2652
A A 2653 A C 2654 A U 2655 A G 2656 A G 2657 A A
2677 A A 2678 A G 2679 A G 2809 A A 2813 A A 2840
A MG 8025 A C 3091 B G 3092 B A 3093 B
19 1.38 1.38 16.1 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  A 1166 A G 1167 A A 1174 A C 1176 A G 1178 A C
1179 A U 1180 A A 1181 A C 1182 A A 1193 A A 1194
A
20 1.37 1.37 23.3 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  G 1162 A G 1163 A U 1164 A A 1166 A G 1167 A A
1174 A G 1175 A C 1176 A C 1183 A C 1184 A A 1191
A A 1192 A A 1193 A
21 1.37 1.37 23.8 -0.40 -0.80 3.4 0 0 0 0 0 0 0 0  A 1161 A G 1162 A U 1164 A G 1165 A A 1166 A G
1167 A A 1174 A G 1175 A C 1176 A A 1192 A A 1193
A A 1202 A G 1203 A
22 1.20 1.73 16.5 1.21 0.37 7.0 82 0 2 0 5 1 1 0  
23 1.21 1.71 16.5 1.00 0.40 8.3 82 0 2 0 5 1 1 0  

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
Tunnels were calculated by MOLE 2.0 program version 2.5.13.11.08 and visualized using Pymol 0.97rc.
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