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PDBsum entry 4yhh
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Top Page protein dna_rna ligands metals Protein-protein interface(s) pores links
Pore analysis for: 4yhh calculated with MOLE 2.0 PDB id
4yhh
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 2.88 2.88 31.7 -0.42 -0.79 3.4 58 0 0 0 0 0 1 0  A 675 A A 676 A U 677 A C 679 A C 680 A C 681 A G
682 A G 700 A A 702 A G 703 A A 704 A U 705 A A
706 A C 707 A C 708 A G 709 A G 710 A MG 1652 A
MG 1653 A
2 3.12 3.17 51.2 -1.12 -0.66 9.7 84 3 0 1 1 1 0 0  U 420 A U 421 A C 422 A C 513 A C 514 A C 528 A A
532 A U 534 A G 945 A A 946 A G 966 A C 1054 A C
1195 A U 1196 A G 1207 A C 1208 A A 1229 A C 1230
A G 1338 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 C 1400 A
3 1.61 1.67 55.6 -2.29 -0.51 24.7 79 7 1 0 0 1 1 0  U 1301 A U 1302 A G 1304 A G 1305 A A 1306 A U
1308 A G 1310 A G 1311 A G 1323 A A 1324 A C 1325
A C 1326 A C 1327 A C 1328 A A 1329 A U 1330 A G
1331 A
4 2.37 2.37 90.1 -1.14 -0.64 14.5 70 5 0 0 1 0 0 0  C 995 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 i:A G 1003 A A 1004 A
U 1025 A G 1031 A G 1032 A G 1033 A G 1034 A A
1035 A C 1037 A C 1038 A C 1045 A A 1046 A G 1047
A G 1048 A A 1204 A U 1205 A G 1206 A G 1207 A C
1209 A
5 1.59 1.59 91.3 -0.63 -0.76 6.0 79 3 0 0 1 0 1 0  A 665 A G 667 A G 668 A U 669 A G 670 A G 671 A U
672 A G 673 A G 674 A A 675 A A 676 A G 709 A G
710 A G 711 A A 712 A G 713 A G 714 A A 715 A G
721 A A 722 A U 723 A G 724 A C 732 A A 733 A G
734 A C 735 A C 806 A U 833 A C 834 A MG 1653 A
MG 1654 A
6 2.90 2.90 93.9 -0.71 -0.64 7.1 60 2 0 0 0 2 2 0  U 677 A U 678 A C 679 A C 680 A G 690 A G 691 A U
692 A G 693 A C 699 A G 700 A U 705 A C 779 A C
795 A C 796 A G 799 A G 800 A G 925 A G 926 A G
928 A G 945 A A 946 A G 966 A A 1229 A C 1230 A G
1338 A A 1339 A A 1340 A U 1341 A C 1382 A C 1383
A C 1384 A G 1385 A G 1386 A C 1400 A A 1503 A G
1505 A U 1506 A A 1507 A MG 1698 A
7 1.60 1.60 110.0 -0.87 -0.48 14.3 87 10 0 2 5 0 0 0  A 665 A G 667 A G 668 A U 669 A G 721 A A 722 A U
723 A G 724 A C 732 A A 733 A G 734 A C 735 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 U 833 A C 834 A MG 1664 A
8 2.04 2.01 108.9 -1.01 -0.58 10.7 67 4 1 0 0 2 3 0  A 675 A A 676 A U 677 A U 678 A G 691 A U 692 A G
693 A A 706 A C 707 A C 708 A G 709 A G 710 A C
795 A C 796 A G 925 A G 926 A G 928 A G 945 A A
946 A G 966 A A 1229 A C 1230 A G 1338 A A 1339 A
A 1340 A U 1341 A C 1382 A C 1383 A C 1384 A G
1385 A G 1386 A C 1400 A A 1503 A G 1505 A U 1506
A A 1507 A MG 1698 A
9 2.24 2.45 109.9 -0.73 -0.45 13.3 85 7 0 2 4 0 1 0  G 668 A U 669 A G 670 A G 671 A U 672 A G 673 A G
674 A A 675 A A 676 A G 709 A G 710 A G 711 A A
712 A G 713 A G 714 A A 715 A C 732 A A 733 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 MG 1653 A MG 1654 A MG 1664
A
10 1.19 1.22 112.7 -1.45 -0.61 15.7 77 10 0 1 0 1 1 0  G 942 A U 943 A G 944 A G 945 A A 946 A C 948 A G
976 A A 1229 A C 1230 A G 1231 A U 1232 A G 1233
A C 1234 A U 1235 A U 1307 A G 1310 A G 1311 A G
1323 A A 1324 A C 1325 A A 1350 A U 1351 A C 1352
A G 1353 A C 1354 A G 1355 A G 1356 A C 1361 A i:
A C 1362 A A 1363 A U 1364 A G 1365 A MG 1695 A
11 2.61 2.61 114.4 -0.96 -0.71 10.1 76 5 1 1 0 1 1 0  U 14 A G 15 A A 50 A G 117 A C 242 A G 286 A U
287 A A 288 A G 527 A C 528 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 909 A A 915 A G
916 A G 945 A A 946 A G 966 A C 1054 A C 1195 A U
1196 A A 1229 A C 1230 A G 1338 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 C 1400 A C 1403 A C 1404 A C 1490 A G 1491
A U 1510 A MG 1602 A
12 2.64 3.00 119.9 -0.85 -0.42 12.1 82 8 0 3 5 1 3 0  G 668 A U 677 A U 678 A C 679 A C 680 A G 690 A G
691 A C 699 A G 700 A A 702 A U 705 A A 716 A C
717 A G 718 A C 719 A C 732 A A 733 A G 763 A C
764 A G 765 A A 766 A A 767 A C 779 A G 799 A G
800 A C 805 A C 806 A A 807 A C 808 A G 809 A G
1525 A G 1526 A MG 1664 A
13 1.75 1.75 134.7 -1.66 -0.54 20.8 82 14 0 0 3 0 1 0  C 948 A G 976 A A 996 A C 1045 A A 1046 A G 1047
A G 1048 A A 1204 A U 1205 A G 1206 A G 1207 A C
1209 A U 1257 A G 1258 A C 1259 A U 1307 A G 1310
A G 1311 A G 1323 A A 1324 A C 1325 A G 1356 A C
1359 A A 1360 A C 1361 A i:A G 1361 A C 1362 A A
1363 A U 1364 A
14 2.61 2.61 139.4 -0.98 -0.67 9.8 79 7 1 2 1 2 1 0  U 14 A G 15 A A 16 A A 50 A G 117 A C 242 A G 286
A U 287 A A 288 A U 420 A U 421 A C 422 A C 513 A
C 514 A G 527 A C 528 A A 532 A U 534 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 909 A A
915 A G 916 A C 1045 A G 1207 A C 1208 A C 1397 A
C 1403 A C 1404 A C 1490 A G 1491 A U 1510 A MG
1602 A
15 1.71 1.72 150.9 -1.36 -0.63 15.1 75 10 2 1 0 3 1 0  G 942 A U 943 A G 944 A G 945 A A 946 A A 1229 A
C 1230 A G 1231 A U 1232 A G 1233 A C 1234 A U
1235 A C 1243 A C 1244 A A 1245 A C 1260 A A 1261
A C 1263 A C 1264 A G 1265 A G 1266 A C 1267 A A
1268 A C 1270 A G 1271 A C 1284 A A 1285 A U 1301
A U 1302 A C 1303 A G 1304 A G 1305 A G 1331 A A
1350 A U 1351 A C 1352 A G 1353 A C 1354 A G 1355
A G 1356 A C 1361 A i:A U 1364 A G 1365 A MG 1692
A MG 1693 A MG 1695 A MG 1703 A
16 1.11 1.35 149.4 -0.80 -0.28 14.8 73 9 4 1 9 6 1 0  G 1241 A C 1243 A C 1244 A A 1245 A C 1246 A U
1247 A C 1267 A A 1268 A A 1286 A A 1288 A A 1289
A G 1290 A G 1291 A U 1292 A G 1293 A G 1294 A U
1301 A U 1302 A C 1303 A G 1304 A G 1305 A G 1331
A MG 1703 A
17 2.39 2.84 159.0 -1.57 -0.53 20.3 80 14 2 0 3 2 1 0  A 996 A C 1045 A A 1046 A G 1047 A G 1048 A A
1204 A U 1205 A G 1206 A G 1207 A C 1209 A C 1243
A C 1244 A A 1245 A U 1257 A G 1258 A C 1259 A C
1260 A A 1261 A C 1263 A C 1264 A G 1265 A G 1266
A C 1267 A A 1268 A C 1270 A G 1271 A U 1301 A U
1302 A C 1303 A G 1304 A G 1305 A C 1314 A U 1315
A G 1331 A A 1360 A G 1361 A MG 1692 A MG 1693 A
MG 1703 A
18 2.28 2.46 158.0 -0.64 -0.46 11.4 85 9 0 3 4 1 0 0  G 668 A G 693 A A 716 A C 717 A C 732 A G 763 A C
764 A G 765 A A 766 A A 767 A C 795 A C 796 A C
805 A C 806 A A 807 A C 808 A G 809 A G 925 A G
926 A G 928 A G 945 A A 946 A G 966 A A 1229 A C
1230 A G 1338 A A 1339 A A 1340 A U 1341 A C 1382
A C 1383 A C 1384 A G 1385 A G 1386 A C 1400 A A
1503 A G 1505 A U 1506 A A 1507 A G 1525 A G 1526
A C 1527 A G 1530 A MG 1664 A MG 1698 A
19 1.10 1.44 176.0 -0.74 -0.29 17.4 81 13 3 1 12 0 2 0  A 996 A C 1045 A A 1046 A G 1047 A G 1048 A A
1204 A U 1205 A G 1206 A G 1207 A C 1209 A C 1244
A A 1245 A C 1246 A U 1257 A G 1258 A C 1259 A C
1260 A A 1261 A C 1263 A C 1264 A G 1265 A G 1266
A C 1267 A A 1268 A C 1270 A G 1271 A C 1314 A U
1315 A A 1360 A G 1361 A MG 1692 A MG 1693 A
20 2.72 2.72 175.3 -0.68 -0.59 9.2 85 10 0 3 6 1 1 0  U 14 A G 15 A A 16 A U 420 A U 421 A C 422 A C
513 A C 514 A G 527 A C 528 A A 532 A U 534 A A
572 A A 573 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 G 809 A C 810 A C
811 A C 812 A U 813 A A 814 A A 815 A G 881 A C
882 A G 886 A G 887 A G 890 A C 897 A G 898 A C
904 A U 905 A A 915 A G 916 A C 1045 A G 1207 A C
1208 A C 1397 A C 1403 A C 1404 A C 1490 A G 1491
A U 1510 A G 1511 A MG 1602 A MG 1637 A
21 1.68 1.68 190.4 -0.69 -0.74 6.6 82 6 0 1 2 1 1 0  U 14 A G 15 A A 16 A U 420 A U 421 A C 422 A C
513 A C 514 A G 527 A C 528 A A 532 A U 534 A G
570 A A 572 A G 662 A A 663 A A 722 A U 723 A G
724 A G 725 A C 726 A G 727 A A 728 A A 729 A G
731 A U 743 A C 744 A G 818 A U 833 A C 834 A U
835 A G 852 A G 853 A G 854 A G 855 A C 856 A C
857 A C 866 A G 867 A C 868 A G 886 A G 887 A A
915 A G 916 A G 917 A A 918 A A 919 A G 1207 A C
1208 A U 1393 A A 1394 A C 1397 A C 1403 A C 1404
A C 1490 A G 1491 A U 1510 A U 1528 A G 1529 A G
1530 A MG 1602 A MG 1637 A
22 3.14 3.13 188.4 -0.69 -0.67 6.0 76 5 0 2 2 2 4 0  U 14 A G 15 A A 16 A U 420 A U 421 A C 422 A C
513 A C 514 A G 527 A C 528 A A 532 A U 534 A G
570 A A 572 A A 665 A U 677 A U 678 A C 679 A C
680 A G 690 A G 691 A C 699 A G 700 A U 705 A G
718 A C 719 A U 723 A C 732 A A 733 A C 779 A G
799 A G 800 A C 856 A C 857 A C 866 A G 867 A C
868 A G 886 A G 887 A A 915 A G 916 A G 917 A A
918 A A 919 A C 1045 A G 1207 A C 1208 A U 1393 A
A 1394 A C 1397 A C 1403 A C 1404 A C 1490 A G
1491 A U 1510 A G 1526 A C 1527 A U 1528 A G 1529
A G 1530 A MG 1602 A MG 1637 A
23 1.13 1.10 207.6 -0.68 -0.68 7.7 85 8 0 2 1 1 0 0  A 665 A G 667 A G 668 A U 669 A G 693 A A 716 A C
717 A G 721 A A 722 A U 723 A G 724 A C 732 A A
733 A G 734 A C 735 A C 795 A C 796 A C 805 A C
806 A U 833 A C 834 A G 925 A G 926 A G 928 A G
945 A A 946 A G 966 A A 1229 A C 1230 A G 1338 A
A 1339 A A 1340 A U 1341 A C 1382 A C 1383 A C
1384 A G 1385 A G 1386 A C 1400 A A 1503 A G 1505
A U 1506 A A 1507 A G 1525 A G 1526 A C 1527 A G
1530 A MG 1698 A
24 2.98 2.98 210.0 -0.64 -0.76 5.5 80 4 0 2 1 1 2 0  U 14 A G 15 A A 16 A U 420 A U 421 A C 422 A C
513 A C 514 A G 527 A C 528 A A 532 A U 534 A G
570 A A 572 A A 665 A G 671 A U 672 A G 673 A G
674 A A 675 A A 676 A G 709 A G 710 A G 711 A A
712 A G 713 A G 714 A A 715 A A 716 A C 717 A U
723 A C 732 A A 733 A C 806 A C 856 A C 857 A C
866 A G 867 A C 868 A G 886 A G 887 A A 915 A G
916 A G 917 A A 918 A A 919 A G 1207 A C 1208 A U
1393 A A 1394 A C 1397 A C 1403 A C 1404 A C 1490
A G 1491 A U 1510 A G 1525 A G 1526 A C 1527 A U
1528 A G 1529 A G 1530 A MG 1602 A MG 1637 A MG
1653 A MG 1654 A
25 1.64 1.64 239.6 -1.11 -0.72 12.7 76 10 5 0 2 2 1 0  U 4 A U 5 A G 7 A G 128 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 A 141 A G 142 A C
218 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 299 A U 565 A G 566 A G
568 A C 569 A G 575 A C 601 A A 602 A U 603 A G
604 A U 605 A G 606 A A 607 A A 608 A G 628 A G
629 A G 630 A G 631 A G 662 A A 663 A A 722 A U
723 A G 724 A G 725 A C 726 A G 727 A A 728 A U
743 A C 744 A G 821 A C 822 A G 823 A C 824 A U
833 A C 834 A U 835 A G 852 A G 853 A G 854 A U
871 A A 872 A A 873 A G 874 A C 875 A G 876 A C
877 A
26 2.88 3.07 248.3 -0.99 -0.68 11.8 75 9 6 2 2 3 1 0  U 4 A U 5 A G 7 A G 128 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 A 141 A G 142 A C
218 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 299 A U 565 A G 566 A C
601 A A 602 A U 603 A G 604 A U 605 A G 606 A A
607 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 C
866 A G 867 A U 920 A U 921 A G 922 A A 923 A C
924 A G 925 A G 926 A G 929 A G 945 A A 946 A G
966 A C 1076 A G 1077 A U 1078 A G 1082 A A 1229
A C 1230 A G 1338 A A 1339 A A 1340 A U 1341 A C
1383 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 C 1400 A MG 1668 A
MG 1698 A
27 1.15 1.41 260.6 -0.88 -0.37 15.5 76 14 2 1 13 4 1 0  C 995 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 1031 A G 1032 A G 1033 A G 1034 A A
1035 A C 1037 A C 1038 A G 1241 A C 1243 A C 1244
A A 1245 A C 1246 A U 1247 A U 1257 A G 1258 A C
1259 A C 1260 A A 1261 A C 1263 A C 1264 A G 1265
A G 1266 A A 1268 A C 1270 A G 1271 A A 1286 A A
1288 A A 1289 A G 1290 A G 1291 A U 1292 A G 1293
A G 1294 A C 1314 A U 1315 A A 1360 A G 1361 A MG
1692 A MG 1693 A
28 1.63 1.63 289.2 -0.96 -0.67 9.7 80 13 1 5 1 2 1 0  A 665 A G 667 A G 668 A U 669 A G 693 A A 716 A C
717 A G 721 A A 722 A U 723 A G 724 A C 732 A A
733 A G 734 A C 735 A C 795 A C 796 A C 805 A C
806 A U 833 A C 834 A G 926 A G 928 A A 937 A A
938 A G 939 A C 940 A G 941 A G 942 A C 948 A G
976 A C 1234 A U 1235 A A 1236 A C 1237 A A 1238
A U 1307 A G 1310 A G 1311 A G 1323 A A 1324 A C
1325 A C 1336 A G 1337 A A 1340 A U 1341 A U 1351
A C 1352 A G 1353 A C 1354 A G 1355 A G 1356 A C
1361 A i:A C 1362 A A 1363 A U 1364 A G 1365 A C
1382 A C 1383 A C 1384 A A 1503 A G 1505 A U 1506
A A 1507 A G 1525 A G 1526 A C 1527 A G 1530 A MG
1695 A
29 1.68 1.69 292.5 -1.07 -0.66 11.3 80 15 3 5 1 3 1 0  A 665 A G 667 A G 668 A U 669 A G 693 A A 716 A C
717 A G 721 A A 722 A U 723 A G 724 A C 732 A A
733 A G 734 A C 735 A C 795 A C 796 A C 805 A C
806 A U 833 A C 834 A G 926 A G 928 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 C 1244 A A 1245
A C 1246 A U 1247 A C 1267 A A 1268 A A 1286 A A
1288 A A 1289 A G 1290 A G 1291 A U 1301 A U 1302
A C 1303 A G 1304 A G 1305 A G 1331 A C 1336 A G
1337 A A 1340 A U 1341 A U 1351 A C 1352 A C 1382
A C 1383 A C 1384 A A 1503 A G 1505 A U 1506 A A
1507 A G 1525 A G 1526 A C 1527 A G 1530 A MG
1703 A
30 1.18 1.61 297.6 -0.57 -0.50 9.1 77 12 3 6 10 5 0 0  A 665 A G 667 A G 668 A U 669 A G 693 A A 716 A C
717 A G 721 A A 722 A U 723 A G 724 A C 732 A A
733 A G 734 A C 735 A C 795 A C 796 A C 805 A C
806 A U 833 A C 834 A G 926 A G 928 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 A 1340 A U 1341 A U 1351 A C 1352 A C 1382
A C 1383 A C 1384 A A 1503 A G 1505 A U 1506 A A
1507 A G 1525 A G 1526 A C 1527 A G 1530 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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