ID code: '2JYF' CHIRALITY (03 Nov 1998) Checks the chirality and the naming of substituents of chiral and prochiral centers in nucleic acid structures. The molecular structure is read from a PDB file. Only the first model is evaluated. ---------------------------------------------------------- Center Reference for correct naming ---------------------------------------------------------- C1' alpha/beta nomenclature of anomeric sugars, base in beta position in natural nucleosids. C2' IUPAC. 1983. Eur J Biochem, 131: 9-15. C3' IUPAC. 1983. Eur J Biochem, 131: 9-15. C4' IUPAC. 1983. Eur J Biochem, 131: 9-15. C5' IUPAC. 1983. Eur J Biochem, 131: 9-15. P Brookhaven PDB entry '1BNA', O1P -> major groove, O2P -> minor groove. ---------------------------------------------------------- Author: Peter Slickers (slickers@imb-jena.de) Biocomputing, IMB Jena, Germany --------------------------------------------------------------------------------- Seq No Atom Residue H1' base O4' H1' base C2' --------------------------------------------------------------------------------- 9 C1' G A 1 alpha beta 4 27 10 7 44 C1' G A 2 alpha beta 39 62 45 42 78 C1' G A 3 alpha beta 73 96 79 76 112 C1' A A 4 alpha beta 107 129 113 110 145 C1' U A 5 alpha beta 140 160 146 143 175 C1' A A 6 alpha beta 170 192 176 173 208 C1' U A 7 alpha beta 203 223 209 206 238 C1' G A 8 alpha beta 233 256 239 236 272 C1' G A 9 alpha beta 267 290 273 270 306 C1' A A 10 alpha beta 301 323 307 304 339 C1' A A 11 alpha beta 334 356 340 337 372 C1' G A 12 alpha beta 367 390 373 370 406 C1' A A 13 alpha beta 401 423 407 404 439 C1' A A 14 alpha beta 434 456 440 437 472 C1' C A 15 alpha beta 467 487 473 470 503 C1' C A 16 alpha beta 498 518 504 501 534 C1' G A 17 alpha beta 529 552 535 532 568 C1' G A 18 alpha beta 563 586 569 566 602 C1' G A 19 alpha beta 597 620 603 600 636 C1' G A 20 alpha beta 631 654 637 634 670 C1' A A 21 alpha beta 665 687 671 668 703 C1' A A 22 alpha beta 698 720 704 701 736 C1' A A 23 alpha beta 731 753 737 734 769 C1' C A 24 alpha beta 764 784 770 767 800 C1' U A 25 alpha beta 795 815 801 798 830 C1' U A 26 alpha beta 825 845 831 828 860 C1' G A 27 alpha beta 855 878 861 858 894 C1' G A 28 alpha beta 889 912 895 892 928 C1' U A 29 alpha beta 923 943 929 926 958 C1' U A 30 alpha beta 953 973 959 956 988 C1' C A 31 alpha beta 983 1003 989 986 1019 C1' U A 32 alpha beta 1014 1034 1020 1017 1049 C1' U A 33 alpha beta 1044 1064 1050 1047 1079 C1' C A 34 alpha beta 1074 1094 1080 1077 1110 C1' C A 35 alpha beta 1105 1125 1111 1108 1141 C1' U A 36 alpha beta 1136 1156 1142 1139 1171 C1' A A 37 alpha beta 1166 1188 1172 1169 1204 C1' A A 38 alpha beta 1199 1221 1205 1202 1237 C1' G A 39 alpha beta 1232 1255 1238 1235 1271 C1' U A 40 alpha beta 1266 1286 1272 1269 1301 C1' C A 41 alpha beta 1296 1316 1302 1299 1332 C1' C A 42 alpha beta 1327 1347 1333 1330 1363 C1' U A 43 alpha beta 1358 1379 1364 1361 1392 C1' G B 44 alpha beta 1387 1410 1393 1390 1427 C1' G B 45 alpha beta 1422 1445 1428 1425 1461 C1' G B 46 alpha beta 1456 1479 1462 1459 1495 C1' A B 47 alpha beta 1490 1512 1496 1493 1528 C1' U B 48 alpha beta 1523 1543 1529 1526 1558 C1' A B 49 alpha beta 1553 1575 1559 1556 1591 C1' U B 50 alpha beta 1586 1606 1592 1589 1621 C1' G B 51 alpha beta 1616 1639 1622 1619 1655 C1' G B 52 alpha beta 1650 1673 1656 1653 1689 C1' A B 53 alpha beta 1684 1706 1690 1687 1722 C1' A B 54 alpha beta 1717 1739 1723 1720 1755 C1' G B 55 alpha beta 1750 1773 1756 1753 1789 C1' A B 56 alpha beta 1784 1806 1790 1787 1822 C1' A B 57 alpha beta 1817 1839 1823 1820 1855 C1' C B 58 alpha beta 1850 1870 1856 1853 1886 C1' C B 59 alpha beta 1881 1901 1887 1884 1917 C1' G B 60 alpha beta 1912 1935 1918 1915 1951 C1' G B 61 alpha beta 1946 1969 1952 1949 1985 C1' G B 62 alpha beta 1980 2003 1986 1983 2019 C1' G B 63 alpha beta 2014 2037 2020 2017 2053 C1' A B 64 alpha beta 2048 2070 2054 2051 2086 C1' A B 65 alpha beta 2081 2103 2087 2084 2119 C1' A B 66 alpha beta 2114 2136 2120 2117 2152 C1' C B 67 alpha beta 2147 2167 2153 2150 2183 C1' U B 68 alpha beta 2178 2198 2184 2181 2213 C1' U B 69 alpha beta 2208 2228 2214 2211 2243 C1' G B 70 alpha beta 2238 2261 2244 2241 2277 C1' G B 71 alpha beta 2272 2295 2278 2275 2311 C1' U B 72 alpha beta 2306 2326 2312 2309 2341 C1' U B 73 alpha beta 2336 2356 2342 2339 2371 C1' C B 74 alpha beta 2366 2386 2372 2369 2402 C1' U B 75 alpha beta 2397 2417 2403 2400 2432 C1' U B 76 alpha beta 2427 2447 2433 2430 2462 C1' C B 77 alpha beta 2457 2477 2463 2460 2493 C1' C B 78 alpha beta 2488 2508 2494 2491 2524 C1' U B 79 alpha beta 2519 2539 2525 2522 2554 C1' A B 80 alpha beta 2549 2571 2555 2552 2587 C1' A B 81 alpha beta 2582 2604 2588 2585 2620 C1' G B 82 alpha beta 2615 2638 2621 2618 2654 C1' U B 83 alpha beta 2649 2669 2655 2652 2684 C1' C B 84 alpha beta 2679 2699 2685 2682 2715 C1' C B 85 alpha beta 2710 2730 2716 2713 2746 C1' U B 86 alpha beta 2741 2762 2747 2744 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2' H2'1 H2'2 H2' O2' --------------------------------------------------------------------------------------------------------------------- 7 C2' G A 1 OK OK 9 5 25 8 42 C2' G A 2 OK OK 44 40 60 43 76 C2' G A 3 OK OK 78 74 94 77 110 C2' A A 4 OK OK 112 108 127 111 143 C2' U A 5 OK OK 145 141 158 144 173 C2' A A 6 OK OK 175 171 190 174 206 C2' U A 7 OK OK 208 204 221 207 236 C2' G A 8 OK OK 238 234 254 237 270 C2' G A 9 OK OK 272 268 288 271 304 C2' A A 10 OK OK 306 302 321 305 337 C2' A A 11 OK OK 339 335 354 338 370 C2' G A 12 OK OK 372 368 388 371 404 C2' A A 13 OK OK 406 402 421 405 437 C2' A A 14 OK OK 439 435 454 438 470 C2' C A 15 OK OK 472 468 485 471 501 C2' C A 16 OK OK 503 499 516 502 532 C2' G A 17 OK OK 534 530 550 533 566 C2' G A 18 OK OK 568 564 584 567 600 C2' G A 19 OK OK 602 598 618 601 634 C2' G A 20 OK OK 636 632 652 635 668 C2' A A 21 OK OK 670 666 685 669 701 C2' A A 22 OK OK 703 699 718 702 734 C2' A A 23 OK OK 736 732 751 735 767 C2' C A 24 OK OK 769 765 782 768 798 C2' U A 25 OK OK 800 796 813 799 828 C2' U A 26 OK OK 830 826 843 829 858 C2' G A 27 OK OK 860 856 876 859 892 C2' G A 28 OK OK 894 890 910 893 926 C2' U A 29 OK OK 928 924 941 927 956 C2' U A 30 OK OK 958 954 971 957 986 C2' C A 31 OK OK 988 984 1001 987 1017 C2' U A 32 OK OK 1019 1015 1032 1018 1047 C2' U A 33 OK OK 1049 1045 1062 1048 1077 C2' C A 34 OK OK 1079 1075 1092 1078 1108 C2' C A 35 OK OK 1110 1106 1123 1109 1139 C2' U A 36 OK OK 1141 1137 1154 1140 1169 C2' A A 37 OK OK 1171 1167 1186 1170 1202 C2' A A 38 OK OK 1204 1200 1219 1203 1235 C2' G A 39 OK OK 1237 1233 1253 1236 1269 C2' U A 40 OK OK 1271 1267 1284 1270 1299 C2' C A 41 OK OK 1301 1297 1314 1300 1330 C2' C A 42 OK OK 1332 1328 1345 1331 1361 C2' U A 43 OK OK 1363 1359 1377 1362 1390 C2' G B 44 OK OK 1392 1388 1408 1391 1425 C2' G B 45 OK OK 1427 1423 1443 1426 1459 C2' G B 46 OK OK 1461 1457 1477 1460 1493 C2' A B 47 OK OK 1495 1491 1510 1494 1526 C2' U B 48 OK OK 1528 1524 1541 1527 1556 C2' A B 49 OK OK 1558 1554 1573 1557 1589 C2' U B 50 OK OK 1591 1587 1604 1590 1619 C2' G B 51 OK OK 1621 1617 1637 1620 1653 C2' G B 52 OK OK 1655 1651 1671 1654 1687 C2' A B 53 OK OK 1689 1685 1704 1688 1720 C2' A B 54 OK OK 1722 1718 1737 1721 1753 C2' G B 55 OK OK 1755 1751 1771 1754 1787 C2' A B 56 OK OK 1789 1785 1804 1788 1820 C2' A B 57 OK OK 1822 1818 1837 1821 1853 C2' C B 58 OK OK 1855 1851 1868 1854 1884 C2' C B 59 OK OK 1886 1882 1899 1885 1915 C2' G B 60 OK OK 1917 1913 1933 1916 1949 C2' G B 61 OK OK 1951 1947 1967 1950 1983 C2' G B 62 OK OK 1985 1981 2001 1984 2017 C2' G B 63 OK OK 2019 2015 2035 2018 2051 C2' A B 64 OK OK 2053 2049 2068 2052 2084 C2' A B 65 OK OK 2086 2082 2101 2085 2117 C2' A B 66 OK OK 2119 2115 2134 2118 2150 C2' C B 67 OK OK 2152 2148 2165 2151 2181 C2' U B 68 OK OK 2183 2179 2196 2182 2211 C2' U B 69 OK OK 2213 2209 2226 2212 2241 C2' G B 70 OK OK 2243 2239 2259 2242 2275 C2' G B 71 OK OK 2277 2273 2293 2276 2309 C2' U B 72 OK OK 2311 2307 2324 2310 2339 C2' U B 73 OK OK 2341 2337 2354 2340 2369 C2' C B 74 OK OK 2371 2367 2384 2370 2400 C2' U B 75 OK OK 2402 2398 2415 2401 2430 C2' U B 76 OK OK 2432 2428 2445 2431 2460 C2' C B 77 OK OK 2462 2458 2475 2461 2491 C2' C B 78 OK OK 2493 2489 2506 2492 2522 C2' U B 79 OK OK 2524 2520 2537 2523 2552 C2' A B 80 OK OK 2554 2550 2569 2553 2585 C2' A B 81 OK OK 2587 2583 2602 2586 2618 C2' G B 82 OK OK 2620 2616 2636 2619 2652 C2' U B 83 OK OK 2654 2650 2667 2653 2682 C2' C B 84 OK OK 2684 2680 2697 2683 2713 C2' C B 85 OK OK 2715 2711 2728 2714 2744 C2' U B 86 OK OK 2746 2742 2760 2745 --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H3' O3' C4' H3' O3' C2' --------------------------------------------------------------------------------- 5 C3' G A 1 OK OK 3 24 6 7 40 C3' G A 2 OK OK 38 59 41 42 74 C3' G A 3 OK OK 72 93 75 76 108 C3' A A 4 OK OK 106 126 109 110 141 C3' U A 5 OK OK 139 157 142 143 171 C3' A A 6 OK OK 169 189 172 173 204 C3' U A 7 OK OK 202 220 205 206 234 C3' G A 8 OK OK 232 253 235 236 268 C3' G A 9 OK OK 266 287 269 270 302 C3' A A 10 OK OK 300 320 303 304 335 C3' A A 11 OK OK 333 353 336 337 368 C3' G A 12 OK OK 366 387 369 370 402 C3' A A 13 OK OK 400 420 403 404 435 C3' A A 14 OK OK 433 453 436 437 468 C3' C A 15 OK OK 466 484 469 470 499 C3' C A 16 OK OK 497 515 500 501 530 C3' G A 17 OK OK 528 549 531 532 564 C3' G A 18 OK OK 562 583 565 566 598 C3' G A 19 OK OK 596 617 599 600 632 C3' G A 20 OK OK 630 651 633 634 666 C3' A A 21 OK OK 664 684 667 668 699 C3' A A 22 OK OK 697 717 700 701 732 C3' A A 23 OK OK 730 750 733 734 765 C3' C A 24 OK OK 763 781 766 767 796 C3' U A 25 OK OK 794 812 797 798 826 C3' U A 26 OK OK 824 842 827 828 856 C3' G A 27 OK OK 854 875 857 858 890 C3' G A 28 OK OK 888 909 891 892 924 C3' U A 29 OK OK 922 940 925 926 954 C3' U A 30 OK OK 952 970 955 956 984 C3' C A 31 OK OK 982 1000 985 986 1015 C3' U A 32 OK OK 1013 1031 1016 1017 1045 C3' U A 33 OK OK 1043 1061 1046 1047 1075 C3' C A 34 OK OK 1073 1091 1076 1077 1106 C3' C A 35 OK OK 1104 1122 1107 1108 1137 C3' U A 36 OK OK 1135 1153 1138 1139 1167 C3' A A 37 OK OK 1165 1185 1168 1169 1200 C3' A A 38 OK OK 1198 1218 1201 1202 1233 C3' G A 39 OK OK 1231 1252 1234 1235 1267 C3' U A 40 OK OK 1265 1283 1268 1269 1297 C3' C A 41 OK OK 1295 1313 1298 1299 1328 C3' C A 42 OK OK 1326 1344 1329 1330 1359 C3' U A 43 OK OK 1357 1375 1360 1361 1388 C3' G B 44 OK OK 1386 1407 1389 1390 1423 C3' G B 45 OK OK 1421 1442 1424 1425 1457 C3' G B 46 OK OK 1455 1476 1458 1459 1491 C3' A B 47 OK OK 1489 1509 1492 1493 1524 C3' U B 48 OK OK 1522 1540 1525 1526 1554 C3' A B 49 OK OK 1552 1572 1555 1556 1587 C3' U B 50 OK OK 1585 1603 1588 1589 1617 C3' G B 51 OK OK 1615 1636 1618 1619 1651 C3' G B 52 OK OK 1649 1670 1652 1653 1685 C3' A B 53 OK OK 1683 1703 1686 1687 1718 C3' A B 54 OK OK 1716 1736 1719 1720 1751 C3' G B 55 OK OK 1749 1770 1752 1753 1785 C3' A B 56 OK OK 1783 1803 1786 1787 1818 C3' A B 57 OK OK 1816 1836 1819 1820 1851 C3' C B 58 OK OK 1849 1867 1852 1853 1882 C3' C B 59 OK OK 1880 1898 1883 1884 1913 C3' G B 60 OK OK 1911 1932 1914 1915 1947 C3' G B 61 OK OK 1945 1966 1948 1949 1981 C3' G B 62 OK OK 1979 2000 1982 1983 2015 C3' G B 63 OK OK 2013 2034 2016 2017 2049 C3' A B 64 OK OK 2047 2067 2050 2051 2082 C3' A B 65 OK OK 2080 2100 2083 2084 2115 C3' A B 66 OK OK 2113 2133 2116 2117 2148 C3' C B 67 OK OK 2146 2164 2149 2150 2179 C3' U B 68 OK OK 2177 2195 2180 2181 2209 C3' U B 69 OK OK 2207 2225 2210 2211 2239 C3' G B 70 OK OK 2237 2258 2240 2241 2273 C3' G B 71 OK OK 2271 2292 2274 2275 2307 C3' U B 72 OK OK 2305 2323 2308 2309 2337 C3' U B 73 OK OK 2335 2353 2338 2339 2367 C3' C B 74 OK OK 2365 2383 2368 2369 2398 C3' U B 75 OK OK 2396 2414 2399 2400 2428 C3' U B 76 OK OK 2426 2444 2429 2430 2458 C3' C B 77 OK OK 2456 2474 2459 2460 2489 C3' C B 78 OK OK 2487 2505 2490 2491 2520 C3' U B 79 OK OK 2518 2536 2521 2522 2550 C3' A B 80 OK OK 2548 2568 2551 2552 2583 C3' A B 81 OK OK 2581 2601 2584 2585 2616 C3' G B 82 OK OK 2614 2635 2617 2618 2650 C3' U B 83 OK OK 2648 2666 2651 2652 2680 C3' C B 84 OK OK 2678 2696 2681 2682 2711 C3' C B 85 OK OK 2709 2727 2712 2713 2742 C3' U B 86 OK OK 2740 2758 2743 2744 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H4' C5' C3' H4' C5' O4' --------------------------------------------------------------------------------- 3 C4' G A 1 OK OK 5 23 2 4 38 C4' G A 2 OK OK 40 58 37 39 72 C4' G A 3 OK OK 74 92 71 73 106 C4' A A 4 OK OK 108 125 105 107 139 C4' U A 5 OK OK 141 156 138 140 169 C4' A A 6 OK OK 171 188 168 170 202 C4' U A 7 OK OK 204 219 201 203 232 C4' G A 8 OK OK 234 252 231 233 266 C4' G A 9 OK OK 268 286 265 267 300 C4' A A 10 OK OK 302 319 299 301 333 C4' A A 11 OK OK 335 352 332 334 366 C4' G A 12 OK OK 368 386 365 367 400 C4' A A 13 OK OK 402 419 399 401 433 C4' A A 14 OK OK 435 452 432 434 466 C4' C A 15 OK OK 468 483 465 467 497 C4' C A 16 OK OK 499 514 496 498 528 C4' G A 17 OK OK 530 548 527 529 562 C4' G A 18 OK OK 564 582 561 563 596 C4' G A 19 OK OK 598 616 595 597 630 C4' G A 20 OK OK 632 650 629 631 664 C4' A A 21 OK OK 666 683 663 665 697 C4' A A 22 OK OK 699 716 696 698 730 C4' A A 23 OK OK 732 749 729 731 763 C4' C A 24 OK OK 765 780 762 764 794 C4' U A 25 OK OK 796 811 793 795 824 C4' U A 26 OK OK 826 841 823 825 854 C4' G A 27 OK OK 856 874 853 855 888 C4' G A 28 OK OK 890 908 887 889 922 C4' U A 29 OK OK 924 939 921 923 952 C4' U A 30 OK OK 954 969 951 953 982 C4' C A 31 OK OK 984 999 981 983 1013 C4' U A 32 OK OK 1015 1030 1012 1014 1043 C4' U A 33 OK OK 1045 1060 1042 1044 1073 C4' C A 34 OK OK 1075 1090 1072 1074 1104 C4' C A 35 OK OK 1106 1121 1103 1105 1135 C4' U A 36 OK OK 1137 1152 1134 1136 1165 C4' A A 37 OK OK 1167 1184 1164 1166 1198 C4' A A 38 OK OK 1200 1217 1197 1199 1231 C4' G A 39 OK OK 1233 1251 1230 1232 1265 C4' U A 40 OK OK 1267 1282 1264 1266 1295 C4' C A 41 OK OK 1297 1312 1294 1296 1326 C4' C A 42 OK OK 1328 1343 1325 1327 1357 C4' U A 43 OK OK 1359 1374 1356 1358 1386 C4' G B 44 OK OK 1388 1406 1385 1387 1421 C4' G B 45 OK OK 1423 1441 1420 1422 1455 C4' G B 46 OK OK 1457 1475 1454 1456 1489 C4' A B 47 OK OK 1491 1508 1488 1490 1522 C4' U B 48 OK OK 1524 1539 1521 1523 1552 C4' A B 49 OK OK 1554 1571 1551 1553 1585 C4' U B 50 OK OK 1587 1602 1584 1586 1615 C4' G B 51 OK OK 1617 1635 1614 1616 1649 C4' G B 52 OK OK 1651 1669 1648 1650 1683 C4' A B 53 OK OK 1685 1702 1682 1684 1716 C4' A B 54 OK OK 1718 1735 1715 1717 1749 C4' G B 55 OK OK 1751 1769 1748 1750 1783 C4' A B 56 OK OK 1785 1802 1782 1784 1816 C4' A B 57 OK OK 1818 1835 1815 1817 1849 C4' C B 58 OK OK 1851 1866 1848 1850 1880 C4' C B 59 OK OK 1882 1897 1879 1881 1911 C4' G B 60 OK OK 1913 1931 1910 1912 1945 C4' G B 61 OK OK 1947 1965 1944 1946 1979 C4' G B 62 OK OK 1981 1999 1978 1980 2013 C4' G B 63 OK OK 2015 2033 2012 2014 2047 C4' A B 64 OK OK 2049 2066 2046 2048 2080 C4' A B 65 OK OK 2082 2099 2079 2081 2113 C4' A B 66 OK OK 2115 2132 2112 2114 2146 C4' C B 67 OK OK 2148 2163 2145 2147 2177 C4' U B 68 OK OK 2179 2194 2176 2178 2207 C4' U B 69 OK OK 2209 2224 2206 2208 2237 C4' G B 70 OK OK 2239 2257 2236 2238 2271 C4' G B 71 OK OK 2273 2291 2270 2272 2305 C4' U B 72 OK OK 2307 2322 2304 2306 2335 C4' U B 73 OK OK 2337 2352 2334 2336 2365 C4' C B 74 OK OK 2367 2382 2364 2366 2396 C4' U B 75 OK OK 2398 2413 2395 2397 2426 C4' U B 76 OK OK 2428 2443 2425 2427 2456 C4' C B 77 OK OK 2458 2473 2455 2457 2487 C4' C B 78 OK OK 2489 2504 2486 2488 2518 C4' U B 79 OK OK 2520 2535 2517 2519 2548 C4' A B 80 OK OK 2550 2567 2547 2549 2581 C4' A B 81 OK OK 2583 2600 2580 2582 2614 C4' G B 82 OK OK 2616 2634 2613 2615 2648 C4' U B 83 OK OK 2650 2665 2647 2649 2678 C4' C B 84 OK OK 2680 2695 2677 2679 2709 C4' C B 85 OK OK 2711 2726 2708 2710 2740 C4' U B 86 OK OK 2742 2757 2739 2741 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4' --------------------------------------------------------------------------------- 2 C5' G A 1 OK OK 1 21 22 3 37 C5' G A 2 OK OK 36 56 57 38 71 C5' G A 3 OK OK 70 90 91 72 105 C5' A A 4 OK OK 104 123 124 106 138 C5' U A 5 OK OK 137 154 155 139 168 C5' A A 6 OK OK 167 186 187 169 201 C5' U A 7 OK OK 200 217 218 202 231 C5' G A 8 OK OK 230 250 251 232 265 C5' G A 9 OK OK 264 284 285 266 299 C5' A A 10 OK OK 298 317 318 300 332 C5' A A 11 OK OK 331 350 351 333 365 C5' G A 12 OK OK 364 384 385 366 399 C5' A A 13 OK OK 398 417 418 400 432 C5' A A 14 OK OK 431 450 451 433 465 C5' C A 15 OK OK 464 481 482 466 496 C5' C A 16 OK OK 495 512 513 497 527 C5' G A 17 OK OK 526 546 547 528 561 C5' G A 18 OK OK 560 580 581 562 595 C5' G A 19 OK OK 594 614 615 596 629 C5' G A 20 OK OK 628 648 649 630 663 C5' A A 21 OK OK 662 681 682 664 696 C5' A A 22 OK OK 695 714 715 697 729 C5' A A 23 OK OK 728 747 748 730 762 C5' C A 24 OK OK 761 778 779 763 793 C5' U A 25 OK OK 792 809 810 794 823 C5' U A 26 OK OK 822 839 840 824 853 C5' G A 27 OK OK 852 872 873 854 887 C5' G A 28 OK OK 886 906 907 888 921 C5' U A 29 OK OK 920 937 938 922 951 C5' U A 30 OK OK 950 967 968 952 981 C5' C A 31 OK OK 980 997 998 982 1012 C5' U A 32 OK OK 1011 1028 1029 1013 1042 C5' U A 33 OK OK 1041 1058 1059 1043 1072 C5' C A 34 OK OK 1071 1088 1089 1073 1103 C5' C A 35 OK OK 1102 1119 1120 1104 1134 C5' U A 36 OK OK 1133 1150 1151 1135 1164 C5' A A 37 OK OK 1163 1182 1183 1165 1197 C5' A A 38 OK OK 1196 1215 1216 1198 1230 C5' G A 39 OK OK 1229 1249 1250 1231 1264 C5' U A 40 OK OK 1263 1280 1281 1265 1294 C5' C A 41 OK OK 1293 1310 1311 1295 1325 C5' C A 42 OK OK 1324 1341 1342 1326 1356 C5' U A 43 OK OK 1355 1372 1373 1357 1385 C5' G B 44 OK OK 1384 1404 1405 1386 1420 C5' G B 45 OK OK 1419 1439 1440 1421 1454 C5' G B 46 OK OK 1453 1473 1474 1455 1488 C5' A B 47 OK OK 1487 1506 1507 1489 1521 C5' U B 48 OK OK 1520 1537 1538 1522 1551 C5' A B 49 OK OK 1550 1569 1570 1552 1584 C5' U B 50 OK OK 1583 1600 1601 1585 1614 C5' G B 51 OK OK 1613 1633 1634 1615 1648 C5' G B 52 OK OK 1647 1667 1668 1649 1682 C5' A B 53 OK OK 1681 1700 1701 1683 1715 C5' A B 54 OK OK 1714 1733 1734 1716 1748 C5' G B 55 OK OK 1747 1767 1768 1749 1782 C5' A B 56 OK OK 1781 1800 1801 1783 1815 C5' A B 57 OK OK 1814 1833 1834 1816 1848 C5' C B 58 OK OK 1847 1864 1865 1849 1879 C5' C B 59 OK OK 1878 1895 1896 1880 1910 C5' G B 60 OK OK 1909 1929 1930 1911 1944 C5' G B 61 OK OK 1943 1963 1964 1945 1978 C5' G B 62 OK OK 1977 1997 1998 1979 2012 C5' G B 63 OK OK 2011 2031 2032 2013 2046 C5' A B 64 OK OK 2045 2064 2065 2047 2079 C5' A B 65 OK OK 2078 2097 2098 2080 2112 C5' A B 66 OK OK 2111 2130 2131 2113 2145 C5' C B 67 OK OK 2144 2161 2162 2146 2176 C5' U B 68 OK OK 2175 2192 2193 2177 2206 C5' U B 69 OK OK 2205 2222 2223 2207 2236 C5' G B 70 OK OK 2235 2255 2256 2237 2270 C5' G B 71 OK OK 2269 2289 2290 2271 2304 C5' U B 72 OK OK 2303 2320 2321 2305 2334 C5' U B 73 OK OK 2333 2350 2351 2335 2364 C5' C B 74 OK OK 2363 2380 2381 2365 2395 C5' U B 75 OK OK 2394 2411 2412 2396 2425 C5' U B 76 OK OK 2424 2441 2442 2426 2455 C5' C B 77 OK OK 2454 2471 2472 2456 2486 C5' C B 78 OK OK 2485 2502 2503 2487 2517 C5' U B 79 OK OK 2516 2533 2534 2518 2547 C5' A B 80 OK OK 2546 2565 2566 2548 2580 C5' A B 81 OK OK 2579 2598 2599 2581 2613 C5' G B 82 OK OK 2612 2632 2633 2614 2647 C5' U B 83 OK OK 2646 2663 2664 2648 2677 C5' C B 84 OK OK 2676 2693 2694 2678 2708 C5' C B 85 OK OK 2707 2724 2725 2709 2739 C5' U B 86 OK OK 2738 2755 2756 2740 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue O1P O2P O3' O1P O2P O5' --------------------------------------------------------------------------------- 33 P G A 2 distorted distorted 6 34 35 36 67 P G A 3 distorted distorted 41 68 69 70 101 P A A 4 distorted distorted 75 102 103 104 134 P U A 5 distorted distorted 109 135 136 137 164 P A A 6 distorted distorted 142 165 166 167 197 P U A 7 distorted distorted 172 198 199 200 227 P G A 8 distorted distorted 205 228 229 230 261 P G A 9 distorted distorted 235 262 263 264 295 P A A 10 distorted distorted 269 296 297 298 328 P A A 11 distorted distorted 303 329 330 331 361 P G A 12 distorted distorted 336 362 363 364 395 P A A 13 distorted distorted 369 396 397 398 428 P A A 14 distorted distorted 403 429 430 431 461 P C A 15 distorted distorted 436 462 463 464 492 P C A 16 distorted distorted 469 493 494 495 523 P G A 17 distorted distorted 500 524 525 526 557 P G A 18 distorted distorted 531 558 559 560 591 P G A 19 distorted distorted 565 592 593 594 625 P G A 20 distorted distorted 599 626 627 628 659 P A A 21 distorted distorted 633 660 661 662 692 P A A 22 distorted distorted 667 693 694 695 725 P A A 23 distorted distorted 700 726 727 728 758 P C A 24 distorted distorted 733 759 760 761 789 P U A 25 distorted distorted 766 790 791 792 819 P U A 26 distorted distorted 797 820 821 822 849 P G A 27 distorted distorted 827 850 851 852 883 P G A 28 distorted distorted 857 884 885 886 917 P U A 29 distorted distorted 891 918 919 920 947 P U A 30 distorted distorted 925 948 949 950 977 P C A 31 distorted distorted 955 978 979 980 1008 P U A 32 distorted distorted 985 1009 1010 1011 1038 P U A 33 distorted distorted 1016 1039 1040 1041 1068 P C A 34 distorted distorted 1046 1069 1070 1071 1099 P C A 35 distorted distorted 1076 1100 1101 1102 1130 P U A 36 distorted distorted 1107 1131 1132 1133 1160 P A A 37 distorted distorted 1138 1161 1162 1163 1193 P A A 38 distorted distorted 1168 1194 1195 1196 1226 P G A 39 distorted distorted 1201 1227 1228 1229 1260 P U A 40 distorted distorted 1234 1261 1262 1263 1290 P C A 41 distorted distorted 1268 1291 1292 1293 1321 P C A 42 distorted distorted 1298 1322 1323 1324 1352 P U A 43 distorted distorted 1329 1353 1354 1355 1416 P G B 45 distorted distorted 1389 1417 1418 1419 1450 P G B 46 distorted distorted 1424 1451 1452 1453 1484 P A B 47 distorted distorted 1458 1485 1486 1487 1517 P U B 48 distorted distorted 1492 1518 1519 1520 1547 P A B 49 distorted distorted 1525 1548 1549 1550 1580 P U B 50 distorted distorted 1555 1581 1582 1583 1610 P G B 51 distorted distorted 1588 1611 1612 1613 1644 P G B 52 distorted distorted 1618 1645 1646 1647 1678 P A B 53 distorted distorted 1652 1679 1680 1681 1711 P A B 54 distorted distorted 1686 1712 1713 1714 1744 P G B 55 distorted distorted 1719 1745 1746 1747 1778 P A B 56 distorted distorted 1752 1779 1780 1781 1811 P A B 57 distorted distorted 1786 1812 1813 1814 1844 P C B 58 distorted distorted 1819 1845 1846 1847 1875 P C B 59 distorted distorted 1852 1876 1877 1878 1906 P G B 60 distorted distorted 1883 1907 1908 1909 1940 P G B 61 distorted distorted 1914 1941 1942 1943 1974 P G B 62 distorted distorted 1948 1975 1976 1977 2008 P G B 63 distorted distorted 1982 2009 2010 2011 2042 P A B 64 distorted distorted 2016 2043 2044 2045 2075 P A B 65 distorted distorted 2050 2076 2077 2078 2108 P A B 66 distorted distorted 2083 2109 2110 2111 2141 P C B 67 distorted distorted 2116 2142 2143 2144 2172 P U B 68 distorted distorted 2149 2173 2174 2175 2202 P U B 69 distorted distorted 2180 2203 2204 2205 2232 P G B 70 distorted distorted 2210 2233 2234 2235 2266 P G B 71 distorted distorted 2240 2267 2268 2269 2300 P U B 72 distorted distorted 2274 2301 2302 2303 2330 P U B 73 distorted distorted 2308 2331 2332 2333 2360 P C B 74 distorted distorted 2338 2361 2362 2363 2391 P U B 75 distorted distorted 2368 2392 2393 2394 2421 P U B 76 distorted distorted 2399 2422 2423 2424 2451 P C B 77 distorted distorted 2429 2452 2453 2454 2482 P C B 78 distorted distorted 2459 2483 2484 2485 2513 P U B 79 distorted distorted 2490 2514 2515 2516 2543 P A B 80 distorted distorted 2521 2544 2545 2546 2576 P A B 81 distorted distorted 2551 2577 2578 2579 2609 P G B 82 distorted distorted 2584 2610 2611 2612 2643 P U B 83 distorted distorted 2617 2644 2645 2646 2673 P C B 84 distorted distorted 2651 2674 2675 2676 2704 P C B 85 distorted distorted 2681 2705 2706 2707 2735 P U B 86 distorted distorted 2712 2736 2737 2738 ---------------------------------------------------------------------------------