ID code: '2D1A' 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' U A 4 alpha beta 107 127 113 110 142 C1' C A 5 alpha beta 137 157 143 140 173 C1' G A 6 alpha beta 168 191 174 171 207 C1' G A 7 alpha beta 202 225 208 205 241 C1' C A 8 alpha beta 236 256 242 239 272 C1' U A 9 alpha beta 267 287 273 270 302 C1' U A 10 alpha beta 297 317 303 300 332 C1' G A 11 alpha beta 327 350 333 330 366 C1' C A 12 alpha beta 361 381 367 364 397 C1' U A 13 alpha beta 392 412 398 395 427 C1' G A 14 alpha beta 422 445 428 425 461 C1' A A 15 alpha beta 456 478 462 459 494 C1' A A 16 alpha beta 489 511 495 492 527 C1' G A 17 alpha beta 522 545 528 525 561 C1' U A 18 alpha beta 556 576 562 559 591 C1' G A 19 alpha beta 586 609 592 589 625 C1' C A 20 alpha beta 620 640 626 623 656 C1' A A 21 alpha beta 651 673 657 654 689 C1' C A 22 alpha beta 684 704 690 687 720 C1' A A 23 alpha beta 715 737 721 718 753 C1' C A 24 alpha beta 748 768 754 751 784 C1' G A 25 alpha beta 779 802 785 782 818 C1' G A 26 alpha beta 813 836 819 816 852 C1' C A 27 alpha beta 847 867 853 850 883 C1' A A 28 alpha beta 878 900 884 881 916 C1' A A 29 alpha beta 911 933 917 914 949 C1' G A 30 alpha beta 944 967 950 947 983 C1' A A 31 alpha beta 978 1000 984 981 1016 C1' G A 32 alpha beta 1011 1034 1017 1014 1050 C1' G A 33 alpha beta 1045 1068 1051 1048 1084 C1' C A 34 alpha beta 1079 1099 1085 1082 1115 C1' G A 35 alpha beta 1110 1133 1116 1113 1149 C1' A A 36 alpha beta 1144 1166 1150 1147 1182 C1' C A 37 alpha beta 1177 1197 1183 1180 1213 C1' C A 38 alpha beta 1208 1228 1214 1211 1244 C1' C A 39 alpha beta 1239 1259 1245 1242 1273 C1' G B 1 alpha beta 1268 1291 1274 1271 1308 C1' G B 2 alpha beta 1303 1326 1309 1306 1342 C1' G B 3 alpha beta 1337 1360 1343 1340 1376 C1' U B 4 alpha beta 1371 1391 1377 1374 1406 C1' C B 5 alpha beta 1401 1421 1407 1404 1437 C1' G B 6 alpha beta 1432 1455 1438 1435 1471 C1' G B 7 alpha beta 1466 1489 1472 1469 1505 C1' C B 8 alpha beta 1500 1520 1506 1503 1536 C1' U B 9 alpha beta 1531 1551 1537 1534 1566 C1' U B 10 alpha beta 1561 1581 1567 1564 1596 C1' G B 11 alpha beta 1591 1614 1597 1594 1630 C1' C B 12 alpha beta 1625 1645 1631 1628 1661 C1' U B 13 alpha beta 1656 1676 1662 1659 1691 C1' G B 14 alpha beta 1686 1709 1692 1689 1725 C1' A B 15 alpha beta 1720 1742 1726 1723 1758 C1' A B 16 alpha beta 1753 1775 1759 1756 1791 C1' G B 17 alpha beta 1786 1809 1792 1789 1825 C1' U B 18 alpha beta 1820 1840 1826 1823 1855 C1' G B 19 alpha beta 1850 1873 1856 1853 1889 C1' C B 20 alpha beta 1884 1904 1890 1887 1920 C1' A B 21 alpha beta 1915 1937 1921 1918 1953 C1' C B 22 alpha beta 1948 1968 1954 1951 1984 C1' A B 23 alpha beta 1979 2001 1985 1982 2017 C1' C B 24 alpha beta 2012 2032 2018 2015 2048 C1' G B 25 alpha beta 2043 2066 2049 2046 2082 C1' G B 26 alpha beta 2077 2100 2083 2080 2116 C1' C B 27 alpha beta 2111 2131 2117 2114 2147 C1' A B 28 alpha beta 2142 2164 2148 2145 2180 C1' A B 29 alpha beta 2175 2197 2181 2178 2213 C1' G B 30 alpha beta 2208 2231 2214 2211 2247 C1' A B 31 alpha beta 2242 2264 2248 2245 2280 C1' G B 32 alpha beta 2275 2298 2281 2278 2314 C1' G B 33 alpha beta 2309 2332 2315 2312 2348 C1' C B 34 alpha beta 2343 2363 2349 2346 2379 C1' G B 35 alpha beta 2374 2397 2380 2377 2413 C1' A B 36 alpha beta 2408 2430 2414 2411 2446 C1' C B 37 alpha beta 2441 2461 2447 2444 2477 C1' C B 38 alpha beta 2472 2492 2478 2475 2508 C1' C B 39 alpha beta 2503 2523 2509 2506 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- 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' U A 4 OK OK 112 108 125 111 140 C2' C A 5 OK OK 142 138 155 141 171 C2' G A 6 OK OK 173 169 189 172 205 C2' G A 7 OK OK 207 203 223 206 239 C2' C A 8 OK OK 241 237 254 240 270 C2' U A 9 OK OK 272 268 285 271 300 C2' U A 10 OK OK 302 298 315 301 330 C2' G A 11 OK OK 332 328 348 331 364 C2' C A 12 OK OK 366 362 379 365 395 C2' U A 13 OK OK 397 393 410 396 425 C2' G A 14 OK OK 427 423 443 426 459 C2' A A 15 OK OK 461 457 476 460 492 C2' A A 16 OK OK 494 490 509 493 525 C2' G A 17 OK OK 527 523 543 526 559 C2' U A 18 OK OK 561 557 574 560 589 C2' G A 19 OK OK 591 587 607 590 623 C2' C A 20 OK OK 625 621 638 624 654 C2' A A 21 OK OK 656 652 671 655 687 C2' C A 22 OK OK 689 685 702 688 718 C2' A A 23 OK OK 720 716 735 719 751 C2' C A 24 OK OK 753 749 766 752 782 C2' G A 25 OK OK 784 780 800 783 816 C2' G A 26 OK OK 818 814 834 817 850 C2' C A 27 OK OK 852 848 865 851 881 C2' A A 28 OK OK 883 879 898 882 914 C2' A A 29 OK OK 916 912 931 915 947 C2' G A 30 OK OK 949 945 965 948 981 C2' A A 31 OK OK 983 979 998 982 1014 C2' G A 32 OK OK 1016 1012 1032 1015 1048 C2' G A 33 OK OK 1050 1046 1066 1049 1082 C2' C A 34 OK OK 1084 1080 1097 1083 1113 C2' G A 35 OK OK 1115 1111 1131 1114 1147 C2' A A 36 OK OK 1149 1145 1164 1148 1180 C2' C A 37 OK OK 1182 1178 1195 1181 1211 C2' C A 38 OK OK 1213 1209 1226 1212 1242 C2' C A 39 OK OK 1244 1240 1257 1243 1271 C2' G B 1 OK OK 1273 1269 1289 1272 1306 C2' G B 2 OK OK 1308 1304 1324 1307 1340 C2' G B 3 OK OK 1342 1338 1358 1341 1374 C2' U B 4 OK OK 1376 1372 1389 1375 1404 C2' C B 5 OK OK 1406 1402 1419 1405 1435 C2' G B 6 OK OK 1437 1433 1453 1436 1469 C2' G B 7 OK OK 1471 1467 1487 1470 1503 C2' C B 8 OK OK 1505 1501 1518 1504 1534 C2' U B 9 OK OK 1536 1532 1549 1535 1564 C2' U B 10 OK OK 1566 1562 1579 1565 1594 C2' G B 11 OK OK 1596 1592 1612 1595 1628 C2' C B 12 OK OK 1630 1626 1643 1629 1659 C2' U B 13 OK OK 1661 1657 1674 1660 1689 C2' G B 14 OK OK 1691 1687 1707 1690 1723 C2' A B 15 OK OK 1725 1721 1740 1724 1756 C2' A B 16 OK OK 1758 1754 1773 1757 1789 C2' G B 17 OK OK 1791 1787 1807 1790 1823 C2' U B 18 OK OK 1825 1821 1838 1824 1853 C2' G B 19 OK OK 1855 1851 1871 1854 1887 C2' C B 20 OK OK 1889 1885 1902 1888 1918 C2' A B 21 OK OK 1920 1916 1935 1919 1951 C2' C B 22 OK OK 1953 1949 1966 1952 1982 C2' A B 23 OK OK 1984 1980 1999 1983 2015 C2' C B 24 OK OK 2017 2013 2030 2016 2046 C2' G B 25 OK OK 2048 2044 2064 2047 2080 C2' G B 26 OK OK 2082 2078 2098 2081 2114 C2' C B 27 OK OK 2116 2112 2129 2115 2145 C2' A B 28 OK OK 2147 2143 2162 2146 2178 C2' A B 29 OK OK 2180 2176 2195 2179 2211 C2' G B 30 OK OK 2213 2209 2229 2212 2245 C2' A B 31 OK OK 2247 2243 2262 2246 2278 C2' G B 32 OK OK 2280 2276 2296 2279 2312 C2' G B 33 OK OK 2314 2310 2330 2313 2346 C2' C B 34 OK OK 2348 2344 2361 2347 2377 C2' G B 35 OK OK 2379 2375 2395 2378 2411 C2' A B 36 OK OK 2413 2409 2428 2412 2444 C2' C B 37 OK OK 2446 2442 2459 2445 2475 C2' C B 38 OK OK 2477 2473 2490 2476 2506 C2' C B 39 OK OK 2508 2504 2521 2507 --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- 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' U A 4 OK OK 106 124 109 110 138 C3' C A 5 OK OK 136 154 139 140 169 C3' G A 6 OK OK 167 188 170 171 203 C3' G A 7 OK OK 201 222 204 205 237 C3' C A 8 OK OK 235 253 238 239 268 C3' U A 9 OK OK 266 284 269 270 298 C3' U A 10 OK OK 296 314 299 300 328 C3' G A 11 OK OK 326 347 329 330 362 C3' C A 12 OK OK 360 378 363 364 393 C3' U A 13 OK OK 391 409 394 395 423 C3' G A 14 OK OK 421 442 424 425 457 C3' A A 15 OK OK 455 475 458 459 490 C3' A A 16 OK OK 488 508 491 492 523 C3' G A 17 OK OK 521 542 524 525 557 C3' U A 18 OK OK 555 573 558 559 587 C3' G A 19 OK OK 585 606 588 589 621 C3' C A 20 OK OK 619 637 622 623 652 C3' A A 21 OK OK 650 670 653 654 685 C3' C A 22 OK OK 683 701 686 687 716 C3' A A 23 OK OK 714 734 717 718 749 C3' C A 24 OK OK 747 765 750 751 780 C3' G A 25 OK OK 778 799 781 782 814 C3' G A 26 OK OK 812 833 815 816 848 C3' C A 27 OK OK 846 864 849 850 879 C3' A A 28 OK OK 877 897 880 881 912 C3' A A 29 OK OK 910 930 913 914 945 C3' G A 30 OK OK 943 964 946 947 979 C3' A A 31 OK OK 977 997 980 981 1012 C3' G A 32 OK OK 1010 1031 1013 1014 1046 C3' G A 33 OK OK 1044 1065 1047 1048 1080 C3' C A 34 OK OK 1078 1096 1081 1082 1111 C3' G A 35 OK OK 1109 1130 1112 1113 1145 C3' A A 36 OK OK 1143 1163 1146 1147 1178 C3' C A 37 OK OK 1176 1194 1179 1180 1209 C3' C A 38 OK OK 1207 1225 1210 1211 1240 C3' C A 39 OK OK 1238 1256 1241 1242 1269 C3' G B 1 OK OK 1267 1288 1270 1271 1304 C3' G B 2 OK OK 1302 1323 1305 1306 1338 C3' G B 3 OK OK 1336 1357 1339 1340 1372 C3' U B 4 OK OK 1370 1388 1373 1374 1402 C3' C B 5 OK OK 1400 1418 1403 1404 1433 C3' G B 6 OK OK 1431 1452 1434 1435 1467 C3' G B 7 OK OK 1465 1486 1468 1469 1501 C3' C B 8 OK OK 1499 1517 1502 1503 1532 C3' U B 9 OK OK 1530 1548 1533 1534 1562 C3' U B 10 OK OK 1560 1578 1563 1564 1592 C3' G B 11 OK OK 1590 1611 1593 1594 1626 C3' C B 12 OK OK 1624 1642 1627 1628 1657 C3' U B 13 OK OK 1655 1673 1658 1659 1687 C3' G B 14 OK OK 1685 1706 1688 1689 1721 C3' A B 15 OK OK 1719 1739 1722 1723 1754 C3' A B 16 OK OK 1752 1772 1755 1756 1787 C3' G B 17 OK OK 1785 1806 1788 1789 1821 C3' U B 18 OK OK 1819 1837 1822 1823 1851 C3' G B 19 OK OK 1849 1870 1852 1853 1885 C3' C B 20 OK OK 1883 1901 1886 1887 1916 C3' A B 21 OK OK 1914 1934 1917 1918 1949 C3' C B 22 OK OK 1947 1965 1950 1951 1980 C3' A B 23 OK OK 1978 1998 1981 1982 2013 C3' C B 24 OK OK 2011 2029 2014 2015 2044 C3' G B 25 OK OK 2042 2063 2045 2046 2078 C3' G B 26 OK OK 2076 2097 2079 2080 2112 C3' C B 27 OK OK 2110 2128 2113 2114 2143 C3' A B 28 OK OK 2141 2161 2144 2145 2176 C3' A B 29 OK OK 2174 2194 2177 2178 2209 C3' G B 30 OK OK 2207 2228 2210 2211 2243 C3' A B 31 OK OK 2241 2261 2244 2245 2276 C3' G B 32 OK OK 2274 2295 2277 2278 2310 C3' G B 33 OK OK 2308 2329 2311 2312 2344 C3' C B 34 OK OK 2342 2360 2345 2346 2375 C3' G B 35 OK OK 2373 2394 2376 2377 2409 C3' A B 36 OK OK 2407 2427 2410 2411 2442 C3' C B 37 OK OK 2440 2458 2443 2444 2473 C3' C B 38 OK OK 2471 2489 2474 2475 2504 C3' C B 39 OK OK 2502 2520 2505 2506 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- 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' U A 4 OK OK 108 123 105 107 136 C4' C A 5 OK OK 138 153 135 137 167 C4' G A 6 OK OK 169 187 166 168 201 C4' G A 7 OK OK 203 221 200 202 235 C4' C A 8 OK OK 237 252 234 236 266 C4' U A 9 OK OK 268 283 265 267 296 C4' U A 10 OK OK 298 313 295 297 326 C4' G A 11 OK OK 328 346 325 327 360 C4' C A 12 OK OK 362 377 359 361 391 C4' U A 13 OK OK 393 408 390 392 421 C4' G A 14 OK OK 423 441 420 422 455 C4' A A 15 OK OK 457 474 454 456 488 C4' A A 16 OK OK 490 507 487 489 521 C4' G A 17 OK OK 523 541 520 522 555 C4' U A 18 OK OK 557 572 554 556 585 C4' G A 19 OK OK 587 605 584 586 619 C4' C A 20 OK OK 621 636 618 620 650 C4' A A 21 OK OK 652 669 649 651 683 C4' C A 22 OK OK 685 700 682 684 714 C4' A A 23 OK OK 716 733 713 715 747 C4' C A 24 OK OK 749 764 746 748 778 C4' G A 25 OK OK 780 798 777 779 812 C4' G A 26 OK OK 814 832 811 813 846 C4' C A 27 OK OK 848 863 845 847 877 C4' A A 28 OK OK 879 896 876 878 910 C4' A A 29 OK OK 912 929 909 911 943 C4' G A 30 OK OK 945 963 942 944 977 C4' A A 31 OK OK 979 996 976 978 1010 C4' G A 32 OK OK 1012 1030 1009 1011 1044 C4' G A 33 OK OK 1046 1064 1043 1045 1078 C4' C A 34 OK OK 1080 1095 1077 1079 1109 C4' G A 35 OK OK 1111 1129 1108 1110 1143 C4' A A 36 OK OK 1145 1162 1142 1144 1176 C4' C A 37 OK OK 1178 1193 1175 1177 1207 C4' C A 38 OK OK 1209 1224 1206 1208 1238 C4' C A 39 OK OK 1240 1255 1237 1239 1267 C4' G B 1 OK OK 1269 1287 1266 1268 1302 C4' G B 2 OK OK 1304 1322 1301 1303 1336 C4' G B 3 OK OK 1338 1356 1335 1337 1370 C4' U B 4 OK OK 1372 1387 1369 1371 1400 C4' C B 5 OK OK 1402 1417 1399 1401 1431 C4' G B 6 OK OK 1433 1451 1430 1432 1465 C4' G B 7 OK OK 1467 1485 1464 1466 1499 C4' C B 8 OK OK 1501 1516 1498 1500 1530 C4' U B 9 OK OK 1532 1547 1529 1531 1560 C4' U B 10 OK OK 1562 1577 1559 1561 1590 C4' G B 11 OK OK 1592 1610 1589 1591 1624 C4' C B 12 OK OK 1626 1641 1623 1625 1655 C4' U B 13 OK OK 1657 1672 1654 1656 1685 C4' G B 14 OK OK 1687 1705 1684 1686 1719 C4' A B 15 OK OK 1721 1738 1718 1720 1752 C4' A B 16 OK OK 1754 1771 1751 1753 1785 C4' G B 17 OK OK 1787 1805 1784 1786 1819 C4' U B 18 OK OK 1821 1836 1818 1820 1849 C4' G B 19 OK OK 1851 1869 1848 1850 1883 C4' C B 20 OK OK 1885 1900 1882 1884 1914 C4' A B 21 OK OK 1916 1933 1913 1915 1947 C4' C B 22 OK OK 1949 1964 1946 1948 1978 C4' A B 23 OK OK 1980 1997 1977 1979 2011 C4' C B 24 OK OK 2013 2028 2010 2012 2042 C4' G B 25 OK OK 2044 2062 2041 2043 2076 C4' G B 26 OK OK 2078 2096 2075 2077 2110 C4' C B 27 OK OK 2112 2127 2109 2111 2141 C4' A B 28 OK OK 2143 2160 2140 2142 2174 C4' A B 29 OK OK 2176 2193 2173 2175 2207 C4' G B 30 OK OK 2209 2227 2206 2208 2241 C4' A B 31 OK OK 2243 2260 2240 2242 2274 C4' G B 32 OK OK 2276 2294 2273 2275 2308 C4' G B 33 OK OK 2310 2328 2307 2309 2342 C4' C B 34 OK OK 2344 2359 2341 2343 2373 C4' G B 35 OK OK 2375 2393 2372 2374 2407 C4' A B 36 OK OK 2409 2426 2406 2408 2440 C4' C B 37 OK OK 2442 2457 2439 2441 2471 C4' C B 38 OK OK 2473 2488 2470 2472 2502 C4' C B 39 OK OK 2504 2519 2501 2503 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- 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' U A 4 OK OK 104 121 122 106 135 C5' C A 5 OK OK 134 151 152 136 166 C5' G A 6 OK OK 165 185 186 167 200 C5' G A 7 OK OK 199 219 220 201 234 C5' C A 8 OK OK 233 250 251 235 265 C5' U A 9 OK OK 264 281 282 266 295 C5' U A 10 OK OK 294 311 312 296 325 C5' G A 11 OK OK 324 344 345 326 359 C5' C A 12 OK OK 358 375 376 360 390 C5' U A 13 OK OK 389 406 407 391 420 C5' G A 14 OK OK 419 439 440 421 454 C5' A A 15 OK OK 453 472 473 455 487 C5' A A 16 OK OK 486 505 506 488 520 C5' G A 17 OK OK 519 539 540 521 554 C5' U A 18 OK OK 553 570 571 555 584 C5' G A 19 OK OK 583 603 604 585 618 C5' C A 20 OK OK 617 634 635 619 649 C5' A A 21 OK OK 648 667 668 650 682 C5' C A 22 OK OK 681 698 699 683 713 C5' A A 23 OK OK 712 731 732 714 746 C5' C A 24 OK OK 745 762 763 747 777 C5' G A 25 OK OK 776 796 797 778 811 C5' G A 26 OK OK 810 830 831 812 845 C5' C A 27 OK OK 844 861 862 846 876 C5' A A 28 OK OK 875 894 895 877 909 C5' A A 29 OK OK 908 927 928 910 942 C5' G A 30 OK OK 941 961 962 943 976 C5' A A 31 OK OK 975 994 995 977 1009 C5' G A 32 OK OK 1008 1028 1029 1010 1043 C5' G A 33 OK OK 1042 1062 1063 1044 1077 C5' C A 34 OK OK 1076 1093 1094 1078 1108 C5' G A 35 OK OK 1107 1127 1128 1109 1142 C5' A A 36 OK OK 1141 1160 1161 1143 1175 C5' C A 37 OK OK 1174 1191 1192 1176 1206 C5' C A 38 OK OK 1205 1222 1223 1207 1237 C5' C A 39 OK OK 1236 1253 1254 1238 1266 C5' G B 1 OK OK 1265 1285 1286 1267 1301 C5' G B 2 OK OK 1300 1320 1321 1302 1335 C5' G B 3 OK OK 1334 1354 1355 1336 1369 C5' U B 4 OK OK 1368 1385 1386 1370 1399 C5' C B 5 OK OK 1398 1415 1416 1400 1430 C5' G B 6 OK OK 1429 1449 1450 1431 1464 C5' G B 7 OK OK 1463 1483 1484 1465 1498 C5' C B 8 OK OK 1497 1514 1515 1499 1529 C5' U B 9 OK OK 1528 1545 1546 1530 1559 C5' U B 10 OK OK 1558 1575 1576 1560 1589 C5' G B 11 OK OK 1588 1608 1609 1590 1623 C5' C B 12 OK OK 1622 1639 1640 1624 1654 C5' U B 13 OK OK 1653 1670 1671 1655 1684 C5' G B 14 OK OK 1683 1703 1704 1685 1718 C5' A B 15 OK OK 1717 1736 1737 1719 1751 C5' A B 16 OK OK 1750 1769 1770 1752 1784 C5' G B 17 OK OK 1783 1803 1804 1785 1818 C5' U B 18 OK OK 1817 1834 1835 1819 1848 C5' G B 19 OK OK 1847 1867 1868 1849 1882 C5' C B 20 OK OK 1881 1898 1899 1883 1913 C5' A B 21 OK OK 1912 1931 1932 1914 1946 C5' C B 22 OK OK 1945 1962 1963 1947 1977 C5' A B 23 OK OK 1976 1995 1996 1978 2010 C5' C B 24 OK OK 2009 2026 2027 2011 2041 C5' G B 25 OK OK 2040 2060 2061 2042 2075 C5' G B 26 OK OK 2074 2094 2095 2076 2109 C5' C B 27 OK OK 2108 2125 2126 2110 2140 C5' A B 28 OK OK 2139 2158 2159 2141 2173 C5' A B 29 OK OK 2172 2191 2192 2174 2206 C5' G B 30 OK OK 2205 2225 2226 2207 2240 C5' A B 31 OK OK 2239 2258 2259 2241 2273 C5' G B 32 OK OK 2272 2292 2293 2274 2307 C5' G B 33 OK OK 2306 2326 2327 2308 2341 C5' C B 34 OK OK 2340 2357 2358 2342 2372 C5' G B 35 OK OK 2371 2391 2392 2373 2406 C5' A B 36 OK OK 2405 2424 2425 2407 2439 C5' C B 37 OK OK 2438 2455 2456 2440 2470 C5' C B 38 OK OK 2469 2486 2487 2471 2501 C5' C B 39 OK OK 2500 2517 2518 2502 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- 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 U A 4 distorted distorted 75 102 103 104 131 P C A 5 distorted distorted 109 132 133 134 162 P G A 6 distorted distorted 139 163 164 165 196 P G A 7 distorted distorted 170 197 198 199 230 P C A 8 distorted distorted 204 231 232 233 261 P U A 9 distorted distorted 238 262 263 264 291 P U A 10 distorted distorted 269 292 293 294 321 P G A 11 distorted distorted 299 322 323 324 355 P C A 12 distorted distorted 329 356 357 358 386 P U A 13 distorted distorted 363 387 388 389 416 P G A 14 distorted distorted 394 417 418 419 450 P A A 15 distorted distorted 424 451 452 453 483 P A A 16 distorted distorted 458 484 485 486 516 P G A 17 distorted distorted 491 517 518 519 550 P U A 18 distorted distorted 524 551 552 553 580 P G A 19 distorted distorted 558 581 582 583 614 P C A 20 distorted distorted 588 615 616 617 645 P A A 21 distorted distorted 622 646 647 648 678 P C A 22 distorted distorted 653 679 680 681 709 P A A 23 distorted distorted 686 710 711 712 742 P C A 24 distorted distorted 717 743 744 745 773 P G A 25 distorted distorted 750 774 775 776 807 P G A 26 distorted distorted 781 808 809 810 841 P C A 27 distorted distorted 815 842 843 844 872 P A A 28 distorted distorted 849 873 874 875 905 P A A 29 distorted distorted 880 906 907 908 938 P G A 30 distorted distorted 913 939 940 941 972 P A A 31 distorted distorted 946 973 974 975 1005 P G A 32 distorted distorted 980 1006 1007 1008 1039 P G A 33 distorted distorted 1013 1040 1041 1042 1073 P C A 34 distorted distorted 1047 1074 1075 1076 1104 P G A 35 distorted distorted 1081 1105 1106 1107 1138 P A A 36 distorted distorted 1112 1139 1140 1141 1171 P C A 37 distorted distorted 1146 1172 1173 1174 1202 P C A 38 distorted distorted 1179 1203 1204 1205 1233 P C A 39 distorted distorted 1210 1234 1235 1236 1297 P G B 2 distorted distorted 1270 1298 1299 1300 1331 P G B 3 distorted distorted 1305 1332 1333 1334 1365 P U B 4 distorted distorted 1339 1366 1367 1368 1395 P C B 5 distorted distorted 1373 1396 1397 1398 1426 P G B 6 distorted distorted 1403 1427 1428 1429 1460 P G B 7 distorted distorted 1434 1461 1462 1463 1494 P C B 8 distorted distorted 1468 1495 1496 1497 1525 P U B 9 distorted distorted 1502 1526 1527 1528 1555 P U B 10 distorted distorted 1533 1556 1557 1558 1585 P G B 11 distorted distorted 1563 1586 1587 1588 1619 P C B 12 distorted distorted 1593 1620 1621 1622 1650 P U B 13 distorted distorted 1627 1651 1652 1653 1680 P G B 14 distorted distorted 1658 1681 1682 1683 1714 P A B 15 distorted distorted 1688 1715 1716 1717 1747 P A B 16 distorted distorted 1722 1748 1749 1750 1780 P G B 17 distorted distorted 1755 1781 1782 1783 1814 P U B 18 distorted distorted 1788 1815 1816 1817 1844 P G B 19 distorted distorted 1822 1845 1846 1847 1878 P C B 20 distorted distorted 1852 1879 1880 1881 1909 P A B 21 distorted distorted 1886 1910 1911 1912 1942 P C B 22 distorted distorted 1917 1943 1944 1945 1973 P A B 23 distorted distorted 1950 1974 1975 1976 2006 P C B 24 distorted distorted 1981 2007 2008 2009 2037 P G B 25 distorted distorted 2014 2038 2039 2040 2071 P G B 26 distorted distorted 2045 2072 2073 2074 2105 P C B 27 distorted distorted 2079 2106 2107 2108 2136 P A B 28 distorted distorted 2113 2137 2138 2139 2169 P A B 29 distorted distorted 2144 2170 2171 2172 2202 P G B 30 distorted distorted 2177 2203 2204 2205 2236 P A B 31 distorted distorted 2210 2237 2238 2239 2269 P G B 32 distorted distorted 2244 2270 2271 2272 2303 P G B 33 distorted distorted 2277 2304 2305 2306 2337 P C B 34 distorted distorted 2311 2338 2339 2340 2368 P G B 35 distorted distorted 2345 2369 2370 2371 2402 P A B 36 distorted distorted 2376 2403 2404 2405 2435 P C B 37 distorted distorted 2410 2436 2437 2438 2466 P C B 38 distorted distorted 2443 2467 2468 2469 2497 P C B 39 distorted distorted 2474 2498 2499 2500 ---------------------------------------------------------------------------------