ID code: '3SLM' 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' --------------------------------------------------------------------------------- 21 C1' GTP A 22 beta 16 22 19 44 C1' G A 23 beta 39 45 42 67 C1' C A 24 beta 62 68 65 87 C1' C A 25 beta 82 88 85 107 C1' U A 26 beta 102 108 105 127 C1' U A 27 beta 122 128 125 147 C1' A A 28 beta 142 148 145 169 C1' U A 29 beta 164 170 167 189 C1' A A 30 beta 184 190 187 211 C1' C A 31 beta 206 212 209 231 C1' A A 32 beta 226 232 229 253 C1' G A 33 beta 248 254 251 276 C1' G A 34 beta 271 277 274 299 C1' G A 35 beta 294 300 297 322 C1' U A 36 beta 317 323 320 342 C1' A A 37 beta 337 343 340 364 C1' G A 38 beta 359 365 362 387 C1' C A 39 beta 382 388 385 407 C1' A A 40 beta 402 408 405 429 C1' U A 41 beta 424 430 427 449 C1' A A 42 beta 444 450 447 471 C1' A A 43 beta 466 472 469 493 C1' U A 44 beta 488 494 491 513 C1' G A 45 beta 508 514 511 536 C1' G A 46 beta 531 537 534 559 C1' G A 47 beta 554 560 557 582 C1' C A 48 beta 577 583 580 602 C1' U A 49 beta 597 603 600 622 C1' A A 50 beta 617 623 620 644 C1' C A 51 beta 639 645 642 664 C1' U A 52 beta 659 665 662 684 C1' G A 53 beta 679 685 682 707 C1' A A 54 beta 702 708 705 729 C1' C A 55 beta 724 730 727 749 C1' C A 56 beta 744 750 747 769 C1' C A 57 beta 764 770 767 789 C1' C A 58 beta 784 790 787 809 C1' G A 59 beta 804 810 807 832 C1' C A 60 beta 827 833 830 852 C1' C A 61 beta 847 853 850 872 C1' U A 62 beta 867 873 870 892 C1' U A 63 beta 887 893 890 912 C1' C A 64 beta 907 913 910 932 C1' A A 65 beta 927 933 930 954 C1' A A 66 beta 949 955 952 976 C1' A A 67 beta 971 977 974 998 C1' C A 68 beta 993 999 996 1018 C1' C A 69 beta 1013 1019 1016 1038 C1' U A 70 beta 1033 1039 1036 1058 C1' A A 71 beta 1053 1059 1056 1080 C1' U A 72 beta 1075 1081 1078 1100 C1' U A 73 beta 1095 1101 1098 1120 C1' U A 74 beta 1115 1121 1118 1140 C1' G A 75 beta 1135 1141 1138 1163 C1' G A 76 beta 1158 1164 1161 1186 C1' A A 77 beta 1181 1187 1184 1208 C1' G A 78 beta 1203 1209 1206 1231 C1' A A 79 beta 1226 1232 1229 1253 C1' C A 80 beta 1248 1254 1251 1273 C1' U A 81 beta 1268 1274 1271 1293 C1' A A 82 beta 1288 1294 1291 1315 C1' U A 83 beta 1310 1316 1313 1335 C1' A A 84 beta 1330 1336 1333 1357 C1' A A 85 beta 1352 1358 1355 1379 C1' G A 86 beta 1374 1380 1377 1402 C1' G A 87 beta 1397 1403 1400 1425 C1' U A 88 beta 1420 1426 1423 1448 C1' CCC A 89 beta 1443 1449 1446 1474 C1' GTP B 22 beta 1469 1475 1472 1497 C1' G B 23 beta 1492 1498 1495 1520 C1' C B 24 beta 1515 1521 1518 1540 C1' C B 25 beta 1535 1541 1538 1560 C1' U B 26 beta 1555 1561 1558 1580 C1' U B 27 beta 1575 1581 1578 1600 C1' A B 28 beta 1595 1601 1598 1622 C1' U B 29 beta 1617 1623 1620 1642 C1' A B 30 beta 1637 1643 1640 1664 C1' C B 31 beta 1659 1665 1662 1684 C1' A B 32 beta 1679 1685 1682 1706 C1' G B 33 beta 1701 1707 1704 1729 C1' G B 34 beta 1724 1730 1727 1752 C1' G B 35 beta 1747 1753 1750 1775 C1' U B 36 beta 1770 1776 1773 1795 C1' A B 37 beta 1790 1796 1793 1817 C1' G B 38 beta 1812 1818 1815 1840 C1' C B 39 beta 1835 1841 1838 1860 C1' A B 40 beta 1855 1861 1858 1882 C1' U B 41 beta 1877 1883 1880 1902 C1' A B 42 beta 1897 1903 1900 1924 C1' A B 43 beta 1919 1925 1922 1946 C1' U B 44 beta 1941 1947 1944 1966 C1' G B 45 beta 1961 1967 1964 1989 C1' G B 46 beta 1984 1990 1987 2012 C1' G B 47 beta 2007 2013 2010 2035 C1' C B 48 beta 2030 2036 2033 2055 C1' U B 49 beta 2050 2056 2053 2075 C1' A B 50 beta 2070 2076 2073 2097 C1' C B 51 beta 2092 2098 2095 2117 C1' U B 52 beta 2112 2118 2115 2137 C1' G B 53 beta 2132 2138 2135 2160 C1' A B 54 beta 2155 2161 2158 2182 C1' C B 55 beta 2177 2183 2180 2202 C1' C B 56 beta 2197 2203 2200 2222 C1' C B 57 beta 2217 2223 2220 2242 C1' C B 58 beta 2237 2243 2240 2262 C1' G B 59 beta 2257 2263 2260 2285 C1' C B 60 beta 2280 2286 2283 2305 C1' C B 61 beta 2300 2306 2303 2325 C1' U B 62 beta 2320 2326 2323 2345 C1' U B 63 beta 2340 2346 2343 2365 C1' C B 64 beta 2360 2366 2363 2385 C1' A B 65 beta 2380 2386 2383 2407 C1' A B 66 beta 2402 2408 2405 2429 C1' A B 67 beta 2424 2430 2427 2451 C1' C B 68 beta 2446 2452 2449 2471 C1' C B 69 beta 2466 2472 2469 2491 C1' U B 70 beta 2486 2492 2489 2511 C1' A B 71 beta 2506 2512 2509 2533 C1' U B 72 beta 2528 2534 2531 2553 C1' U B 73 beta 2548 2554 2551 2573 C1' U B 74 beta 2568 2574 2571 2593 C1' G B 75 beta 2588 2594 2591 2616 C1' G B 76 beta 2611 2617 2614 2639 C1' A B 77 beta 2634 2640 2637 2661 C1' G B 78 beta 2656 2662 2659 2684 C1' A B 79 beta 2679 2685 2682 2706 C1' C B 80 beta 2701 2707 2704 2726 C1' U B 81 beta 2721 2727 2724 2746 C1' A B 82 beta 2741 2747 2744 2768 C1' U B 83 beta 2763 2769 2766 2788 C1' A B 84 beta 2783 2789 2786 2810 C1' A B 85 beta 2805 2811 2808 2832 C1' G B 86 beta 2827 2833 2830 2855 C1' G B 87 beta 2850 2856 2853 2878 C1' U B 88 beta 2873 2879 2876 2901 C1' CCC B 89 beta 2896 2902 2899 2922 C1' DGP A 120 beta 2918 2923 2921 2976 C1' DGP B 120 beta 2972 2977 2975 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2' H2'1 H2'2 H2' O2' --------------------------------------------------------------------------------------------------------------------- 19 C2' GTP A 22 OK 21 17 20 42 C2' G A 23 OK 44 40 43 65 C2' C A 24 OK 67 63 66 85 C2' C A 25 OK 87 83 86 105 C2' U A 26 OK 107 103 106 125 C2' U A 27 OK 127 123 126 145 C2' A A 28 OK 147 143 146 167 C2' U A 29 OK 169 165 168 187 C2' A A 30 OK 189 185 188 209 C2' C A 31 OK 211 207 210 229 C2' A A 32 OK 231 227 230 251 C2' G A 33 OK 253 249 252 274 C2' G A 34 OK 276 272 275 297 C2' G A 35 OK 299 295 298 320 C2' U A 36 OK 322 318 321 340 C2' A A 37 OK 342 338 341 362 C2' G A 38 OK 364 360 363 385 C2' C A 39 OK 387 383 386 405 C2' A A 40 OK 407 403 406 427 C2' U A 41 OK 429 425 428 447 C2' A A 42 OK 449 445 448 469 C2' A A 43 OK 471 467 470 491 C2' U A 44 OK 493 489 492 511 C2' G A 45 OK 513 509 512 534 C2' G A 46 OK 536 532 535 557 C2' G A 47 OK 559 555 558 580 C2' C A 48 OK 582 578 581 600 C2' U A 49 OK 602 598 601 620 C2' A A 50 OK 622 618 621 642 C2' C A 51 OK 644 640 643 662 C2' U A 52 OK 664 660 663 682 C2' G A 53 OK 684 680 683 705 C2' A A 54 OK 707 703 706 727 C2' C A 55 OK 729 725 728 747 C2' C A 56 OK 749 745 748 767 C2' C A 57 OK 769 765 768 787 C2' C A 58 OK 789 785 788 807 C2' G A 59 OK 809 805 808 830 C2' C A 60 OK 832 828 831 850 C2' C A 61 OK 852 848 851 870 C2' U A 62 OK 872 868 871 890 C2' U A 63 OK 892 888 891 910 C2' C A 64 OK 912 908 911 930 C2' A A 65 OK 932 928 931 952 C2' A A 66 OK 954 950 953 974 C2' A A 67 OK 976 972 975 996 C2' C A 68 OK 998 994 997 1016 C2' C A 69 OK 1018 1014 1017 1036 C2' U A 70 OK 1038 1034 1037 1056 C2' A A 71 OK 1058 1054 1057 1078 C2' U A 72 OK 1080 1076 1079 1098 C2' U A 73 OK 1100 1096 1099 1118 C2' U A 74 OK 1120 1116 1119 1138 C2' G A 75 OK 1140 1136 1139 1161 C2' G A 76 OK 1163 1159 1162 1184 C2' A A 77 OK 1186 1182 1185 1206 C2' G A 78 OK 1208 1204 1207 1229 C2' A A 79 OK 1231 1227 1230 1251 C2' C A 80 OK 1253 1249 1252 1271 C2' U A 81 OK 1273 1269 1272 1291 C2' A A 82 OK 1293 1289 1292 1313 C2' U A 83 OK 1315 1311 1314 1333 C2' A A 84 OK 1335 1331 1334 1355 C2' A A 85 OK 1357 1353 1356 1377 C2' G A 86 OK 1379 1375 1378 1400 C2' G A 87 OK 1402 1398 1401 1423 C2' U A 88 OK 1425 1421 1424 1446 C2' CCC A 89 OK 1448 1444 1447 1472 C2' GTP B 22 OK 1474 1470 1473 1495 C2' G B 23 OK 1497 1493 1496 1518 C2' C B 24 OK 1520 1516 1519 1538 C2' C B 25 OK 1540 1536 1539 1558 C2' U B 26 OK 1560 1556 1559 1578 C2' U B 27 OK 1580 1576 1579 1598 C2' A B 28 OK 1600 1596 1599 1620 C2' U B 29 OK 1622 1618 1621 1640 C2' A B 30 OK 1642 1638 1641 1662 C2' C B 31 OK 1664 1660 1663 1682 C2' A B 32 OK 1684 1680 1683 1704 C2' G B 33 OK 1706 1702 1705 1727 C2' G B 34 OK 1729 1725 1728 1750 C2' G B 35 OK 1752 1748 1751 1773 C2' U B 36 OK 1775 1771 1774 1793 C2' A B 37 OK 1795 1791 1794 1815 C2' G B 38 OK 1817 1813 1816 1838 C2' C B 39 OK 1840 1836 1839 1858 C2' A B 40 OK 1860 1856 1859 1880 C2' U B 41 OK 1882 1878 1881 1900 C2' A B 42 OK 1902 1898 1901 1922 C2' A B 43 OK 1924 1920 1923 1944 C2' U B 44 OK 1946 1942 1945 1964 C2' G B 45 OK 1966 1962 1965 1987 C2' G B 46 OK 1989 1985 1988 2010 C2' G B 47 OK 2012 2008 2011 2033 C2' C B 48 OK 2035 2031 2034 2053 C2' U B 49 OK 2055 2051 2054 2073 C2' A B 50 OK 2075 2071 2074 2095 C2' C B 51 OK 2097 2093 2096 2115 C2' U B 52 OK 2117 2113 2116 2135 C2' G B 53 OK 2137 2133 2136 2158 C2' A B 54 OK 2160 2156 2159 2180 C2' C B 55 OK 2182 2178 2181 2200 C2' C B 56 OK 2202 2198 2201 2220 C2' C B 57 OK 2222 2218 2221 2240 C2' C B 58 OK 2242 2238 2241 2260 C2' G B 59 OK 2262 2258 2261 2283 C2' C B 60 OK 2285 2281 2284 2303 C2' C B 61 OK 2305 2301 2304 2323 C2' U B 62 OK 2325 2321 2324 2343 C2' U B 63 OK 2345 2341 2344 2363 C2' C B 64 OK 2365 2361 2364 2383 C2' A B 65 OK 2385 2381 2384 2405 C2' A B 66 OK 2407 2403 2406 2427 C2' A B 67 OK 2429 2425 2428 2449 C2' C B 68 OK 2451 2447 2450 2469 C2' C B 69 OK 2471 2467 2470 2489 C2' U B 70 OK 2491 2487 2490 2509 C2' A B 71 OK 2511 2507 2510 2531 C2' U B 72 OK 2533 2529 2532 2551 C2' U B 73 OK 2553 2549 2552 2571 C2' U B 74 OK 2573 2569 2572 2591 C2' G B 75 OK 2593 2589 2592 2614 C2' G B 76 OK 2616 2612 2615 2637 C2' A B 77 OK 2639 2635 2638 2659 C2' G B 78 OK 2661 2657 2660 2682 C2' A B 79 OK 2684 2680 2683 2704 C2' C B 80 OK 2706 2702 2705 2724 C2' U B 81 OK 2726 2722 2725 2744 C2' A B 82 OK 2746 2742 2745 2766 C2' U B 83 OK 2768 2764 2767 2786 C2' A B 84 OK 2788 2784 2787 2808 C2' A B 85 OK 2810 2806 2809 2830 C2' G B 86 OK 2832 2828 2831 2853 C2' G B 87 OK 2855 2851 2854 2876 C2' U B 88 OK 2878 2874 2877 2899 C2' CCC B 89 OK 2901 2897 2900 2921 C2' DGP A 120 2922 2919 2975 C2' DGP B 120 2976 2973 --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H3' O3' C4' H3' O3' C2' --------------------------------------------------------------------------------- 17 C3' GTP A 22 OK 15 18 19 40 C3' G A 23 OK 38 41 42 63 C3' C A 24 OK 61 64 65 83 C3' C A 25 OK 81 84 85 103 C3' U A 26 OK 101 104 105 123 C3' U A 27 OK 121 124 125 143 C3' A A 28 OK 141 144 145 165 C3' U A 29 OK 163 166 167 185 C3' A A 30 OK 183 186 187 207 C3' C A 31 OK 205 208 209 227 C3' A A 32 OK 225 228 229 249 C3' G A 33 OK 247 250 251 272 C3' G A 34 OK 270 273 274 295 C3' G A 35 OK 293 296 297 318 C3' U A 36 OK 316 319 320 338 C3' A A 37 OK 336 339 340 360 C3' G A 38 OK 358 361 362 383 C3' C A 39 OK 381 384 385 403 C3' A A 40 OK 401 404 405 425 C3' U A 41 OK 423 426 427 445 C3' A A 42 OK 443 446 447 467 C3' A A 43 OK 465 468 469 489 C3' U A 44 OK 487 490 491 509 C3' G A 45 OK 507 510 511 532 C3' G A 46 OK 530 533 534 555 C3' G A 47 OK 553 556 557 578 C3' C A 48 OK 576 579 580 598 C3' U A 49 OK 596 599 600 618 C3' A A 50 OK 616 619 620 640 C3' C A 51 OK 638 641 642 660 C3' U A 52 OK 658 661 662 680 C3' G A 53 OK 678 681 682 703 C3' A A 54 OK 701 704 705 725 C3' C A 55 OK 723 726 727 745 C3' C A 56 OK 743 746 747 765 C3' C A 57 OK 763 766 767 785 C3' C A 58 OK 783 786 787 805 C3' G A 59 OK 803 806 807 828 C3' C A 60 OK 826 829 830 848 C3' C A 61 OK 846 849 850 868 C3' U A 62 OK 866 869 870 888 C3' U A 63 OK 886 889 890 908 C3' C A 64 OK 906 909 910 928 C3' A A 65 OK 926 929 930 950 C3' A A 66 OK 948 951 952 972 C3' A A 67 OK 970 973 974 994 C3' C A 68 OK 992 995 996 1014 C3' C A 69 OK 1012 1015 1016 1034 C3' U A 70 OK 1032 1035 1036 1054 C3' A A 71 OK 1052 1055 1056 1076 C3' U A 72 OK 1074 1077 1078 1096 C3' U A 73 OK 1094 1097 1098 1116 C3' U A 74 OK 1114 1117 1118 1136 C3' G A 75 OK 1134 1137 1138 1159 C3' G A 76 OK 1157 1160 1161 1182 C3' A A 77 OK 1180 1183 1184 1204 C3' G A 78 OK 1202 1205 1206 1227 C3' A A 79 OK 1225 1228 1229 1249 C3' C A 80 OK 1247 1250 1251 1269 C3' U A 81 OK 1267 1270 1271 1289 C3' A A 82 OK 1287 1290 1291 1311 C3' U A 83 OK 1309 1312 1313 1331 C3' A A 84 OK 1329 1332 1333 1353 C3' A A 85 OK 1351 1354 1355 1375 C3' G A 86 OK 1373 1376 1377 1398 C3' G A 87 OK 1396 1399 1400 1421 C3' U A 88 OK 1419 1422 1423 1444 C3' CCC A 89 OK 1442 1445 1446 1470 C3' GTP B 22 OK 1468 1471 1472 1493 C3' G B 23 OK 1491 1494 1495 1516 C3' C B 24 OK 1514 1517 1518 1536 C3' C B 25 OK 1534 1537 1538 1556 C3' U B 26 OK 1554 1557 1558 1576 C3' U B 27 OK 1574 1577 1578 1596 C3' A B 28 OK 1594 1597 1598 1618 C3' U B 29 OK 1616 1619 1620 1638 C3' A B 30 OK 1636 1639 1640 1660 C3' C B 31 OK 1658 1661 1662 1680 C3' A B 32 OK 1678 1681 1682 1702 C3' G B 33 OK 1700 1703 1704 1725 C3' G B 34 OK 1723 1726 1727 1748 C3' G B 35 OK 1746 1749 1750 1771 C3' U B 36 OK 1769 1772 1773 1791 C3' A B 37 OK 1789 1792 1793 1813 C3' G B 38 OK 1811 1814 1815 1836 C3' C B 39 OK 1834 1837 1838 1856 C3' A B 40 OK 1854 1857 1858 1878 C3' U B 41 OK 1876 1879 1880 1898 C3' A B 42 OK 1896 1899 1900 1920 C3' A B 43 OK 1918 1921 1922 1942 C3' U B 44 OK 1940 1943 1944 1962 C3' G B 45 OK 1960 1963 1964 1985 C3' G B 46 OK 1983 1986 1987 2008 C3' G B 47 OK 2006 2009 2010 2031 C3' C B 48 OK 2029 2032 2033 2051 C3' U B 49 OK 2049 2052 2053 2071 C3' A B 50 OK 2069 2072 2073 2093 C3' C B 51 OK 2091 2094 2095 2113 C3' U B 52 OK 2111 2114 2115 2133 C3' G B 53 OK 2131 2134 2135 2156 C3' A B 54 OK 2154 2157 2158 2178 C3' C B 55 OK 2176 2179 2180 2198 C3' C B 56 OK 2196 2199 2200 2218 C3' C B 57 OK 2216 2219 2220 2238 C3' C B 58 OK 2236 2239 2240 2258 C3' G B 59 OK 2256 2259 2260 2281 C3' C B 60 OK 2279 2282 2283 2301 C3' C B 61 OK 2299 2302 2303 2321 C3' U B 62 OK 2319 2322 2323 2341 C3' U B 63 OK 2339 2342 2343 2361 C3' C B 64 OK 2359 2362 2363 2381 C3' A B 65 OK 2379 2382 2383 2403 C3' A B 66 OK 2401 2404 2405 2425 C3' A B 67 OK 2423 2426 2427 2447 C3' C B 68 OK 2445 2448 2449 2467 C3' C B 69 OK 2465 2468 2469 2487 C3' U B 70 OK 2485 2488 2489 2507 C3' A B 71 OK 2505 2508 2509 2529 C3' U B 72 OK 2527 2530 2531 2549 C3' U B 73 OK 2547 2550 2551 2569 C3' U B 74 OK 2567 2570 2571 2589 C3' G B 75 OK 2587 2590 2591 2612 C3' G B 76 OK 2610 2613 2614 2635 C3' A B 77 OK 2633 2636 2637 2657 C3' G B 78 OK 2655 2658 2659 2680 C3' A B 79 OK 2678 2681 2682 2702 C3' C B 80 OK 2700 2703 2704 2722 C3' U B 81 OK 2720 2723 2724 2742 C3' A B 82 OK 2740 2743 2744 2764 C3' U B 83 OK 2762 2765 2766 2784 C3' A B 84 OK 2782 2785 2786 2806 C3' A B 85 OK 2804 2807 2808 2828 C3' G B 86 OK 2826 2829 2830 2851 C3' G B 87 OK 2849 2852 2853 2874 C3' U B 88 OK 2872 2875 2876 2897 C3' CCC B 89 OK 2895 2898 2899 2919 C3' DGP A 120 OK 2917 2920 2921 2973 C3' DGP B 120 OK 2971 2974 2975 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H4' C5' C3' H4' C5' O4' --------------------------------------------------------------------------------- 15 C4' GTP A 22 OK 17 14 16 38 C4' G A 23 OK 40 37 39 61 C4' C A 24 OK 63 60 62 81 C4' C A 25 OK 83 80 82 101 C4' U A 26 OK 103 100 102 121 C4' U A 27 OK 123 120 122 141 C4' A A 28 OK 143 140 142 163 C4' U A 29 OK 165 162 164 183 C4' A A 30 OK 185 182 184 205 C4' C A 31 OK 207 204 206 225 C4' A A 32 OK 227 224 226 247 C4' G A 33 OK 249 246 248 270 C4' G A 34 OK 272 269 271 293 C4' G A 35 OK 295 292 294 316 C4' U A 36 OK 318 315 317 336 C4' A A 37 OK 338 335 337 358 C4' G A 38 OK 360 357 359 381 C4' C A 39 OK 383 380 382 401 C4' A A 40 OK 403 400 402 423 C4' U A 41 OK 425 422 424 443 C4' A A 42 OK 445 442 444 465 C4' A A 43 OK 467 464 466 487 C4' U A 44 OK 489 486 488 507 C4' G A 45 OK 509 506 508 530 C4' G A 46 OK 532 529 531 553 C4' G A 47 OK 555 552 554 576 C4' C A 48 OK 578 575 577 596 C4' U A 49 OK 598 595 597 616 C4' A A 50 OK 618 615 617 638 C4' C A 51 OK 640 637 639 658 C4' U A 52 OK 660 657 659 678 C4' G A 53 OK 680 677 679 701 C4' A A 54 OK 703 700 702 723 C4' C A 55 OK 725 722 724 743 C4' C A 56 OK 745 742 744 763 C4' C A 57 OK 765 762 764 783 C4' C A 58 OK 785 782 784 803 C4' G A 59 OK 805 802 804 826 C4' C A 60 OK 828 825 827 846 C4' C A 61 OK 848 845 847 866 C4' U A 62 OK 868 865 867 886 C4' U A 63 OK 888 885 887 906 C4' C A 64 OK 908 905 907 926 C4' A A 65 OK 928 925 927 948 C4' A A 66 OK 950 947 949 970 C4' A A 67 OK 972 969 971 992 C4' C A 68 OK 994 991 993 1012 C4' C A 69 OK 1014 1011 1013 1032 C4' U A 70 OK 1034 1031 1033 1052 C4' A A 71 OK 1054 1051 1053 1074 C4' U A 72 OK 1076 1073 1075 1094 C4' U A 73 OK 1096 1093 1095 1114 C4' U A 74 OK 1116 1113 1115 1134 C4' G A 75 OK 1136 1133 1135 1157 C4' G A 76 OK 1159 1156 1158 1180 C4' A A 77 OK 1182 1179 1181 1202 C4' G A 78 OK 1204 1201 1203 1225 C4' A A 79 OK 1227 1224 1226 1247 C4' C A 80 OK 1249 1246 1248 1267 C4' U A 81 OK 1269 1266 1268 1287 C4' A A 82 OK 1289 1286 1288 1309 C4' U A 83 OK 1311 1308 1310 1329 C4' A A 84 OK 1331 1328 1330 1351 C4' A A 85 OK 1353 1350 1352 1373 C4' G A 86 OK 1375 1372 1374 1396 C4' G A 87 OK 1398 1395 1397 1419 C4' U A 88 OK 1421 1418 1420 1442 C4' CCC A 89 OK 1444 1441 1443 1468 C4' GTP B 22 OK 1470 1467 1469 1491 C4' G B 23 OK 1493 1490 1492 1514 C4' C B 24 OK 1516 1513 1515 1534 C4' C B 25 OK 1536 1533 1535 1554 C4' U B 26 OK 1556 1553 1555 1574 C4' U B 27 OK 1576 1573 1575 1594 C4' A B 28 OK 1596 1593 1595 1616 C4' U B 29 OK 1618 1615 1617 1636 C4' A B 30 OK 1638 1635 1637 1658 C4' C B 31 OK 1660 1657 1659 1678 C4' A B 32 OK 1680 1677 1679 1700 C4' G B 33 OK 1702 1699 1701 1723 C4' G B 34 OK 1725 1722 1724 1746 C4' G B 35 OK 1748 1745 1747 1769 C4' U B 36 OK 1771 1768 1770 1789 C4' A B 37 OK 1791 1788 1790 1811 C4' G B 38 OK 1813 1810 1812 1834 C4' C B 39 OK 1836 1833 1835 1854 C4' A B 40 OK 1856 1853 1855 1876 C4' U B 41 OK 1878 1875 1877 1896 C4' A B 42 OK 1898 1895 1897 1918 C4' A B 43 OK 1920 1917 1919 1940 C4' U B 44 OK 1942 1939 1941 1960 C4' G B 45 OK 1962 1959 1961 1983 C4' G B 46 OK 1985 1982 1984 2006 C4' G B 47 OK 2008 2005 2007 2029 C4' C B 48 OK 2031 2028 2030 2049 C4' U B 49 OK 2051 2048 2050 2069 C4' A B 50 OK 2071 2068 2070 2091 C4' C B 51 OK 2093 2090 2092 2111 C4' U B 52 OK 2113 2110 2112 2131 C4' G B 53 OK 2133 2130 2132 2154 C4' A B 54 OK 2156 2153 2155 2176 C4' C B 55 OK 2178 2175 2177 2196 C4' C B 56 OK 2198 2195 2197 2216 C4' C B 57 OK 2218 2215 2217 2236 C4' C B 58 OK 2238 2235 2237 2256 C4' G B 59 OK 2258 2255 2257 2279 C4' C B 60 OK 2281 2278 2280 2299 C4' C B 61 OK 2301 2298 2300 2319 C4' U B 62 OK 2321 2318 2320 2339 C4' U B 63 OK 2341 2338 2340 2359 C4' C B 64 OK 2361 2358 2360 2379 C4' A B 65 OK 2381 2378 2380 2401 C4' A B 66 OK 2403 2400 2402 2423 C4' A B 67 OK 2425 2422 2424 2445 C4' C B 68 OK 2447 2444 2446 2465 C4' C B 69 OK 2467 2464 2466 2485 C4' U B 70 OK 2487 2484 2486 2505 C4' A B 71 OK 2507 2504 2506 2527 C4' U B 72 OK 2529 2526 2528 2547 C4' U B 73 OK 2549 2546 2548 2567 C4' U B 74 OK 2569 2566 2568 2587 C4' G B 75 OK 2589 2586 2588 2610 C4' G B 76 OK 2612 2609 2611 2633 C4' A B 77 OK 2635 2632 2634 2655 C4' G B 78 OK 2657 2654 2656 2678 C4' A B 79 OK 2680 2677 2679 2700 C4' C B 80 OK 2702 2699 2701 2720 C4' U B 81 OK 2722 2719 2721 2740 C4' A B 82 OK 2742 2739 2741 2762 C4' U B 83 OK 2764 2761 2763 2782 C4' A B 84 OK 2784 2781 2783 2804 C4' A B 85 OK 2806 2803 2805 2826 C4' G B 86 OK 2828 2825 2827 2849 C4' G B 87 OK 2851 2848 2850 2872 C4' U B 88 OK 2874 2871 2873 2895 C4' CCC B 89 OK 2897 2894 2896 2917 C4' DGP A 120 OK 2919 2916 2918 2971 C4' DGP B 120 OK 2973 2970 2972 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4' --------------------------------------------------------------------------------- 14 C5' GTP A 22 13 15 37 C5' G A 23 36 38 60 C5' C A 24 59 61 80 C5' C A 25 79 81 100 C5' U A 26 99 101 120 C5' U A 27 119 121 140 C5' A A 28 139 141 162 C5' U A 29 161 163 182 C5' A A 30 181 183 204 C5' C A 31 203 205 224 C5' A A 32 223 225 246 C5' G A 33 245 247 269 C5' G A 34 268 270 292 C5' G A 35 291 293 315 C5' U A 36 314 316 335 C5' A A 37 334 336 357 C5' G A 38 356 358 380 C5' C A 39 379 381 400 C5' A A 40 399 401 422 C5' U A 41 421 423 442 C5' A A 42 441 443 464 C5' A A 43 463 465 486 C5' U A 44 485 487 506 C5' G A 45 505 507 529 C5' G A 46 528 530 552 C5' G A 47 551 553 575 C5' C A 48 574 576 595 C5' U A 49 594 596 615 C5' A A 50 614 616 637 C5' C A 51 636 638 657 C5' U A 52 656 658 677 C5' G A 53 676 678 700 C5' A A 54 699 701 722 C5' C A 55 721 723 742 C5' C A 56 741 743 762 C5' C A 57 761 763 782 C5' C A 58 781 783 802 C5' G A 59 801 803 825 C5' C A 60 824 826 845 C5' C A 61 844 846 865 C5' U A 62 864 866 885 C5' U A 63 884 886 905 C5' C A 64 904 906 925 C5' A A 65 924 926 947 C5' A A 66 946 948 969 C5' A A 67 968 970 991 C5' C A 68 990 992 1011 C5' C A 69 1010 1012 1031 C5' U A 70 1030 1032 1051 C5' A A 71 1050 1052 1073 C5' U A 72 1072 1074 1093 C5' U A 73 1092 1094 1113 C5' U A 74 1112 1114 1133 C5' G A 75 1132 1134 1156 C5' G A 76 1155 1157 1179 C5' A A 77 1178 1180 1201 C5' G A 78 1200 1202 1224 C5' A A 79 1223 1225 1246 C5' C A 80 1245 1247 1266 C5' U A 81 1265 1267 1286 C5' A A 82 1285 1287 1308 C5' U A 83 1307 1309 1328 C5' A A 84 1327 1329 1350 C5' A A 85 1349 1351 1372 C5' G A 86 1371 1373 1395 C5' G A 87 1394 1396 1418 C5' U A 88 1417 1419 1441 C5' CCC A 89 1440 1442 1467 C5' GTP B 22 1466 1468 1490 C5' G B 23 1489 1491 1513 C5' C B 24 1512 1514 1533 C5' C B 25 1532 1534 1553 C5' U B 26 1552 1554 1573 C5' U B 27 1572 1574 1593 C5' A B 28 1592 1594 1615 C5' U B 29 1614 1616 1635 C5' A B 30 1634 1636 1657 C5' C B 31 1656 1658 1677 C5' A B 32 1676 1678 1699 C5' G B 33 1698 1700 1722 C5' G B 34 1721 1723 1745 C5' G B 35 1744 1746 1768 C5' U B 36 1767 1769 1788 C5' A B 37 1787 1789 1810 C5' G B 38 1809 1811 1833 C5' C B 39 1832 1834 1853 C5' A B 40 1852 1854 1875 C5' U B 41 1874 1876 1895 C5' A B 42 1894 1896 1917 C5' A B 43 1916 1918 1939 C5' U B 44 1938 1940 1959 C5' G B 45 1958 1960 1982 C5' G B 46 1981 1983 2005 C5' G B 47 2004 2006 2028 C5' C B 48 2027 2029 2048 C5' U B 49 2047 2049 2068 C5' A B 50 2067 2069 2090 C5' C B 51 2089 2091 2110 C5' U B 52 2109 2111 2130 C5' G B 53 2129 2131 2153 C5' A B 54 2152 2154 2175 C5' C B 55 2174 2176 2195 C5' C B 56 2194 2196 2215 C5' C B 57 2214 2216 2235 C5' C B 58 2234 2236 2255 C5' G B 59 2254 2256 2278 C5' C B 60 2277 2279 2298 C5' C B 61 2297 2299 2318 C5' U B 62 2317 2319 2338 C5' U B 63 2337 2339 2358 C5' C B 64 2357 2359 2378 C5' A B 65 2377 2379 2400 C5' A B 66 2399 2401 2422 C5' A B 67 2421 2423 2444 C5' C B 68 2443 2445 2464 C5' C B 69 2463 2465 2484 C5' U B 70 2483 2485 2504 C5' A B 71 2503 2505 2526 C5' U B 72 2525 2527 2546 C5' U B 73 2545 2547 2566 C5' U B 74 2565 2567 2586 C5' G B 75 2585 2587 2609 C5' G B 76 2608 2610 2632 C5' A B 77 2631 2633 2654 C5' G B 78 2653 2655 2677 C5' A B 79 2676 2678 2699 C5' C B 80 2698 2700 2719 C5' U B 81 2718 2720 2739 C5' A B 82 2738 2740 2761 C5' U B 83 2760 2762 2781 C5' A B 84 2780 2782 2803 C5' A B 85 2802 2804 2825 C5' G B 86 2824 2826 2848 C5' G B 87 2847 2849 2871 C5' U B 88 2870 2872 2894 C5' CCC B 89 2893 2895 2916 C5' DGP A 120 2915 2917 2970 C5' DGP B 120 2969 2971 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue O1P O2P O3' O1P O2P O5' --------------------------------------------------------------------------------- 33 P G A 23 distorted distorted 18 34 35 36 56 P C A 24 distorted distorted 41 57 58 59 76 P C A 25 distorted distorted 64 77 78 79 96 P U A 26 distorted distorted 84 97 98 99 116 P U A 27 distorted distorted 104 117 118 119 136 P A A 28 distorted distorted 124 137 138 139 158 P U A 29 distorted distorted 144 159 160 161 178 P A A 30 distorted distorted 166 179 180 181 200 P C A 31 distorted distorted 186 201 202 203 220 P A A 32 distorted distorted 208 221 222 223 242 P G A 33 distorted distorted 228 243 244 245 265 P G A 34 distorted distorted 250 266 267 268 288 P G A 35 distorted distorted 273 289 290 291 311 P U A 36 distorted distorted 296 312 313 314 331 P A A 37 distorted distorted 319 332 333 334 353 P G A 38 distorted distorted 339 354 355 356 376 P C A 39 distorted distorted 361 377 378 379 396 P A A 40 distorted distorted 384 397 398 399 418 P U A 41 distorted distorted 404 419 420 421 438 P A A 42 distorted distorted 426 439 440 441 460 P A A 43 distorted distorted 446 461 462 463 482 P U A 44 distorted distorted 468 483 484 485 502 P G A 45 distorted distorted 490 503 504 505 525 P G A 46 distorted distorted 510 526 527 528 548 P G A 47 distorted distorted 533 549 550 551 571 P C A 48 distorted distorted 556 572 573 574 591 P U A 49 distorted distorted 579 592 593 594 611 P A A 50 distorted distorted 599 612 613 614 633 P C A 51 distorted distorted 619 634 635 636 653 P U A 52 distorted distorted 641 654 655 656 673 P G A 53 distorted distorted 661 674 675 676 696 P A A 54 distorted distorted 681 697 698 699 718 P C A 55 distorted distorted 704 719 720 721 738 P C A 56 distorted distorted 726 739 740 741 758 P C A 57 distorted distorted 746 759 760 761 778 P C A 58 distorted distorted 766 779 780 781 798 P G A 59 distorted distorted 786 799 800 801 821 P C A 60 distorted distorted 806 822 823 824 841 P C A 61 distorted distorted 829 842 843 844 861 P U A 62 distorted distorted 849 862 863 864 881 P U A 63 distorted distorted 869 882 883 884 901 P C A 64 distorted distorted 889 902 903 904 921 P A A 65 distorted distorted 909 922 923 924 943 P A A 66 distorted distorted 929 944 945 946 965 P A A 67 distorted distorted 951 966 967 968 987 P C A 68 distorted distorted 973 988 989 990 1007 P C A 69 distorted distorted 995 1008 1009 1010 1027 P U A 70 distorted distorted 1015 1028 1029 1030 1047 P A A 71 distorted distorted 1035 1048 1049 1050 1069 P U A 72 distorted distorted 1055 1070 1071 1072 1089 P U A 73 distorted distorted 1077 1090 1091 1092 1109 P U A 74 distorted distorted 1097 1110 1111 1112 1129 P G A 75 distorted distorted 1117 1130 1131 1132 1152 P G A 76 distorted distorted 1137 1153 1154 1155 1175 P A A 77 distorted distorted 1160 1176 1177 1178 1197 P G A 78 distorted distorted 1183 1198 1199 1200 1220 P A A 79 distorted distorted 1205 1221 1222 1223 1242 P C A 80 distorted distorted 1228 1243 1244 1245 1262 P U A 81 distorted distorted 1250 1263 1264 1265 1282 P A A 82 distorted distorted 1270 1283 1284 1285 1304 P U A 83 distorted distorted 1290 1305 1306 1307 1324 P A A 84 distorted distorted 1312 1325 1326 1327 1346 P A A 85 distorted distorted 1332 1347 1348 1349 1368 P G A 86 distorted distorted 1354 1369 1370 1371 1391 P G A 87 distorted distorted 1376 1392 1393 1394 1414 P U A 88 distorted distorted 1399 1415 1416 1417 1437 P CCC A 89 OK OK 1422 1438 1439 1440 1486 P G B 23 distorted distorted 1471 1487 1488 1489 1509 P C B 24 distorted distorted 1494 1510 1511 1512 1529 P C B 25 distorted distorted 1517 1530 1531 1532 1549 P U B 26 distorted distorted 1537 1550 1551 1552 1569 P U B 27 distorted distorted 1557 1570 1571 1572 1589 P A B 28 distorted distorted 1577 1590 1591 1592 1611 P U B 29 distorted distorted 1597 1612 1613 1614 1631 P A B 30 distorted distorted 1619 1632 1633 1634 1653 P C B 31 distorted distorted 1639 1654 1655 1656 1673 P A B 32 distorted distorted 1661 1674 1675 1676 1695 P G B 33 distorted distorted 1681 1696 1697 1698 1718 P G B 34 distorted distorted 1703 1719 1720 1721 1741 P G B 35 distorted distorted 1726 1742 1743 1744 1764 P U B 36 distorted distorted 1749 1765 1766 1767 1784 P A B 37 distorted distorted 1772 1785 1786 1787 1806 P G B 38 distorted distorted 1792 1807 1808 1809 1829 P C B 39 distorted distorted 1814 1830 1831 1832 1849 P A B 40 distorted distorted 1837 1850 1851 1852 1871 P U B 41 distorted distorted 1857 1872 1873 1874 1891 P A B 42 distorted distorted 1879 1892 1893 1894 1913 P A B 43 distorted distorted 1899 1914 1915 1916 1935 P U B 44 distorted distorted 1921 1936 1937 1938 1955 P G B 45 distorted distorted 1943 1956 1957 1958 1978 P G B 46 distorted distorted 1963 1979 1980 1981 2001 P G B 47 distorted distorted 1986 2002 2003 2004 2024 P C B 48 distorted distorted 2009 2025 2026 2027 2044 P U B 49 distorted distorted 2032 2045 2046 2047 2064 P A B 50 distorted distorted 2052 2065 2066 2067 2086 P C B 51 distorted distorted 2072 2087 2088 2089 2106 P U B 52 distorted distorted 2094 2107 2108 2109 2126 P G B 53 distorted distorted 2114 2127 2128 2129 2149 P A B 54 distorted distorted 2134 2150 2151 2152 2171 P C B 55 distorted distorted 2157 2172 2173 2174 2191 P C B 56 distorted distorted 2179 2192 2193 2194 2211 P C B 57 distorted distorted 2199 2212 2213 2214 2231 P C B 58 distorted distorted 2219 2232 2233 2234 2251 P G B 59 distorted distorted 2239 2252 2253 2254 2274 P C B 60 distorted distorted 2259 2275 2276 2277 2294 P C B 61 distorted distorted 2282 2295 2296 2297 2314 P U B 62 distorted distorted 2302 2315 2316 2317 2334 P U B 63 distorted distorted 2322 2335 2336 2337 2354 P C B 64 distorted distorted 2342 2355 2356 2357 2374 P A B 65 distorted distorted 2362 2375 2376 2377 2396 P A B 66 distorted distorted 2382 2397 2398 2399 2418 P A B 67 distorted distorted 2404 2419 2420 2421 2440 P C B 68 distorted distorted 2426 2441 2442 2443 2460 P C B 69 distorted distorted 2448 2461 2462 2463 2480 P U B 70 distorted distorted 2468 2481 2482 2483 2500 P A B 71 distorted distorted 2488 2501 2502 2503 2522 P U B 72 distorted distorted 2508 2523 2524 2525 2542 P U B 73 distorted distorted 2530 2543 2544 2545 2562 P U B 74 distorted distorted 2550 2563 2564 2565 2582 P G B 75 distorted distorted 2570 2583 2584 2585 2605 P G B 76 distorted distorted 2590 2606 2607 2608 2628 P A B 77 distorted distorted 2613 2629 2630 2631 2650 P G B 78 distorted distorted 2636 2651 2652 2653 2673 P A B 79 distorted distorted 2658 2674 2675 2676 2695 P C B 80 distorted distorted 2681 2696 2697 2698 2715 P U B 81 distorted distorted 2703 2716 2717 2718 2735 P A B 82 distorted distorted 2723 2736 2737 2738 2757 P U B 83 distorted distorted 2743 2758 2759 2760 2777 P A B 84 distorted distorted 2765 2778 2779 2780 2799 P A B 85 distorted distorted 2785 2800 2801 2802 2821 P G B 86 distorted distorted 2807 2822 2823 2824 2844 P G B 87 distorted distorted 2829 2845 2846 2847 2867 P U B 88 distorted distorted 2852 2868 2869 2870 2890 P CCC B 89 distorted distorted 2875 2891 2892 2893 2911 P DGP A 120 distorted distorted 2912 2913 2915 2965 P DGP B 120 distorted distorted 2966 2967 2969 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