ID code: '3CZ3' 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' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2' H2'1 H2'2 H2' O2' --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H3' O3' C4' H3' O3' C2' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H4' C5' C3' H4' C5' O4' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue O1P O2P O3' O1P O2P O5' --------------------------------------------------------------------------------- 3 P C E 1 4 P C E 1 43 P G E 2 44 P G E 2 89 P U E 3 90 P U E 3 129 P A E 4 130 P A E 4 173 P C E 5 174 P C E 5 213 P G E 6 214 P G E 6 259 P C E 7 260 P C E 7 299 P G E 8 300 P G E 8 345 P G E 9 346 P G E 9 391 P A E 10 392 P A E 10 435 P A E 11 436 P A E 11 479 P U E 12 480 P U E 12 519 P A E 13 520 P A E 13 563 P C E 14 564 P C E 14 603 P U E 15 604 P U E 15 643 P U E 16 644 P U E 16 683 P C E 17 684 P C E 17 723 P G E 18 724 P G E 18 769 P A E 19 770 P A E 19 816 P U F 1 817 P U F 1 856 P C F 2 857 P C F 2 896 P G F 3 897 P G F 3 942 P A F 4 943 P A F 4 986 P A F 5 987 P A F 5 1030 P G F 6 1031 P G F 6 1076 P U F 7 1077 P U F 7 1116 P A F 8 1117 P A F 8 1160 P U F 9 1161 P U F 9 1200 P U F 10 1201 P U F 10 1240 P C F 11 1241 P C F 11 1280 P C F 12 1281 P C F 12 1320 P G F 13 1321 P G F 13 1366 P C F 14 1367 P C F 14 1406 P G F 15 1407 P G F 15 1452 P U F 16 1453 P U F 16 1492 P A F 17 1493 P A F 17 1536 P C F 18 1537 P C F 18 1576 P G F 19 1577 P G F 19 1625 P C G 1 1626 P C G 1 1665 P G G 2 1666 P G G 2 1711 P U G 3 1712 P U G 3 1751 P A G 4 1752 P A G 4 1795 P C G 5 1796 P C G 5 1835 P G G 6 1836 P G G 6 1881 P C G 7 1882 P C G 7 1921 P G G 8 1922 P G G 8 1967 P G G 9 1968 P G G 9 2013 P A G 10 2014 P A G 10 2057 P A G 11 2058 P A G 11 2101 P U G 12 2102 P U G 12 2141 P A G 13 2142 P A G 13 2185 P C G 14 2186 P C G 14 2225 P U G 15 2226 P U G 15 2265 P U G 16 2266 P U G 16 2305 P C G 17 2306 P C G 17 2345 P G G 18 2346 P G G 18 2391 P A G 19 2392 P A G 19 2438 P U H 1 2439 P U H 1 2478 P C H 2 2479 P C H 2 2518 P G H 3 2519 P G H 3 2564 P A H 4 2565 P A H 4 2608 P A H 5 2609 P A H 5 2652 P G H 6 2653 P G H 6 2698 P U H 7 2699 P U H 7 2738 P A H 8 2739 P A H 8 2782 P U H 9 2783 P U H 9 2822 P U H 10 2823 P U H 10 2862 P C H 11 2863 P C H 11 2902 P C H 12 2903 P C H 12 2942 P G H 13 2943 P G H 13 2988 P C H 14 2989 P C H 14 3028 P G H 15 3029 P G H 15 3074 P U H 16 3075 P U H 16 3114 P A H 17 3115 P A H 17 3158 P C H 18 3159 P C H 18 3198 P G H 19 3199 P G H 19 ---------------------------------------------------------------------------------