ID code: '1X18' 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' --------------------------------------------------------------------------------- 1 P C A 720 2 P G A 721 3 P A A 722 4 P U A 723 5 P G A 724 6 P G A 725 7 P C A 726 8 P G A 727 9 P A A 728 10 P A A 729 11 P G A 730 13 P C B 826 14 P U B 827 15 P A B 828 16 P G B 829 17 P G B 830 18 P U B 831 19 P C B 832 20 P U B 833 21 P C B 834 22 P U B 835 23 P G B 836 24 P G B 837 25 P G B 838 26 P U B 839 27 P C B 840 28 P U B 841 29 P C B 848 30 P C B 849 31 P U B 850 32 P G B 851 33 P G B 852 34 P G B 853 35 P G B 854 36 P G B 855 37 P C B 856 38 P C B 857 39 P G B 858 40 P A B 859 41 P A B 860 42 P G B 861 43 P C B 862 45 P U C 380 46 P U C 381 47 P C C 382 48 P C C 383 49 P C C 384 50 P G C 385 51 P G C 386 52 P G C 387 53 P C C 388 54 P C C 389 55 P U C 390 56 P G C 926 57 P G C 927 58 P G C 928 59 P G C 929 60 P C C 930 61 P C C 931 62 P C C 932 63 P G C 933 64 P C C 934 66 P U D 83 67 P G D 84 68 P U D 85 69 P U D 86 70 P G D 87 71 P G D 88 72 P G D 89 73 P U D 90 74 P U D 91 75 P A D 92 76 P A D 93 77 P G D 94 78 P U D 95 79 P C D 96 80 P C D 97 81 P C D 98 82 P G D 99 83 P C D 100 84 P A D 101 85 P A D 102 86 P C D 103 87 P G D 104 88 P A D 105 89 P G D 106 ---------------------------------------------------------------------------------