ID code: '4QVC' 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' --------------------------------------------------------------------------------- 2886 C1' A G 1 beta 2881 2887 2884 2908 C1' A G 2 beta 2903 2909 2906 2930 C1' C G 3 beta 2925 2931 2928 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2' H2'1 H2'2 H2' O2' --------------------------------------------------------------------------------------------------------------------- 2884 C2' A G 1 OK 2886 2882 2885 2906 C2' A G 2 OK 2908 2904 2907 2928 C2' C G 3 OK 2930 2926 2929 --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H3' O3' C4' H3' O3' C2' --------------------------------------------------------------------------------- 2882 C3' A G 1 OK 2880 2883 2884 2904 C3' A G 2 OK 2902 2905 2906 2926 C3' C G 3 OK 2924 2927 2928 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H4' C5' C3' H4' C5' O4' --------------------------------------------------------------------------------- 2880 C4' A G 1 OK 2882 2879 2881 2902 C4' A G 2 OK 2904 2901 2903 2924 C4' C G 3 OK 2926 2923 2925 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4' --------------------------------------------------------------------------------- 2879 C5' A G 1 2880 2901 C5' A G 2 2900 2902 2923 C5' C G 3 2922 2924 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue O1P O2P O3' O1P O2P O5' --------------------------------------------------------------------------------- 2897 P A G 2 distorted distorted 2883 2898 2899 2900 2919 P C G 3 distorted distorted 2905 2920 2921 2922 2939 P U G 4 distorted distorted 2927 2940 2941 2942 ---------------------------------------------------------------------------------