ID code: '1QPI' 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' --------------------------------------------------------------------------------- 17 P C M 2 36 P T M 3 56 P A M 4 77 P T M 5 97 P C M 6 116 P A M 7 137 P A M 8 158 P T M 9 178 P G M 10 200 P A M 11 221 P T M 12 241 P A M 13 262 P G M 14 284 P A M 15 322 P C N 2 341 P T N 3 361 P A N 4 382 P T N 5 402 P C N 6 421 P A N 7 442 P T N 8 462 P T N 9 482 P G N 10 504 P A N 11 525 P T N 12 545 P A N 13 566 P G N 14 588 P G N 15 626 P C M 2 645 P T M 3 665 P A M 4 686 P T M 5 706 P C M 6 725 P A M 7 746 P A M 8 767 P T M 9 787 P G M 10 809 P A M 11 830 P T M 12 850 P A M 13 871 P G M 14 893 P A M 15 931 P C N 2 950 P T N 3 970 P A N 4 991 P T N 5 1011 P C N 6 1030 P A N 7 1051 P T N 8 1071 P T N 9 1091 P G N 10 1113 P A N 11 1134 P T N 12 1154 P A N 13 1175 P G N 14 1197 P G N 15 ---------------------------------------------------------------------------------