ID code: '1P16' 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' --------------------------------------------------------------------------------- 6544 C1' G A1167 beta 6539 6545 6542 6576 C1' GTP B5001 beta 6571 6577 6574 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2' H2'1 H2'2 H2' O2' --------------------------------------------------------------------------------------------------------------------- 6542 C2' G A1167 OK 6544 6540 6543 6574 C2' GTP B5001 OK 6576 6572 6575 --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H3' O3' C4' H3' O3' C2' --------------------------------------------------------------------------------- 6540 C3' G A1167 OK 6538 6541 6542 6572 C3' GTP B5001 OK 6570 6573 6574 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H4' C5' C3' H4' C5' O4' --------------------------------------------------------------------------------- 6538 C4' G A1167 OK 6540 6537 6539 6570 C4' GTP B5001 OK 6572 6569 6571 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4' --------------------------------------------------------------------------------- 6537 C5' G A1167 6536 6538 6569 C5' GTP B5001 6568 6570 --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue O1P O2P O3' O1P O2P O5' --------------------------------------------------------------------------------- 6323 P SEP C 105 6324 6325 6378 P SEP C 112 6379 6380 6396 P SEP D 105 6397 6398 6451 P SEP D 112 6452 6453 6506 P SEP D 119 6507 6508 6518 P PO4 A7001 6523 P PO4 A7002 6528 P PO4 A7005 6534 P G A1167 6535 6536 ---------------------------------------------------------------------------------