ID code: '1T1M' 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 U A1061 2 P G A1062 3 P G A1063 4 P C A1064 5 P U A1065 6 P U A1066 7 P A A1067 8 P G A1068 9 P A A1069 10 P A A1070 11 P G A1071 12 P C A1072 14 P G B1401 15 P C B1402 16 P C B1403 17 P C B1404 18 P G B1405 19 P U B1406 20 P C B1407 21 P A B1408 22 P C B1409 23 P A B1410 24 P C B1411 25 P C B1412 26 P A B1413 27 P U B1414 28 P G B1415 29 P G B1416 30 P G B1417 31 P A B1418 32 P G B1419 33 P U B1420 34 P A B1480 35 P U B1481 36 P G B1482 37 P A B1483 38 P C B1484 39 P U B1485 40 P G B1486 41 P G B1487 42 P G B1488 43 P G B1489 44 P U B1490 45 P G B1491 46 P A B1492 47 P A B1493 48 P G B1494 49 P U B1495 50 P C B1496 51 P G B1497 52 P U B1498 53 P A B1499 54 P A B1500 55 P C B1501 ---------------------------------------------------------------------------------