ID code: '2IY3' 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' --------------------------------------------------------------------------------- 434 P G B 1 435 P G B 2 436 P G B 3 437 P G B 4 438 P G B 5 439 P C B 6 440 P U B 7 441 P C B 8 442 P U B 9 443 P G B 10 444 P U B 11 445 P U B 12 446 P G B 13 447 P G B 14 448 P U B 15 449 P U B 16 450 P C B 17 451 P U B 18 452 P C B 19 453 P C B 20 454 P C B 21 455 P G B 22 456 P C B 23 457 P A B 24 458 P A B 25 459 P C B 26 460 P G B 27 461 P C B 28 462 P U B 29 463 P A B 30 464 P C B 31 465 P U B 32 466 P C B 33 467 P U B 34 468 P G B 35 469 P U B 36 470 P U B 37 471 P U B 38 472 P A B 39 473 P C B 40 474 P C B 41 475 P A B 42 476 P G B 43 477 P G B 44 478 P U B 45 479 P C B 46 480 P A B 47 481 P G B 48 482 P G B 49 483 P U B 50 484 P C B 51 485 P C B 52 486 P G B 53 487 P A B 54 488 P A B 55 489 P A B 56 490 P G B 57 491 P G B 58 492 P A B 59 493 P A B 60 494 P G B 61 495 P C B 62 496 P A B 63 497 P G B 64 498 P C B 65 499 P C B 66 500 P A B 67 501 P A B 68 502 P G B 69 503 P G B 70 504 P C B 71 505 P A B 72 506 P G B 73 507 P A B 74 508 P U B 75 509 P G B 76 510 P A B 77 511 P C B 78 512 P G B 79 513 P C B 80 514 P G B 81 515 P U B 82 516 P G B 83 517 P U B 84 518 P G B 85 519 P C B 86 520 P C B 87 521 P G B 88 522 P G B 89 523 P G B 90 524 P A B 91 525 P U B 92 526 P G B 93 527 P U B 94 528 P A B 95 529 P G B 96 530 P C B 97 531 P U B 98 532 P G B 99 533 P G B 100 534 P C B 101 535 P A B 102 536 P G B 103 537 P G B 104 538 P G B 105 539 P C B 106 540 P C B 107 541 P C B 108 542 P C B 109 543 P C B 110 ---------------------------------------------------------------------------------