ID code: '1X1L' 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 C A 400 2 P G A 401 3 P C A 402 4 P C A 403 5 P C A 404 6 P G A 405 7 P U A 406 8 P C A 407 9 P A A 408 10 P C A 409 11 P G A 410 12 P C A 411 13 P C A 412 14 P A A 413 15 P U A 414 16 P G A 415 17 P G A 416 18 P G A 417 19 P A A 418 20 P G A 419 21 P C A 420 22 P G A 421 23 P G A 422 24 P G A 423 25 P C A 424 26 P U A 425 27 P C A 426 28 P U A 427 29 P A A 428 30 P C A 429 31 P C A 430 32 P C A 431 33 P G A 432 34 P A A 433 35 P A A 434 36 P G A 435 37 P U A 436 38 P C A 437 39 P G A 438 40 P C A 439 41 P C A 440 42 P G A 441 43 P G A 442 44 P G A 443 45 P A A 446 46 P G A 447 47 P C A 448 48 P C A 449 49 P U A 450 50 P A A 451 51 P C A 452 52 P G A 453 53 P G A 454 54 P G A 455 55 P C A 459 56 P A A 460 57 P G A 461 58 P G A 462 59 P C A 463 60 P G A 464 61 P C A 465 62 P C A 466 63 P G A 467 64 P A A 468 65 P G A 469 66 P G A 470 67 P G A 471 68 P U A 472 69 P A A 473 70 P G A 474 71 P G A 475 72 P G A 476 73 P C A 477 74 P C A 478 75 P C A 479 76 P G A 480 77 P U A 481 78 P G A 482 79 P A A 483 80 P C A 484 81 P U A 485 82 P G A 486 83 P G A 487 84 P G A 488 85 P G A 489 86 P C A 490 87 P G A 491 88 P A A 492 89 P A A 493 90 P G A 494 91 P U A 495 92 P C A 496 93 P G A 497 94 P U A 498 95 P A A 499 96 P A A 500 97 P C A 501 98 P A A 502 99 P A A 503 100 P G A 504 101 P G A 505 102 P U A 506 103 P A A 507 104 P G A 508 105 P C A 509 106 P U A 510 107 P G A 511 108 P U A 512 109 P A A 513 110 P C A 514 111 P C A 515 112 P G A 516 113 P G A 517 114 P A A 518 115 P A A 519 116 P G A 520 117 P G A 521 118 P U A 522 119 P G A 523 120 P C A 524 121 P G A 525 122 P G A 526 123 P C A 527 124 P U A 528 125 P G A 529 126 P G A 530 127 P A A 531 128 P U A 532 129 P C A 533 130 P A A 534 ---------------------------------------------------------------------------------