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Title | SNAPSHOT OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THER AQUATICUS PROCESSING MODIFIED PYRIMIDINES | |
Keywords | DNA POLYMERASE, MODIFIED NUCLEOTIDES, A FAMILY, DNA SYNTHESI LINKER, NON-NATURAL NUCLEOTIDE, TRANSFERASE-DNA COMPLEX | |
Experiment | X-ray diffraction | |
Number of Models | 1 |
Database | ID code | Status | Coordinate files | ||
Header | Asymmetric unit | Biological unit | |||
PDB | 4ELT | released | available | available | Quaternary Structure Server |
Unit | Type | Name | Chain ID | Residues | Atoms | Hetatoms |
---|---|---|---|---|---|---|
1 | Protein | DNA POLYMERASE I, THERMOSTABLE | A | 539 | 4286 | 0 |
2 | DNA | B | 12 | 222 | 18 | |
3 | Other macromolecule | DNA (5'-D(*AP*AP*AP*AP*GP*GP*CP*GP*CP*CP*GP*TP*GP 3') | C | 16 | 329 | 0 |
4 | Ligand | DNA POLYMERASE I, THERMOSTABLE | A | 14 | 0 | 98 |
5 | Ligand | B | 1 | 0 | 6 | |
6 | Ligand | DNA (5'-D(*AP*AP*AP*AP*GP*GP*CP*GP*CP*CP*GP*TP*GP 3') | C | 2 | 0 | 7 |
7 | Water | 245 | 0 | 245 | ||
total | 829 | 4837 | 374 |
Unit 1 | LEU294 GLU295 GLU296 ALA297 PRO298 TRP299 PRO300 PRO301 PRO302 GLU303 GLY304 ALA305 PHE306 VAL307 GLY308 PHE309 VAL310 LEU311 SER312 ARG313 LYS314 GLU315 PRO316 MET317 TRP318 ALA319 ASP320 LEU321 LEU322 ALA323 LEU324 ALA325 ALA326 ALA327 ARG328 GLY329 GLY330 ARG331 VAL332 HIS333 ARG334 ALA335 PRO336 GLU337 PRO338 TYR339 LYS340 ALA341 LEU342 ARG343 ASP344 LEU345 LYS346 GLU347 ALA348 ARG349 GLY350 LEU351 LEU352 ALA353 LYS354 ASP355 LEU356 SER357 VAL358 LEU359 ALA360 LEU361 ARG362 GLU363 GLY364 LEU365 GLY366 LEU367 PRO368 PRO369 GLY370 ASP371 ASP372 PRO373 MET374 LEU375 LEU376 ALA377 TYR378 LEU379 LEU380 ASP381 PRO382 SER383 ASN384 THR385 THR386 PRO387 GLU388 GLY389 VAL390 ALA391 ARG392 ARG393 TYR394 GLY395 GLY396 GLU397 TRP398 THR399 GLU400 GLU401 ALA402 GLY403 GLU404 ARG405 ALA406 ALA407 LEU408 SER409 GLU410 ARG411 LEU412 PHE413 ALA414 ASN415 LEU416 TRP417 GLY418 ARG419 LEU420 GLU421 GLY422 GLU423 GLU424 ARG425 LEU426 LEU427 TRP428 LEU429 TYR430 ARG431 GLU432 VAL433 GLU434 ARG435 PRO436 LEU437 SER438 ALA439 VAL440 LEU441 ALA442 HIS443 MET444 GLU445 ALA446 THR447 GLY448 VAL449 ARG450 LEU451 ASP452 VAL453 ALA454 TYR455 LEU456 ARG457 ALA458 LEU459 SER460 LEU461 GLU462 VAL463 ALA464 GLU465 GLU466 ILE467 ALA468 ARG469 LEU470 GLU471 ALA472 GLU473 VAL474 PHE475 ARG476 LEU477 ALA478 GLY479 HIS480 PRO481 PHE482 ASN483 LEU484 ASN485 SER486 ARG487 ASP488 GLN489 LEU490 GLU491 ARG492 VAL493 LEU494 PHE495 ASP496 GLU497 LEU498 GLY499 LEU500 PRO501 ALA502 ILE503 GLY504 LYS505 THR506 GLU507 LYS508 THR509 GLY510 LYS511 ARG512 SER513 THR514 SER515 ALA516 ALA517 VAL518 LEU519 GLU520 ALA521 LEU522 ARG523 GLU524 ALA525 HIS526 PRO527 ILE528 VAL529 GLU530 LYS531 ILE532 LEU533 GLN534 TYR535 ARG536 GLU537 LEU538 THR539 LYS540 LEU541 LYS542 SER543 THR544 TYR545 ILE546 ASP547 PRO548 LEU549 PRO550 ASP551 LEU552 ILE553 HIS554 PRO555 ARG556 THR557 GLY558 ARG559 LEU560 HIS561 THR562 ARG563 PHE564 ASN565 GLN566 THR567 ALA568 THR569 ALA570 THR571 GLY572 ARG573 LEU574 SER575 SER576 SER577 ASP578 PRO579 ASN580 LEU581 GLN582 ASN583 ILE584 PRO585 VAL586 ARG587 THR588 PRO589 LEU590 GLY591 GLN592 ARG593 ILE594 ARG595 ARG596 ALA597 PHE598 ILE599 ALA600 GLU601 GLU602 GLY603 TRP604 LEU605 LEU606 VAL607 ALA608 LEU609 ASP610 TYR611 SER612 GLN613 ILE614 GLU615 LEU616 ARG617 VAL618 LEU619 ALA620 HIS621 LEU622 SER623 GLY624 ASP625 GLU626 ASN627 LEU628 ILE629 ARG630 VAL631 PHE632 GLN633 GLU634 GLY635 ARG636 ASP637 ILE638 HIS639 THR640 GLU641 THR642 ALA643 SER644 TRP645 MET646 PHE647 GLY648 VAL649 PRO650 ARG651 GLU652 ALA653 VAL654 ASP655 PRO656 LEU657 MET658 ARG659 ARG660 ALA661 ALA662 LYS663 THR664 ILE665 ASN666 PHE667 GLY668 VAL669 LEU670 TYR671 GLY672 MET673 SER674 ALA675 HIS676 ARG677 LEU678 SER679 GLN680 GLU681 LEU682 ALA683 ILE684 PRO685 TYR686 GLU687 GLU688 ALA689 GLN690 ALA691 PHE692 ILE693 GLU694 ARG695 TYR696 PHE697 GLN698 SER699 PHE700 PRO701 LYS702 VAL703 ARG704 ALA705 TRP706 ILE707 GLU708 LYS709 THR710 LEU711 GLU712 GLU713 GLY714 ARG715 ARG716 ARG717 GLY718 TYR719 VAL720 GLU721 THR722 LEU723 PHE724 GLY725 ARG726 ARG727 ARG728 TYR729 VAL730 PRO731 ASP732 LEU733 GLU734 ALA735 ARG736 VAL737 LYS738 SER739 VAL740 ARG741 GLU742 ALA743 ALA744 GLU745 ARG746 MET747 ALA748 PHE749 ASN750 MET751 PRO752 VAL753 GLN754 GLY755 THR756 ALA757 ALA758 ASP759 LEU760 MET761 LYS762 LEU763 ALA764 MET765 VAL766 LYS767 LEU768 PHE769 PRO770 ARG771 LEU772 GLU773 GLU774 MET775 GLY776 ALA777 ARG778 MET779 LEU780 LEU781 GLN782 VAL783 HIS784 ASP785 GLU786 LEU787 VAL788 LEU789 GLU790 ALA791 PRO792 LYS793 GLU794 ARG795 ALA796 GLU797 ALA798 VAL799 ALA800 ARG801 LEU802 ALA803 LYS804 GLU805 VAL806 MET807 GLU808 GLY809 VAL810 TYR811 PRO812 LEU813 ALA814 VAL815 PRO816 LEU817 GLU818 VAL819 GLU820 VAL821 GLY822 ILE823 GLY824 GLU825 ASP826 TRP827 LEU828 SER829 ALA830 LYS831 GLU832 |
Unit 2 | DG101 DA102 DC103 DC104 DA105 DC106 DG107 DG108 DC109 DG110 DC111 DOC112 |
Unit 3 | DA201 DA202 DA203 DA204 DG205 DG206 DC207 DG208 DC209 DC210 DG211 DT212 DG213 DG214 DT215 DC216 |
Unit 4 | 0R5901 MG902 MG903 GOL904 ACT905 GOL906 GOL907 ACT908 GOL909 GOL910 GOL911 ACT912 GOL913 EDO914 |
Unit 5 | GOL201 |
Unit 6 | GOL301 MG302 |
Check the naming of phosphate and ribose substituents. Recommended for phosphate oxygens and for ribose hydrogens in NMR structures.
Perl script: | PDBscan.pl (15 Sep 2016) |
Author: | Peter Slickers (slickers@leibniz-fli.de), IMB Jena, Germany |