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Sequence, Chains, Asymmetric and Biological Units

Title TERNARY COMPLEX OF DNA POLYMERASE DELTA
Keywords DNA POLYMERASE, PROTEIN-DNA COMPLEX, DNA REPLICATION, DNA-BI DNA-DIRECTED DNA POLYMERASE, EXONUCLEASE, HYDROLASE, METAL- NUCLEASE, NUCLEOTIDYLTRANSFERASE, NUCLEUS, PHOSPHOPROTEIN, TRANSFERASE, ZINC-FINGER, TRANSFERASE-DNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   3IAY     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  DNA    P 12 213 18
2  Other macromolecule    T 16 338 0
3  Protein   DNA POLYMERASE DELTA CATALYTIC SUBUNIT  A 885 6986 0
4  Ligand    T 1 0 1
5  Ligand   DNA POLYMERASE DELTA CATALYTIC SUBUNIT  A 7 0 40
6 Water     558 0 558
total       1479 7537 617
Proteins
Unit 3 SER95 SER96 PHE97 GLU98 ARG99 LYS100 LYS101 LEU102 PRO103 THR104 ASP105 PHE106 ASP107 PRO108 SER109 LEU110 TYR111 ASP112 ILE113 SER114 PHE115 GLN116 GLN117 ILE118 ASP119 ALA120 GLU121 GLN122 SER123 VAL124 LEU125 ASN126 GLY127 ILE128 LYS129 ASP130 GLU131 ASN132 THR133 SER134 THR135 VAL136 VAL137 ARG138 PHE139 PHE140 GLY141 VAL142 THR143 SER144 GLU145 GLY146 HIS147 SER148 VAL149 LEU150 CYS151 ASN152 VAL153 THR154 GLY155 PHE156 LYS157 ASN158 TYR159 LEU160 TYR161 VAL162 PRO163 ALA164 PRO165 ASN166 SER167 SER168 ASP169 ALA170 ASN171 ASP172 GLN173 GLU174 GLN175 ILE176 ASN177 LYS178 PHE179 VAL180 HIS181 TYR182 LEU183 ASN184 GLU185 THR186 PHE187 ASP188 HIS189 ALA190 ILE191 ASP192 SER193 ILE194 GLU195 VAL196 VAL197 SER198 LYS199 GLN200 SER201 ILE202 TRP203 GLY204 TYR205 SER206 GLY207 ASP208 THR209 LYS210 LEU211 PRO212 PHE213 TRP214 LYS215 ILE216 TYR217 VAL218 THR219 TYR220 PRO221 HIS222 MET223 VAL224 ASN225 LYS226 LEU227 ARG228 THR229 ALA230 PHE231 GLU232 ARG233 GLY234 HIS235 LEU236 SER237 PHE238 ASN239 SER240 TRP241 PHE242 SER243 ASN244 GLY245 THR246 THR247 THR248 TYR249 ASP250 ASN251 ILE252 ALA253 TYR254 THR255 LEU256 ARG257 LEU258 MET259 VAL260 ASP261 CYS262 GLY263 ILE264 VAL265 GLY266 MET267 SER268 TRP269 ILE270 THR271 LEU272 PRO273 LYS274 GLY275 LYS276 TYR277 SER278 MET279 ILE280 GLU281 PRO282 ASN283 ASN284 ARG285 VAL286 SER287 SER288 CYS289 GLN290 LEU291 GLU292 VAL293 SER294 ILE295 ASN296 TYR297 ARG298 ASN299 LEU300 ILE301 ALA302 HIS303 PRO304 ALA305 GLU306 GLY307 ASP308 TRP309 SER310 HIS311 THR312 ALA313 PRO314 LEU315 ARG316 ILE317 MET318 SER319 PHE320 ASP321 ILE322 GLU323 CYS324 ALA325 GLY326 ARG327 ILE328 GLY329 VAL330 PHE331 PRO332 GLU333 PRO334 GLU335 TYR336 ASP337 PRO338 VAL339 ILE340 GLN341 ILE342 ALA343 ASN344 VAL345 VAL346 SER347 ILE348 ALA349 GLY350 ALA351 LYS352 LYS353 PRO354 PHE355 ILE356 ARG357 ASN358 VAL359 PHE360 THR361 LEU362 ASN363 THR364 CYS365 SER366 PRO367 ILE368 THR369 GLY370 SER371 MET372 ILE373 PHE374 SER375 HIS376 ALA377 THR378 GLU379 GLU380 GLU381 MET382 LEU383 SER384 ASN385 TRP386 ARG387 ASN388 PHE389 ILE390 ILE391 LYS392 VAL393 ASP394 PRO395 ASP396 VAL397 ILE398 ILE399 GLY400 TYR401 ASN402 THR403 THR404 ASN405 PHE406 ASP407 ILE408 PRO409 TYR410 LEU411 LEU412 ASN413 ARG414 ALA415 LYS416 ALA417 LEU418 LYS419 VAL420 ASN421 ASP422 PHE423 PRO424 TYR425 PHE426 GLY427 ARG428 LEU429 LYS430 THR431 VAL432 LYS433 GLN434 GLU435 ILE436 LYS437 GLU438 SER439 VAL440 PHE441 SER442 SER443 LYS444 ALA445 TYR446 GLY447 THR448 ARG449 GLU450 THR451 LYS452 ASN453 VAL454 ASN455 ILE456 ASP457 GLY458 ARG459 LEU460 GLN461 LEU462 ASP463 LEU464 LEU465 GLN466 PHE467 ILE468 GLN469 ARG470 GLU471 TYR472 LYS473 LEU474 ARG475 SER476 TYR477 THR478 LEU479 ASN480 ALA481 VAL482 SER483 ALA484 HIS485 PHE486 LEU487 GLY488 GLU489 GLN490 SER497 ILE498 ILE499 SER500 ASP501 LEU502 GLN503 ASN504 GLY505 ASP506 SER507 GLU508 THR509 ARG510 ARG511 ARG512 LEU513 ALA514 VAL515 TYR516 CYS517 LEU518 LYS519 ASP520 ALA521 TYR522 LEU523 PRO524 LEU525 ARG526 LEU527 MET528 GLU529 LYS530 LEU531 MET532 ALA533 LEU534 VAL535 ASN536 TYR537 THR538 GLU539 MET540 ALA541 ARG542 VAL543 THR544 GLY545 VAL546 PRO547 PHE548 SER549 TYR550 LEU551 LEU552 ALA553 ARG554 GLY555 GLN556 GLN557 ILE558 LYS559 VAL560 VAL561 SER562 GLN563 LEU564 PHE565 ARG566 LYS567 CYS568 LEU569 GLU570 ILE571 ASP572 THR573 VAL574 ILE575 PRO576 ASN577 MET578 GLN579 SER580 GLN581 ALA582 SER583 ASP584 ASP585 GLN586 TYR587 GLU588 GLY589 ALA590 THR591 VAL592 ILE593 GLU594 PRO595 ILE596 ARG597 GLY598 TYR599 TYR600 ASP601 VAL602 PRO603 ILE604 ALA605 THR606 LEU607 ASP608 PHE609 ASN610 SER611 LEU612 TYR613 PRO614 SER615 ILE616 MET617 MET618 ALA619 HIS620 ASN621 LEU622 CYS623 TYR624 THR625 THR626 LEU627 CYS628 ASN629 LYS630 ALA631 THR632 VAL633 GLU634 ARG635 LEU636 ASN637 LEU638 LYS639 ILE640 ASP641 GLU642 ASP643 TYR644 VAL645 ILE646 THR647 PRO648 ASN649 GLY650 ASP651 TYR652 PHE653 VAL654 THR655 THR656 LYS657 ARG658 ARG659 ARG660 GLY661 ILE662 LEU663 PRO664 ILE665 ILE666 LEU667 ASP668 GLU669 LEU670 ILE671 SER672 ALA673 ARG674 LYS675 ARG676 ALA677 LYS678 LYS679 ASP680 LEU681 ARG682 ASP683 GLU684 LYS685 ASP686 PRO687 PHE688 LYS689 ARG690 ASP691 VAL692 LEU693 ASN694 GLY695 ARG696 GLN697 LEU698 ALA699 LEU700 LYS701 ILE702 SER703 ALA704 ASN705 SER706 VAL707 TYR708 GLY709 PHE710 THR711 GLY712 ALA713 THR714 VAL715 GLY716 LYS717 LEU718 PRO719 CYS720 LEU721 ALA722 ILE723 SER724 SER725 SER726 VAL727 THR728 ALA729 TYR730 GLY731 ARG732 THR733 MET734 ILE735 LEU736 LYS737 THR738 LYS739 THR740 ALA741 VAL742 GLN743 GLU744 LYS745 TYR746 CYS747 ILE748 LYS749 ASN750 GLY751 TYR752 LYS753 HIS754 ASP755 ALA756 VAL757 VAL758 VAL759 TYR760 GLY761 ASP762 THR763 ASP764 SER765 VAL766 MET767 VAL768 LYS769 PHE770 GLY771 THR772 THR773 ASP774 LEU775 LYS776 GLU777 ALA778 MET779 ASP780 LEU781 GLY782 THR783 GLU784 ALA785 ALA786 LYS787 TYR788 VAL789 SER790 THR791 LEU792 PHE793 LYS794 HIS795 PRO796 ILE797 ASN798 LEU799 GLU800 PHE801 GLU802 LYS803 ALA804 TYR805 PHE806 PRO807 TYR808 LEU809 LEU810 ILE811 ASN812 LYS813 LYS814 ARG815 TYR816 ALA817 GLY818 LEU819 PHE820 TRP821 THR822 ASN823 PRO824 ASP825 LYS826 PHE827 ASP828 LYS829 LEU830 ASP831 GLN832 LYS833 GLY834 LEU835 ALA836 SER837 VAL838 ARG839 ARG840 ASP841 SER842 CYS843 SER844 LEU845 VAL846 SER847 ILE848 VAL849 MET850 ASN851 LYS852 VAL853 LEU854 LYS855 LYS856 ILE857 LEU858 ILE859 GLU860 ARG861 ASN862 VAL863 ASP864 GLY865 ALA866 LEU867 ALA868 PHE869 VAL870 ARG871 GLU872 THR873 ILE874 ASN875 ASP876 ILE877 LEU878 HIS879 ASN880 ARG881 VAL882 ASP883 ILE884 SER885 LYS886 LEU887 ILE888 ILE889 SER890 LYS891 THR892 LEU893 ALA894 PRO895 ASN896 TYR897 THR898 ASN899 PRO900 GLN901 PRO902 HIS903 ALA904 VAL905 LEU906 ALA907 GLU908 ARG909 MET910 LYS911 ARG912 ARG913 GLU914 GLY915 VAL916 GLY917 PRO918 ASN919 VAL920 GLY921 ASP922 ARG923 VAL924 ASP925 TYR926 VAL927 ILE928 ILE929 GLY930 GLY931 ASN932 ASP933 LYS934 LEU935 TYR936 ASN937 ARG938 ALA939 GLU940 ASP941 PRO942 LEU943 PHE944 VAL945 LEU946 GLU947 ASN948 ASN949 ILE950 GLN951 VAL952 ASP953 SER954 ARG955 TYR956 TYR957 LEU958 THR959 ASN960 GLN961 LEU962 GLN963 ASN964 PRO965 ILE966 ILE967 SER968 ILE969 VAL970 ALA971 PRO972 ILE973 ILE974 GLY975 ASP976 LYS977 GLN978 ALA979 ASN980 GLY981 MET982 PHE983 VAL984 VAL985
Nucleic acids
Unit 1 DA1 DT2 DC3 DC4 DT5 DC6 DC7 DC8 DC9 DT10 DA11 DOC12
Other macromolecules
Unit 2 DT1 DA2 DA3 DG4 DG5 DT6 DA7 DG8 DG9 DG10 DG11 DA12 DG13 DG14 DA15 DT16
Ligands
Unit 4 CA17
Unit 5 CA1 CA2 CA3 CA4 DCP986 ACT987 ACT988
Chirality of ribose and phosphate atoms

Check the naming of phosphate and ribose substituents. Recommended for phosphate oxygens and for ribose hydrogens in NMR structures.

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany