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Sequence, Chains, Asymmetric and Biological Units

Title TERNARY CRYSTAL STRUCTURE OF YEAST DNA POLYMERASE EPSILON WI TEMPLATE G
Keywords DNA POLYMERASE, TRANSFERASE-DNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4PTF     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   DNA POLYMERASE EPSILON CATALYTIC SUBUNIT A  A 1112 8851 0
2  DNA    P 11 195 18
3  Other macromolecule    T 15 318 0
4  Ligand   DNA POLYMERASE EPSILON CATALYTIC SUBUNIT A  A 5 0 32
5  Ligand    T 2 0 11
6 Water     147 0 147
total       1292 9364 208
Proteins
Unit 1 TYR30 ALA31 LEU32 SER33 ALA34 GLN35 GLN36 LEU37 LEU38 ASN39 ALA40 SER41 LYS42 ILE43 ASP44 ASP45 ILE46 ASP47 SER48 MET49 MET50 GLY51 PHE52 GLU53 ARG54 TYR55 VAL56 PRO57 PRO58 GLN59 TYR60 ASN61 GLY62 ARG63 PHE64 ASP65 ALA66 LYS67 ASP68 ILE69 ASP70 GLN71 ILE72 PRO73 GLY74 ARG75 VAL76 GLY77 TRP78 LEU79 THR80 ASN81 MET82 HIS83 ALA84 THR85 LEU86 VAL87 SER88 GLN89 GLU90 THR110 ASN111 GLN112 GLY113 ILE114 SER115 GLY116 VAL117 ASP118 PHE119 TYR120 PHE121 LEU122 ASP123 GLU124 GLU125 GLY126 GLY127 SER128 PHE129 LYS130 SER131 THR132 VAL133 VAL134 TYR135 ASP136 PRO137 TYR138 PHE139 PHE140 ILE141 ALA142 CYS143 ASN144 ASP145 GLU146 SER147 ARG148 VAL149 ASN150 ASP151 VAL152 GLU153 GLU154 LEU155 VAL156 LYS157 LYS158 TYR159 LEU160 GLU161 SER162 CYS163 LEU164 LYS165 SER166 LEU167 GLN168 ILE169 ILE170 ARG171 LYS172 GLU173 ASP174 LEU175 THR176 MET177 ASP178 ASN179 HIS180 LEU181 LEU182 GLY183 LEU184 GLN185 LYS186 THR187 LEU188 ILE189 LYS190 LEU191 SER192 PHE193 VAL194 ASN195 SER196 ASN197 GLN198 LEU199 PHE200 GLU201 ALA202 ARG203 LYS204 LEU205 LEU206 ARG207 PRO208 ILE209 LEU210 GLN211 ASP212 ASN213 ALA214 ARG220 ASN221 ILE222 TYR223 ASN224 LYS232 VAL233 ASP234 ALA235 LYS236 HIS237 LEU238 ILE239 GLU240 ASP241 ILE242 ARG243 GLU244 TYR245 ASP246 VAL247 PRO248 TYR249 HIS250 VAL251 ARG252 VAL253 SER254 ILE255 ASP256 LYS257 ASP258 ILE259 ARG260 VAL261 GLY262 LYS263 TRP264 TYR265 LYS266 VAL267 THR268 GLN269 GLN270 GLY271 PHE272 ILE273 GLU274 ASP275 THR276 ARG277 LYS278 ILE279 ALA280 PHE281 ALA282 ASP283 PRO284 VAL285 VAL286 MET287 ALA288 PHE289 ASP290 ILE291 GLU292 THR293 THR294 LYS295 PRO296 PRO297 LEU298 LYS299 PHE300 PRO301 ASP302 SER303 ALA304 VAL305 ASP306 GLN307 ILE308 MET309 MET310 ILE311 SER312 TYR313 MET314 ILE315 ASP316 GLY317 GLU318 GLY319 PHE320 LEU321 ILE322 THR323 ASN324 ARG325 GLU326 ILE327 ILE328 SER329 GLU330 ASP331 ILE332 GLU333 ASP334 PHE335 GLU336 TYR337 THR338 PRO339 LYS340 PRO341 GLU342 TYR343 PRO344 GLY345 PHE346 PHE347 THR348 ILE349 PHE350 ASN351 GLU352 ASN353 ASP354 GLU355 VAL356 ALA357 LEU358 LEU359 GLN360 ARG361 PHE362 PHE363 GLU364 HIS365 ILE366 ARG367 ASP368 VAL369 ARG370 PRO371 THR372 VAL373 ILE374 SER375 THR376 PHE377 ASN378 GLY379 ASP380 PHE381 PHE382 ASP383 TRP384 PRO385 PHE386 ILE387 HIS388 ASN389 ARG390 SER391 LYS392 ILE393 HIS394 GLY395 LEU396 ASP397 MET398 PHE399 ASP400 GLU401 ILE402 GLY403 PHE404 ALA405 PRO406 ASP407 ALA408 GLU409 GLY410 GLU411 TYR412 LYS413 SER414 SER415 TYR416 CYS417 SER418 HIS419 MET420 ASP421 CYS422 PHE423 ARG424 TRP425 VAL426 LYS427 ARG428 ASP429 SER430 TYR431 LEU432 PRO433 GLN434 GLY435 SER436 GLN437 GLY438 LEU439 LYS440 ALA441 VAL442 THR443 GLN444 SER445 LYS446 LEU447 GLY448 TYR449 ASN450 PRO451 ILE452 GLU453 LEU454 ASP455 PRO456 GLU457 LEU458 MET459 THR460 PRO461 TYR462 ALA463 PHE464 GLU465 LYS466 PRO467 GLN468 HIS469 LEU470 SER471 GLU472 TYR473 SER474 VAL475 SER476 ASP477 ALA478 VAL479 ALA480 THR481 TYR482 TYR483 LEU484 TYR485 MET486 LYS487 TYR488 VAL489 HIS490 PRO491 PHE492 ILE493 PHE494 SER495 LEU496 CYS497 THR498 ILE499 ILE500 PRO501 LEU502 ASN503 PRO504 ASP505 GLU506 THR507 LEU508 ARG509 LYS510 GLY511 THR512 GLY513 THR514 LEU515 CYS516 GLU517 MET518 LEU519 LEU520 MET521 VAL522 GLN523 ALA524 TYR525 GLN526 HIS527 ASN528 ILE529 LEU530 LEU531 PRO532 ASN533 LYS534 HIS535 THR536 ASP537 PRO538 ILE539 GLU540 ARG541 PHE542 TYR543 ASP544 GLY545 HIS546 LEU547 LEU548 GLU549 SER550 GLU551 THR552 TYR553 VAL554 GLY555 GLY556 HIS557 VAL558 GLU559 SER560 LEU561 GLU562 ALA563 GLY564 VAL565 PHE566 ARG567 SER568 ASP569 LEU570 LYS571 ASN572 GLU573 PHE574 LYS575 ILE576 ASP577 PRO578 SER579 ALA580 ILE581 ASP582 GLU583 LEU584 LEU585 GLN586 GLU587 LEU588 PRO589 GLU590 ALA591 LEU592 LYS593 PHE594 SER595 VAL596 GLU597 VAL598 GLU599 ASN600 LYS601 SER602 SER603 VAL604 ASP605 LYS606 VAL607 THR608 ASN609 PHE610 GLU611 GLU612 ILE613 LYS614 ASN615 GLN616 ILE617 THR618 GLN619 LYS620 LEU621 LEU622 GLU623 LEU624 LYS625 GLU626 ASN627 ASN628 ILE629 ARG630 ASN631 GLU632 LEU633 PRO634 LEU635 ILE636 TYR637 HIS638 VAL639 ASP640 VAL641 ALA642 SER643 MET644 TYR645 PRO646 ASN647 ILE648 MET649 THR650 THR651 ASN652 ARG653 LEU654 GLN655 PRO656 ASP657 SER658 ILE659 LYS660 ALA661 GLU662 ARG663 ASP664 ALA678 ARG679 LYS680 LEU681 LYS682 TRP683 ALA684 TRP685 ARG686 GLY687 GLU688 PHE689 PHE690 PRO691 SER692 LYS693 MET694 ASP695 GLU696 TYR697 ASN698 MET699 ILE700 LYS701 ARG702 ALA703 LEU704 GLN705 ASN706 GLU707 THR708 PHE709 PRO710 ASN711 LYS712 ASN713 LYS714 PHE715 SER716 LYS717 LYS718 LYS719 VAL720 LEU721 THR722 PHE723 ASP724 GLU725 LEU726 SER727 TYR728 ALA729 ASP730 GLN731 VAL732 ILE733 HIS734 ILE735 LYS736 LYS737 ARG738 LEU739 THR740 GLU741 TYR742 SER743 ARG744 LYS745 VAL746 TYR747 HIS748 ARG749 VAL750 LYS751 VAL752 SER753 GLU754 ILE755 VAL756 GLU757 ARG758 GLU759 ALA760 ILE761 VAL762 CYS763 GLN764 ARG765 GLU766 ASN767 PRO768 PHE769 TYR770 VAL771 ASP772 THR773 VAL774 LYS775 SER776 PHE777 ARG778 ASP779 ARG780 ARG781 TYR782 GLU783 PHE784 LYS785 GLY786 LEU787 ALA788 LYS789 THR790 TRP791 LYS792 GLY793 ASN794 LEU795 SER796 LYS797 ILE798 ASP799 PRO800 SER801 ASP802 LYS803 HIS804 ALA805 ARG806 ASP807 GLU808 ALA809 LYS810 LYS811 MET812 ILE813 VAL814 LEU815 TYR816 ASP817 SER818 LEU819 GLN820 LEU821 ALA822 HIS823 LYS824 VAL825 ILE826 LEU827 ASN828 SER829 PHE830 TYR831 GLY832 TYR833 VAL834 MET835 ARG836 LYS837 GLY838 SER839 ARG840 TRP841 TYR842 SER843 MET844 GLU845 MET846 ALA847 GLY848 ILE849 THR850 CYS851 LEU852 THR853 GLY854 ALA855 THR856 ILE857 ILE858 GLN859 MET860 ALA861 ARG862 ALA863 LEU864 VAL865 GLU866 ARG867 VAL868 GLY869 ARG870 PRO871 LEU872 GLU873 LEU874 ASP875 THR876 ASP877 GLY878 ILE879 TRP880 CYS881 ILE882 LEU883 PRO884 LYS885 SER886 PHE887 PRO888 GLU889 THR890 TYR891 PHE892 PHE893 THR894 LEU895 GLU896 ASN897 GLY898 LYS899 LYS900 LEU901 TYR902 LEU903 SER904 TYR905 PRO906 CYS907 SER908 MET909 LEU910 ASN911 TYR912 ARG913 VAL914 HIS915 GLN916 LYS917 PHE918 THR919 ASN920 HIS921 GLN922 TYR923 GLN924 GLU925 LEU926 LYS927 ASP928 PRO929 LEU930 ASN931 TYR932 ILE933 TYR934 GLU935 THR936 HIS937 SER938 GLU939 ASN940 THR941 ILE942 PHE943 PHE944 GLU945 VAL946 ASP947 GLY948 PRO949 TYR950 LYS951 ALA952 MET953 ILE954 LEU955 PRO956 SER957 SER958 LYS959 GLU960 GLU961 GLY962 LYS963 GLY964 ILE965 LYS966 LYS967 ARG968 TYR969 ALA970 VAL971 PHE972 ASN973 GLU974 ASP975 GLY976 SER977 LEU978 ALA979 GLU980 LEU981 LYS982 GLY983 PHE984 GLU985 LEU986 LYS987 ARG988 ARG989 GLY990 GLU991 LEU992 GLN993 LEU994 ILE995 LYS996 ASN997 PHE998 GLN999 SER1000 ASP1001 ILE1002 PHE1003 LYS1004 VAL1005 PHE1006 LEU1007 GLU1008 GLY1009 ASP1010 THR1011 LEU1012 GLU1013 GLY1014 CYS1015 TYR1016 SER1017 ALA1018 VAL1019 ALA1020 SER1021 VAL1022 CYS1023 ASN1024 ARG1025 TRP1026 LEU1027 ASP1028 VAL1029 LEU1030 ASP1031 SER1032 HIS1033 GLY1034 LEU1035 MET1036 LEU1037 GLU1038 ASP1039 GLU1040 ASP1041 LEU1042 VAL1043 SER1044 LEU1045 ILE1046 CYS1047 GLU1048 ASN1049 ARG1050 SER1051 MET1052 SER1053 LYS1054 THR1055 LEU1056 LYS1057 GLU1058 TYR1059 GLU1060 GLY1061 GLN1062 LYS1063 SER1064 THR1065 SER1066 ILE1067 THR1068 THR1069 ALA1070 ARG1071 ARG1072 LEU1073 GLY1074 ASP1075 PHE1076 LEU1077 GLY1078 GLU1079 ASP1080 MET1081 VAL1082 LYS1083 ASP1084 LYS1085 GLY1086 LEU1087 GLN1088 CYS1089 LYS1090 TYR1091 ILE1092 ILE1093 SER1094 SER1095 LYS1096 PRO1097 PHE1098 ASN1099 ALA1100 PRO1101 VAL1102 THR1103 GLU1104 ARG1105 ALA1106 ILE1107 PRO1108 VAL1109 ALA1110 ILE1111 PHE1112 SER1113 ALA1114 ASP1115 ILE1116 PRO1117 ILE1118 LYS1119 ARG1120 SER1121 PHE1122 LEU1123 ARG1124 ARG1125 TRP1126 THR1127 LEU1128 ASP1129 PRO1130 SER1131 LEU1132 GLU1133 ASP1134 LEU1135 ASP1136 ILE1137 ARG1138 THR1139 ILE1140 ILE1141 ASP1142 TRP1143 GLY1144 TYR1145 TYR1146 ARG1147 GLU1148 ARG1149 LEU1150 GLY1151 SER1152 ALA1153 ILE1154 GLN1155 LYS1156 ILE1157 ILE1158 THR1159 ILE1160 PRO1161 ALA1162 ALA1163 LEU1164 GLN1165 GLY1166 VAL1167 SER1168 ASN1169 PRO1170 VAL1171 PRO1172 ARG1173 VAL1174 GLU1175 HIS1176 PRO1177 ASP1178 TRP1179 LEU1180 LYS1181 ARG1182 LYS1183 ILE1184 ALA1185
Nucleic acids
Unit 2 DT2 DC3 DC4 DT5 DC6 DC7 DC8 DC9 DT10 DA11 DOC12
Other macromolecules
Unit 3 DT1 DA2 DA3 DG4 DG5 DT6 DA7 DG8 DG9 DG10 DG11 DA12 DG13 DG14 DA15
Ligands
Unit 4 DCP1201 CA1202 CA1203 CA1204 NA1205
Unit 5 CA101 EDO102
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