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| Title | CRYSTAL STRUCTURE OF YEAST DNA POLYMERASE ALPHA BOUND TO DNA DGTP | |
| Keywords | DNA POLYMERASE, DNA REPLICATION, TRANSFERASE-DNA COMPLEX | |
| Experiment | X-ray diffraction | |
| Number of Models | 1 |
| Database | ID code | Status | Coordinate files | ||
| Header | Asymmetric unit | Biological unit | |||
| PDB | 4FYD | released | available | available | Quaternary Structure Server |
| Unit | Type | Name | Chain ID | Residues | Atoms | Hetatoms |
|---|---|---|---|---|---|---|
| 1 | Protein | DNA POLYMERASE ALPHA CATALYTIC SUBUNIT A | A | 848 | 13634 | 0 |
| 2 | Protein | DNA POLYMERASE ALPHA CATALYTIC SUBUNIT A | B | 848 | 13634 | 0 |
| 3 | Other macromolecule | DNA (5'- D(*TP*GP*AP*GP*CP*GP*TP*G*TP*GP*TP*AP*CP*CP*CP*CP*TP*GP*CP* P*CP*G)-3') | C | 16 | 494 | 0 |
| 4 | Other macromolecule | DNA (5'- D(*TP*GP*AP*GP*CP*GP*TP*G*TP*GP*TP*AP*CP*CP*CP*CP*TP*GP*CP* P*CP*G)-3') | D | 16 | 494 | 0 |
| 5 | RNA | E | 12 | 395 | 0 | |
| 6 | RNA | F | 12 | 395 | 0 | |
| 7 | Ligand | DNA POLYMERASE ALPHA CATALYTIC SUBUNIT A | A | 1 | 0 | 31 |
| 8 | Ligand | DNA POLYMERASE ALPHA CATALYTIC SUBUNIT A | B | 1 | 0 | 31 |
| total | 1754 | 29046 | 62 |
| Unit 1 | THR349 ASP350 THR351 PHE352 GLN353 MET354 PHE355 TRP356 LEU357 ASP358 TYR359 CYS360 GLU361 VAL362 ASN363 ASN364 THR365 LEU366 ILE367 LEU368 PHE369 GLY370 LYS371 VAL372 LYS373 LEU374 LYS375 ASP376 ASP377 ASN378 CYS379 VAL380 SER381 ALA382 MET383 VAL384 GLN385 ILE386 ASN387 GLY388 LEU389 CYS390 ARG391 GLU392 LEU393 PHE394 PHE395 LEU396 PRO397 ARG398 GLU399 GLY400 LYS401 THR402 PRO403 THR404 ASP405 ILE406 HIS407 GLU408 GLU409 ILE410 ILE411 PRO412 LEU413 LEU414 MET415 ASP416 LYS417 TYR418 GLY419 LEU420 ASP421 ASN422 ILE423 ARG424 ALA425 LYS426 PRO427 GLN428 LYS429 MET430 LYS431 TYR432 SER433 PHE434 GLU435 LEU436 PRO437 ASP438 ILE439 PRO440 SER441 GLU442 SER443 ASP444 TYR445 LEU446 LYS447 VAL448 LEU449 LEU450 PRO451 TYR452 GLN453 THR454 PRO455 LYS456 SER457 SER458 ARG459 ASP460 THR461 ILE462 PRO463 SER464 ASP465 LEU466 SER467 SER468 ASP469 THR470 PHE471 TYR472 HIS473 VAL474 PHE475 GLY476 GLY477 ASN478 SER479 ASN480 ILE481 PHE482 GLU483 SER484 PHE485 VAL486 ILE487 GLN488 ASN489 ARG490 ILE491 MET492 GLY493 PRO494 CYS495 TRP496 LEU497 ASP498 ILE499 LYS500 GLY501 ALA502 ASP503 PHE504 ASN505 SER506 SER511 HIS512 CYS513 ALA514 VAL515 GLU516 VAL517 SER518 VAL519 ASP520 LYS521 PRO522 GLN523 ASN524 ILE525 THR526 PRO527 THR528 THR529 THR530 LYS531 THR532 MET533 PRO534 ASN535 LEU536 ARG537 CYS538 LEU539 SER540 LEU541 SER542 ILE543 GLN544 THR545 LEU546 MET547 ASN548 PRO549 LYS550 GLU551 ASN552 LYS553 GLN554 GLU555 ILE556 VAL557 SER558 ILE559 THR560 LEU561 SER562 ALA563 TYR564 ARG565 ASN566 ILE567 SER568 LEU569 ASP570 SER571 PRO572 ILE573 PRO574 GLU575 ASN576 ILE577 LYS578 PRO579 ASP580 ASP581 LEU582 CYS583 THR584 LEU585 VAL586 ARG587 PRO588 PRO589 GLN590 SER591 THR592 SER593 PHE594 PRO595 LEU596 GLY597 LEU598 ALA599 ALA600 LEU601 ALA602 LYS603 GLN604 LYS605 LEU606 PRO607 GLY608 ARG609 VAL610 ARG611 LEU612 PHE613 ASN614 ASN615 GLU616 LYS617 ALA618 MET619 LEU620 SER621 CYS622 PHE623 CYS624 ALA625 MET626 LEU627 LYS628 VAL629 GLU630 ASP631 PRO632 ASP633 VAL634 ILE635 ILE636 GLY637 HIS638 ARG639 LEU640 GLN641 ASN642 VAL643 TYR644 LEU645 ASP646 VAL647 LEU648 ALA649 HIS650 ARG651 MET652 HIS653 ASP654 LEU655 ASN656 ILE657 PRO658 THR659 PHE660 SER661 SER662 ILE663 GLY664 ARG665 ARG666 LEU667 ARG668 ARG669 THR670 TRP671 PRO672 GLU673 LYS674 PHE675 GLY676 ASN681 MET682 ASN683 HIS684 PHE685 PHE686 ILE687 SER688 ASP689 ILE690 CYS691 SER692 GLY693 ARG694 LEU695 ILE696 CYS697 ASP698 ILE699 ALA700 ASN701 GLU702 MET703 GLY704 GLN705 SER706 LEU707 THR708 PRO709 LYS710 CYS711 GLN712 SER713 TRP714 ASP715 LEU716 SER717 GLU718 MET719 TYR720 GLN721 VAL722 THR723 CYS724 GLU725 LYS726 GLU727 HIS728 LYS729 PRO730 LEU731 ASP732 ILE733 ASP734 TYR735 GLN736 ASN737 PRO738 GLN739 TYR740 GLN741 ASN742 ASP743 VAL744 ASN745 SER746 MET747 THR748 MET749 ALA750 LEU751 GLN752 GLU753 ASN754 ILE755 THR756 ASN757 CYS758 MET759 ILE760 SER761 ALA762 GLU763 VAL764 SER765 TYR766 ARG767 ILE768 GLN769 LEU770 LEU771 THR772 LEU773 THR774 LYS775 GLN776 LEU777 THR778 ASN779 LEU780 ALA781 GLY782 ASN783 ALA784 TRP785 ALA786 GLN787 THR788 LEU789 GLY790 GLY791 THR792 ARG793 ALA794 GLY795 ARG796 ASN797 GLU798 TYR799 ILE800 LEU801 LEU802 HIS803 GLU804 PHE805 SER806 ARG807 ASN808 GLY809 PHE810 ILE811 VAL812 PRO813 ASP814 LYS815 ALA841 LYS842 TYR843 GLN844 GLY845 GLY846 LEU847 VAL848 PHE849 GLU850 PRO851 GLU852 LYS853 GLY854 LEU855 HIS856 LYS857 ASN858 TYR859 VAL860 LEU861 VAL862 MET863 ASP864 PHE865 ASN866 SER867 LEU868 TYR869 PRO870 SER871 ILE872 ILE873 GLN874 GLU875 PHE876 ASN877 ILE878 CYS879 PHE880 THR881 THR882 VAL883 ASP884 ARG885 ASN886 LYS887 GLU888 ASP889 ILE890 ASP891 GLU892 LEU893 PRO894 SER895 VAL896 PRO897 PRO898 SER899 GLU900 VAL901 ASP902 GLN903 GLY904 VAL905 LEU906 PRO907 ARG908 LEU909 LEU910 ALA911 ASN912 LEU913 VAL914 ASP915 ARG916 ARG917 ARG918 GLU919 VAL920 LYS921 LYS922 VAL923 MET924 LYS925 THR926 GLU927 THR928 ASP929 PRO930 HIS931 LYS932 ARG933 VAL934 GLN935 CYS936 ASP937 ILE938 ARG939 GLN940 GLN941 ALA942 LEU943 LYS944 LEU945 THR946 ALA947 ASN948 SER949 MET950 TYR951 GLY952 CYS953 LEU954 GLY955 TYR956 VAL957 ASN958 SER959 ARG960 PHE961 TYR962 ALA963 LYS964 PRO965 LEU966 ALA967 MET968 LEU969 VAL970 THR971 ASN972 LYS973 GLY974 ARG975 GLU976 ILE977 LEU978 MET979 ASN980 THR981 ARG982 GLN983 LEU984 ALA985 GLU986 SER987 MET988 ASN989 LEU990 LEU991 VAL992 VAL993 TYR994 GLY995 ASP996 THR997 ASN998 SER999 VAL1000 MET1001 ILE1002 ASP1003 THR1004 GLY1005 CYS1006 ASP1007 ASN1008 TYR1009 ALA1010 ASP1011 ALA1012 ILE1013 LYS1014 ILE1015 GLY1016 LEU1017 GLY1018 PHE1019 LYS1020 ARG1021 LEU1022 VAL1023 ASN1024 GLU1025 ARG1026 TYR1027 ARG1028 LEU1029 LEU1030 GLU1031 ILE1032 ASP1033 ILE1034 ASP1035 ASN1036 VAL1037 PHE1038 LYS1039 LYS1040 LEU1041 LEU1042 LEU1043 HIS1044 ALA1045 LYS1046 LYS1047 LYS1048 TYR1049 ALA1050 ALA1051 LEU1052 THR1053 VAL1054 ASN1055 LEU1056 ASP1057 LYS1058 ASN1059 GLY1060 ASN1061 GLY1062 THR1063 THR1064 VAL1065 LEU1066 GLU1067 VAL1068 LYS1069 GLY1070 LEU1071 ASP1072 MET1073 LYS1074 ARG1075 ARG1076 GLU1077 PHE1078 CYS1079 PRO1080 LEU1081 SER1082 ARG1083 ASP1084 VAL1085 SER1086 ILE1087 HIS1088 VAL1089 LEU1090 ASN1091 THR1092 ILE1093 LEU1094 SER1095 ASP1096 LYS1097 ASP1098 PRO1099 GLU1100 GLU1101 ALA1102 LEU1103 GLN1104 GLU1105 VAL1106 TYR1107 ASP1108 TYR1109 LEU1110 GLU1111 ASP1112 ILE1113 ARG1114 ILE1115 LYS1116 VAL1117 GLU1118 THR1119 ASN1120 ASN1121 ILE1122 ARG1123 ILE1124 ASP1125 LYS1126 TYR1127 LYS1128 ILE1129 ASN1130 MET1131 LYS1132 LEU1133 SER1134 LYS1135 ASP1136 PRO1137 LYS1138 ALA1139 TYR1140 PRO1141 GLY1142 GLY1143 LYS1144 ASN1145 MET1146 PRO1147 ALA1148 VAL1149 GLN1150 VAL1151 ALA1152 LEU1153 ARG1154 MET1155 ARG1156 LYS1157 ALA1158 GLY1159 ARG1160 VAL1161 VAL1162 LYS1163 ALA1164 GLY1165 SER1166 VAL1167 ILE1168 THR1169 PHE1170 VAL1171 ILE1172 THR1173 LYS1174 SER1188 VAL1189 ALA1190 GLU1191 ARG1192 ALA1193 HIS1194 ALA1195 LEU1196 ASN1197 GLU1198 VAL1199 MET1200 ILE1201 LYS1202 SER1203 ASN1204 ASN1205 LEU1206 ILE1207 PRO1208 ASP1209 PRO1210 GLN1211 TYR1212 TYR1213 LEU1214 GLU1215 LYS1216 GLN1217 ILE1218 PHE1219 ALA1220 PRO1221 VAL1222 GLU1223 ARG1224 LEU1225 LEU1226 GLU1227 ARG1228 ILE1229 ASP1230 SER1231 PHE1232 ASN1233 VAL1234 VAL1235 ARG1236 LEU1237 SER1238 GLU1239 ALA1240 LEU1241 GLY1242 |
| Unit 2 | THR349 ASP350 THR351 PHE352 GLN353 MET354 PHE355 TRP356 LEU357 ASP358 TYR359 CYS360 GLU361 VAL362 ASN363 ASN364 THR365 LEU366 ILE367 LEU368 PHE369 GLY370 LYS371 VAL372 LYS373 LEU374 LYS375 ASP376 ASP377 ASN378 CYS379 VAL380 SER381 ALA382 MET383 VAL384 GLN385 ILE386 ASN387 GLY388 LEU389 CYS390 ARG391 GLU392 LEU393 PHE394 PHE395 LEU396 PRO397 ARG398 GLU399 GLY400 LYS401 THR402 PRO403 THR404 ASP405 ILE406 HIS407 GLU408 GLU409 ILE410 ILE411 PRO412 LEU413 LEU414 MET415 ASP416 LYS417 TYR418 GLY419 LEU420 ASP421 ASN422 ILE423 ARG424 ALA425 LYS426 PRO427 GLN428 LYS429 MET430 LYS431 TYR432 SER433 PHE434 GLU435 LEU436 PRO437 ASP438 ILE439 PRO440 SER441 GLU442 SER443 ASP444 TYR445 LEU446 LYS447 VAL448 LEU449 LEU450 PRO451 TYR452 GLN453 THR454 PRO455 LYS456 SER457 SER458 ARG459 ASP460 THR461 ILE462 PRO463 SER464 ASP465 LEU466 SER467 SER468 ASP469 THR470 PHE471 TYR472 HIS473 VAL474 PHE475 GLY476 GLY477 ASN478 SER479 ASN480 ILE481 PHE482 GLU483 SER484 PHE485 VAL486 ILE487 GLN488 ASN489 ARG490 ILE491 MET492 GLY493 PRO494 CYS495 TRP496 LEU497 ASP498 ILE499 LYS500 GLY501 ALA502 ASP503 PHE504 ASN505 SER506 SER511 HIS512 CYS513 ALA514 VAL515 GLU516 VAL517 SER518 VAL519 ASP520 LYS521 PRO522 GLN523 ASN524 ILE525 THR526 PRO527 THR528 THR529 THR530 LYS531 THR532 MET533 PRO534 ASN535 LEU536 ARG537 CYS538 LEU539 SER540 LEU541 SER542 ILE543 GLN544 THR545 LEU546 MET547 ASN548 PRO549 LYS550 GLU551 ASN552 LYS553 GLN554 GLU555 ILE556 VAL557 SER558 ILE559 THR560 LEU561 SER562 ALA563 TYR564 ARG565 ASN566 ILE567 SER568 LEU569 ASP570 SER571 PRO572 ILE573 PRO574 GLU575 ASN576 ILE577 LYS578 PRO579 ASP580 ASP581 LEU582 CYS583 THR584 LEU585 VAL586 ARG587 PRO588 PRO589 GLN590 SER591 THR592 SER593 PHE594 PRO595 LEU596 GLY597 LEU598 ALA599 ALA600 LEU601 ALA602 LYS603 GLN604 LYS605 LEU606 PRO607 GLY608 ARG609 VAL610 ARG611 LEU612 PHE613 ASN614 ASN615 GLU616 LYS617 ALA618 MET619 LEU620 SER621 CYS622 PHE623 CYS624 ALA625 MET626 LEU627 LYS628 VAL629 GLU630 ASP631 PRO632 ASP633 VAL634 ILE635 ILE636 GLY637 HIS638 ARG639 LEU640 GLN641 ASN642 VAL643 TYR644 LEU645 ASP646 VAL647 LEU648 ALA649 HIS650 ARG651 MET652 HIS653 ASP654 LEU655 ASN656 ILE657 PRO658 THR659 PHE660 SER661 SER662 ILE663 GLY664 ARG665 ARG666 LEU667 ARG668 ARG669 THR670 TRP671 PRO672 GLU673 LYS674 PHE675 GLY676 ASN681 MET682 ASN683 HIS684 PHE685 PHE686 ILE687 SER688 ASP689 ILE690 CYS691 SER692 GLY693 ARG694 LEU695 ILE696 CYS697 ASP698 ILE699 ALA700 ASN701 GLU702 MET703 GLY704 GLN705 SER706 LEU707 THR708 PRO709 LYS710 CYS711 GLN712 SER713 TRP714 ASP715 LEU716 SER717 GLU718 MET719 TYR720 GLN721 VAL722 THR723 CYS724 GLU725 LYS726 GLU727 HIS728 LYS729 PRO730 LEU731 ASP732 ILE733 ASP734 TYR735 GLN736 ASN737 PRO738 GLN739 TYR740 GLN741 ASN742 ASP743 VAL744 ASN745 SER746 MET747 THR748 MET749 ALA750 LEU751 GLN752 GLU753 ASN754 ILE755 THR756 ASN757 CYS758 MET759 ILE760 SER761 ALA762 GLU763 VAL764 SER765 TYR766 ARG767 ILE768 GLN769 LEU770 LEU771 THR772 LEU773 THR774 LYS775 GLN776 LEU777 THR778 ASN779 LEU780 ALA781 GLY782 ASN783 ALA784 TRP785 ALA786 GLN787 THR788 LEU789 GLY790 GLY791 THR792 ARG793 ALA794 GLY795 ARG796 ASN797 GLU798 TYR799 ILE800 LEU801 LEU802 HIS803 GLU804 PHE805 SER806 ARG807 ASN808 GLY809 PHE810 ILE811 VAL812 PRO813 ASP814 LYS815 ALA841 LYS842 TYR843 GLN844 GLY845 GLY846 LEU847 VAL848 PHE849 GLU850 PRO851 GLU852 LYS853 GLY854 LEU855 HIS856 LYS857 ASN858 TYR859 VAL860 LEU861 VAL862 MET863 ASP864 PHE865 ASN866 SER867 LEU868 TYR869 PRO870 SER871 ILE872 ILE873 GLN874 GLU875 PHE876 ASN877 ILE878 CYS879 PHE880 THR881 THR882 VAL883 ASP884 ARG885 ASN886 LYS887 GLU888 ASP889 ILE890 ASP891 GLU892 LEU893 PRO894 SER895 VAL896 PRO897 PRO898 SER899 GLU900 VAL901 ASP902 GLN903 GLY904 VAL905 LEU906 PRO907 ARG908 LEU909 LEU910 ALA911 ASN912 LEU913 VAL914 ASP915 ARG916 ARG917 ARG918 GLU919 VAL920 LYS921 LYS922 VAL923 MET924 LYS925 THR926 GLU927 THR928 ASP929 PRO930 HIS931 LYS932 ARG933 VAL934 GLN935 CYS936 ASP937 ILE938 ARG939 GLN940 GLN941 ALA942 LEU943 LYS944 LEU945 THR946 ALA947 ASN948 SER949 MET950 TYR951 GLY952 CYS953 LEU954 GLY955 TYR956 VAL957 ASN958 SER959 ARG960 PHE961 TYR962 ALA963 LYS964 PRO965 LEU966 ALA967 MET968 LEU969 VAL970 THR971 ASN972 LYS973 GLY974 ARG975 GLU976 ILE977 LEU978 MET979 ASN980 THR981 ARG982 GLN983 LEU984 ALA985 GLU986 SER987 MET988 ASN989 LEU990 LEU991 VAL992 VAL993 TYR994 GLY995 ASP996 THR997 ASN998 SER999 VAL1000 MET1001 ILE1002 ASP1003 THR1004 GLY1005 CYS1006 ASP1007 ASN1008 TYR1009 ALA1010 ASP1011 ALA1012 ILE1013 LYS1014 ILE1015 GLY1016 LEU1017 GLY1018 PHE1019 LYS1020 ARG1021 LEU1022 VAL1023 ASN1024 GLU1025 ARG1026 TYR1027 ARG1028 LEU1029 LEU1030 GLU1031 ILE1032 ASP1033 ILE1034 ASP1035 ASN1036 VAL1037 PHE1038 LYS1039 LYS1040 LEU1041 LEU1042 LEU1043 HIS1044 ALA1045 LYS1046 LYS1047 LYS1048 TYR1049 ALA1050 ALA1051 LEU1052 THR1053 VAL1054 ASN1055 LEU1056 ASP1057 LYS1058 ASN1059 GLY1060 ASN1061 GLY1062 THR1063 THR1064 VAL1065 LEU1066 GLU1067 VAL1068 LYS1069 GLY1070 LEU1071 ASP1072 MET1073 LYS1074 ARG1075 ARG1076 GLU1077 PHE1078 CYS1079 PRO1080 LEU1081 SER1082 ARG1083 ASP1084 VAL1085 SER1086 ILE1087 HIS1088 VAL1089 LEU1090 ASN1091 THR1092 ILE1093 LEU1094 SER1095 ASP1096 LYS1097 ASP1098 PRO1099 GLU1100 GLU1101 ALA1102 LEU1103 GLN1104 GLU1105 VAL1106 TYR1107 ASP1108 TYR1109 LEU1110 GLU1111 ASP1112 ILE1113 ARG1114 ILE1115 LYS1116 VAL1117 GLU1118 THR1119 ASN1120 ASN1121 ILE1122 ARG1123 ILE1124 ASP1125 LYS1126 TYR1127 LYS1128 ILE1129 ASN1130 MET1131 LYS1132 LEU1133 SER1134 LYS1135 ASP1136 PRO1137 LYS1138 ALA1139 TYR1140 PRO1141 GLY1142 GLY1143 LYS1144 ASN1145 MET1146 PRO1147 ALA1148 VAL1149 GLN1150 VAL1151 ALA1152 LEU1153 ARG1154 MET1155 ARG1156 LYS1157 ALA1158 GLY1159 ARG1160 VAL1161 VAL1162 LYS1163 ALA1164 GLY1165 SER1166 VAL1167 ILE1168 THR1169 PHE1170 VAL1171 ILE1172 THR1173 LYS1174 SER1188 VAL1189 ALA1190 GLU1191 ARG1192 ALA1193 HIS1194 ALA1195 LEU1196 ASN1197 GLU1198 VAL1199 MET1200 ILE1201 LYS1202 SER1203 ASN1204 ASN1205 LEU1206 ILE1207 PRO1208 ASP1209 PRO1210 GLN1211 TYR1212 TYR1213 LEU1214 GLU1215 LYS1216 GLN1217 ILE1218 PHE1219 ALA1220 PRO1221 VAL1222 GLU1223 ARG1224 LEU1225 LEU1226 GLU1227 ARG1228 ILE1229 ASP1230 SER1231 PHE1232 ASN1233 VAL1234 VAL1235 ARG1236 LEU1237 SER1238 GLU1239 ALA1240 LEU1241 GLY1242 |
| Unit 5 | C1 G2 G3 C4 G5 G6 G7 C8 A9 G10 DG11 DG12 |
| Unit 6 | C1 G2 G3 C4 G5 G6 G7 C8 A9 G10 DG11 DG12 |
| Unit 3 | DT1 DG2 DT3 DA4 DC5 DC6 DC7 DC8 DT9 DG10 DC11 DC12 DC13 DG14 DC15 DC16 |
| Unit 4 | DT1 DG2 DT3 DA4 DC5 DC6 DC7 DC8 DT9 DG10 DC11 DC12 DC13 DG14 DC15 DC16 |
| Unit 7 | DGT1301 |
| Unit 8 | DGT1301 |
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 |