Jena Library of Biological Macromolecules - Home Page [Image Library Home] [Image Library Entry]

Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF THE CATALYTIC CORE OF HUMAN DNA POLYMER IN TERNARY COMPLEX WITH AN RNA-PRIMED DNA TEMPLATE AND APHI
Keywords B-FAMILY DNA POLYMERASE, DNA REPLICATION, TRANSFERASE-DNA-RN
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   4Q5V     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   DNA POLYMERASE ALPHA CATALYTIC SUBUNIT  A 865 6947 0
2  RNA    B 11 232 0
3  Other macromolecule   DNA TEMPLATE  C 13 264 0
4  Protein   DNA POLYMERASE ALPHA CATALYTIC SUBUNIT  E 865 6947 0
5  RNA    F 11 232 0
6  Other macromolecule   DNA TEMPLATE  G 13 264 0
7  Ligand   DNA POLYMERASE ALPHA CATALYTIC SUBUNIT  A 1 0 24
8  Ligand   DNA POLYMERASE ALPHA CATALYTIC SUBUNIT  E 1 0 24
9 Water     151 0 151
total       1931 14886 199
Proteins
Unit 1 GLU338 GLN339 VAL340 PHE341 HIS342 PHE343 TYR344 TRP345 LEU346 ASP347 ALA348 TYR349 GLU350 ASP351 GLN352 TYR353 ASN354 GLN355 PRO356 GLY357 VAL358 VAL359 PHE360 LEU361 PHE362 GLY363 LYS364 VAL365 TRP366 ILE367 GLU368 SER369 ALA370 GLU371 THR372 HIS373 VAL374 SER375 CYS376 CYS377 VAL378 MET379 VAL380 LYS381 ASN382 ILE383 GLU384 ARG385 THR386 LEU387 TYR388 PHE389 LEU390 PRO391 ARG392 GLU393 MET394 LYS395 ILE396 ASP397 LEU398 ASN399 THR400 GLY401 LYS402 GLU403 THR404 GLY405 THR406 PRO407 ILE408 SER409 MET410 LYS411 ASP412 VAL413 TYR414 GLU415 GLU416 PHE417 ASP418 GLU419 LYS420 ILE421 ALA422 THR423 LYS424 TYR425 LYS426 ILE427 MET428 LYS429 PHE430 LYS431 SER432 LYS433 PRO434 VAL435 GLU436 LYS437 ASN438 TYR439 ALA440 PHE441 GLU442 ILE443 PRO444 ASP445 VAL446 PRO447 GLU448 LYS449 SER450 GLU451 TYR452 LEU453 GLU454 VAL455 LYS456 TYR457 SER458 ALA459 GLU460 MET461 PRO462 GLN463 LEU464 PRO465 GLN466 ASP467 LEU468 LYS469 GLY470 GLU471 THR472 PHE473 SER474 HIS475 VAL476 PHE477 GLY478 THR479 ASN480 THR481 SER482 SER483 LEU484 GLU485 LEU486 PHE487 LEU488 MET489 ASN490 ARG491 LYS492 ILE493 LYS494 GLY495 PRO496 CYS497 TRP498 LEU499 GLU500 VAL501 LYS502 SER503 PRO504 GLN505 LEU506 LEU507 ASN508 GLN509 PRO510 VAL511 SER512 TRP513 CYS514 LYS515 ALA516 GLU517 ALA518 MET519 ALA520 LEU521 LYS522 PRO523 ASP524 LEU525 VAL526 ASN527 VAL528 ILE529 LYS530 ASP531 VAL532 SER533 PRO534 PRO535 PRO536 LEU537 VAL538 VAL539 MET540 ALA541 PHE542 SER543 MET544 LYS545 THR546 MET547 GLN548 ASN549 ALA550 LYS551 ASN552 HIS553 GLN554 ASN555 GLU556 ILE557 ILE558 ALA559 MET560 ALA561 ALA562 LEU563 VAL564 HIS565 HIS566 SER567 PHE568 ALA569 LEU570 ASP571 LYS572 ALA573 ALA574 PRO575 LYS576 PRO577 PRO578 PHE579 GLN580 SER581 HIS582 PHE583 CYS584 VAL585 VAL586 SER587 LYS588 PRO589 LYS590 ASP591 CYS592 ILE593 PHE594 PRO595 TYR596 ALA597 PHE598 LYS599 GLU600 VAL601 ILE602 GLU603 LYS604 LYS605 ASN606 VAL607 LYS608 VAL609 GLU610 VAL611 ALA612 ALA613 THR614 GLU615 ARG616 THR617 LEU618 LEU619 GLY620 PHE621 PHE622 LEU623 ALA624 LYS625 VAL626 HIS627 LYS628 ILE629 ASP630 PRO631 ASP632 ILE633 ILE634 VAL635 GLY636 HIS637 ASN638 ILE639 TYR640 GLY641 PHE642 GLU643 LEU644 GLU645 VAL646 LEU647 LEU648 GLN649 ARG650 ILE651 ASN652 VAL653 CYS654 LYS655 ALA656 PRO657 HIS658 TRP659 SER660 LYS661 ILE662 GLY663 ARG664 LEU665 LYS666 ARG667 SER668 ASN669 MET670 PRO671 LYS672 LEU673 GLY678 PHE679 GLY680 GLU681 ARG682 ASN683 ALA684 THR685 CYS686 GLY687 ARG688 MET689 ILE690 CYS691 ASP692 VAL693 GLU694 ILE695 SER696 ALA697 LYS698 GLU699 LEU700 ILE701 ARG702 CYS703 LYS704 SER705 TYR706 HIS707 LEU708 SER709 GLU710 LEU711 VAL712 GLN713 GLN714 ILE715 LEU716 LYS717 THR718 GLU719 ARG720 VAL721 VAL722 ILE723 PRO724 MET725 GLU726 ASN727 ILE728 GLN729 ASN730 MET731 TYR732 SER733 GLU734 SER735 SER736 GLN737 LEU738 LEU739 TYR740 LEU741 LEU742 GLU743 HIS744 THR745 TRP746 LYS747 ASP748 ALA749 LYS750 PHE751 ILE752 LEU753 GLN754 ILE755 MET756 CYS757 GLU758 LEU759 ASN760 VAL761 LEU762 PRO763 LEU764 ALA765 LEU766 GLN767 ILE768 THR769 ASN770 ILE771 ALA772 GLY773 ASN774 ILE775 MET776 SER777 ARG778 THR779 LEU780 MET781 GLY782 GLY783 ARG784 SER785 GLU786 ARG787 ASN788 GLU789 PHE790 LEU791 LEU792 LEU793 HIS794 ALA795 PHE796 TYR797 GLU798 ASN799 ASN800 TYR801 ILE802 VAL803 PRO804 ASP805 LYS806 GLN807 ILE808 ARG834 LYS835 LYS836 ALA837 ALA838 TYR839 ALA840 GLY841 GLY842 LEU843 VAL844 LEU845 ASP846 PRO847 LYS848 VAL849 GLY850 PHE851 TYR852 ASP853 LYS854 PHE855 ILE856 LEU857 LEU858 LEU859 ASP860 PHE861 ASN862 SER863 LEU864 TYR865 PRO866 SER867 ILE868 ILE869 GLN870 GLU871 PHE872 ASN873 ILE874 CYS875 PHE876 THR877 THR878 VAL879 GLN880 ARG881 VAL882 GLU896 GLN897 ILE898 PRO899 GLU900 LEU901 PRO902 ASP903 PRO904 SER905 LEU906 GLU907 MET908 GLY909 ILE910 LEU911 PRO912 ARG913 GLU914 ILE915 ARG916 LYS917 LEU918 VAL919 GLU920 ARG921 ARG922 LYS923 GLN924 VAL925 LYS926 GLN927 LEU928 MET929 LYS930 GLN931 GLN932 ASP933 LEU934 ASN935 PRO936 ASP937 LEU938 ILE939 LEU940 GLN941 TYR942 ASP943 ILE944 ARG945 GLN946 LYS947 ALA948 LEU949 LYS950 LEU951 THR952 ALA953 ASN954 SER955 MET956 TYR957 GLY958 CYS959 LEU960 GLY961 PHE962 SER963 TYR964 SER965 ARG966 PHE967 TYR968 ALA969 LYS970 PRO971 LEU972 ALA973 ALA974 LEU975 VAL976 THR977 TYR978 LYS979 GLY980 ARG981 GLU982 ILE983 LEU984 MET985 HIS986 THR987 LYS988 GLU989 MET990 VAL991 GLN992 LYS993 MET994 ASN995 LEU996 GLU997 VAL998 ILE999 TYR1000 GLY1001 ASP1002 THR1003 ASP1004 SER1005 ILE1006 MET1007 ILE1008 ASN1009 THR1010 ASN1011 SER1012 THR1013 ASN1014 LEU1015 GLU1016 GLU1017 VAL1018 PHE1019 LYS1020 LEU1021 GLY1022 ASN1023 LYS1024 VAL1025 LYS1026 SER1027 GLU1028 VAL1029 ASN1030 LYS1031 LEU1032 TYR1033 LYS1034 LEU1035 LEU1036 GLU1037 ILE1038 ASP1039 ILE1040 ASP1041 GLY1042 VAL1043 PHE1044 LYS1045 SER1046 LEU1047 LEU1048 LEU1049 LEU1050 LYS1051 LYS1052 LYS1053 LYS1054 TYR1055 ALA1056 ALA1057 LEU1058 VAL1059 VAL1060 GLU1061 PRO1062 THR1063 SER1064 ASP1065 GLY1066 ASN1067 TYR1068 VAL1069 THR1070 LYS1071 GLN1072 GLU1073 LEU1074 LYS1075 GLY1076 LEU1077 ASP1078 ILE1079 VAL1080 ARG1081 ARG1082 ASP1083 TRP1084 CYS1085 ASP1086 LEU1087 ALA1088 LYS1089 ASP1090 THR1091 GLY1092 ASN1093 PHE1094 VAL1095 ILE1096 GLY1097 GLN1098 ILE1099 LEU1100 SER1101 ASP1102 GLN1103 SER1104 ARG1105 ASP1106 THR1107 ILE1108 VAL1109 GLU1110 ASN1111 ILE1112 GLN1113 LYS1114 ARG1115 LEU1116 ILE1117 GLU1118 ILE1119 GLY1120 GLU1121 ASN1122 VAL1123 LEU1124 ASN1125 GLY1126 SER1127 VAL1128 PRO1129 VAL1130 SER1131 GLN1132 PHE1133 GLU1134 ILE1135 ASN1136 LYS1137 ALA1138 LEU1139 THR1140 LYS1141 ASP1142 PRO1143 GLN1144 ASP1145 TYR1146 PRO1147 ASP1148 LYS1149 LYS1150 SER1151 LEU1152 PRO1153 HIS1154 VAL1155 HIS1156 VAL1157 ALA1158 LEU1159 TRP1160 ILE1161 ASN1162 SER1163 GLN1164 GLY1165 GLY1166 ARG1167 LYS1168 VAL1169 LYS1170 ALA1171 GLY1172 ASP1173 THR1174 VAL1175 SER1176 TYR1177 VAL1178 ILE1179 CYS1180 GLN1181 ASP1182 GLY1183 SER1184 ASN1185 LEU1186 THR1187 ALA1188 SER1189 GLN1190 ARG1191 ALA1192 TYR1193 ALA1194 PRO1195 GLU1196 GLN1197 LEU1198 GLN1199 LYS1200 GLN1201 ASP1202 ASN1203 LEU1204 THR1205 ILE1206 ASP1207 THR1208 GLN1209 TYR1210 TYR1211 LEU1212 ALA1213 GLN1214 GLN1215 ILE1216 HIS1217 PRO1218 VAL1219 VAL1220 ALA1221 ARG1222 ILE1223 CYS1224 GLU1225 PRO1226 ILE1227 ASP1228 GLY1229 ILE1230 ASP1231 ALA1232 VAL1233 LEU1234 ILE1235 ALA1236 THR1237 TRP1238 LEU1239 GLY1240 LEU1241 ASP1242 PRO1243 THR1244
Unit 4 GLU338 GLN339 VAL340 PHE341 HIS342 PHE343 TYR344 TRP345 LEU346 ASP347 ALA348 TYR349 GLU350 ASP351 GLN352 TYR353 ASN354 GLN355 PRO356 GLY357 VAL358 VAL359 PHE360 LEU361 PHE362 GLY363 LYS364 VAL365 TRP366 ILE367 GLU368 SER369 ALA370 GLU371 THR372 HIS373 VAL374 SER375 CYS376 CYS377 VAL378 MET379 VAL380 LYS381 ASN382 ILE383 GLU384 ARG385 THR386 LEU387 TYR388 PHE389 LEU390 PRO391 ARG392 GLU393 MET394 LYS395 ILE396 ASP397 LEU398 ASN399 THR400 GLY401 LYS402 GLU403 THR404 GLY405 THR406 PRO407 ILE408 SER409 MET410 LYS411 ASP412 VAL413 TYR414 GLU415 GLU416 PHE417 ASP418 GLU419 LYS420 ILE421 ALA422 THR423 LYS424 TYR425 LYS426 ILE427 MET428 LYS429 PHE430 LYS431 SER432 LYS433 PRO434 VAL435 GLU436 LYS437 ASN438 TYR439 ALA440 PHE441 GLU442 ILE443 PRO444 ASP445 VAL446 PRO447 GLU448 LYS449 SER450 GLU451 TYR452 LEU453 GLU454 VAL455 LYS456 TYR457 SER458 ALA459 GLU460 MET461 PRO462 GLN463 LEU464 PRO465 GLN466 ASP467 LEU468 LYS469 GLY470 GLU471 THR472 PHE473 SER474 HIS475 VAL476 PHE477 GLY478 THR479 ASN480 THR481 SER482 SER483 LEU484 GLU485 LEU486 PHE487 LEU488 MET489 ASN490 ARG491 LYS492 ILE493 LYS494 GLY495 PRO496 CYS497 TRP498 LEU499 GLU500 VAL501 LYS502 SER503 PRO504 GLN505 LEU506 LEU507 ASN508 GLN509 PRO510 VAL511 SER512 TRP513 CYS514 LYS515 ALA516 GLU517 ALA518 MET519 ALA520 LEU521 LYS522 PRO523 ASP524 LEU525 VAL526 ASN527 VAL528 ILE529 LYS530 ASP531 VAL532 SER533 PRO534 PRO535 PRO536 LEU537 VAL538 VAL539 MET540 ALA541 PHE542 SER543 MET544 LYS545 THR546 MET547 GLN548 ASN549 ALA550 LYS551 ASN552 HIS553 GLN554 ASN555 GLU556 ILE557 ILE558 ALA559 MET560 ALA561 ALA562 LEU563 VAL564 HIS565 HIS566 SER567 PHE568 ALA569 LEU570 ASP571 LYS572 ALA573 ALA574 PRO575 LYS576 PRO577 PRO578 PHE579 GLN580 SER581 HIS582 PHE583 CYS584 VAL585 VAL586 SER587 LYS588 PRO589 LYS590 ASP591 CYS592 ILE593 PHE594 PRO595 TYR596 ALA597 PHE598 LYS599 GLU600 VAL601 ILE602 GLU603 LYS604 LYS605 ASN606 VAL607 LYS608 VAL609 GLU610 VAL611 ALA612 ALA613 THR614 GLU615 ARG616 THR617 LEU618 LEU619 GLY620 PHE621 PHE622 LEU623 ALA624 LYS625 VAL626 HIS627 LYS628 ILE629 ASP630 PRO631 ASP632 ILE633 ILE634 VAL635 GLY636 HIS637 ASN638 ILE639 TYR640 GLY641 PHE642 GLU643 LEU644 GLU645 VAL646 LEU647 LEU648 GLN649 ARG650 ILE651 ASN652 VAL653 CYS654 LYS655 ALA656 PRO657 HIS658 TRP659 SER660 LYS661 ILE662 GLY663 ARG664 LEU665 LYS666 ARG667 SER668 ASN669 MET670 PRO671 LYS672 LEU673 GLY678 PHE679 GLY680 GLU681 ARG682 ASN683 ALA684 THR685 CYS686 GLY687 ARG688 MET689 ILE690 CYS691 ASP692 VAL693 GLU694 ILE695 SER696 ALA697 LYS698 GLU699 LEU700 ILE701 ARG702 CYS703 LYS704 SER705 TYR706 HIS707 LEU708 SER709 GLU710 LEU711 VAL712 GLN713 GLN714 ILE715 LEU716 LYS717 THR718 GLU719 ARG720 VAL721 VAL722 ILE723 PRO724 MET725 GLU726 ASN727 ILE728 GLN729 ASN730 MET731 TYR732 SER733 GLU734 SER735 SER736 GLN737 LEU738 LEU739 TYR740 LEU741 LEU742 GLU743 HIS744 THR745 TRP746 LYS747 ASP748 ALA749 LYS750 PHE751 ILE752 LEU753 GLN754 ILE755 MET756 CYS757 GLU758 LEU759 ASN760 VAL761 LEU762 PRO763 LEU764 ALA765 LEU766 GLN767 ILE768 THR769 ASN770 ILE771 ALA772 GLY773 ASN774 ILE775 MET776 SER777 ARG778 THR779 LEU780 MET781 GLY782 GLY783 ARG784 SER785 GLU786 ARG787 ASN788 GLU789 PHE790 LEU791 LEU792 LEU793 HIS794 ALA795 PHE796 TYR797 GLU798 ASN799 ASN800 TYR801 ILE802 VAL803 PRO804 ASP805 LYS806 GLN807 ILE808 ARG834 LYS835 LYS836 ALA837 ALA838 TYR839 ALA840 GLY841 GLY842 LEU843 VAL844 LEU845 ASP846 PRO847 LYS848 VAL849 GLY850 PHE851 TYR852 ASP853 LYS854 PHE855 ILE856 LEU857 LEU858 LEU859 ASP860 PHE861 ASN862 SER863 LEU864 TYR865 PRO866 SER867 ILE868 ILE869 GLN870 GLU871 PHE872 ASN873 ILE874 CYS875 PHE876 THR877 THR878 VAL879 GLN880 ARG881 VAL882 GLU896 GLN897 ILE898 PRO899 GLU900 LEU901 PRO902 ASP903 PRO904 SER905 LEU906 GLU907 MET908 GLY909 ILE910 LEU911 PRO912 ARG913 GLU914 ILE915 ARG916 LYS917 LEU918 VAL919 GLU920 ARG921 ARG922 LYS923 GLN924 VAL925 LYS926 GLN927 LEU928 MET929 LYS930 GLN931 GLN932 ASP933 LEU934 ASN935 PRO936 ASP937 LEU938 ILE939 LEU940 GLN941 TYR942 ASP943 ILE944 ARG945 GLN946 LYS947 ALA948 LEU949 LYS950 LEU951 THR952 ALA953 ASN954 SER955 MET956 TYR957 GLY958 CYS959 LEU960 GLY961 PHE962 SER963 TYR964 SER965 ARG966 PHE967 TYR968 ALA969 LYS970 PRO971 LEU972 ALA973 ALA974 LEU975 VAL976 THR977 TYR978 LYS979 GLY980 ARG981 GLU982 ILE983 LEU984 MET985 HIS986 THR987 LYS988 GLU989 MET990 VAL991 GLN992 LYS993 MET994 ASN995 LEU996 GLU997 VAL998 ILE999 TYR1000 GLY1001 ASP1002 THR1003 ASP1004 SER1005 ILE1006 MET1007 ILE1008 ASN1009 THR1010 ASN1011 SER1012 THR1013 ASN1014 LEU1015 GLU1016 GLU1017 VAL1018 PHE1019 LYS1020 LEU1021 GLY1022 ASN1023 LYS1024 VAL1025 LYS1026 SER1027 GLU1028 VAL1029 ASN1030 LYS1031 LEU1032 TYR1033 LYS1034 LEU1035 LEU1036 GLU1037 ILE1038 ASP1039 ILE1040 ASP1041 GLY1042 VAL1043 PHE1044 LYS1045 SER1046 LEU1047 LEU1048 LEU1049 LEU1050 LYS1051 LYS1052 LYS1053 LYS1054 TYR1055 ALA1056 ALA1057 LEU1058 VAL1059 VAL1060 GLU1061 PRO1062 THR1063 SER1064 ASP1065 GLY1066 ASN1067 TYR1068 VAL1069 THR1070 LYS1071 GLN1072 GLU1073 LEU1074 LYS1075 GLY1076 LEU1077 ASP1078 ILE1079 VAL1080 ARG1081 ARG1082 ASP1083 TRP1084 CYS1085 ASP1086 LEU1087 ALA1088 LYS1089 ASP1090 THR1091 GLY1092 ASN1093 PHE1094 VAL1095 ILE1096 GLY1097 GLN1098 ILE1099 LEU1100 SER1101 ASP1102 GLN1103 SER1104 ARG1105 ASP1106 THR1107 ILE1108 VAL1109 GLU1110 ASN1111 ILE1112 GLN1113 LYS1114 ARG1115 LEU1116 ILE1117 GLU1118 ILE1119 GLY1120 GLU1121 ASN1122 VAL1123 LEU1124 ASN1125 GLY1126 SER1127 VAL1128 PRO1129 VAL1130 SER1131 GLN1132 PHE1133 GLU1134 ILE1135 ASN1136 LYS1137 ALA1138 LEU1139 THR1140 LYS1141 ASP1142 PRO1143 GLN1144 ASP1145 TYR1146 PRO1147 ASP1148 LYS1149 LYS1150 SER1151 LEU1152 PRO1153 HIS1154 VAL1155 HIS1156 VAL1157 ALA1158 LEU1159 TRP1160 ILE1161 ASN1162 SER1163 GLN1164 GLY1165 GLY1166 ARG1167 LYS1168 VAL1169 LYS1170 ALA1171 GLY1172 ASP1173 THR1174 VAL1175 SER1176 TYR1177 VAL1178 ILE1179 CYS1180 GLN1181 ASP1182 GLY1183 SER1184 ASN1185 LEU1186 THR1187 ALA1188 SER1189 GLN1190 ARG1191 ALA1192 TYR1193 ALA1194 PRO1195 GLU1196 GLN1197 LEU1198 GLN1199 LYS1200 GLN1201 ASP1202 ASN1203 LEU1204 THR1205 ILE1206 ASP1207 THR1208 GLN1209 TYR1210 TYR1211 LEU1212 ALA1213 GLN1214 GLN1215 ILE1216 HIS1217 PRO1218 VAL1219 VAL1220 ALA1221 ARG1222 ILE1223 CYS1224 GLU1225 PRO1226 ILE1227 ASP1228 GLY1229 ILE1230 ASP1231 ALA1232 VAL1233 LEU1234 ILE1235 ALA1236 THR1237 TRP1238 LEU1239 GLY1240 LEU1241 ASP1242 PRO1243 THR1244
Nucleic acids
Unit 2 G1 C2 C3 U4 G5 G6 A7 G8 C9 G10 DC11
Unit 5 G201 C202 C203 U204 G205 G206 A207 G208 C209 G210 DC211
Other macromolecules
Unit 3 DA109 DG110 DG111 DC112 DG113 DC114 DT115 DC116 DC117 DA118 DG119 DG120 DC121
Unit 6 DA309 DG310 DG311 DC312 DG313 DC314 DT315 DC316 DC317 DA318 DG319 DG320 DC321
Ligands
Unit 7 2ZE1301
Unit 8 2ZE1301
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.

Go to    [Image Library Home]    [Image Library Entry]
Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany