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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF SPCAS9 VARIANT EQR BOUND TO SGRNA AND T TARGET DNA
Keywords HYDROLASE-DNA-RNA COMPLEX, CRISPR, CAS9, ENDONUCLEASE, PAM, EDITING, RNP, PROTEIN-RNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   5FW2     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  RNA    A 81 2601 0
2  Protein   CRISPR-ASSOCIATED ENDONUCLEASE CAS9/CSN1  B 1316 21707 0
3  Other macromolecule   TARGET DNA STRAND  C 28 889 0
4  Other macromolecule   NON-TARGET DNA STRAND  D 11 354 0
5  Ligand   SGRNA  A 4 0 4
6  Ligand   CRISPR-ASSOCIATED ENDONUCLEASE CAS9/CSN1  B 8 0 8
7 Water     204 0 204
total       1652 25551 216
Proteins
Unit 2 LYS3 LYS4 TYR5 SER6 ILE7 GLY8 LEU9 ALA10 ILE11 GLY12 THR13 ASN14 SER15 VAL16 GLY17 TRP18 ALA19 VAL20 ILE21 THR22 ASP23 GLU24 TYR25 LYS26 VAL27 PRO28 SER29 LYS30 LYS31 PHE32 LYS33 VAL34 LEU35 GLY36 ASN37 THR38 ASP39 ARG40 HIS41 SER42 ILE43 LYS44 LYS45 ASN46 LEU47 ILE48 GLY49 ALA50 LEU51 LEU52 PHE53 ASP54 SER55 GLY56 GLU57 THR58 ALA59 GLU60 ALA61 THR62 ARG63 LEU64 LYS65 ARG66 THR67 ALA68 ARG69 ARG70 ARG71 TYR72 THR73 ARG74 ARG75 LYS76 ASN77 ARG78 ILE79 CYS80 TYR81 LEU82 GLN83 GLU84 ILE85 PHE86 SER87 ASN88 GLU89 MET90 ALA91 LYS92 VAL93 ASP94 ASP95 SER96 PHE97 PHE98 HIS99 ARG100 LEU101 GLU102 GLU103 SER104 PHE105 LEU106 VAL107 GLU108 GLU109 ASP110 LYS111 LYS112 HIS113 GLU114 ARG115 HIS116 PRO117 ILE118 PHE119 GLY120 ASN121 ILE122 VAL123 ASP124 GLU125 VAL126 ALA127 TYR128 HIS129 GLU130 LYS131 TYR132 PRO133 THR134 ILE135 TYR136 HIS137 LEU138 ARG139 LYS140 LYS141 LEU142 VAL143 ASP144 SER145 THR146 ASP147 LYS148 ALA149 ASP150 LEU151 ARG152 LEU153 ILE154 TYR155 LEU156 ALA157 LEU158 ALA159 HIS160 MET161 ILE162 LYS163 PHE164 ARG165 GLY166 HIS167 PHE168 LEU169 ILE170 GLU171 GLY172 ASP173 LEU174 ASN175 PRO176 ASP177 ASN178 SER179 ASP180 VAL181 ASP182 LYS183 LEU184 PHE185 ILE186 GLN187 LEU188 VAL189 GLN190 THR191 TYR192 ASN193 GLN194 LEU195 PHE196 GLU197 GLU198 ASN199 PRO200 ILE201 ASN202 ALA203 SER204 GLY205 VAL206 ASP207 ALA208 LYS209 ALA210 ILE211 LEU212 SER213 ALA214 ARG215 LEU216 SER217 LYS218 SER219 ARG220 ARG221 LEU222 GLU223 ASN224 LEU225 ILE226 ALA227 GLN228 LEU229 PRO230 GLY231 GLU232 LYS233 LYS234 ASN235 GLY236 LEU237 PHE238 GLY239 ASN240 LEU241 ILE242 ALA243 LEU244 SER245 LEU246 GLY247 LEU248 THR249 PRO250 ASN251 PHE252 LYS253 SER254 ASN255 PHE256 ASP257 LEU258 ALA259 GLU260 ASP261 ALA262 LYS263 LEU264 GLN265 LEU266 SER267 LYS268 ASP269 THR270 TYR271 ASP272 ASP273 ASP274 LEU275 ASP276 ASN277 LEU278 LEU279 ALA280 GLN281 ILE282 GLY283 ASP284 GLN285 TYR286 ALA287 ASP288 LEU289 PHE290 LEU291 ALA292 ALA293 LYS294 ASN295 LEU296 SER297 ASP298 ALA299 ILE300 LEU301 LEU302 SER303 ASP304 ILE305 LEU306 ARG307 VAL308 ASN309 THR310 GLU311 ILE312 THR313 LYS314 ALA315 PRO316 LEU317 SER318 ALA319 SER320 MET321 ILE322 LYS323 ARG324 TYR325 ASP326 GLU327 HIS328 HIS329 GLN330 ASP331 LEU332 THR333 LEU334 LEU335 LYS336 ALA337 LEU338 VAL339 ARG340 GLN341 GLN342 LEU343 PRO344 GLU345 LYS346 TYR347 LYS348 GLU349 ILE350 PHE351 PHE352 ASP353 GLN354 SER355 LYS356 ASN357 GLY358 TYR359 ALA360 GLY361 TYR362 ILE363 ASP364 GLY365 GLY366 ALA367 SER368 GLN369 GLU370 GLU371 PHE372 TYR373 LYS374 PHE375 ILE376 LYS377 PRO378 ILE379 LEU380 GLU381 LYS382 MET383 ASP384 GLY385 THR386 GLU387 GLU388 LEU389 LEU390 VAL391 LYS392 LEU393 ASN394 ARG395 GLU396 ASP397 LEU398 LEU399 ARG400 LYS401 GLN402 ARG403 THR404 PHE405 ASP406 ASN407 GLY408 SER409 ILE410 PRO411 HIS412 GLN413 ILE414 HIS415 LEU416 GLY417 GLU418 LEU419 HIS420 ALA421 ILE422 LEU423 ARG424 ARG425 GLN426 GLU427 ASP428 PHE429 TYR430 PRO431 PHE432 LEU433 LYS434 ASP435 ASN436 ARG437 GLU438 LYS439 ILE440 GLU441 LYS442 ILE443 LEU444 THR445 PHE446 ARG447 ILE448 PRO449 TYR450 TYR451 VAL452 GLY453 PRO454 LEU455 ALA456 ARG457 GLY458 ASN459 SER460 ARG461 PHE462 ALA463 TRP464 MET465 THR466 ARG467 LYS468 SER469 GLU470 GLU471 THR472 ILE473 THR474 PRO475 TRP476 ASN477 PHE478 GLU479 GLU480 VAL481 VAL482 ASP483 LYS484 GLY485 ALA486 SER487 ALA488 GLN489 SER490 PHE491 ILE492 GLU493 ARG494 MET495 THR496 ASN497 PHE498 ASP499 LYS500 ASN501 LEU502 PRO503 ASN504 GLU505 LYS506 VAL507 LEU508 PRO509 LYS510 HIS511 SER512 LEU513 LEU514 TYR515 GLU516 TYR517 PHE518 THR519 VAL520 TYR521 ASN522 GLU523 LEU524 THR525 LYS526 VAL527 LYS528 TYR529 VAL530 THR531 GLU532 GLY533 MET534 ARG535 LYS536 PRO537 ALA538 PHE539 LEU540 SER541 GLY542 GLU543 GLN544 LYS545 LYS546 ALA547 ILE548 VAL549 ASP550 LEU551 LEU552 PHE553 LYS554 THR555 ASN556 ARG557 LYS558 VAL559 THR560 VAL561 LYS562 GLN563 LEU564 LYS565 GLU566 ASP567 TYR568 PHE569 LYS570 LYS571 ILE572 GLU573 CYS574 PHE575 ASP576 SER577 VAL578 GLU579 ILE580 SER581 GLY582 VAL583 GLU584 ASP585 ARG586 PHE587 ASN588 ALA589 SER590 LEU591 GLY592 THR593 TYR594 HIS595 ASP596 LEU597 LEU598 LYS599 ILE600 ILE601 LYS602 ASP603 LYS604 ASP605 PHE606 LEU607 ASP608 ASN609 GLU610 GLU611 ASN612 GLU613 ASP614 ILE615 LEU616 GLU617 ASP618 ILE619 VAL620 LEU621 THR622 LEU623 THR624 LEU625 PHE626 GLU627 ASP628 ARG629 GLU630 MET631 ILE632 GLU633 GLU634 ARG635 LEU636 LYS637 THR638 TYR639 ALA640 HIS641 LEU642 PHE643 ASP644 ASP645 LYS646 VAL647 MET648 LYS649 GLN650 LEU651 LYS652 ARG653 ARG654 ARG655 TYR656 THR657 GLY658 TRP659 GLY660 ARG661 LEU662 SER663 ARG664 LYS665 LEU666 ILE667 ASN668 GLY669 ILE670 ARG671 ASP672 LYS673 GLN674 SER675 GLY676 LYS677 THR678 ILE679 LEU680 ASP681 PHE682 LEU683 LYS684 SER685 ASP686 GLY687 PHE688 ALA689 ASN690 ARG691 ASN692 PHE693 MET694 GLN695 LEU696 ILE697 HIS698 ASP699 ASP700 SER701 LEU702 THR703 PHE704 LYS705 GLU706 ASP707 ILE708 GLN709 LYS710 ALA711 GLN712 VAL713 ASP718 SER719 LEU720 HIS721 GLU722 HIS723 ILE724 ALA725 ASN726 LEU727 ALA728 GLY729 SER730 PRO731 ALA732 ILE733 LYS734 LYS735 GLY736 ILE737 LEU738 GLN739 THR740 VAL741 LYS742 VAL743 VAL744 ASP745 GLU746 LEU747 VAL748 LYS749 VAL750 MET751 GLY752 ARG753 HIS754 LYS755 PRO756 GLU757 ASN758 ILE759 VAL760 ILE761 GLU762 MET763 ALA764 ARG765 LYS775 ASN776 SER777 ARG778 GLU779 ARG780 MET781 LYS782 ARG783 ILE784 GLU785 GLU786 GLY787 ILE788 LYS789 GLU790 LEU791 GLY792 SER793 GLN794 ILE795 LEU796 LYS797 GLU798 HIS799 PRO800 VAL801 GLU802 ASN803 THR804 GLN805 LEU806 GLN807 ASN808 GLU809 LYS810 LEU811 TYR812 LEU813 TYR814 TYR815 LEU816 GLN817 ASN818 GLY819 ARG820 ASP821 MET822 TYR823 VAL824 ASP825 GLN826 GLU827 LEU828 ASP829 ILE830 ASN831 ARG832 LEU833 SER834 ASP835 TYR836 ASP837 VAL838 ASP839 ALA840 ILE841 VAL842 PRO843 GLN844 SER845 PHE846 LEU847 LYS848 ASP849 ASP850 SER851 ILE852 ASP853 ASN854 LYS855 VAL856 LEU857 THR858 ARG859 SER860 ASP861 LYS862 ASN863 ARG864 GLY865 LYS866 SER867 ASP868 ASN869 VAL870 PRO871 SER872 GLU873 GLU874 VAL875 VAL876 LYS877 LYS878 MET879 LYS880 ASN881 TYR882 TRP883 ARG884 GLN885 LEU886 LEU887 ASN888 ALA889 LYS890 LEU891 ILE892 THR893 GLN894 ARG895 LYS896 PHE897 ASP898 ASN899 LEU900 THR901 LYS902 ALA903 GLU904 ARG905 GLY906 GLY907 LEU908 SER909 GLU910 LEU911 ASP912 LYS913 ALA914 GLY915 PHE916 ILE917 LYS918 ARG919 GLN920 LEU921 VAL922 GLU923 THR924 ARG925 GLN926 ILE927 THR928 LYS929 HIS930 VAL931 ALA932 GLN933 ILE934 LEU935 ASP936 SER937 ARG938 MET939 ASN940 THR941 LYS942 TYR943 ASP944 GLU945 ASN946 ASP947 LYS948 LEU949 ILE950 ARG951 GLU952 VAL953 LYS954 VAL955 ILE956 THR957 LEU958 LYS959 SER960 LYS961 LEU962 VAL963 SER964 ASP965 PHE966 ARG967 LYS968 ASP969 PHE970 GLN971 PHE972 TYR973 LYS974 VAL975 ARG976 GLU977 ILE978 ASN979 ASN980 TYR981 HIS982 HIS983 ALA984 HIS985 ASP986 ALA987 TYR988 LEU989 ASN990 ALA991 VAL992 VAL993 GLY994 THR995 ALA996 LEU997 ILE998 LYS999 LYS1000 TYR1001 PRO1002 LYS1003 LEU1004 GLU1005 SER1006 GLU1007 PHE1008 VAL1009 TYR1010 GLY1011 ASP1012 GLY1030 LYS1031 ALA1032 THR1033 ALA1034 LYS1035 TYR1036 PHE1037 PHE1038 TYR1039 SER1040 ASN1041 ILE1042 MET1043 ASN1044 PHE1045 PHE1046 LYS1047 THR1048 GLU1049 ILE1050 THR1051 LYS1059 ARG1060 PRO1061 LEU1062 ILE1063 GLU1064 THR1065 ASN1066 GLY1067 GLU1068 THR1069 GLY1070 GLU1071 ILE1072 VAL1073 TRP1074 ASP1075 LYS1076 GLY1077 ARG1078 ASP1079 PHE1080 ALA1081 THR1082 VAL1083 ARG1084 LYS1085 VAL1086 LEU1087 SER1088 MET1089 PRO1090 GLN1091 VAL1092 ASN1093 ILE1094 VAL1095 LYS1096 LYS1097 THR1098 GLU1099 VAL1100 GLN1101 THR1102 GLY1103 GLY1104 PHE1105 SER1106 LYS1107 GLU1108 SER1109 ILE1110 LEU1111 PRO1112 LYS1113 ARG1114 ASN1115 SER1116 ASP1117 LYS1118 LEU1119 ILE1120 ALA1121 ARG1122 LYS1123 LYS1124 ASP1125 TRP1126 ASP1127 PRO1128 LYS1129 LYS1130 TYR1131 GLY1132 GLY1133 PHE1134 GLU1135 SER1136 PRO1137 THR1138 VAL1139 ALA1140 TYR1141 SER1142 VAL1143 LEU1144 VAL1145 VAL1146 ALA1147 LYS1148 VAL1149 GLU1150 LYS1151 GLY1152 LYS1153 SER1154 LYS1155 LYS1156 LEU1157 LYS1158 SER1159 VAL1160 LYS1161 GLU1162 LEU1163 LEU1164 GLY1165 ILE1166 THR1167 ILE1168 MET1169 GLU1170 ARG1171 SER1172 SER1173 PHE1174 GLU1175 LYS1176 ASN1177 PRO1178 ILE1179 ASP1180 PHE1181 LEU1182 GLU1183 ALA1184 LYS1185 GLY1186 TYR1187 LYS1188 GLU1189 VAL1190 LYS1191 LYS1192 ASP1193 LEU1194 ILE1195 ILE1196 LYS1197 LEU1198 PRO1199 LYS1200 TYR1201 SER1202 LEU1203 PHE1204 GLU1205 LEU1206 GLU1207 ASN1208 GLY1209 ARG1210 LYS1211 ARG1212 MET1213 LEU1214 ALA1215 SER1216 ALA1217 GLY1218 GLU1219 LEU1220 GLN1221 LYS1222 GLY1223 ASN1224 GLU1225 LEU1226 ALA1227 LEU1228 PRO1229 SER1230 LYS1231 TYR1232 VAL1233 ASN1234 PHE1235 LEU1236 TYR1237 LEU1238 ALA1239 SER1240 HIS1241 ASN1252 GLU1253 GLN1254 LYS1255 GLN1256 LEU1257 PHE1258 VAL1259 GLU1260 GLN1261 HIS1262 LYS1263 HIS1264 TYR1265 LEU1266 ASP1267 GLU1268 ILE1269 ILE1270 GLU1271 GLN1272 ILE1273 SER1274 GLU1275 PHE1276 SER1277 LYS1278 ARG1279 VAL1280 ILE1281 LEU1282 ALA1283 ASP1284 ALA1285 ASN1286 LEU1287 ASP1288 LYS1289 VAL1290 LEU1291 SER1292 ALA1293 TYR1294 ASN1295 LYS1296 HIS1297 ARG1298 ASP1299 LYS1300 PRO1301 ILE1302 ARG1303 GLU1304 GLN1305 ALA1306 GLU1307 ASN1308 ILE1309 ILE1310 HIS1311 LEU1312 PHE1313 THR1314 LEU1315 THR1316 ASN1317 LEU1318 GLY1319 ALA1320 PRO1321 ALA1322 ALA1323 PHE1324 LYS1325 TYR1326 PHE1327 ASP1328 THR1329 THR1330 ILE1331 ASP1332 ARG1333 LYS1334 GLN1335 TYR1336 ARG1337 SER1338 THR1339 LYS1340 GLU1341 VAL1342 LEU1343 ASP1344 ALA1345 THR1346 LEU1347 ILE1348 HIS1349 GLN1350 SER1351 ILE1352 THR1353 GLY1354 LEU1355 TYR1356 GLU1357 THR1358 ARG1359 ILE1360 ASP1361 LEU1362 SER1363 GLN1364 LEU1365
Nucleic acids
Unit 1 A1 U2 A3 A4 C5 U6 C7 A8 A9 U10 U11 U12 G13 U14 A15 A16 A17 A18 A19 A20 G21 U22 U23 U24 U25 A26 G27 A28 G29 C30 U31 A32 G33 A34 A35 A36 U37 A38 G39 C40 A41 A42 G43 U44 U45 A46 A47 A48 A49 U50 A51 A52 G53 G54 C55 U56 A57 G58 U59 C60 C61 G62 U63 U64 A65 U66 C67 A68 A69 C70 U71 U72 G73 A74 A75 A76 A77 A78 G79 U80 G81
Other macromolecules
Unit 3 DC1 DA2 DA3 DT4 DC5 DT6 DC7 DA8 DT9 DT10 DT11 DT12 DT13 DT14 DA15 DC16 DA17 DA18 DA19 DT20 DT21 DG22 DA23 DG24 DT25 DT26 DA27 DT28
Unit 4 DA2 DA3 DA4 DT5 DG6 DA7 DG8 DA9 DT10 DT11 DG12
Ligands
Unit 5 MG1083 MG1084 K1182 K1183
Unit 6 K2366 K2367 K2368 K2369 K2370 K2371 K2372 K2373
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