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Sequence, Chains, Asymmetric and Biological Units

Title STRUCTURE OF 2C-METHYL-D-ERYTHRITOL-2,4-CYCLODIPHOSPHATE SYNTHASE (BOUND FORM CDP)
Keywords ISOPRENOID, NON-MEVALONATE, SYNTHASE, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, STRUCTURAL GENOMICS, LYASE
Experiment X-ray diffraction
Number of Models  1


   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  

PDB   1IV2     released     available     available     Quaternary Structure Server  


Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  A 150 1152 0
2  Protein   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  B 150 1152 0
3  Protein   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  C 150 1152 0
4  Protein   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  D 150 1152 0
5  Protein   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  E 150 1152 0
6  Protein   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  F 150 1152 0
7  Ligand   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  A 3 0 27
8  Ligand   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  B 5 0 53
9  Ligand   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  C 1 0 1
10  Ligand   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  D 2 0 26
11  Ligand   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  E 5 0 53
12  Ligand   2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE  F 2 0 2
13 Water     509 0 509
total       1427 6912 671

Proteins
Unit 1 ARG2 ILE3 GLY4 TYR5 GLY6 GLU7 ASP8 SER9 HIS10 ARG11 LEU12 GLU13 GLU14 GLY15 ARG16 PRO17 LEU18 TYR19 LEU20 CYS21 GLY22 LEU23 LEU24 ILE25 PRO26 SER27 PRO28 VAL29 GLY30 ALA31 LEU32 ALA33 HIS34 SER35 ASP36 GLY37 ASP38 ALA39 ALA40 MET41 HIS42 ALA43 LEU44 THR45 ASP46 ALA47 LEU48 LEU49 SER50 ALA51 TYR52 GLY53 LEU54 GLY55 ASP56 ILE57 GLY58 LEU59 LEU60 PHE61 PRO62 ASP63 THR64 ASP65 PRO66 ARG67 TRP68 ARG69 GLY70 GLU71 ARG72 SER73 GLU74 VAL75 PHE76 LEU77 ARG78 GLU79 ALA80 MET81 ARG82 LEU83 VAL84 GLU85 ALA86 ARG87 GLY88 ALA89 LYS90 LEU91 LEU92 GLN93 ALA94 SER95 LEU96 VAL97 LEU98 THR99 LEU100 ASP101 ARG102 PRO103 LYS104 LEU105 GLY106 PRO107 HIS108 ARG109 LYS110 ALA111 LEU112 VAL113 ASP114 SER115 LEU116 SER117 ARG118 LEU119 MET120 ARG121 LEU122 PRO123 GLN124 ASP125 ARG126 ILE127 GLY128 LEU129 THR130 PHE131 LYS132 THR133 SER134 GLU135 GLY136 LEU137 ALA138 PRO139 SER140 HIS141 VAL142 GLN143 ALA144 ARG145 ALA146 VAL147 VAL148 LEU149 LEU150 ASP151
Unit 2 ARG202 ILE203 GLY204 TYR205 GLY206 GLU207 ASP208 SER209 HIS210 ARG211 LEU212 GLU213 GLU214 GLY215 ARG216 PRO217 LEU218 TYR219 LEU220 CYS221 GLY222 LEU223 LEU224 ILE225 PRO226 SER227 PRO228 VAL229 GLY230 ALA231 LEU232 ALA233 HIS234 SER235 ASP236 GLY237 ASP238 ALA239 ALA240 MET241 HIS242 ALA243 LEU244 THR245 ASP246 ALA247 LEU248 LEU249 SER250 ALA251 TYR252 GLY253 LEU254 GLY255 ASP256 ILE257 GLY258 LEU259 LEU260 PHE261 PRO262 ASP263 THR264 ASP265 PRO266 ARG267 TRP268 ARG269 GLY270 GLU271 ARG272 SER273 GLU274 VAL275 PHE276 LEU277 ARG278 GLU279 ALA280 MET281 ARG282 LEU283 VAL284 GLU285 ALA286 ARG287 GLY288 ALA289 LYS290 LEU291 LEU292 GLN293 ALA294 SER295 LEU296 VAL297 LEU298 THR299 LEU300 ASP301 ARG302 PRO303 LYS304 LEU305 GLY306 PRO307 HIS308 ARG309 LYS310 ALA311 LEU312 VAL313 ASP314 SER315 LEU316 SER317 ARG318 LEU319 MET320 ARG321 LEU322 PRO323 GLN324 ASP325 ARG326 ILE327 GLY328 LEU329 THR330 PHE331 LYS332 THR333 SER334 GLU335 GLY336 LEU337 ALA338 PRO339 SER340 HIS341 VAL342 GLN343 ALA344 ARG345 ALA346 VAL347 VAL348 LEU349 LEU350 ASP351
Unit 3 ARG402 ILE403 GLY404 TYR405 GLY406 GLU407 ASP408 SER409 HIS410 ARG411 LEU412 GLU413 GLU414 GLY415 ARG416 PRO417 LEU418 TYR419 LEU420 CYS421 GLY422 LEU423 LEU424 ILE425 PRO426 SER427 PRO428 VAL429 GLY430 ALA431 LEU432 ALA433 HIS434 SER435 ASP436 GLY437 ASP438 ALA439 ALA440 MET441 HIS442 ALA443 LEU444 THR445 ASP446 ALA447 LEU448 LEU449 SER450 ALA451 TYR452 GLY453 LEU454 GLY455 ASP456 ILE457 GLY458 LEU459 LEU460 PHE461 PRO462 ASP463 THR464 ASP465 PRO466 ARG467 TRP468 ARG469 GLY470 GLU471 ARG472 SER473 GLU474 VAL475 PHE476 LEU477 ARG478 GLU479 ALA480 MET481 ARG482 LEU483 VAL484 GLU485 ALA486 ARG487 GLY488 ALA489 LYS490 LEU491 LEU492 GLN493 ALA494 SER495 LEU496 VAL497 LEU498 THR499 LEU500 ASP501 ARG502 PRO503 LYS504 LEU505 GLY506 PRO507 HIS508 ARG509 LYS510 ALA511 LEU512 VAL513 ASP514 SER515 LEU516 SER517 ARG518 LEU519 MET520 ARG521 LEU522 PRO523 GLN524 ASP525 ARG526 ILE527 GLY528 LEU529 THR530 PHE531 LYS532 THR533 SER534 GLU535 GLY536 LEU537 ALA538 PRO539 SER540 HIS541 VAL542 GLN543 ALA544 ARG545 ALA546 VAL547 VAL548 LEU549 LEU550 ASP551
Unit 4 ARG1002 ILE1003 GLY1004 TYR1005 GLY1006 GLU1007 ASP1008 SER1009 HIS1010 ARG1011 LEU1012 GLU1013 GLU1014 GLY1015 ARG1016 PRO1017 LEU1018 TYR1019 LEU1020 CYS1021 GLY1022 LEU1023 LEU1024 ILE1025 PRO1026 SER1027 PRO1028 VAL1029 GLY1030 ALA1031 LEU1032 ALA1033 HIS1034 SER1035 ASP1036 GLY1037 ASP1038 ALA1039 ALA1040 MET1041 HIS1042 ALA1043 LEU1044 THR1045 ASP1046 ALA1047 LEU1048 LEU1049 SER1050 ALA1051 TYR1052 GLY1053 LEU1054 GLY1055 ASP1056 ILE1057 GLY1058 LEU1059 LEU1060 PHE1061 PRO1062 ASP1063 THR1064 ASP1065 PRO1066 ARG1067 TRP1068 ARG1069 GLY1070 GLU1071 ARG1072 SER1073 GLU1074 VAL1075 PHE1076 LEU1077 ARG1078 GLU1079 ALA1080 MET1081 ARG1082 LEU1083 VAL1084 GLU1085 ALA1086 ARG1087 GLY1088 ALA1089 LYS1090 LEU1091 LEU1092 GLN1093 ALA1094 SER1095 LEU1096 VAL1097 LEU1098 THR1099 LEU1100 ASP1101 ARG1102 PRO1103 LYS1104 LEU1105 GLY1106 PRO1107 HIS1108 ARG1109 LYS1110 ALA1111 LEU1112 VAL1113 ASP1114 SER1115 LEU1116 SER1117 ARG1118 LEU1119 MET1120 ARG1121 LEU1122 PRO1123 GLN1124 ASP1125 ARG1126 ILE1127 GLY1128 LEU1129 THR1130 PHE1131 LYS1132 THR1133 SER1134 GLU1135 GLY1136 LEU1137 ALA1138 PRO1139 SER1140 HIS1141 VAL1142 GLN1143 ALA1144 ARG1145 ALA1146 VAL1147 VAL1148 LEU1149 LEU1150 ASP1151
Unit 5 ARG1202 ILE1203 GLY1204 TYR1205 GLY1206 GLU1207 ASP1208 SER1209 HIS1210 ARG1211 LEU1212 GLU1213 GLU1214 GLY1215 ARG1216 PRO1217 LEU1218 TYR1219 LEU1220 CYS1221 GLY1222 LEU1223 LEU1224 ILE1225 PRO1226 SER1227 PRO1228 VAL1229 GLY1230 ALA1231 LEU1232 ALA1233 HIS1234 SER1235 ASP1236 GLY1237 ASP1238 ALA1239 ALA1240 MET1241 HIS1242 ALA1243 LEU1244 THR1245 ASP1246 ALA1247 LEU1248 LEU1249 SER1250 ALA1251 TYR1252 GLY1253 LEU1254 GLY1255 ASP1256 ILE1257 GLY1258 LEU1259 LEU1260 PHE1261 PRO1262 ASP1263 THR1264 ASP1265 PRO1266 ARG1267 TRP1268 ARG1269 GLY1270 GLU1271 ARG1272 SER1273 GLU1274 VAL1275 PHE1276 LEU1277 ARG1278 GLU1279 ALA1280 MET1281 ARG1282 LEU1283 VAL1284 GLU1285 ALA1286 ARG1287 GLY1288 ALA1289 LYS1290 LEU1291 LEU1292 GLN1293 ALA1294 SER1295 LEU1296 VAL1297 LEU1298 THR1299 LEU1300 ASP1301 ARG1302 PRO1303 LYS1304 LEU1305 GLY1306 PRO1307 HIS1308 ARG1309 LYS1310 ALA1311 LEU1312 VAL1313 ASP1314 SER1315 LEU1316 SER1317 ARG1318 LEU1319 MET1320 ARG1321 LEU1322 PRO1323 GLN1324 ASP1325 ARG1326 ILE1327 GLY1328 LEU1329 THR1330 PHE1331 LYS1332 THR1333 SER1334 GLU1335 GLY1336 LEU1337 ALA1338 PRO1339 SER1340 HIS1341 VAL1342 GLN1343 ALA1344 ARG1345 ALA1346 VAL1347 VAL1348 LEU1349 LEU1350 ASP1351
Unit 6 ARG1402 ILE1403 GLY1404 TYR1405 GLY1406 GLU1407 ASP1408 SER1409 HIS1410 ARG1411 LEU1412 GLU1413 GLU1414 GLY1415 ARG1416 PRO1417 LEU1418 TYR1419 LEU1420 CYS1421 GLY1422 LEU1423 LEU1424 ILE1425 PRO1426 SER1427 PRO1428 VAL1429 GLY1430 ALA1431 LEU1432 ALA1433 HIS1434 SER1435 ASP1436 GLY1437 ASP1438 ALA1439 ALA1440 MET1441 HIS1442 ALA1443 LEU1444 THR1445 ASP1446 ALA1447 LEU1448 LEU1449 SER1450 ALA1451 TYR1452 GLY1453 LEU1454 GLY1455 ASP1456 ILE1457 GLY1458 LEU1459 LEU1460 PHE1461 PRO1462 ASP1463 THR1464 ASP1465 PRO1466 ARG1467 TRP1468 ARG1469 GLY1470 GLU1471 ARG1472 SER1473 GLU1474 VAL1475 PHE1476 LEU1477 ARG1478 GLU1479 ALA1480 MET1481 ARG1482 LEU1483 VAL1484 GLU1485 ALA1486 ARG1487 GLY1488 ALA1489 LYS1490 LEU1491 LEU1492 GLN1493 ALA1494 SER1495 LEU1496 VAL1497 LEU1498 THR1499 LEU1500 ASP1501 ARG1502 PRO1503 LYS1504 LEU1505 GLY1506 PRO1507 HIS1508 ARG1509 LYS1510 ALA1511 LEU1512 VAL1513 ASP1514 SER1515 LEU1516 SER1517 ARG1518 LEU1519 MET1520 ARG1521 LEU1522 PRO1523 GLN1524 ASP1525 ARG1526 ILE1527 GLY1528 LEU1529 THR1530 PHE1531 LYS1532 THR1533 SER1534 GLU1535 GLY1536 LEU1537 ALA1538 PRO1539 SER1540 HIS1541 VAL1542 GLN1543 ALA1544 ARG1545 ALA1546 VAL1547 VAL1548 LEU1549 LEU1550 ASP1551

Ligands
Unit 7 MG1561 MG1571 CDP1601
Unit 8 MG1562 MG1572 MG1573 CDP1602 CDP1603
Unit 9 MG1563
Unit 10 MG1564 CDP1604
Unit 11 MG1565 MG1575 MG1576 CDP1605 CDP1606
Unit 12 MG1566 MG1574

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