6ZP5
SARS-CoV-2 spike in prefusion state (flexibility analysis, 1-up closed conformation)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C (A, B, C) | Spike glycoprotein | polymer | 1288 | 142399.4 | 3 | UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) | Severe acute respiratory syndrome coronavirus 2 (2019-nCoV) | S glycoprotein,E2,Peplomer protein |
| 2 | CA, D, DA, G, H... (c, D, d, G, H...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 16 | In PDB GlyTouCan (G42666HT) | |||
| 3 | E, F, R, U (E, F, R, U) | alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 748.7 | 4 | In PDB GlyTouCan (G81315DD) | |||
| 4 | AA, BA, N, O, W... (a, b, N, O, W...) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 6 | In PDB GlyTouCan (G15407YE) | |||
| 5 | Q (Q) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G62916OK) | |||
| 6 | AB, EA, FA, GA, HA... (C, A, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 18 | Chemie (NAG) | |||
| 7 | KA, ZA (A, C) | alpha-D-mannopyranose | non-polymer | 180.2 | 2 | Chemie (MAN) | |||
| 8 | LA, MA, NA (A) | DIMETHYL SULFOXIDE | non-polymer | 78.1 | 3 | Chemie (DMS) |
Sequence modifications
A, B, C: -26 - 1181 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Gly 655 | Arg 682 | engineered mutation |
| Ser 656 | Arg 683 | engineered mutation |
| Ser 658 | Arg 685 | engineered mutation |
| Pro 959 | Lys 986 | engineered mutation |
| Pro 960 | Val 987 | engineered mutation |
| Gly 1182 | - | expression tag |
| Ser 1183 | - | expression tag |
| Gly 1184 | - | expression tag |
| Tyr 1185 | - | expression tag |
| Ile 1186 | - | expression tag |
| Pro 1187 | - | expression tag |
| Glu 1188 | - | expression tag |
| Ala 1189 | - | expression tag |
| Pro 1190 | - | expression tag |
| Arg 1191 | - | expression tag |
| Asp 1192 | - | expression tag |
| Gly 1193 | - | expression tag |
| Gln 1194 | - | expression tag |
| Ala 1195 | - | expression tag |
| Tyr 1196 | - | expression tag |
| Val 1197 | - | expression tag |
| Arg 1198 | - | expression tag |
| Lys 1199 | - | expression tag |
| Asp 1200 | - | expression tag |
| Gly 1201 | - | expression tag |
| Glu 1202 | - | expression tag |
| Trp 1203 | - | expression tag |
| Val 1204 | - | expression tag |
| Leu 1205 | - | expression tag |
| Leu 1206 | - | expression tag |
| Ser 1207 | - | expression tag |
| Thr 1208 | - | expression tag |
| Phe 1209 | - | expression tag |
| Leu 1210 | - | expression tag |
| Gly 1211 | - | expression tag |
| Arg 1212 | - | expression tag |
| Ser 1213 | - | expression tag |
| Leu 1214 | - | expression tag |
| Glu 1215 | - | expression tag |
| Val 1216 | - | expression tag |
| Leu 1217 | - | expression tag |
| Phe 1218 | - | expression tag |
| Gln 1219 | - | expression tag |
| Gly 1220 | - | expression tag |
| Pro 1221 | - | expression tag |
| Gly 1222 | - | expression tag |
| His 1223 | - | expression tag |
| His 1224 | - | expression tag |
| His 1225 | - | expression tag |
| His 1226 | - | expression tag |
| His 1227 | - | expression tag |
| His 1228 | - | expression tag |
| His 1229 | - | expression tag |
| His 1230 | - | expression tag |
| Ser 1231 | - | expression tag |
| Ala 1232 | - | expression tag |
| Trp 1233 | - | expression tag |
| Ser 1234 | - | expression tag |
| His 1235 | - | expression tag |
| Pro 1236 | - | expression tag |
| Gln 1237 | - | expression tag |
| Phe 1238 | - | expression tag |
| Glu 1239 | - | expression tag |
| Lys 1240 | - | expression tag |
| Gly 1241 | - | expression tag |
| Gly 1242 | - | expression tag |
| Gly 1243 | - | expression tag |
| Ser 1244 | - | expression tag |
| Gly 1245 | - | expression tag |
| Gly 1246 | - | expression tag |
| Gly 1247 | - | expression tag |
| Gly 1248 | - | expression tag |
| Ser 1249 | - | expression tag |
| Gly 1250 | - | expression tag |
| Gly 1251 | - | expression tag |
| Ser 1252 | - | expression tag |
| Ala 1253 | - | expression tag |
| Trp 1254 | - | expression tag |
| Ser 1255 | - | expression tag |
| His 1256 | - | expression tag |
| Pro 1257 | - | expression tag |
| Gln 1258 | - | expression tag |
| Phe 1259 | - | expression tag |
| Glu 1260 | - | expression tag |
| Lys 1261 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 427198.1 | |
| Branched | Number of molecules | 27 |
| Total formula weight | 13890.9 | |
| Non-Polymers* | Number of molecules | 23 |
| Total formula weight | 4576.5 | |
| All* | Total formula weight | 445665.5 |
