9CSS
Cryo-EM structure of SARS-CoV-2 spike protein Ecto-domain with internal tag, 1UP RBD 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 (B, C, A) | Spike glycoprotein | polymer | 1275 | 140679.7 | 3 | UniProt (P0DTC2) Pfam (PF16451) Pfam (PF09408) Pfam (PF19209) Pfam (PF01601) | Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2 2019-nCoV COVID-19 virus) | S glycoprotein,E2,Peplomer protein |
| 2 | D, E, J, O, T... (D, E, J, T, Z...) | 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) | |||
| 3 | F, G, H, I, N... (F, G, H, I, R...) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 8 | In PDB GlyTouCan (G42666HT) | |||
| 4 | K, Q, W (K, V, d) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 570.5 | 3 | In PDB GlyTouCan (G21290RB) | |||
| 5 | L, M, R, X, Y (L, M, W, e, f) | alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 5 | In PDB GlyTouCan (G62182OO) | |||
| 6 | AA, BA, CA, DA, EA... (B, C, A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 24 | Chemie (NAG) |
Sequence modifications
B, C, A: -38 - 1208 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Ser -20 | - | insertion |
| Ala -19 | - | insertion |
| Trp -18 | - | insertion |
| Ser -17 | - | insertion |
| His -16 | - | insertion |
| Pro -15 | - | insertion |
| Gln -14 | - | insertion |
| Phe -13 | - | insertion |
| Glu -12 | - | insertion |
| Lys -11 | - | insertion |
| Gly -10 | - | insertion |
| Gly -9 | - | insertion |
| Gly -8 | - | insertion |
| Ser -7 | - | insertion |
| Gly -6 | - | insertion |
| Gly -5 | - | insertion |
| Gly -4 | - | insertion |
| Ser -3 | - | insertion |
| Gly -2 | - | insertion |
| Gly -1 | - | insertion |
| Ser 0 | - | insertion |
| Ser 1 | - | insertion |
| Ala 2 | - | insertion |
| Trp 3 | - | insertion |
| Ser 4 | - | insertion |
| His 5 | - | insertion |
| Pro 6 | - | insertion |
| Gln 7 | - | insertion |
| Phe 8 | - | insertion |
| Glu 9 | - | insertion |
| Lys 10 | - | insertion |
| Ser 11 | - | insertion |
| Ala 12 | - | insertion |
| Leu 13 | - | insertion |
| Val 14 | - | insertion |
| Pro 15 | - | insertion |
| Arg 16 | - | insertion |
| Gly 17 | - | insertion |
| Ser 18 | - | insertion |
| Gly 614 | Asp 614 | variant |
| Gly 682 | Arg 682 | engineered mutation |
| Ser 683 | Arg 683 | engineered mutation |
| Ser 685 | Arg 685 | engineered mutation |
| Pro 986 | Lys 986 | engineered mutation |
| Pro 987 | Val 987 | engineered mutation |
| Gly 1209 | - | expression tag |
| Ser 1210 | - | expression tag |
| Gly 1211 | - | expression tag |
| Tyr 1212 | - | expression tag |
| Ile 1213 | - | expression tag |
| Pro 1214 | - | expression tag |
| Glu 1215 | - | expression tag |
| Ala 1216 | - | expression tag |
| Pro 1217 | - | expression tag |
| Arg 1218 | - | expression tag |
| Asp 1219 | - | expression tag |
| Gly 1220 | - | expression tag |
| Gln 1221 | - | expression tag |
| Ala 1222 | - | expression tag |
| Tyr 1223 | - | expression tag |
| Val 1224 | - | expression tag |
| Arg 1225 | - | expression tag |
| Lys 1226 | - | expression tag |
| Asp 1227 | - | expression tag |
| Gly 1228 | - | expression tag |
| Glu 1229 | - | expression tag |
| Trp 1230 | - | expression tag |
| Val 1231 | - | expression tag |
| Leu 1232 | - | expression tag |
| Leu 1233 | - | expression tag |
| Ser 1234 | - | expression tag |
| Thr 1235 | - | expression tag |
| Phe 1236 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 422039.0 | |
| Branched | Number of molecules | 22 |
| Total formula weight | 11558.8 | |
| Non-Polymers* | Number of molecules | 24 |
| Total formula weight | 5309.0 | |
| All* | Total formula weight | 438906.8 |
