7WQV
Crystal structure of a neutralizing monoclonal antibody (Ab08) in complex with SARS-CoV-2 receptor-binding domain (RBD)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, C, E, G, I... (A, C, E, G, I...) | Spike protein S1 | polymer | 234 | 26214.7 | 8 | UniProt (P0DTC2) Pfam (PF09408) | Severe acute respiratory syndrome coronavirus 2 | |
| 2 | B, D, F, H, J... (B, D, F, H, J...) | Ab08 | polymer | 303 | 31367.6 | 8 | Homo sapiens | ||
| 3 | Q, S (Q, S) | alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 2 | In PDB GlyTouCan (G86851RC) | |||
| 4 | R (R) | alpha-L-fucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 1 | In PDB GlyTouCan (G80587NA) | |||
| 5 | DA, EA, FA, GA, HA... (H, I, J, O, P...) | (4S)-2-METHYL-2,4-PENTANEDIOL | non-polymer | 118.2 | 11 | Chemie (MPD) | |||
| 6 | AA, BA, IA, JA, NA... (D, F, L, N, P...) | CALCIUM ION | non-polymer | 40.1 | 6 | Chemie (CA) | |||
| 7 | CA, X (G, B) | CHLORIDE ION | non-polymer | 35.5 | 2 | Chemie (CL) | |||
| 8 | KA, Y (O, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
| 9 | OA, PA, QA, RA, SA... (A, B, C, F, L...) | water | water | 18.0 | 21 | Chemie (HOH) |
Sequence modifications
A, C, E, G, I, K, M, O: 330 - 531 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Met 306 | - | initiating methionine |
| Lys 307 | - | expression tag |
| Phe 308 | - | expression tag |
| Leu 309 | - | expression tag |
| Val 310 | - | expression tag |
| Asn 311 | - | expression tag |
| Val 312 | - | expression tag |
| Ala 313 | - | expression tag |
| Leu 314 | - | expression tag |
| Val 315 | - | expression tag |
| Phe 316 | - | expression tag |
| Met 317 | - | expression tag |
| Val 318 | - | expression tag |
| Val 319 | - | expression tag |
| Tyr 320 | - | expression tag |
| Ile 321 | - | expression tag |
| Ser 322 | - | expression tag |
| Tyr 323 | - | expression tag |
| Ile 324 | - | expression tag |
| Tyr 325 | - | expression tag |
| Ala 326 | - | expression tag |
| Ala 327 | - | expression tag |
| Gly 328 | - | expression tag |
| Ser 329 | - | expression tag |
| Gly 532 | - | expression tag |
| Thr 533 | - | expression tag |
| Leu 534 | - | expression tag |
| Glu 535 | - | expression tag |
| Val 536 | - | expression tag |
| Leu 537 | - | expression tag |
| Phe 538 | - | expression tag |
| Gln 539 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 16 |
| Total formula weight | 460658.2 | |
| Branched | Number of molecules | 3 |
| Total formula weight | 1102.0 | |
| Non-Polymers* | Number of molecules | 21 |
| Total formula weight | 2053.7 | |
| All* | Total formula weight | 463814.0 |
