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... | Spike protein S1 | polymer | 234 | 26214.7 | 8 | UniProt (P0DTC2) Pfam (PF09408) In PDB | Severe acute respiratory syndrome coronavirus 2 | |
2 | B, D, F, H, J... | Ab08 | polymer | 303 | 31367.6 | 8 | Homo sapiens | ||
3 | Q, S | alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 2 | In PDB GlyTouCan (G86851RC) | |||
4 | R | alpha-L-fucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 367.3 | 1 | In PDB GlyTouCan (G80587NA) | |||
5 | H, I, J, O, P... | (4S)-2-METHYL-2,4-PENTANEDIOL | non-polymer | 118.2 | 11 | Chemie (MPD) | |||
6 | D, F, L, N, P... | CALCIUM ION | non-polymer | 40.1 | 6 | Chemie (CA) | |||
7 | G, B | CHLORIDE ION | non-polymer | 35.5 | 2 | Chemie (CL) | |||
8 | O, C | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 2 | Chemie (NAG) | |||
9 | 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 |