7FBJ
Crystal structure of SARS-CoV-2 receptor binding domain in complex with neutralizing nanobody 17F6
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 | 230 | 25623.5 | 8 | UniProt (P0DTC2) Pfam (PF09408) | Severe acute respiratory syndrome coronavirus 2 (2019-nCoV SARS-CoV-2) | |
| 2 | B, D, F, H, J... (B, D, F, H, J...) | New antigen receptor variable domain | polymer | 127 | 13892.4 | 8 | Chiloscyllium plagiosum | ||
| 3 | Q, R, T, U (Q, R, T, U) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 4 | In PDB GlyTouCan (G42666HT) | |||
| 4 | S (S) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 5 | V, W, X (A, C, E) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 3 | Chemie (NAG) | |||
| 6 | AA, BA, CA, DA, EA... (C, H, J, L, M...) | water | water | 18.0 | 12 | Chemie (HOH) |
Sequence modifications
A, C, E, G, I, K, M, O: 332 - 527 (UniProt: P0DTC2)
| PDB | External Database | Details |
|---|---|---|
| Asp 326 | - | expression tag |
| Ala 327 | - | expression tag |
| Ala 328 | - | expression tag |
| Gln 329 | - | expression tag |
| Pro 330 | - | expression tag |
| Ala 331 | - | expression tag |
| Ala 528 | - | expression tag |
| Ala 529 | - | expression tag |
| Ala 530 | - | expression tag |
| Arg 531 | - | expression tag |
| Gly 532 | - | expression tag |
| Gly 533 | - | expression tag |
| Pro 534 | - | expression tag |
| Glu 535 | - | expression tag |
| Gln 536 | - | expression tag |
| Lys 537 | - | expression tag |
| Leu 538 | - | expression tag |
| Ile 539 | - | expression tag |
| Ser 540 | - | expression tag |
| Glu 541 | - | expression tag |
| Glu 542 | - | expression tag |
| Asp 543 | - | expression tag |
| Leu 544 | - | expression tag |
| Asn 545 | - | expression tag |
| Ser 546 | - | expression tag |
| Ala 547 | - | expression tag |
| Val 548 | - | expression tag |
| Asp 549 | - | expression tag |
| His 550 | - | expression tag |
| His 551 | - | expression tag |
| His 552 | - | expression tag |
| His 553 | - | expression tag |
| His 554 | - | expression tag |
| His 555 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 16 |
| Total formula weight | 316127.6 | |
| Branched | Number of molecules | 5 |
| Total formula weight | 2284.1 | |
| Non-Polymers* | Number of molecules | 3 |
| Total formula weight | 663.6 | |
| All* | Total formula weight | 319075.4 |
