7WI0
SARS-CoV-2 Omicron variant spike in complex with three human neutralizing antibodies
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Spike protein S1 | polymer | 195 | 22167.0 | 1 | UniProt (P0DTC2) Pfam (PF09408) | Homo sapiens (human) | |
| 2 | B (B) | XMA04 heavy chain variable domain | polymer | 124 | 13517.0 | 1 | Homo sapiens | ||
| 3 | C (C) | XMA01 heavy chain variable domain | polymer | 122 | 13198.6 | 1 | Homo sapiens | ||
| 4 | D (D) | IGL c4029_light_IGKV1-39_IGKJ2 | polymer | 107 | 11616.9 | 1 | UniProt (A0A5C2G4I7) Pfam (PF07686) | Homo sapiens (human) | |
| 5 | E (E) | IG c934_light_IGKV1-5_IGKJ1 | polymer | 107 | 11781.1 | 1 | UniProt (A0A5C2GTV1) Pfam (PF07686) | Homo sapiens (human) | |
| 6 | F (H) | XMA09 heavy chain variable domain | polymer | 123 | 13272.7 | 1 | Homo sapiens | ||
| 7 | G (L) | IG c1437_light_IGLV1-40_IGLJ1 | polymer | 110 | 11374.4 | 1 | UniProt (A0A5C2GVU3) Pfam (PF07686) | Homo sapiens (human) | |
| 8 | H (A) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 1 | Chemie (NAG) |
Sequence modifications
A: 333 - 527 (UniProt: P0DTC2)
D: 1 - 107 (UniProt: A0A5C2G4I7)
E: 1 - 107 (UniProt: A0A5C2GTV1)
L: 1 - 110 (UniProt: A0A5C2GVU3)
| PDB | External Database | Details |
|---|---|---|
| Asp 339 | Gly 339 | variant |
| Leu 371 | Ser 371 | variant |
| Pro 373 | Ser 373 | variant |
| Phe 375 | Ser 375 | variant |
| Asn 417 | Lys 417 | variant |
| Lys 440 | Asn 440 | variant |
| Ser 446 | Gly 446 | variant |
| Asn 477 | Ser 477 | variant |
| Lys 478 | Thr 478 | variant |
| Ala 484 | Glu 484 | variant |
| Arg 493 | Gln 493 | variant |
| Ser 496 | Gly 496 | variant |
| Arg 498 | Gln 498 | variant |
| Tyr 501 | Asn 501 | variant |
| His 505 | Tyr 505 | variant |
| PDB | External Database | Details |
|---|---|---|
| Asn 31 | Ser 31 | conflict |
| Phe 32 | Tyr 32 | conflict |
| Ser 97 | Thr 97 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Val 9 | Ser 9 | conflict |
| Ser 10 | Thr 10 | conflict |
| Thr 31 | Ser 31 | conflict |
| Glu 50 | Lys 50 | conflict |
| Phe 91 | Tyr 91 | conflict |
| Tyr 94 | Ser 94 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ser 31 | Ala 31 | conflict |
| Leu 48 | Arg 48 | conflict |
| - | Tyr 100 | deletion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 7 |
| Total formula weight | 96927.7 | |
| Non-Polymers* | Number of molecules | 1 |
| Total formula weight | 221.2 | |
| All* | Total formula weight | 97148.9 |
