7WP5
Cryo-EM structure of SARS-CoV-2 Omicron S6P trimer in complex with neutralizing antibody VacW-209 (local refinement)
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | L | VacW-209 light chain | polymer | 111 | 11514.6 | 1 | UniProt (A0A5C2GQT9) Pfam (PF07686) In PDB | Homo sapiens (human) | |
2 | H | VacW-209 heavy chain | polymer | 131 | 14460.1 | 1 | Homo sapiens | ||
3 | F | Spikeprotein S1 | polymer | 189 | 21638.4 | 1 | UniProt (P0DTC2) Pfam (PF09408) In PDB | Severe acute respiratory syndrome coronavirus 2 | S glycoprotein,E2,Peplomer protein |
4 | A | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) |
Sequence modifications
F: 333 - 521 (UniProt: P0DTC2)
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 |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 3 |
Total formula weight | 47613.1 | |
Branched | Number of molecules | 1 |
Total formula weight | 424.4 | |
All* | Total formula weight | 48037.5 |