Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5358 |
| PDBID: | 7WLC |
| Chains: | HL_E |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 4.00 |
| Reference: | 10.1038/s41586-022-04466-x |
| Antibody | |
| Antibody: | XGv282 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Omicron variant spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7WLC_H|Chain B[auth H]|Heavy chain of XGv282|Homo sapiens (9606) VQLVQSGAEVKKPGSSVKVSCKASGDTFSSYTFSWVRQAPGQGLEWMGRSIPIVGKAIYAQEFQGRVTISADRSTTTVYMELSSLRSDDTAVYYCARDQSGFDFFYYDHWGQGTLVAV |
Light Chain: L
Mutation: NULL
| >7WLC_L|Chain C[auth L]|Light chain of XGv282|Homo sapiens (9606) QSVLTQPPSASGTPGQRVTISCSGSGSNIGSNTINWYQQLPGTAPKVLIYRNNERPSGVPDRFSGSKSGTSASLTISGLQSEDEAYYHCAAWDDSLNGPVFGGGTKLTVLG |
Antigen
Chain: E
Mutation: G10D/S42L/S44P/S46F/K88N/N111K/G117S/S148N/T149K/E155A/Q164R/G167S/Q169R/N172Y/Y176H
| >7WLC_E|Chain A[auth E]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) PNITNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFPLRSYSFRPTYGVGHQPYRVVVLSFELLHAPATVCGPKKS |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| H: SER31 THR33 ARG50 ILE52 ILE54 VAL55 LYS57 ARG74 ASP99 GLY102 PHE103 ASP104 TYR107 TYR108 L: TRP92 ASN97 E: TYR351 ASN439 LYS440 LEU441 SER443 LYS444 VAL445 SER446 TYR449 ASN450 TYR451 LEU452 PHE490 LEU492 ARG493 SER494 ARG498 PRO499 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
