Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5438 |
| PDBID: | 7WR8 |
| Chains: | AB_R |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 3.50 |
| Reference: | 10.1038/s41586-022-04980-y |
| Antibody | |
| Antibody: | BD55-3152 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Omicron B.1.1.529 spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >7WR8_A|Chain B[auth A]|BD55-3152H|Homo sapiens (9606) MGWSLILLFLVAVATRVLSQVQLVQSGAEVKKPGASVIVSCKASGYRFISHYIHWVRQAPGQGLEWMGKIDPSGRGTTYAQKLQGRVSVTRDTSTSSVYMALSGLRSDDTAVYYCARDRFPLSDPYVWGSPLGGLDVWGQGTTVIVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHHHHHH |
Light Chain: B
Mutation: NULL
| >7WR8_B|Chain C[auth B]|BD55-3152L|Homo sapiens (9606) MGWSCIILFLVATATGVHSSYDLTQPPSVSVSPGQTARITCSGDALPSQYVYWYQQRPGQAPVLVMYKDSERPPGIPERFSGSTSGTTATLTITGVQAEDEADYYCQSADASTTYHVFGGGTKVTVVGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: R
Mutation: NULL
| >7WR8_R|Chain A[auth R]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) NLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFPLRSYSFRPTYGVGHQPYRVVVLSFELLHAPATVCG |
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)
| A: PHE101 PRO102 LEU103 SER104 ASP105 TYR107 VAL108 TRP109 GLY110 SER111 PRO112 B: LEU27 PRO28 SER29 GLN30 TYR31 LYS49 ASP50 GLU52 THR65 GLY67 ASP91 ALA92 SER93 THR94 THR95 R: ASP339 GLU340 PHE342 ASN343 ALA344 THR345 ARG346 ASN354 VAL367 LEU368 LEU371 ALA372 PHE375 TRP436 ASN437 SER438 LYS440 LEU441 LYS444 ASN448 ASN450 TYR451 ARG509 |
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)
