Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5648 |
| PDBID: | 7Y0V |
| Chains: | HL_R |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.48 |
| Reference: | 10.1016/j.celrep.2022.111845 |
| Antibody | |
| Antibody: | BD55-5549 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 BA.1 spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7Y0V_H|Chain A[auth H]|5549-Fab|Homo sapiens (9606) QLQLQESGPGLVKPSETLSLTCTVSGASITSSDSYWGWIRQPPGKGLEWIGSIYYTGSAYKSPPLKSRVTMSVDTSKNQFSLKVTSLTAADTAVYYCARGRGSPPHYYFYFGLDVWGQGTTVSVSLASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTH |
Light Chain: L
Mutation: NULL
| >7Y0V_L|Chain B[auth L]|5549-Fab|Homo sapiens (9606) SYELTQPPSVSVSPGQTATITCSGTALPNHYAYWYQQKPGQAPVLVIYTDNERPSGIPERFSGSTSGTTVTLTISGVQAEDEADYYCQSADSNANVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: R
Mutation: G15D/S47L/S49P/S51F/K93N/N116K/G122S/S153N/T154K/E160A/Q169R/G172S/Q174R/N177Y/Y181H/A196P/P197A
| >7Y0V_R|Chain C[auth R]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) SIVRFPNITNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFPLRSYSFRPTYGVGHQPYRVVVLSFELLHPAATVCGPKKSTNLVKNKCVNFHHHHHHHH |
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: SER103 PRO104 PRO105 HIS106 TYR107 PHE109 TYR110 PHE111 L: LEU27 PRO28 ASN29 HIS30 TYR31 ASP50 ASN51 GLU52 THR65 VAL70 SER92 ASN93 ALA94 R: PRO337 ASP339 GLU340 PHE342 ASN343 ALA344 THR345 ARG346 ASN354 LEU371 PHE374 TRP436 LYS440 LEU441 ASP442 LYS444 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)
