Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5737 |
| PDBID: | 7ZF4 |
| Chains: | HL_E |
| Organism: | Lama glama, Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 4.18 |
| Reference: | 10.1016/j.cell.2022.05.014 |
| Antibody | |
| Antibody: | Omi-9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Omicron BA.1 spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7ZF4_H|Chain B[auth H]|Omi-9 heavy chain|Homo sapiens (9606) QVQLVESGGGVVQPGRSLRLSCAASGFTFRTYAVHWVRQAPGKGPEWVAVISYDGSNKYYADSVKGRFTLSRDTSKNTLYLQMNSLRAEDTAVYYCASRGDTVTTGDAFDIWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK |
Light Chain: L
Mutation: NULL
| >7ZF4_L|Chain C[auth L]|Omi-9 light chain|Homo sapiens (9606) SYELTQPPSVSVSPGQTARITCSGDALPKQYTYWYQQKPGQPPVLVIYKDSERPSGIPERFSGSSSGTTVTLTISGVQAEDEADYYCQSTDSSATYPGNVVFGGGTKLTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: E
Mutation: G13D/S45L/S47P/S49F/K91N/N114K/G120S/S151N/T152K/E158A/Q167R/G170S/N175Y/Y179H
| >7ZF4_E|Chain D[auth E]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) HHHHHHTNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFPLRSYSFRPTYGVGHQPYRVVVLSFELLHAPATVCGKK |
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: THR31 TYR32 ALA33 HIS35 VAL50 ILE51 SER52 TYR53 ASN57 TYR59 ARG99 GLY100 ASP101 THR102 VAL103 ALA108 L: GLN30 TYR31 TYR33 LYS49 THR90 SER93 ALA94 E: PHE456 THR470 GLU471 ILE472 LYS478 ASN481 GLY482 VAL483 ALA484 GLY485 PHE486 ASN487 TYR489 PHE490 LEU492 ARG493 |
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)
