Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5768 |
| PDBID: | 7ZFE |
| Chains: | HL_E |
| Organism: | Lama glama, Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.25 |
| Reference: | 10.1016/j.cell.2022.05.014 |
| Antibody | |
| Antibody: | Omi-32 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
| >7ZFE_H|Chain C[auth F], I[auth H], J, L[auth M]|Omi-32 heavy chain|Homo sapiens (9606) EVQLVESGGGVVQPGRSLRLSCAASGFTFSNYGMHWVRQAPGKGLEWVAVYWYDGGNKFYADSVKGRFTISRDNSKNTLYLQMNSLRVEDTAVYYCARDTAPPDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK |
Light Chain: L
Mutation: NULL
| >7ZFE_L|Chain D[auth G], E[auth K], K[auth L], M[auth N]|Omi-32 light chain|Homo sapiens (9606) AIRMTQSPGTLSLSPGERATLSCRASQSISSSFLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGTSPRLTFGGGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: E
Mutation: G13D/S45L/S47P/S49F/K91N/N114K/G120S/S151N/T152K/E158A/Q167R/G170S/N175Y/Y179H
| >7ZFE_E|Chain B[auth A], H[auth B], N[auth C], O[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: THR28 ASN31 TYR32 TRP52 TYR53 ASP54 GLY55 ASN57 PHE59 ARG98 ASP99 THR100 ALA101 ASP104 TYR105 L: ALA1 GLN27 SER32 PHE33 TYR50 GLY51 SER53 SER54 ARG55 ALA56 THR57 TYR92 GLY93 THR94 SER95 PRO96 ARG97 E: THR345 ARG346 PHE347 ALA348 SER349 TYR351 ALA352 ASN354 LYS444 VAL445 SER446 GLY447 ASN448 TYR449 ASN450 LEU452 TYR453 ILE468 THR470 GLY482 VAL483 ALA484 GLY485 PHE486 TYR489 PHE490 LEU492 ARG493 SER494 TYR495 SER496 PHE497 ARG498 PRO499 TYR501 |
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)
