Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5754 |
| PDBID: | 7ZFB |
| Chains: | CD_F |
| Organism: | Lama glama, Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.08 |
| Reference: | 10.1016/j.cell.2022.05.014 |
| Antibody | |
| Antibody: | Omi-31 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; P0DTC2; |
Sequence information
Antibody
Heavy Chain: C
Mutation: NULL
| >7ZFB_C|Chain D[auth A], H[auth C]|Omi-31 heavy chain|Homo sapiens (9606) EVQLVQSGAEVKKPGSSVKVSCKASGGTFSSYGISWVRQAPGLGLEWMGGVIPILSAKHYAQRFQGRVTITADKSTGTAYMELSSLRSEDTAVYYCARDILHHDDLWGRFYYDGMDVWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK |
Light Chain: D
Mutation: NULL
| >7ZFB_D|Chain E[auth B], I[auth D]|Omi-31 light chain|Homo sapiens (9606) QSVVTQPPSASGTPGQRVTISCSGSSSDIGSNTVNWYQQLPGTAPKLLIYTNNQRPSGVPDRFSGSKSGTSASLAITGLQSEDEADYFCAAWDESLNGRVFGGGTKLTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: F
Mutation: G13D/S45L/S47P/S49F/K91N/N114K/G120S/S151N/T152K/E158A/Q167R/G170S/N175Y/Y179H
| >7ZFB_F|Chain C[auth E], L[auth F]|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)
| C: SER30 SER31 ILE54 LEU55 SER56 ALA57 LYS58 HIS59 TYR60 GLN65 GLY66 HIS103 ASP105 LEU106 TRP107 GLY108 ARG109 PHE110 D: ASN32 TRP92 GLU94 SER95 ASN97 F: THR345 ARG346 PHE347 ALA348 SER349 TYR351 ALA352 ASN354 LYS444 VAL445 SER446 GLY447 ASN448 TYR449 ASN450 TYR451 LEU452 ILE468 THR470 GLY482 VAL483 ALA484 PHE490 LEU492 ARG493 SER494 ARG498 |
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)
