Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5739 |
| PDBID: | 7ZF5 |
| Chains: | GI_A |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 5.32 |
| Reference: | 10.1016/j.cell.2022.05.014 |
| Antibody | |
| Antibody: | Omi-12 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: G
Mutation: NULL
| >7ZF5_G|Chain G[auth D], I[auth G]|Omi-12 heavy chain|Homo sapiens (9606) EVQLVESGPEVKKPGTSVKVSCKASGFSFSMSAMQWVRRARGQRLEWIGWIVPGSGNANYAQKFQERVTITRDESTNTGYMELSSLRSEDTAVYYCAAPHCNKTNCYDAFDIWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDK |
Light Chain: I
Mutation: NULL
| >7ZF5_I|Chain H[auth F], J[auth I]|Omi-12 light chain|Homo sapiens (9606) AIRMTQSPGTLSLSPGERATLSCRASQSVRSSYLAWYQQKPGQAPRLLIYGASTRATGIPDRFSGSGSGTDFILTINRLEPEDLAVYYCQQFGSSPWTFGQGTKVDIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: A
Mutation: G13D/S45L/S47P/S49F/K91N/N114K/G120S/S151N/T152K/E158A/Q167R/G170S/N175Y/Y179H
| >7ZF5_A|Chain E[auth A], F[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)
| G: SER30 MET31 ALA33 TRP50 VAL52 PRO53 GLY54 SER55 ASN57 PRO99 LYS103 THR104 ASN105 CYS106 TYR107 ASP108 ALA109 PHE110 I: ARG30 SER32 TYR33 TYR50 GLY51 THR54 PHE92 GLY93 TRP97 A: TYR421 LEU455 PHE456 ARG457 LYS458 TYR473 ALA475 GLY476 ASN477 LYS478 PRO479 CYS480 ASN481 VAL483 GLY485 PHE486 ASN487 CYS488 TYR489 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)
