Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4522 |
| PDBID: | 7ORA |
| Chains: | FG_R |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.60 |
| Reference: | 10.1016/j.cell.2021.06.020 |
| Antibody | |
| Antibody: | COVOX-253 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | Yes |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >7ORA_F|Chain D[auth F], I[auth H]|COVOX-253 Fab heavy chain|Homo sapiens (9606) QVQLVQSGPEVKKPGTSVKVSCKASGFTFTTSAVQWVRQARGQRLEWIGWIVVGSGNTNYAQKFQERVTITRDMSTTTAYMELSSLRSEDTAVYFCAAPHCNSTSCYDAFDIWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDK |
Light Chain: G
Mutation: NULL
| >7ORA_G|Chain E[auth G], J[auth L]|COVOX-253 Fab light chain|Homo sapiens (9606) DIQMTQSPGTLSLSPGEGATLSCRASQSVSSSYLAWYQQKPGQAPRLLIYGASSGATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSSPYTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: R
Mutation: T155K
| >7ORA_R|Chain A[auth C], F[auth R]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) ETGHHHHHHTNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSKPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGKK |
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)
| F: THR30 THR31 SER32 ALA33 TRP50 VAL52 GLY54 SER55 ASN57 MET74 PRO99 SER103 THR104 SER105 CYS106 TYR107 ASP108 ALA109 PHE110 G: SER32 TYR33 TYR50 GLY51 SER54 TYR92 GLY93 TYR97 R: ARG403 LYS417 TYR421 TYR453 LEU455 PHE456 ARG457 LYS458 SER459 TYR473 ALA475 GLY476 SER477 LYS478 PRO479 GLU484 GLY485 PHE486 ASN487 CYS488 TYR489 GLN493 |
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)
