Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3592 |
| PDBID: | 7DEU |
| Chains: | B_A |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 2.10 |
| Reference: | 10.1371/journal.pbio.3001209 |
| Antibody | |
| Antibody: | PR953 scFv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7DEU_B|Chain B|antibody scFv|Mus musculus (10090) EVQLQQSGPELVKPGASVKISCKTSGYTFTEYTMHWVKQSHGKSLEWIGGINPNNGDNTYNQKLKGKATLTVHKSSSTAYMELRSLTSEDSAVYYCARDGYPYYYALDYWGQGTSVTVSSGGGGSGGGGSGGGGSDIVMTQSQKFMSTSVGDRVSVTCKASQNVGTNVAWYQQKPGQSPKPLIYSASSRYSGVPDRFTGSGSGTDFTLTISNVQSEDLAEYFCQQYNNYPWTFGGGTKLEIKAAAHHHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >7DEU_A|Chain A|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSAAAHHHHHH |
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)
| B: THR33 HIS35 GLY50 ASN52 ASN54 ASN55 ASP57 ASN58 THR59 ASP99 TYR101 TYR105 ALA106 ASN167 TYR226 ASN227 ASN228 TYR229 TRP231 A: PHE456 LYS458 TYR473 GLN474 ALA475 GLY476 SER477 THR478 PRO479 ASN481 PHE486 ASN487 CYS488 TYR489 |
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)
