Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5844 |
| PDBID: | 8BE1 |
| Chains: | DE_F |
| Organism: | Mus musculus, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 1.98 |
| Reference: | 10.1101/2023.01.10.523494 |
| Antibody | |
| Antibody: | mRBD2 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Heavy Chain: D
Mutation: NULL
| >8BE1_D|Chain A, D|Antibody heavy chain|Mus musculus (10090) MQVQLQQSGAELARPGASVKLSCKASGYTFISNGISWVKQRTGQGLEWIGEIYPRNGNTYYNEKFKGKATLTADKSSSTAYMELRSLTSEDSAVFFCARDYYYGSFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSQTVTCNVAHPASSTKVDKKIVPRDCGSSHHHHHH |
Light Chain: E
Mutation: NULL
| >8BE1_E|Chain B, E|Antibody light chain|Mus musculus (10090) MDIQMTQSPSSLSASLGERVSLTCRASREISGYLTWLQQKPDGTIKRLIYAASTLDSGVPKRFSGSRSGSDYSLTISSLESEDFADYYCLQYASYPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: F
Mutation: NULL
| >8BE1_F|Chain C, F|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) GSGTNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGP |
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)
| D: SER31 ASN32 GLY33 GLU50 ARG53 ASN54 ASN56 THR57 TYR58 ASP95 TYR96 TYR97 TYR98 E: TYR32 TYR91 ALA92 SER93 TYR94 TRP96 F: TYR421 LEU455 PHE456 TYR473 GLN474 ALA475 GLY476 SER477 THR478 PRO479 PHE486 ASN487 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)
