Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5287 |
| PDBID: | 7VGS |
| Chains: | FE_B |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Mus musculus |
| Method: | EM |
| Resolution (Å): | 2.80 |
| Reference: | 10.1038/s41467-022-32019-3 |
| Antibody | |
| Antibody: | YN7717_9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 membrane protein dimer (short form) |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: F
Mutation: NULL
| >7VGS_F|Chain C[auth D], F|YN7717_9 Fab heavy chain|Mus musculus (10090) EVQLQQSGPELVKPGASMKISCKTSGYSFTGYTMNWVKQSHGKNLEWIGLINPYNGDTSYNQKFKGKATLTVDKSSSTAYMELLSLTSEDSAVYYCEVINTYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPRDCGCKPCICTVPEVSS |
Light Chain: E
Mutation: NULL
| >7VGS_E|Chain B[auth C], E|YN7717_9 Fab light chain|Mus musculus (10090) DIVMTQSPASLAVSLGQRATISCKASQSIDYDGDNYMNWYQQKPGQPPKLLIYTTSNLESGIPARFSGSGSGTDFTLNIHPVEEGDAATYYCQQNNEDPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: B
Mutation: NULL
| >7VGS_B|Chain A, D[auth B]|Membrane protein|Severe acute respiratory syndrome coronavirus 2 (2697049) MHHHHHHHHDYKDDDDKENLYFQGMADSNGTITVEELKKLLEQWNLVIGFLFLTWICLLQFAYANRNRFLYIIKLIFLWLLWPVTLACFVLAAVYRINWITGGIAIAMACLVGLMWLSYFIASFRLFARTRSMWSFNPETNILLNVPLHGTILTRPLLESELVIGAVILRGHLRIAGHHLGRCDIKDLPKEITVATSRTLSYYKLGASQRVAGDSGFAAYSRYRIGNYKLNTDHSSSSDNIALLVQ |
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)
| E: ASP32 ASP34 TYR36 ASN38 LEU50 TYR53 THR54 GLU59 SER60 ASN95 ASN96 GLU97 ASP98 TYR100 F: VAL2 SER28 THR30 GLY31 TYR32 THR33 ASN35 LEU50 ASN52 TYR54 ASN55 ASP57 VAL98 ILE99 ASN100 THR101 TYR102 B: ARG105 ARG107 PRO123 HIS125 GLY126 THR127 ILE128 LEU138 PRO165 LYS166 ILE168 THR175 TYR178 LYS180 GLY182 ALA183 SER197 ARG198 TYR199 ARG200 ILE201 GLY202 ASN203 TYR204 |
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)
