Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3691 |
| PDBID: | 7EAM |
| Chains: | CD_B |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 1.40 |
| Reference: | 10.1038/s41467-021-25997-3 |
| Antibody | |
| Antibody: | 7D6 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: C
Mutation: NULL
| >7EAM_C|Chain B[auth C], E[auth H]|the heavy chain of Fab fragment of antibody 7D6|Mus musculus (10090) EVQLQQSGAELVRPGASVKLSCTASGFNIKDTYIHWVKQRPEQGLEWIGRIDPGDGDTEYDPSFQGKATITADTSSNTAYLELSSLTSEDTAVYYCTRFYDYVDYGMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIEPR |
Light Chain: D
Mutation: NULL
| >7EAM_D|Chain C[auth D], F[auth L]|the light chain of Fab fragment of antibody 7D6|Mus musculus (10090) DIQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPPWTFGGGTKLEVKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNN |
Antigen
Chain: B
Mutation: NULL
| >7EAM_B|Chain A, D[auth B]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) RVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFHHHHHHHHHH |
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)
| C: GLU1 VAL2 GLY26 PHE27 ASN28 LYS30 ASP31 THR32 TYR33 GLY54 ASP55 ARG98 TYR100 TYR102 VAL103 ASP104 TYR105 D: ASN28 HIS30 TYR32 TYR49 ASP56 TRP92 SER93 THR94 B: ARG346 TYR351 ALA352 TRP353 ASN354 ARG355 ARG357 THR393 ASN394 TYR396 LYS462 PRO463 PHE464 GLU465 ARG466 ILE468 SER469 THR470 GLU471 PHE490 LEU492 GLU516 LEU518 HIS519 ALA520 PRO521 |
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)
