Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5902 |
| PDBID: | 8CWK |
| Chains: | AB_C |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.37 |
| Reference: | Not available or To be published |
| Antibody | |
| Antibody: | 10G4 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2; P0DTC2; |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >8CWK_A|Chain C[auth A]|Heavy chain of Fab arm of antibody 4G1-C2|Homo sapiens (9606) EVQLLESGGGLVQPGGSLRLSCAASGFRFDYEDMGWVRQAPGKGLEWVSSIDSHGASTYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKYSHSVSYGPFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCGSHHHHHH |
Light Chain: B
Mutation: NULL
| >8CWK_B|Chain D[auth B]|Light chain of Fab arm of antibody 4G1-C2|Homo sapiens (9606) DIQMTQSPSSLSASVGDRVTITCRASQYIYDDLNWYQQKPGKAPKLLIYSASSLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQAWPYPLTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGECS |
Antigen
Chain: C
Mutation: NULL
| >8CWK_C|Chain E[auth C]|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKGSHHHHHH |
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)
| A: GLU1 VAL2 GLY26 PHE27 ARG28 TYR31 GLU32 HIS54 LYS98 SER100 HIS101 SER102 SER104 TYR105 TYR110 B: TYR28 TYR30 ASP31 ASP32 TYR49 LEU54 SER56 ALA91 TRP92 C: ARG346 PHE347 ALA348 SER349 TYR351 ALA352 TRP353 ASN354 ARG355 LYS356 ARG357 SER359 THR393 ASN394 TYR396 ASN450 LEU452 ARG457 LYS462 PRO463 PHE464 GLU465 ARG466 ILE468 SER469 THR470 GLU471 ALA520 PRO521 THR523 |
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)
