Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3619 |
| PDBID: | 7DPM |
| Chains: | AB_C |
| Organism: | Homo sapiens, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 3.30 |
| Reference: | 10.1080/19420862.2021.1953683 |
| Antibody | |
| Antibody: | MW06 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: A
Mutation: NULL
| >7DPM_A|Chain A, D, G, J|heavy chain of MW06|Homo sapiens (9606) EVQLLESGGGLVQPGGSLRLSCAASGFTFSSYAMNWVRQAPGKGLEWVSVISGSGGSTYYADSVRGRFTISRDNSKNTLYLQMNSLRAEDTAVYCCAKGYYYDSSGYYFREDAFDIWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC |
Light Chain: B
Mutation: NULL
| >7DPM_B|Chain B, E, H, K|light chain of MW06|Homo sapiens (9606) DIQMTQSPSAMSASVGDRVTITCRASQGISNYLAWFQQKPGKVPKRLIYAASSLQSGVPSRFSGSGSGTEFTLTISSLQPEDFATYYCLQHNSYPYTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: C
Mutation: NULL
| >7DPM_C|Chain C, F, I, L|Spike protein S1|Severe acute respiratory syndrome coronavirus 2 (2697049) RVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNF |
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: SER57 TYR101 TYR102 ASP103 SER104 SER105 GLY106 TYR107 TYR108 PHE109 ARG110 GLU111 B: SER30 ASN31 TYR32 TYR49 ALA50 SER52 SER53 SER67 ASN92 SER93 C: TYR369 ASN370 ALA372 SER373 PHE374 SER375 THR376 PHE377 LYS378 CYS379 VAL382 SER383 PRO384 THR385 GLY404 ASP405 VAL407 ARG408 ASN437 ASN439 ASN440 PRO499 ASN501 GLY502 VAL503 GLN506 TYR508 |
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)
