Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6031 |
| PDBID: | 8DQU |
| Chains: | A_C |
| Organism: | Lama glama, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.45 |
| Reference: | 10.1371/journal.pone.0283194 |
| Antibody | |
| Antibody: | 2nsp23 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 non-structural protein 9 |
| Antigen mutation: | No |
| Durg Target: | P0DTC1; P0DTD1; A7J8L3; P0C6U8; P0C6X7; |
Sequence information
Antibody
Chain: A
Mutation: NULL
| >8DQU_A|Chain A, B|Nanobody|Lama glama (9844) MQVQLQESGGGLVQPGGSLRLSCAASGLAFSMYTMGWFRQAPGKEREFVAMIISSGDSTDYADSVKGRFTISRDNGKNTVYLQMDSLKPEDTAVYYCAAPKFRYYFSTSPGDFDSWGQGTQVTVSSAAAYPYDVPDYGSHHHHHH |
Antigen
Chain: C
Mutation: NULL
| >8DQU_C|Chain C, D[auth F]|Non-structural protein 9|Severe acute respiratory syndrome coronavirus 2 (2697049) NNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFVLALLSDLQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQ |
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: THR33 PHE47 MET50 ILE52 SER53 SER54 ASP56 SER57 THR58 ASP59 PHE101 ARG102 TYR103 TYR104 PHE105 SER106 THR107 SER108 PRO109 ASP111 C: LYS52 TRP53 ARG55 LYS58 THR62 GLY63 THR64 ILE65 TYR66 THR67 GLU68 LYS92 GLY93 ASN95 LEU97 ASN98 MET101 |
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)
