Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4395 |
| PDBID: | 7N0R |
| Chains: | D_B |
| Organism: | Severe acute respiratory syndrome coronavirus 2, Lama glama |
| Method: | XRD |
| Resolution (Å): | 1.42 |
| Reference: | 10.3389/fimmu.2021.719037 |
| Antibody | |
| Antibody: | C2 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 Spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: D
Mutation: NULL
| >7N0R_D|Chain C, D|Single-domain antibody C2|Lama glama (9844) MAEVQLQASGGGLVRPGGSLRLSCAASGFTFSSYAMMWVRQAPGKGLEWVSAINGGGGSTSYADSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCAKYQAAVHQEKEDYWGQGTQVTVSSAAALEHHHHHH |
Antigen
Chain: B
Mutation: NULL
| >7N0R_B|Chain A, B|Nucleoprotein|Severe acute respiratory syndrome coronavirus 2 (2697049) SNATASWFTALTQHGKEDLKFPRGQGVPINTNSSPDDQIGYYRRATRRIRGGDGKMKDLSPRWYFYYLGTGPEAGLPYGANKDGIIWVATEGALNTPKDHIGTRNPANNAAIVLQLPQGTTLPKGFYAE |
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)
| Chain residues position delta_SASA
: residuesposition D: TYR32 ALA33 MET35 TRP47 ALA50 ILE51 ASN52 SER57 THR58 SER59 TYR60 ALA61 ASP62 LYS65 LYS98 TYR99 GLN100 ALA101 ALA102 VAL103 HIS104 GLN105 B: TRP52 ILE74 ASN75 THR76 ASN77 SER78 SER79 PRO80 ASP81 ASP82 PRO142 ASP144 HIS145 ILE146 GLY147 ASN150 ASN153 ASN154 ILE157 VAL158 GLN160 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
