Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4658 |
| PDBID: | 7Q3Q |
| Chains: | B_A |
| Organism: | Vicugna pacos, Severe acute respiratory syndrome coronavirus 2 |
| Method: | XRD |
| Resolution (Å): | 2.30 |
| Reference: | Not available or To be published |
| Antibody | |
| Antibody: | VHH-12 VHH |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | SARS-CoV-2 spike glycoprotein RBD |
| Antigen mutation: | No |
| Durg Target: | P0DTC2 |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7Q3Q_B|Chain A[auth B]|VHH-12|Vicugna pacos (30538) AMAEVQLQASGGGLVEAGGSLRLSCTTSGLTFSSVTMGWFRQAPGKEREFVAAIRWKFGNLGYADSVKGRFTVSRDNAKNTVYLQMNSLKPEDTAVYYCAAARVGEIIAVLISPSNYAYWGQGTQVTVSSAAAHHHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >7Q3Q_A|Chain B[auth A]|Spike glycoprotein|Severe acute respiratory syndrome coronavirus 2 (2697049) NITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSFLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPK |
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 B: PHE49 ARG54 LYS56 PHE57 ASN59 LEU60 GLY61 TYR62 ALA63 ASP64 LYS67 ARG102 VAL103 GLY104 GLU105 ILE106 ILE107 ALA108 VAL109 LEU110 ILE111 ASN115 A: TYR351 GLY446 TYR449 ASN450 LEU452 LEU455 PHE456 THR470 ILE472 CYS480 GLY482 VAL483 GLU484 GLY485 PHE486 TYR489 PHE490 LEU492 GLN493 SER494 GLN498 |
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)
