Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 4737 |
| PDBID: | 7R9D |
| Chains: | HL_N |
| Organism: | Mus musculus, Vicugna pacos |
| Method: | XRD |
| Resolution (Å): | 1.83 |
| Reference: | 10.1073/pnas.2115001118 |
| Antibody | |
| Antibody: | 8D3 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | N0 Nanobody |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >7R9D_H|Chain C[auth H]|Fab 8D3 heavy chain|Mus musculus (10090) DVQLVESGGGLVQPGGSRKLSCAASGFTFSNFGMHWVRQAPEMGLEWVAYISSGSTTIYYGDTVKGRFTISRDNPKNTLFLQMTSLRSEDTAMYYCARRPLYDGDYGYPMDYWGQGTSVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCGS |
Light Chain: L
Mutation: NULL
| >7R9D_L|Chain A[auth L]|Fab 8D3 light chain|Mus musculus (10090) NIMLTQSPSSLAVSAGERVTMSCKSTQSILYNSNQKTYLAWYQQKPGQSPKLLIYWASTRASGVPDRFTGSGSGTDFTLTINSVQPEDLAVYYCHQYLSAWTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: N
Mutation: NULL
| >7R9D_N|Chain B[auth N]|Nanobody N0|Vicugna pacos (30538) QVQLVEYGGGSVQAGGYLRLSCVASGSISLSSGMGWYRQAPGKERELVASISGGSSTNYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAASEQLTSGHAYWGQGTQVTVSSLEHHH |
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 L: ASN1 ILE2 MET3 THR26 GLN27 LEU30 TYR31 ASN32 SER33 TYR38 TYR97 LEU98 SER99 ALA100 TRP101 H: GLY33 TYR50 SER52 TYR59 ASP62 LYS65 ARG99 PRO100 LEU101 TYR102 ASP103 GLY104 ASP105 TYR106 N: SER11 GLN13 ALA14 ALA40 PRO41 GLY42 LYS43 LYS86 PRO87 GLU88 THR90 GLN113 THR115 VAL116 SER117 SER118 LEU119 GLU120 HIS121 HIS122 |
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)
