Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6904 |
| PDBID: | 4KDT |
| Chains: | A_D |
| Organism: | Camelidae, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.60 |
| Reference: | 10.1002/pro.2321 |
| Antibody | |
| Antibody: | 24 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | β2-microglobulin (β2m) |
| Antigen mutation: | Yes |
| Durg Target: | P61769 |
Sequence information
Antibody
Chain: A
Mutation: NULL
| >4KDT_A|Chain A, B|Nanobody24|Camelidae (9835) QVQLQESGGGSVQAGGSLRLSCAASGYTDSRYCMAWFRQAPGKEREWVARINSGRDITYYADSVKGRFTFSQDNAKNTVYLQMDSLEPEDTATYYCATDIPLRCRDIVAKGGDGFRYWGQGTQVTVSSHHHHHH |
Antigen
Chain: D
Mutation: P33G
| >4KDT_D|Chain C, D|Beta-2-microglobulin|Homo sapiens (9606) MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHGSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM |
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 A: CYS33 ARG50 ASN52 SER53 GLY54 ASP56 ILE57 THR58 TYR59 PRO101 LEU102 CYS104 ARG105 ASP106 ILE107 VAL108 ALA109 LYS110 GLY111 D: LEU40 LYS41 ASN42 GLY43 GLU44 ARG45 ILE46 GLU47 THR73 LYS75 ASP76 GLU77 TYR78 ALA79 ARG81 PRO90 ILE92 LYS94 |
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)
