Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 7137 |
| PDBID: | 5JDS |
| Chains: | B_A |
| Organism: | Camelidae, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 1.70 |
| Reference: | 10.1038/celldisc.2017.4 |
| Antibody | |
| Antibody: | KN035 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Programmed cell death 1 ligand 1 (PD-L1) |
| Antigen mutation: | No |
| Durg Target: | Q9NZQ7 |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >5JDS_B|Chain A[auth B]|Nanobody|Camelidae (9835) TGQVQLQESGGGLVQPGGSLRLSCAASGKMSSRRCMAWFRQAPGKERERVAKLLTTSGSTYLADSVKGRFTISQNNAKSTVYLQMNSLKPEDTAMYYCAADSFEDPTCTLVTSSGAFQYWGQGTQVTVSSGSMDPGGSHHHHHHHH |
Antigen
Chain: A
Mutation: NULL
| >5JDS_A|Chain B[auth A]|Programmed cell death 1 ligand 1|Homo sapiens (9606) MAFTVTVPKDLYVVEYGSNMTIECKFPVEKQLDLAALIVYWEMEDKNIIQFVHGEEDLKVQHSSYRQRARLLKDQLSLGNAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNALEHHHHHH |
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: LYS27 SER29 SER30 ARG32 ASP99 SER100 PHE101 GLU102 ASP103 PRO104 THR105 LEU108 VAL109 SER111 GLY113 ALA114 PHE115 GLN116 A: ILE54 TYR56 GLU58 GLU60 ASP61 LYS62 ASN63 GLN66 VAL68 HIS69 ASP73 ARG113 MET115 SER117 GLY119 GLY120 ALA121 ASP122 TYR123 ARG125 |
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)
