Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 5997 |
| PDBID: | 8DKM |
| Chains: | AB_P |
| Organism: | Mus musculus, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 3.39 |
| Reference: | 10.1016/j.cell.2022.08.020 |
| Antibody | |
| Antibody: | 3H5 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Human isoform 2 of cystinosin |
| Antigen mutation: | Yes |
| Durg Target: | O60931 |
Sequence information
Antibody
Heavy Chain: A
Mutation: NULL
| >8DKM_A|Chain A|Fab 3H5 Heavy Chain|Mus musculus (10090) MGWSCIILFLVATATGVHSEVMLVESGGGLVKPGGSLKLSCAASGFTFSNYAMSWVRQTPEKRLEWVAAISGNEGTYTYYPDSVRGRFTISRDNARNNLYLQISSLRSEDTALYYCARYGLVGALDFWGQGASVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHHHHHH |
Light Chain: B
Mutation: NULL
| >8DKM_B|Chain B|Fab 3H5 Kappa chain|Mus musculus (10090) MGWSCIILFLVATATGVHSDIQMNQSPSTLSASLGDTITITCRASQNIDVWLNWYQQKPGDIPKLLIYEASNLHTGVPSRFSGSGSGTDFTLAISSLQPEDIATYYCLQGQDYPFTFGSGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: P
Mutation: T260I
| >8DKM_P|Chain C[auth P]|Isoform 2 of Cystinosin|Homo sapiens (9606) MIRNWLTIFILFPLKLVEKCESSVSLTVPPVVKLENGSSTNVSLTLRPPLNATLVITFEITFRSKNITILELPDEVVVPPGVTNSSFQVTSQNVGQLTVYLHGNHSNQTGPRIRFLVIRSSAISIINQVIGWIYFVAWSISFYPQVIMNWRRKSVIGLSFDFVALNLTGFVAYSVFNIGLLWVPYIKEQFLLKYPNGVNPVNSNDVFFSLHAVVLTLIIIVQCCLYERGGQRVSWPAIGFLVLAWLFAFVTMIVAAVGVITWLQFLFCFSYIKLAVTLVKYFPQAYMNFYYKSTEGWSIGNVLLDFTGGSFSLLQMFLQSYNNDQWTLIFGDPTKFGLGVFSIVFDVVFFIQHFCLYRKRPGLQAARTGSGSRLRQDWAPSLQPKALPQTTSVSASSLKGDYKDDDDK |
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)
| A: ASN31 TYR32 ALA33 ILE51 SER52 GLY53 ASN54 THR57 TYR58 TYR60 TYR100 GLY101 LEU102 VAL103 B: ASP30 TRP32 GLY91 GLN92 ASP93 TYR94 PHE96 P: VAL24 SER25 ARG47 PRO48 PRO49 LEU50 ASN51 ALA52 THR53 VAL77 PRO79 PRO80 GLY81 VAL82 THR83 ASN84 SER85 |
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)
