Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 453 |
| PDBID: | 3DVG |
| Chains: | BA_X |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.60 |
| Reference: | 10.1016/j.cell.2008.07.039 |
| Antibody | |
| Antibody: | Apu.3A8 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Ubiquitin |
| Antigen mutation: | No |
| Durg Target: | Q8ID50; P0CG47; P0CG47; P0CG47; P0CG48; P0CG48; P0CG48; P0CG48; P0CG48; P0CG48; P0CG48; P0CG48; P0CG48; |
Sequence information
Antibody
Heavy Chain: B
Mutation: NULL
| >3DVG_B|Chain B|Human IgG1 fab fragment heavy chain|Homo sapiens (9606) EISEVQLVESGGGLVQPGGSLRLSCAASGFNVKTGLIHWVRQAPGKGLEWVAYITPYYGSTSYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCAREYYRWYTAIDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTH |
Light Chain: A
Mutation: NULL
| >3DVG_A|Chain A|Human IgG1 fab fragment light chain|Homo sapiens (9606) SDIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSARSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYSSYSSLFTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: X
Mutation: NULL
| >3DVG_X|Chain C[auth X]|Ubiquitin D77|Homo sapiens (9606) GSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGD |
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: GLN27 VAL29 SER30 SER31 ALA32 TYR49 SER50 ALA51 ARG52 SER53 LEU54 ARG66 SER93 B: TYR101 ARG102 TYR104 X: SER-1 MET1 GLU18 PRO19 SER20 ASP21 THR22 ASN25 THR55 SER57 ASP58 TYR59 ASN60 ILE61 GLN62 |
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)
