Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 868 |
| PDBID: | 4ODX |
| Chains: | HB_X |
| Organism: | synthetic construct, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 3.10 |
| Reference: | 10.1371/journal.ppat.1004403 |
| Antibody | |
| Antibody: | GEP7 Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | 4E10 epitope scaffold T117 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >4ODX_H|Chain B[auth A], D[auth H]|GEP7 Fv heavy chain|Homo sapiens (9606) GSQVQLVQSGAEVKKPGSSVKVSCKASGGTFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTITADKSTSTAYMELSSLRSEDTAVYYCAREGTTGWGWLGKPIGAFQHWGQGTLVTVSS |
Light Chain: B
Mutation: NULL
| >4ODX_B|Chain C[auth B], E[auth L]|GEP7 Fv light chain|Homo sapiens (9606) EIVLTQSPGTLSLSPGERATLSCRASQSVSSSYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSSPSTFGQGTKVEIKRLVPR |
Antigen
Chain: X
Mutation: NULL
| >4ODX_X|Chain A[auth X], F[auth Y]|4E10 epitope scaffold T117|artificial gene (32630) HHHHHHNAMQGIHFRRHYVRHLPKEVSQNDIIKALASPLINDGMVVSDFADHVITREQNFPTGLPVEPVGVAIPHTDSKYVRQNAISVGILAEPVNFEDAGGEPDPVPVRVVFMLALGNWFDITNVLWWIMDVIQDEDFMQQLLVMNDDEIYQSIYTRISE |
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)
| B: SER31 TYR32 TYR91 GLY92 SER93 SER94 SER96 H: SER31 TYR32 ALA33 SER35 TRP47 GLY50 ILE51 ILE53 PHE54 GLY55 THR56 ALA57 ASN58 LYS73 GLU95 PHE100 X: GLN10 ARG56 PHE60 PRO61 LEU64 HIS75 ASP77 SER78 ASN84 ALA100 GLY101 GLY118 ASN119 TRP120 PHE121 ASP122 ILE123 THR124 ASN125 LEU127 TRP128 MET131 |
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)
