Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2004 |
| PDBID: | 6A78 |
| Chains: | IM_B |
| Organism: | Homo sapiens, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 2.10 |
| Reference: | 10.1016/j.str.2018.11.002 |
| Antibody | |
| Antibody: | B5209B Fv |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Roundabout homolog 1 |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: I
Mutation: NULL
| >6A78_I|Chain C[auth H], F[auth I]|Heavy chain and linker region of the anti-human Robo1 antibody B5209B scFv|Mus musculus (10090) EVQLVESGGGVVQPGGSLKLSCAASGFTFSTYDMSWVRQTPDKRLELVATINSNGGSTYYPDSVKGRFTSSRDNAKNILYLQMSSLKSEDTAMYYCAREALLRPPYYALDYWGQGTSVTVSSAGGGGSGGGGSGGGGS |
Light Chain: M
Mutation: NULL
| >6A78_M|Chain B[auth L], E[auth M]|Light chain region of the anti-human Robo1 antibody B5209B scFv|Mus musculus (10090) DILDIQMTQSPASLSASVGETVTITCGASENIYGALTWYQRKQGKSPQLLIYGAINLADDKSSRFSGSGSGRQYSLKISSLHPDDVATYYCQNVLSTPFTFGSGTKLEIKAA |
Antigen
Chain: B
Mutation: NULL
| >6A78_B|Chain A, D[auth B]|Roundabout homolog 1|Homo sapiens (9606) MGPVIRQGPVNQTVAVDGTFVLSCVATGSPVPTILWRKDGVLVSTQDSRIKQLENGVLQIRYAKLGDTGRYTCIASTPSGEATWSAYIEVQ |
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)
| M: ASN28 TYR30 GLY31 ALA32 ILE52 VAL91 LEU92 SER93 THR94 PHE96 I: ASP31 THR48 ILE49 ASN50 SER55 THR56 TYR57 TYR58 LYS63 GLU97 PRO102 PRO103 TYR104 TYR105 B: GLN13 ASP23 GLY24 THR25 PHE26 VAL27 SER29 VAL31 ARG55 LYS57 GLN58 LEU59 GLU60 ASN61 VAL63 GLN65 ARG67 TYR68 LYS70 |
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)
