Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2071 |
| PDBID: | 6BFQ |
| Chains: | EF_J |
| Organism: | Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.60 |
| Reference: | 10.1080/19420862.2018.1494107 |
| Antibody | |
| Antibody: | F1 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Granulocyte-macrophage colony-stimulating factor |
| Antigen mutation: | No |
| Durg Target: | P04141 |
Sequence information
Antibody
Heavy Chain: E
Mutation: NULL
| >6BFQ_E|Chain A, C, E, G[auth H]|Fab Heavy chain|Homo sapiens (9606) MAQLQESGPGVVKPSETLSLTCSVSDSAIRKYYWSWIRQPPGQGLEYIGYIYASGSSFYNPSFKSRVSMSVDATNNQFYLKLTSVTAADTAVYYCAAITGTTDLWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHTNG |
Light Chain: F
Mutation: NULL
| >6BFQ_F|Chain B, D, F, H[auth L]|Fab Light Chain|Homo sapiens (9606) MDIQMTQSPSSVSASVGDRVTITCRASQGINRRLAWYQQKPGKAPKRLIYAVSTLQSGVPSRFNGSGSGTDFTLTVNNVQPDDLAMYFCLQSNNYPLTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: J
Mutation: NULL
| >6BFQ_J|Chain I[auth G], J[auth I], K[auth J], L[auth K]|Granulocyte-macrophage colony-stimulating factor|Homo sapiens (9606) APARSPSPSTQPWEHVNAIQEARRLLNLSRDTAAEMNETVEVISEMFDLQEPTCLQTRLELYKQGLRGSLTKLKGPLTMMASHYKQHCPPTPETSCATQIITFESFKENLKDFLLVIPFDCWEPVQE |
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)
| E: ARG30 LYS31 TYR32 TYR33 TYR50 TYR52 ALA53 SER54 SER56 SER57 PHE58 ALA94 ILE95 THR96 GLY97 THR98 THR99 F: ASN31 ARG33 SER92 ASN93 ASN94 TYR95 J: ASN37 GLU38 THR39 VAL40 GLU41 VAL42 SER44 GLU45 MET46 CYS96 ALA97 THR98 GLN99 ILE100 ILE101 THR102 GLU104 SER105 GLU108 ASN109 ASP112 |
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)
