Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2073 |
| PDBID: | 6BFS |
| Chains: | HL_C |
| Organism: | Mus musculus, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.00 |
| Reference: | 10.1080/19420862.2018.1494107 |
| Antibody | |
| Antibody: | 4D4 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: H
Mutation: NULL
| >6BFS_H|Chain B[auth H]|Fab Heavy Chain|Mus musculus (10090) EVKLQQSGPELVKPGASVKISCKASGYSFTNYYMHWMKQRPGQGLEWIGWIFPGSDNTKYNEKFKGKATLTADTSSSTAYMQLSSLTSEDSAVYFCARKGTTGFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR |
Light Chain: L
Mutation: NULL
| >6BFS_L|Chain A[auth L]|Fab light Chain|Mus musculus (10090) DIQLTQSPSSLSASLGDTITITCHASQNINVWLSWYQQKPGNIPKLLIYKASNLHTGVPSRFSGSGSGTGFTLTISSLQPEDIATYYCQQGQSYPLTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: C
Mutation: NULL
| >6BFS_C|Chain C|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)
| L: TRP32 TYR49 LYS50 GLY91 GLN92 SER93 TYR94 LEU96 H: SER28 THR30 ASN31 TYR32 TYR33 HIS35 TRP50 GLY53 SER54 ASN56 THR57 LYS58 LYS95 GLY96 THR97 THR98 C: HIS15 VAL16 GLN20 ARG23 ASP48 LEU49 GLN50 HIS83 GLN86 HIS87 CYS88 PRO89 PRO90 LEU115 VAL116 ILE117 PRO118 PHE119 ASP120 CYS121 TRP122 GLU123 PRO124 VAL125 |
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)
