Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 2084 |
| PDBID: | 6BPA |
| Chains: | EF_D |
| Organism: | Plasmodium vivax Sal-1, Mus musculus |
| Method: | XRD |
| Resolution (Å): | 2.53 |
| Reference: | 10.1038/s41586-018-0249-1 |
| Antibody | |
| Antibody: | 3E9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Plasmodium vivax reticulocyte binding protein 2b (PvRBP2b) |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: E
Mutation: NULL
| >6BPA_E|Chain B, E|Monoclonal antibody 3E9 Fab heavy chain|Mus musculus (10090) MKCSWIIFFLMAVVTGVNSEVQLQQSGAELVKPGASVKLSCTASGFNIKDHFMHWVKQRTAQGLEWIGRIDPEDGETKYAPKFQGTATITADTSSNTAYLQLSSLTSEDTAVYYCARSGSVSSPWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGPTIKPCPPCKCPAPNS |
Light Chain: F
Mutation: NULL
| >6BPA_F|Chain C, F|Monoclonal antibody 3E9 Fab light chain|Mus musculus (10090) MTMFSLALLLSLLLLCVSDSRAETTVTQSPASLSMALGEKVTIRCITSTDIDDDLNWYQLKPGEPPKLLISEGNTLRPGVPSRFSSSGYGTDFVFTIENMLSEDVADYYCLQSDNLPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC |
Antigen
Chain: D
Mutation: NULL
| >6BPA_D|Chain A, D|Reticulocyte binding protein 2, putative|Plasmodium vivax (strain Salvador I) (126793) GAMGSTNTTDNIDYFDISDESNYYLISQLRPHFSNIYFFDEFKRYASYHTEIKRYEDIHKTKVNSLLNEASRAIGICNRAKNTVKGLINILENPQKFKTQRESYDVKLRQYEEKKEAFRGCLLNKNRKNLDQIKKINNEIRDLLEKLKCSQDCQTNVYFDMIKIYLVDFKKMPYENYDTFIKQYKNSYLSGVDMIRKIEKQIDNPVTINAIKFTQKEMGYIIDRFEYHLQKVKHSIDQVTALSDGVKPKQVTKNRLKEYYFNIGNYYSIFKFGKDSLNMLNKALIHKEKIVHNLLGELFGHLEERIS |
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: GLU20 VAL21 GLY45 PHE46 LYS49 ASP50 HIS51 PHE52 ARG69 ASP71 GLU73 ARG117 GLY119 SER120 VAL121 SER122 SER123 PRO124 TRP125 TYR128 F: ASP50 ASP52 ASP54 GLU72 TYR89 ASP114 LEU116 D: LEU329 VAL330 PHE332 LYS333 MET335 TYR337 GLU338 ASP341 THR342 LYS345 LYS348 ASN349 LYS396 ILE399 ASP400 THR403 SER406 ASP407 GLY408 VAL409 LYS410 |
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)
