Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3129 |
| PDBID: | 6WM9 |
| Chains: | BC_A |
| Organism: | Plasmodium vivax Sal-1, Homo sapiens |
| Method: | XRD |
| Resolution (Å): | 2.45 |
| Reference: | 10.1038/s41467-021-21811-2 |
| Antibody | |
| Antibody: | 237235 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: B
Mutation: NULL
| >6WM9_B|Chain B, C[auth E]|237235 Fab heavy chain|Homo sapiens (9606) TGVHSQVQLVESGGGVVQPGRSLRLSCAASGFMFNSYGMHWVRQAPGKGLEWMAFISYDGSDDYYGDSVKGRITISRDNSKNTLFLHINSLRTEDTAVYYCAKESNYGENAFDVWGHGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHTCP |
Light Chain: C
Mutation: NULL
| >6WM9_C|Chain D[auth C], E[auth F]|237235 Fab light chain|Homo sapiens (9606) TGSWAQSALTQPRSVSGSPGQSVTISCTGTSNDVGFYNFVSWYQHHPGKAPKLMIYDVTERPSGVPDRFSGSKSGNTASLTISGLQAEDEAEYYCCSYAGTYTFVFGHGTKVTVLGQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS |
Antigen
Chain: A
Mutation: NULL
| >6WM9_A|Chain A, F[auth D]|Reticulocyte binding protein 2b|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)
| B: MET33 ASN35 SER36 TYR37 SER57 TYR58 ASP59 SER61 ASP62 TYR64 GLU104 ASN106 TYR107 GLY108 GLU109 ASN110 C: GLY35 PHE36 TYR37 ASN38 PHE39 TYR56 ASP57 THR59 GLU60 SER63 TYR98 GLY100 THR101 TYR102 PHE104 A: THR171 ASP173 ASN174 ASP176 GLN191 LEU192 ARG193 PRO194 HIS195 TYR200 ASP203 ARG207 ASN227 LEU230 ASN231 GLU232 SER234 ARG235 ILE237 GLY238 ILE239 ASN241 LYS244 ASN245 LYS248 LYS334 LYS434 LYS437 ASP438 ASN441 ASN444 LYS445 ILE448 HIS449 LYS452 |
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)
