Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 6133 |
| PDBID: | 8EKA |
| Chains: | CD_P |
| Organism: | Plasmodium falciparum 3D7, Homo sapiens |
| Method: | EM |
| Resolution (Å): | 3.70 |
| Reference: | 10.1016/j.str.2023.02.009 |
| Antibody | |
| Antibody: | L9 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Plasmodium falciparum circumsporozoite protein (PfCSP) |
| Antigen mutation: | Yes |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: C
Mutation: NULL
| >8EKA_C|Chain B[auth A], D[auth C], F[auth H]|L9 Fab heavy chain|Homo sapiens (9606) QVKLVESGGGVVQPGRSLRLSCEASGFIFSTYGMHWVRQAPGKGLEWVAVIWFDGSNIYYADSVKGRFTISRDNSKNTVFMQMDSLRAEDTAVYYCHRNFYDGSGPFDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTH |
Light Chain: D
Mutation: NULL
| >8EKA_D|Chain C[auth B], E[auth D], G[auth L]|L9 Fab light chain|Homo sapiens (9606) DIQMTQSPSTLSASVGDRVTITCRASQFISRWLAWYQQKPGKAPKLLIYKASSLESGVPSRFSGSGSETHFTLTISSLQPDDVATYYCQEYTSYGRTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: P
Mutation: C5S/K46S/K47S/R50A
| >8EKA_P|Chain A[auth P]|Circumsporozoite protein|Plasmodium falciparum 3D7 (36329) QEYQSYGSSSNTRVLNELNYDNAGTNLYNELEMNYYGKQENWYSLSSNSASLGENDDGNNEDNEKLRKPKHKKLKQPADGNPDPNANPNVDPNANPNVDPNANPNVDPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNVDPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNKNNQGNGQGHNMPNDPNRNVDENANANSAVKNNNNEEPSDKHIKEYLNKIQNSLSTEWSPCSVTCGNGIQVRIKPGSANKPKDELDYANDIEKKICKMEKCS |
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)
| Chain residues position delta_SASA
: residuesposition C: TYR32 TRP52 ASN99 PHE100 TYR101 ASP102 GLY103 D: PHE28 TRP32 TYR91 THR92 SER93 TYR94 ARG96 P: ASP15 ASN19 PRO20 ASN21 VAL22 ASP23 ALA26 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 6 Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 6 Å from any atom.
Interacting residues (Atom distance based)
