Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 3954 |
| PDBID: | 7KJH |
| Chains: | B_D |
| Organism: | Vicugna pacos, Plasmodium falciparum 3D7 |
| Method: | XRD |
| Resolution (Å): | 2.00 |
| Reference: | 10.1042/BCJ20200415 |
| Antibody | |
| Antibody: | B9 Nanobody |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Plasmodium falciparum protein Pf12p |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Chain: B
Mutation: NULL
| >7KJH_B|Chain A, D[auth B]|Nanobody B9|Vicugna pacos (30538) QVQLQESGGGLVQAGGSLRLSCTASGRTFSNTVMGWFRQAPGKEREFLAHILWSGGLAYYADSVKGRFTISRDNAKNIVYLQMNSLKPEDTAVYYCAARDFGFGNNYDYWGQGTQVTVSSHHHHHH |
Antigen
Chain: D
Mutation: NULL
| >7KJH_D|Chain B[auth C], C[auth D]|Surface protein P12p|Plasmodium falciparum (36329) GASNGVCDFSSEGLSLLPEEKLDFSVSRNVDKLSDENNVRHCVHFSKGFEYLRFICPMRKDNYEGIEIRPVECFEYIHIEGREHKLSEILKGSLYEKSINDNIMTRDVFIPPTIYEDMFFECTCDNSLTFKNNMIGIRGIMKIHLKKNILYGCDFDHDEKLMKNKTAFTNFYDKQKILPLIGNNNNDDDNNDDDNNNDNNNNDNNNNNNNNNNNNNNNNNNNITCNVTIKKSQVYLGIICPDGYTLYPNDCFKNVIYDNNIIIPLKKIIPHDILYHQDKNKRITFASFTLNINENPPGFTCYCIKDQTNINNPLIVNFHFS |
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 B: GLY26 ARG27 THR28 PHE29 SER30 ASN31 HIS50 LEU52 SER54 LEU57 ALA58 TYR59 TYR60 ASP62 ARG99 ASP100 PHE101 GLY102 PHE103 GLY104 ASN105 D: VAL26 PHE69 TYR71 LEU72 ARG73 LEU114 TYR115 GLU116 SER118 ILE119 ASN120 ASP121 ASN122 ILE123 THR125 ASP127 VAL128 PHE129 ASN269 ASP270 LYS273 LEU294 TYR295 HIS296 GLN297 ASP298 LYS299 LYS301 |
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)
