SMTL ID : 6o2a.1 (3 other biounits)

Crystal structure of 4493 Fab in complex with circumsporozoite protein NDN and anti-kappa VHH domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 2 residues within 4Å: Chain A: R.16, S.17 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.16, A:S.17 EDO.2: 9 residues within 4Å: Chain B: T.10, S.12, E.106, Y.141, P.142, R.143, E.144, Y.174 Ligands: EDO.3 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.143 Water bridges: B:T.10, B:T.10, B:S.12, B:E.106, B:Y.174 EDO.3: 5 residues within 4Å: Chain B: P.8, G.9, T.10, E.144 Ligands: EDO.2 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.10, B:E.144 Water bridges: B:G.9 EDO.4: 3 residues within 4Å: Chain B: S.169, K.170, S.172 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.170 EDO.5: 5 residues within 4Å: Chain B: G.201, S.203 Chain C: R.45, E.46, X.47 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.203 EDO.6: 6 residues within 4Å: Chain A: G.104, S.105, W.107 Chain D: N.3, N.5, V.6 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:N.3, D:N.3 Water bridges: A:G.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murugan, R. et al., Evolution of protective human antibodies against Plasmodium falciparum circumsporozoite protein repeat motifs. Nat. Med. (2020)

Release Date

2020-07-01

Peptides

4493 Fab heavy chain: A
4493 Kappa light chain: B
Anti-kappa VHH domain: C
Circumsporozoite protein: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
F

4493 Fab heavy chain

4493 Kappa light chain

Anti-kappa VHH domain

Circumsporozoite protein

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