SMTL ID : 8f9f.1 (1 other biounit)

Crystal structure of Ky15.2 Fab in complex with circumsporozoite protein NANP3 peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: D.54, G.55, R.72, D.73, N.74 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.73, A:N.74 Water bridges: A:G.55, A:R.72, A:S.75 EDO.2: 7 residues within 4Å: Chain A: Y.100, R.101, S.103, D.105, K.107, Y.108 Chain B: Y.49 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.101, A:D.105, B:Y.49, B:Y.49 EDO.3: 5 residues within 4Å: Chain A: A.61, D.62 Chain B: D.1, Y.94, T.96 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.1, B:D.1, A:D.62 EDO.4: 6 residues within 4Å: Chain A: Y.95 Chain B: Q.38, K.39, P.40, G.41, K.42 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:G.41, B:K.42, A:Y.95, A:Y.95 Water bridges: B:Q.38 EDO.5: 8 residues within 4Å: Chain B: Q.37, K.45, L.47, P.59, R.61, F.62, D.81, D.82 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.37, B:K.45, B:D.81, B:D.82 EDO.6: 5 residues within 4Å: Chain B: L.200, S.201, S.202, P.203, V.204 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.201, B:S.202, B:P.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thai, E. et al., Molecular determinants of cross-reactivity and potency by VH3-33 antibodies against the Plasmodium falciparum circumsporozoite protein. Cell Rep (2023)

Release Date

2023-11-01

Peptides

Ky15.2 Antibody, heavy chain: A
Ky15.2 Antibody, light chain: B
Circumsporozoite protein NANP peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
P

Ky15.2 Antibody, heavy chain

Ky15.2 Antibody, light chain

Circumsporozoite protein NANP peptide

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