SMTL ID : 8fb8.1

Crystal structure of Ky15.10-Y100EK Fab in complex with circumsporozoite protein KQPA peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: G.15, R.16, S.17 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.16, A:S.17, A:S.17 Water bridges: A:S.17 GOL.2: 4 residues within 4Å: Chain A: N.167, A.170, L.171, Q.204 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.167, A:Q.204 Water bridges: A:N.167 GOL.3: 11 residues within 4Å: Chain A: F.178, P.179, V.181, S.189, L.190, S.191 Chain B: Q.159, S.161, S.175, S.176, T.177 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.159, B:S.161, B:S.175, B:T.177, A:F.178, A:S.191 GOL.4: 5 residues within 4Å: Chain A: Y.60, A.61, D.62, K.65 Chain B: Y.94 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.62, A:K.65 Water bridges: A:S.63 GOL.5: 6 residues within 4Å: Chain A: V.175, H.176 Chain B: T.163, E.164, Q.165, D.166 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.166, B:D.166, A:V.175, A:H.176 Water bridges: B:T.163, B:E.164, A:T.177, A:T.177 GOL.6: 3 residues within 4Å: Chain B: P.59, R.61, D.81 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.61, B:R.61 Water bridges: B:D.81

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

Ky15.10-YK Antibody, heavy chain: A
Ky15.10-YK Antibody, light chain: B
Circumsporozoite protein KQPA peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
P

Ky15.10-YK Antibody, heavy chain

Ky15.10-YK Antibody, light chain

Circumsporozoite protein KQPA peptide

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