SMTL ID : 6ohg.1

Structure of Plasmodium falciparum vaccine candidate Pfs230D1M in complex with the Fab of a transmission blocking antibody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

hetero-1-1-1-mer

Ligands

7 x ACY: ACETIC ACID(Non-functional Binders)

ACY.1: 5 residues within 4Å: Chain A: V.154, V.155, H.156, K.157 Ligands: EDO.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.156, A:K.157 Salt bridges: A:H.156 ACY.2: 1 residues within 4Å: Chain A: S.168 No protein-ligand interaction detected (PLIP) ACY.6: 5 residues within 4Å: Chain B: Q.37, K.39, P.59, E.81, D.82 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:P.59 Hydrogen bonds: B:Q.37, B:D.82 Salt bridges: B:K.39 ACY.7: 5 residues within 4Å: Chain B: D.1, I.2, T.93, I.96, T.98 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:I.96 Hydrogen bonds: B:I.2, B:Q.90 ACY.8: 6 residues within 4Å: Chain B: Q.38, K.39, Q.41, G.42 Chain C: P.41 Ligands: EDO.18 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.41, B:G.42 ACY.16: 5 residues within 4Å: Chain C: Q.3, L.4, V.108, W.109, T.111 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:Q.3, C:T.111 Hydrogen bonds: C:L.4 Water bridges: C:W.109 ACY.17: 4 residues within 4Å: Chain C: T.193, E.197, T.198, V.199 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:T.193

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

EDO.3: 2 residues within 4Å: Chain A: Y.107, S.123 No protein-ligand interaction detected (PLIP) EDO.4: 3 residues within 4Å: Chain A: K.124, L.125 Ligands: ACY.1 No protein-ligand interaction detected (PLIP) EDO.9: 4 residues within 4Å: Chain B: L.11, R.18, V.19, S.20 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.20 EDO.18: 3 residues within 4Å: Chain C: G.42, Q.43 Ligands: ACY.8 No protein-ligand interaction detected (PLIP) EDO.19: 5 residues within 4Å: Chain C: T.114, V.115, T.116, E.154, Y.181 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:V.115, C:Y.181 Water bridges: C:Y.181

4 x PDO: 1,3-PROPANDIOL(Non-covalent)

PDO.5: 2 residues within 4Å: Chain B: S.54, I.55 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:I.55 PDO.13: 1 residues within 4Å: Chain C: S.85 No protein-ligand interaction detected (PLIP) PDO.14: 3 residues within 4Å: Chain C: M.141, T.188, P.190 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:M.141, C:P.190 PDO.15: 4 residues within 4Å: Chain C: K.65, V.68, T.69 Ligands: MOH.20 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.69 Hydrogen bonds: C:K.65

2 x MOH: METHANOL(Non-functional Binders)

MOH.10: 3 residues within 4Å: Chain B: Q.41 Chain C: Y.95, T.111 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.42 MOH.20: 5 residues within 4Å: Chain C: K.65, S.66, V.68, T.69 Ligands: PDO.15 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.66, C:T.69

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 3 residues within 4Å: Chain C: W.33, H.52, S.101 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.52 GOL.12: 2 residues within 4Å: Chain C: V.217, P.218 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, K. et al., Structure and function of a malaria transmission blocking vaccine targeting Pfs230 and Pfs230-Pfs48/45 proteins. Commun Biol (2020)

Release Date

2020-06-17

Peptides

Gametocyte surface protein P230: A
4F12 Light Chain: B
4F12 Heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Gametocyte surface protein P230

4F12 Light Chain

4F12 Heavy chain

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