SMTL ID : 7kfk.2 (1 other biounit)

Crystal structure of LILRB1 D3D4 domain in complex with Plasmodium RIFIN (PF3D7_1373400) V2 domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.63 Å

Oligo State

hetero-1-1-mer

Ligands

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 4 residues within 4Å: Chain A: H.80, N.81, S.83, S.84 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.80, A:N.81, A:S.83, A:S.83, A:S.84, A:S.84 NAG.2: 1 residues within 4Å: Chain A: N.120 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: Q.24, Q.58, N.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.24, A:Q.58

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain A: R.149, S.150, T.151, Y.152 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.150, A:Y.152 Salt bridges: A:R.149 SO4.5: 1 residues within 4Å: Chain A: R.75 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.91, A:D.91 Salt bridges: A:R.75 SO4.6: 3 residues within 4Å: Chain A: P.52, Q.53, A.54 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.54 SO4.7: 1 residues within 4Å: Chain B: K.31 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.31 SO4.8: 2 residues within 4Å: Chain B: D.35, T.36 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.36 SO4.9: 3 residues within 4Å: Chain A: Q.51 Chain B: G.101, S.102 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.102

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, Y. et al., Structural basis of malaria RIFIN binding by LILRB1-containing antibodies. Nature (2021)

Release Date

2021-03-31

Peptides

Isoform 2 of Leukocyte immunoglobulin-like receptor subfamily B member 1: A
Rifin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Isoform 2 of Leukocyte immunoglobulin-like receptor subfamily B member 1

Rifin

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