SMTL ID : 6bxa.2 (1 other biounit)

Crystal structure of N-terminal fragment of Zebrafish Toll-Like Receptor 5 (TLR5) with Lamprey Variable Lymphocyte Receptor 2 (VLR2) bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 6 residues within 4Å: Chain A: A.307, Q.308, K.327, N.329, Q.332, D.353 No protein-ligand interaction detected (PLIP)

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

NAG.2: 4 residues within 4Å: Chain A: Q.24, E.44, N.46, T.48 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.46 NAG.3: 4 residues within 4Å: Chain A: N.72, E.95, T.96, G.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.72, A:T.96, A:G.97 Water bridges: A:T.96 NAG.4: 3 residues within 4Å: Chain A: K.180, N.211, S.213 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.211

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

EDO.5: 2 residues within 4Å: Chain A: D.194, W.199 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.199 EDO.6: 3 residues within 4Å: Chain A: L.115, D.116, F.124 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.116, A:D.116 Water bridges: A:L.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gunn, R.J. et al., VLR Recognition of TLR5 Expands the Molecular Characterization of Protein Antigen Binding by Non-Ig-based Antibodies. J. Mol. Biol. (2018)

Release Date

2018-05-09

Peptides

Toll-like receptor 5b, Variable lymphocyte receptor B chimera: A
Variable Lymphocyte Receptor 2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Toll-like receptor 5b, Variable lymphocyte receptor B chimera

Variable Lymphocyte Receptor 2

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