SMTL ID : 3ul9.1

structure of the TV3 mutant M41E

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 2 residues within 4Å: Chain A: N.10 Ligands: FUL.3 No protein-ligand interaction detected (PLIP)

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

NAG.2: 2 residues within 4Å: Chain A: G.122, N.148 No protein-ligand interaction detected (PLIP)

1 x FUL: beta-L-fucopyranose(Non-functional Binders)

FUL.3: 2 residues within 4Å: Ligands: NAG-NAG-BMA.1, NAG-NAG-BMA.1 No protein-ligand interaction detected (PLIP)

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

SO4.4: 4 residues within 4Å: Chain A: H.233, T.234, S.261, K.263 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.234, A:T.234 Water bridges: A:N.235 Salt bridges: A:H.233, A:K.263 SO4.5: 3 residues within 4Å: Chain A: S.98, G.99, H.123 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.98, A:G.99 Salt bridges: A:H.123 SO4.6: 3 residues within 4Å: Chain A: Q.163, S.164, Y.166 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.164, A:Y.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, J. et al., Structure-Based Rational Design of a Toll-like Receptor 4 (TLR4) Decoy Receptor with High Binding Affinity for a Target Protein. Plos One (2012)

Release Date

2012-05-23

Peptides

Toll-like receptor 4, Variable lymphocyte receptor B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Toll-like receptor 4, Variable lymphocyte receptor B