SMTL ID : 3wpd.1

Crystal structure of horse TLR9 in complex with inhibitory DNA4084

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

monomer

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: 4 residues within 4Å: Chain A: S.688, R.689, N.710, D.735 No protein-ligand interaction detected (PLIP)

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

SO4.2: 4 residues within 4Å: Chain A: H.516, G.517, N.546 Ligands: NAG.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.517, A:N.546 Salt bridges: A:H.516 SO4.3: 2 residues within 4Å: Chain A: H.55, H.56 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.55, A:H.56 SO4.4: 2 residues within 4Å: Chain A: T.500, R.525 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.525

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

NAG.5: 5 residues within 4Å: Chain A: G.517, R.518, N.546, S.548 Ligands: SO4.2 No protein-ligand interaction detected (PLIP) NAG.6: 7 residues within 4Å: Chain A: C.157, Y.158, P.162, C.163, G.164, R.165, N.189 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.162 Hydrogen bonds: A:C.163, A:G.164, A:N.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ohto, U. et al., Structural basis of CpG and inhibitory DNA recognition by Toll-like receptor 9. Nature (2015)

Release Date

2015-02-11

Peptides

Toll-like receptor 9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Toll-like receptor 9

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