SMTL ID : 3ula.1 (1 other biounit)

Crystal structure of the TV3 mutant F63W-MD-2-Eritoran complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-mer

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: 3 residues within 4Å: Chain A: L.179, N.181, R.203 No protein-ligand interaction detected (PLIP)

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

NAG.2: 1 residues within 4Å: Chain A: N.11 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: H.124, K.126, N.149 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.124, A:K.126, A:K.126, A:N.149

1 x E55: 3-O-DECYL-2-DEOXY-6-O-{2-DEOXY-3-O-[(3R)-3-METHOXYDECYL]-6-O-METHYL-2-[(11Z)-OCTADEC-11-ENOYLAMINO]-4-O-PHOSPHONO-BETA-D-GLUCOPYRANOSYL}-2-[(3-OXOTETRADECANOYL)AMINO]-1-O-PHOSPHONO-ALPHA-D-GLUCOPYRANOSE(Non-covalent)

E55.4: 25 residues within 4Å: Chain A: C.240, K.270, S.274, I.275, I.276, P.278 Chain B: I.30, V.32, I.36, L.45, I.47, Y.49, F.60, L.71, Y.86, F.88, I.101, S.102, F.103, S.104, F.105, G.107, C.117, F.131, F.135 27 PLIP interactions: 19 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:I.30, B:V.32, B:L.45, B:I.47, B:Y.49, B:F.60, B:F.60, B:F.88, B:I.101, B:F.103, B:F.103, B:F.105, B:F.105, B:F.131, B:F.135, B:F.135, B:F.135, A:I.276 Hydrogen bonds: B:S.104, B:S.104, A:S.274, A:S.274, A:S.274, A:I.276, A:I.276 Salt bridges: A:K.270, A:K.270

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

2012-04-04

Peptides

Toll-like receptor 4, Variable lymphocyte receptor B: A
Lymphocyte antigen 96: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Toll-like receptor 4, Variable lymphocyte receptor B

Lymphocyte antigen 96

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