SMTL ID : 3m7o.2 (3 other biounits)

Crystal structure of mouse MD-1 in complex with phosphatidylcholine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: M.88, Q.139, N.156 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.156 Water bridges: A:Q.139, A:L.140, A:N.156 NAG.2: 4 residues within 4Å: Chain A: S.93, I.94, N.96 Ligands: BEN.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.93, A:N.96 Water bridges: A:S.93, A:S.93, A:S.93

3 x BEN: BENZAMIDINE(Non-functional Binders)

BEN.3: 4 residues within 4Å: Chain A: F.82, S.98, Y.145, E.147 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.82 Hydrogen bonds: A:S.98, A:Y.145, A:Y.145 pi-Stacking: A:Y.145 BEN.4: 9 residues within 4Å: Chain A: D.84, T.86, M.88, S.93, N.96, L.141, E.143, R.149 Ligands: NAG.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.86, A:L.141 Hydrogen bonds: A:D.84, A:E.143, A:R.149 Water bridges: A:T.86, A:T.86, A:T.86 BEN.5: 7 residues within 4Å: Chain A: D.50, F.51, G.52, G.71, I.72, I.73, Q.119 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:D.50 Hydrogen bonds: A:I.73, A:Q.119 Water bridges: A:I.72, A:I.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harada, H. et al., Crystal structure of mouse MD-1 with endogenous phospholipid bound in its cavity. J.Mol.Biol. (2010)

Release Date

2010-06-09

Peptides

Lymphocyte antigen 86: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Lymphocyte antigen 86

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