SMTL ID : 4mx7.1

Structure of mouse CD1d in complex with dioleoyl-phosphatidic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.24 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: 5 residues within 4Å: Chain A: W.129, G.130, T.131, Q.161, N.165 No protein-ligand interaction detected (PLIP)

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

NAG.2: 3 residues within 4Å: Chain A: A.19, N.20, W.23 No protein-ligand interaction detected (PLIP) NAG.3: 3 residues within 4Å: Chain A: W.23, S.24, N.42 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.23 Hydrogen bonds: A:S.24, A:N.42 Water bridges: A:S.22, A:S.24, A:R.74

1 x MX7: (2R)-3-(phosphonooxy)propane-1,2-diyl (9Z,9'Z)bis-octadec-9-enoate(Non-covalent)

MX7.4: 22 residues within 4Å: Chain A: F.10, L.66, M.69, Y.73, S.76, F.77, R.79, D.80, L.84, V.85, M.88, I.96, A.102, L.116, F.120, W.142, L.143, L.150, T.156, T.159, C.168, F.171 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:F.10, A:L.66, A:Y.73, A:Y.73, A:F.77, A:L.84, A:V.85, A:I.96, A:A.102, A:L.116, A:F.120, A:F.120, A:L.143, A:L.150, A:F.171, A:F.171 Hydrogen bonds: A:S.76, A:S.76 Water bridges: A:D.153 Salt bridges: A:R.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, J. et al., TBN. To be Published

Release Date

2014-10-01

Peptides

Antigen-presenting glycoprotein CD1d1: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Antigen-presenting glycoprotein CD1d1

Beta-2-microglobulin

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