SMTL ID : 3ma7.1 (1 other biounit)

Crystal structure of Cardiolipin bound to mouse CD1D

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.29 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 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.131

1 x CD4: (2R,5R,11R,14R)-5,8,11-trihydroxy-5,11-dioxido-17-oxo-2,14-bis(tetradecanoyloxy)-4,6,10,12,16-pentaoxa-5,11-diphosphatriacont-1-yl tetradecanoate(Non-covalent)

CD4.2: 21 residues within 4Å: Chain A: C.12, M.69, Y.73, S.76, D.80, I.81, L.84, I.98, A.102, L.116, V.118, F.120, W.133, W.142, L.143, D.153, G.155, T.156, T.159, V.160 Ligands: PLM.3 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.73, A:Y.73, A:Y.73, A:Y.73, A:I.81, A:L.84, A:I.98, A:L.116, A:F.120, A:W.133, A:W.142, A:L.143, A:T.159 Hydrogen bonds: A:D.153, A:G.155, A:T.156

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.3: 16 residues within 4Å: Chain A: F.10, Q.14, S.28, V.30, W.40, I.47, W.63, L.66, F.70, A.102, L.163, L.164, T.167, C.168, F.171 Ligands: CD4.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.10, A:I.47, A:W.63, A:L.66, A:F.70, A:F.70, A:A.102, A:L.163, A:L.164, A:T.167, A:F.171 Hydrogen bonds: A:S.28 Water bridges: A:R.74

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

NAG.4: 5 residues within 4Å: Chain A: W.23, S.24, R.25, N.42, D.43 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.23, A:R.25 Hydrogen bonds: A:S.24, A:N.42

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dieude, M. et al., Cardiolipin Binds to CD1d and Stimulates CD1d-Restricted {gamma}{delta} T Cells in the Normal Murine Repertoire. J.Immunol. (2011)

Release Date

2011-03-16

Peptides

T-cell surface glycoprotein CD1d1: A
Beta-2 microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

T-cell surface glycoprotein CD1d1

Beta-2 microglobulin

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