SMTL ID : 5c9j.1

Human CD1c with ligands in A' and F' channel

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

2 x DAO: LAURIC ACID(Non-covalent)

DAO.1: 9 residues within 4Å: Chain A: F.67, G.71, L.72, E.75, I.76, H.79, V.139, L.143, Y.147 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.67, A:V.139, A:L.143, A:Y.147, A:Y.147 Salt bridges: A:H.79 DAO.2: 8 residues within 4Å: Chain A: I.76, H.79, F.89, F.109, F.113, W.126, V.139, L.143 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.76, A:I.76, A:F.109, A:W.126, A:V.139, A:L.143 Salt bridges: A:H.79

1 x STE: STEARIC ACID(Non-covalent)

STE.3: 14 residues within 4Å: Chain A: F.5, V.7, H.33, I.42, L.61, L.64, F.65, Y.68, A.95, F.109, T.153, L.157, C.162, F.165 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.5, A:H.33, A:I.42, A:L.61, A:F.65, A:Y.68, A:A.95, A:F.109, A:L.157, A:F.165, A:F.165

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: H.100, S.101, G.102, K.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.102 GOL.5: 5 residues within 4Å: Chain A: P.233, N.234, A.235, W.237 Chain B: S.53 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.235, A:W.237 GOL.6: 4 residues within 4Å: Chain A: S.12, V.14, R.20, E.90 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.12, A:S.12, A:E.90 GOL.9: 4 residues within 4Å: Chain B: G.44, E.45, R.46, R.82 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.45, B:R.46, B:R.82

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.7: 6 residues within 4Å: Chain A: R.20, G.21, Q.22, W.35, D.36, S.37 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.37 Water bridges: A:W.35, A:W.35, A:D.36 Salt bridges: A:R.20 PO4.8: 8 residues within 4Å: Chain A: H.6, I.8, W.26, D.28, E.29 Chain B: S.56, F.57, Y.64 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.56, B:Y.64, A:D.28 Salt bridges: A:H.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mansour, S. et al., Cholesteryl esters stabilize human CD1c conformations for recognition by self-reactive T cells. Proc.Natl.Acad.Sci.USA (2016)

Release Date

2016-03-02

Peptides

T-cell surface glycoprotein CD1c,T-cell surface glycoprotein CD1b: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

T-cell surface glycoprotein CD1c,T-cell surface glycoprotein CD1b

Beta-2-microglobulin

Related Entries With Identical Sequence