SMTL ID : 9qwj.2 (1 other biounit)

Crystal structure of S2c TCR in complex with CD1c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

hetero-1-1-1-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: 7 residues within 4Å: Chain A: N.186, F.187, E.191, P.297, R.298, L.301 Ligands: BMA.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:P.297, A:L.301

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 6 residues within 4Å: Chain A: F.76, S.77, K.78, W.80, K.228, Q.244 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.77, A:K.228 EDO.6: 8 residues within 4Å: Chain A: S.75, F.76, Y.83, H.140, I.142, W.160, D.162, K.228 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.162 EDO.9: 5 residues within 4Å: Chain B: E.64, A.65, T.66, H.75, E.77 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.64, B:T.66

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

NAG.3: 4 residues within 4Å: Chain A: V.148, N.149, W.152 Ligands: NAG.4 No protein-ligand interaction detected (PLIP) NAG.4: 1 residues within 4Å: Ligands: NAG.3 No protein-ligand interaction detected (PLIP)

1 x BMA: beta-D-mannopyranose(Non-functional Binders)

BMA.5: 1 residues within 4Å: Ligands: NAG-NAG.1 No protein-ligand interaction detected (PLIP)

2 x D10: DECANE(Non-covalent)

D10.7: 5 residues within 4Å: Chain A: I.210, F.223, F.243, F.247, L.277 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.210, A:F.223, A:F.243, A:F.247, A:L.277 D10.8: 4 residues within 4Å: Chain A: L.206, H.213, L.276, Y.281 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.206, A:L.276, A:Y.281

2 x CA: CALCIUM ION(Non-covalent)

CA.10: 2 residues within 4Å: Chain B: D.128 Chain C: V.129 5 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: C:V.129, B:D.128, B:D.128, H2O.7, H2O.8 CA.11: 3 residues within 4Å: Chain B: S.15, E.16, D.115 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:S.15, B:E.16, H2O.4, H2O.6, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Szoke-Kovacs, R. et al., A CD1c lipid agnostic T cell receptor bispecific engager redirects T cells against CD1c + cells. Front Immunol (2025)

Release Date

2025-08-20

Peptides

Beta-2-microglobulin,T-cell surface glycoprotein CD1c: A
TCR alpha: B
TCR beta: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
N

B
T

C
U

Beta-2-microglobulin,T-cell surface glycoprotein CD1c

TCR alpha

TCR beta

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