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SMTL ID : 1onq.1 (1 other biounit)

Crystal Structure of CD1a in Complex with a Sulfatide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-mer

Ligands

2 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:	6 residues within 4Å: Chain A: N.57, F.58, E.62, R.168, L.171 Ligands: FUC.4 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.171
NAG-NAG.3:	1 residues within 4Å: Chain A: N.128 No protein-ligand interaction detected (PLIP)

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.2:

4 residues within 4Å:

Chain A: Y.19, N.20, W.23
Chain B: D.34

3 PLIP interactions:

2 interactions with chain A, 1 interactions with chain B

Hydrophobic interactions: A:N.20, A:Y.19, A:W.23
Hydrogen bonds: B:D.34

1 x FUC: alpha-L-fucopyranose(Non-covalent)

FUC.4:

3 residues within 4Å:

Chain A: L.171, D.175
Ligands: NAG-NAG.1

1 PLIP interactions:

1 interactions with chain A

Hydrophobic interactions: A:D.175

1 x SLF: SULFATE-3-D-GALACTOSYL-BETA-1-1-N-STEAROYL-D-SPHINGOSINE(Non-covalent)

SLF.5:

23 residues within 4Å:

Chain A: F.10, V.12, W.14, H.38, W.63, F.70, I.72, R.73, T.74, R.76, S.77, G.80, I.81, V.98, G.100, L.114, L.116, L.148, E.154, T.158, L.161, L.162, F.169

25 PLIP interactions:

25 interactions with chain A

Hydrophobic interactions: A:F.10, A:V.12, A:W.14, A:W.14, A:W.14, A:H.38, A:W.63, A:F.70, A:F.70, A:T.74, A:I.81, A:I.81, A:V.98, A:L.114, A:L.116, A:L.148, A:L.162, A:F.169
Hydrogen bonds: A:R.73, A:E.154, A:T.158
Water bridges: A:R.73, A:R.73
Salt bridges: A:R.73, A:R.76

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Zajonc, D.M. et al., Crystal structure of CD1a in complex with a sulfatide self antigen at a resolution of 2.15 A. Nat.Immunol. (2003)

Release Date

2003-08-05

Peptides

T-cell surface glycoprotein CD1a: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

T-cell surface glycoprotein CD1a

Beta-2-microglobulin

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Background

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