SMTL ID : 3to4.1

Structure of mouse Valpha14Vbeta2-mouseCD1d-alpha-Galactosylceramide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-1-1-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: 5 residues within 4Å: Chain A: W.129, G.130, T.131, Q.161, N.165 No protein-ligand interaction detected (PLIP)

1 x AGH: N-{(1S,2R,3S)-1-[(ALPHA-D-GALACTOPYRANOSYLOXY)METHYL]-2,3-DIHYDROXYHEPTADECYL}HEXACOSANAMIDE(Non-covalent)

AGH.2: 31 residues within 4Å: Chain A: F.10, Q.14, S.28, V.30, W.40, F.70, Y.73, S.76, F.77, D.80, I.81, L.84, V.85, M.88, V.118, F.120, W.133, L.143, L.150, D.153, G.155, T.156, T.159, V.160, L.163, C.168, F.171 Chain C: P.28, N.30, R.94, G.95 26 PLIP interactions: 23 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:F.10, A:F.10, A:W.40, A:F.70, A:F.70, A:Y.73, A:Y.73, A:Y.73, A:F.77, A:L.84, A:V.85, A:V.118, A:F.120, A:W.133, A:L.143, A:T.156, A:V.160, A:F.171 Hydrogen bonds: A:G.155, A:T.156, A:T.156, A:T.156, A:T.156, C:N.30, C:R.94, C:G.95

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

NAG.3: 3 residues within 4Å: Chain A: A.19, N.20, W.23 No protein-ligand interaction detected (PLIP) NAG.4: 5 residues within 4Å: Chain A: W.23, S.24, R.25, N.42, R.74 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.23 Hydrogen bonds: A:S.24, A:N.42, A:R.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, O. et al., Vbeta2 natural killer T cell antigen receptor-mediated recognition of CD1d-glycolipid antigen. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-12-14

Peptides

Antigen-presenting glycoprotein CD1d1: A
Beta-2 microglobulin: B
NKT Valpha14 (MOUSE VARIABLE DOMAIN, HUMAN CONSTANT DOMAIN): C
NKT Vbeta2 (MOUSE VARIABLE DOMAIN, HUMAN CONSTANT DOMAIN): D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Antigen-presenting glycoprotein CD1d1

Beta-2 microglobulin

NKT Valpha14 (MOUSE VARIABLE DOMAIN, HUMAN CONSTANT DOMAIN)

NKT Vbeta2 (MOUSE VARIABLE DOMAIN, HUMAN CONSTANT DOMAIN)

Related Entries With Identical Sequence