- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.75 Å
- Oligo State
- hetero-1-1-1-1-mer
- Ligands
- 1 x NAG- FUC- NAG- FUC: alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)][alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-FUC-NAG-FUC.1: 5 residues within 4Å:- Chain A: N.56, F.57, P.166, R.167, L.170
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:L.170
- 1 x CUY: tetracosyl octadecanoate(Non-covalent)
CUY.2: 18 residues within 4Å:- Chain A: V.11, I.12, Q.13, G.27, S.28, H.37, G.38, W.39, F.69, Y.72, I.73, F.76, I.95, G.97, A.99, L.113, F.143
- Ligands: D3D.17
12 PLIP interactions:12 interactions with chain A- Hydrophobic interactions: A:V.11, A:V.11, A:Q.13, A:H.37, A:F.69, A:F.69, A:F.69, A:I.73, A:F.76, A:I.95, A:A.99, A:F.143
- 1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.3: 3 residues within 4Å:- Chain A: T.18, N.19, T.21
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:T.18, A:N.19
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 5 residues within 4Å:- Chain A: W.189, S.191, H.206, R.245
- Chain B: D.96
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:W.189
EDO.5: 1 residues within 4Å:- Chain A: Y.162
No protein-ligand interaction detected (PLIP)EDO.6: 8 residues within 4Å:- Chain A: H.10, I.12, W.30, D.32, I.98
- Chain B: S.55, F.56, Y.63
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:S.55
- Water bridges: B:S.57, A:D.32
EDO.7: 2 residues within 4Å:- Chain A: G.199, R.200
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.199
EDO.8: 3 residues within 4Å:- Chain A: D.40, D.42, S.43
No protein-ligand interaction detected (PLIP)EDO.9: 1 residues within 4Å:- Chain B: H.51
No protein-ligand interaction detected (PLIP)EDO.10: 3 residues within 4Å:- Chain C: K.3, T.26, E.31
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:K.3, C:E.31
EDO.11: 5 residues within 4Å:- Chain C: S.131, N.177, K.178, S.179, F.181
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:N.177
EDO.12: 5 residues within 4Å:- Chain C: N.57, E.58, A.60, S.61, P.76
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:A.60
EDO.13: 4 residues within 4Å:- Chain C: K.130, S.131, W.175, S.176
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:S.131, C:S.176
- Water bridges: C:S.176
EDO.14: 6 residues within 4Å:- Chain C: M.10, D.11, C.12, A.17, A.18, N.19
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:N.19, C:N.19, C:N.19
EDO.15: 2 residues within 4Å:- Chain C: P.76, H.77
No protein-ligand interaction detected (PLIP)- 2 x NA: SODIUM ION(Non-functional Binders)
NA.16: 2 residues within 4Å:- Chain C: A.184, F.198
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:A.184
NA.20: 3 residues within 4Å:- Chain D: G.3, D.24, P.25
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:G.3
- 1 x D3D: (19S,22R,25R)-22,25,26-trihydroxy-16,22-dioxo-17,21,23-trioxa-22lambda~5~-phosphahexacosan-19-yl (9E)-octadec-9-enoate(Non-covalent)
D3D.17: 28 residues within 4Å:- Chain A: L.65, I.68, V.71, Y.72, G.75, F.76, A.99, L.113, V.125, I.147, G.152, I.153, M.154, T.156, V.157, L.160, L.161, Y.168
- Chain C: Y.32, R.91, A.93, Y.94, Q.96
- Chain D: A.97, R.98, A.99, Q.100
- Ligands: CUY.2
21 PLIP interactions:16 interactions with chain A, 2 interactions with chain D, 3 interactions with chain C- Hydrophobic interactions: A:L.65, A:I.68, A:Y.72, A:Y.72, A:A.99, A:L.113, A:V.125, A:I.147, A:T.156, A:V.157, A:V.157, A:L.160, A:L.160, A:L.161, A:Y.168
- Hydrogen bonds: A:I.153, D:A.97, D:Q.100, C:Y.32, C:A.93, C:Q.96
- 2 x ACT: ACETATE ION(Non-functional Binders)
ACT.18: 2 residues within 4Å:- Chain D: E.170, H.172
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:E.170
- Salt bridges: D:H.172
ACT.19: 2 residues within 4Å:- Chain D: Q.41, E.44
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Q.41, D:Q.41
- 1 x CL: CHLORIDE ION(Non-functional Binders)
CL.21: 2 residues within 4Å:- Chain D: R.9, Y.220
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Shahine, A. et al., A molecular basis of human T cell receptor autoreactivity toward self-phospholipids. Sci Immunol (2017)
- Release Date
- 2017-11-01
- Peptides
- T-cell surface glycoprotein CD1b: A
Beta-2-microglobulin: B
T-cell receptor alpha variable 26-1,TRA@ protein: C
PG90 TCR beta chain: D - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
DD
E
SMTL ID : 5wki.1
Crystal structure of PG90 TCR-CD1b-PG complex
T-cell surface glycoprotein CD1b
Beta-2-microglobulin
T-cell receptor alpha variable 26-1,TRA@ protein
PG90 TCR beta chain
Related Entries With Identical Sequence
1a1m.1 | 1a1n.1 | 1a1o.1 | 1a6z.1 | 1a6z.2 | 1agb.1 | 1agc.1 | 1agd.1 | 1age.1 | 1agf.1 | 1akj.1 | 1c16.1 | 1c16.2 | 1c16.3 | 1c16.4 | 1c16.5 | 1de4.1 | 1de4.2 | 1e27.1 | 1e28.1 | 1exu.1 | 1hsa.1 | 1hsa.2 | 1hsb.1 | 1m05.1 | 1m05.2 | 1m6o.1 | 1mi5.1 | 1n2r.1 | 1onq.1 more...less...1onq.2 | 1p7q.1 | 1qlf.1 | 1r3h.1 | 1r3h.2 | 1r3h.3 | 1r3h.4 | 1s8d.1 | 1t1w.1 | 1t1x.1 | 1t1y.1 | 1t1z.1 | 1t20.1 | 1t21.1 | 1t22.1 | 1vgk.1 | 1x7q.1 | 1xh3.1 | 1xr8.1 | 1xr9.1 | 1xz0.1 | 1xz0.2 | 1zhk.1 | 1zhl.1 | 1zs8.1 | 1zs8.2 | 1zs8.3 | 1zs8.4 | 1zs8.5 | 1zs8.6 | 1zsd.1 | 1zvs.1 | 1zvs.2 | 2ak4.1 | 2ak4.2 | 2ak4.3 | 2ak4.4 | 2axf.1 | 2axg.1 | 2cii.1 | 2cik.1 | 2fyy.1 | 2fz3.1 | 2h26.1 | 2h6p.1 | 2hjk.1 | 2hjl.1 | 2hla.1 | 2hn7.1 | 2nw3.1 | 2nx5.1 | 2nx5.2 | 2nx5.3 | 2nx5.4 | 2po6.1 | 2po6.2 | 2rfx.1 | 2xks.1 | 2ypk.1 | 2ypl.1 | 3c9n.1 | 3d2u.1 | 3d2u.2 | 3dbx.1 | 3dx6.1 | 3dx7.1 | 3dx8.1 | 3dxa.1 | 3dxa.2 | 3dxa.3 | 3hla.1 | 3huj.1 | 3huj.2 | 3kpl.1 | 3kpm.1 | 3kpn.1 | 3kpp.1 | 3kpq.1 | 3kpr.1 | 3kpr.2 | 3kps.1 | 3kww.1 | 3kxf.1 | 3kxf.2 | 3kxf.3 | 3kxf.4 | 3l3d.1 | 3l3g.1 | 3l3i.1 | 3l3j.1 | 3l3k.1 | 3ln4.1 | 3ln5.1 | 3m17.2 | 3m17.4 | 3m17.6 | 3m17.8 | 3m1b.2 | 3m1b.4 | 3m1b.6 | 3m1b.8 | 3mv7.1 | 3rew.1 | 3rew.2 | 3rl2.1 | 3sdx.1 | 3sdx.2 | 3spv.1 | 3t8x.1 | 3t8x.2 | 3tid.1 | 3tie.1 | 3tie.2 | 3tzv.1 | 3upr.1 | 3upr.2 | 3vcl.1 | 3vfn.1 | 3vfo.1 | 3vfp.1 | 3vfs.1 | 3vfw.1 | 3vh8.1 | 3vh8.2 | 3vwj.1 | 3vwk.1 | 3x11.1 | 3x12.1 | 3x13.1 | 3x14.1 | 4g8i.1 | 4g9d.1 | 4gup.1 | 4gup.2 | 4hwz.1 | 4hx1.1 | 4i48.1 | 4jqv.1 | 4jqx.1 | 4jrx.1 | 4k71.1 | 4k71.2 | 4k71.3 | 4l4t.1 | 4l4t.2 | 4l4v.1 | 4l4v.2 | 4lcw.1 | 4lcw.2 | 4lnr.1 | 4mji.1 | 4mji.2 | 4n0f.1 | 4n0f.2 | 4n0f.3 | 4n0f.4 | 4n0u.1 | 4nnx.1 | 4nny.1 | 4no0.1 | 4no2.1 | 4no3.1 | 4nqc.1 | 4nqc.2 | 4nqd.1 | 4nqd.2 | 4nqd.5 | 4nqe.1 | 4nqe.2 | 4o2c.1 | 4o2e.1 | 4o2e.2 | 4o2f.1 | 4o2f.2 | 4pj7.1 | 4pj7.2 | 4pj8.1 | 4pr5.1 | 4pra.1 | 4prb.1 | 4prd.1 | 4pre.1 | 4pri.1 | 4prn.1 | 4prp.1 | 4qrr.1 | 4qru.1 | 4uq2.1 | 4uq2.2 | 4wu7.1 | 4wu7.2 | 4ww2.1 | 4x6d.1 | 4x6d.2 | 5b38.1 | 5b39.1 | 5bjt.1 | 5bjt.2 | 5bjt.3 | 5bjt.4 | 5ddh.1 | 5enw.1 | 5f1i.1 | 5f1i.2 | 5f1i.3 | 5f1i.4 | 5f1i.5 | 5f1i.6 | 5f1i.7 | 5f1i.8 | 5f7d.1 | 5fa3.1 | 5gr7.1 | 5grd.1 | 5grg.1 | 5gsb.1 | 5gsd.1 | 5gsv.1 | 5gsx.1 | 5gsx.2 | 5im7.1 | 5im7.2 | 5inc.1 | 5inc.2 | 5ind.1 | 5ind.2 | 5l2j.1 | 5nmh.1 | 5opi.1 | 5swq.1 | 5t6w.1 | 5t6x.1 | 5t6y.1 | 5t6z.1 | 5t70.1 | 5u16.1 | 5u16.2 | 5u17.1 | 5u17.2 | 5u2v.1 | 5u2v.2 | 5u6q.1 | 5u6q.2 | 5u72.1 | 5u72.2 | 5u98.1 | 5u98.2 | 5v5m.1 | 5v5m.2 | 5vud.1 | 5vue.1 | 5vuf.1 | 5vvp.1 | 5vwd.1 | 5vwf.1 | 5vwj.1 | 5wjo.1 | 5wjo.2 | 5wke.1 | 5wkg.1 | 5wl1.1 | 5wwj.1 | 5wwj.2 | 5wwu.1 | 5xos.1 | 5xot.1 | 6avf.1 | 6bj2.1 | 6bj3.1 | 6bj8.1 | 6bxp.1 | 6c97.1 | 6c97.2 | 6c98.1 | 6c98.2 | 6c99.1 | 6c99.2 | 6cug.1 | 6d64.1 | 6eny.1 | 6ewa.1 | 6ewa.2 | 6ewc.1 | 6ewc.2 | 6ewo.1 | 6ewo.2 | 6fgb.1 | 6ilm.1 | 6ilm.2 | 6ilm.3 | 6ilm.4 | 6j1v.1 | 6j1w.1 | 6j29.1 | 6j2a.1 | 6j2e.1 | 6j2e.2 | 6j2g.1 | 6j2g.2 | 6j2i.1 | 6j2i.2 | 6j2j.1 | 6j2j.2 | 6joz.1 | 6jp3.1 | 6k7t.1 | 6la6.1 | 6la6.2 | 6la6.3 | 6la6.4 | 6la7.1 | 6la7.2 | 6la7.3 | 6la7.4 | 6mtl.1 | 6mtm.1 | 6mwr.1 | 6nha.1 | 6o4y.1 | 6o4z.1 | 6o51.1 | 6o53.1 | 6p23.1 | 6p27.1 | 6p2c.1 | 6pbh.1 | 6pyj.1 | 6pyv.1 | 6pz5.1 | 6uln.1 | 6ulr.1 | 6uon.1 | 6uon.2 | 6vb1.1 | 6vb6.1 | 6vqy.1 | 6vqy.2 | 6vqz.1 | 6vqz.2 | 6wna.1 | 6wol.1 | 6wzy.1 | 7b5f.1 | 7c9v.1 | 7c9v.2 | 7c9v.3 | 7c9v.4 | 7edo.2 | 7kgo.1 | 7kgp.1 | 7kgq.1 | 7kgr.1 | 7kgs.1 | 7kgt.1 | 7qpd.1 | 7sif.1 | 7sih.1 | 7t0l.1 | 7t0l.2 | 7t5m.1 | 7t5m.2 | 7wkj.1 | 7wzz.1 | 7x00.1 | 7x1b.1 | 7x1c.1 | 7xf3.1 | 7yg3.1 | 8dv3.1 | 8dv4.1 | 8ec5.1 | 8elg.1 | 8elh.1 | 8erx.1 | 8esh.1 | 8f5a.1 | 8f7m.1 | 8gle.1 | 8glf.1 | 8glg.1 | 8glh.1 | 8gli.1 | 8i5c.1 | 8i5c.2 | 8i5c.3 | 8i5c.4 | 8i5c.5 | 8i5c.6 | 8i5c.7 | 8i5c.8 | 8i5c.9 | 8i5c.10 | 8i5d.1 | 8i5e.1 | 8isn.1 | 8isn.2 | 8tub.1 | 8tub.2 | 8tub.3 | 8tub.4 | 8udr.1 | 8vjz.1 | 8vra.1 | 8wte.1 | 8wte.2 | 8wul.1 | 8wul.2 | 8wul.3 | 8wul.4 | 8xes.1 | 8xfz.1 | 8xg2.1 | 8xkc.1 | 8ye4.1 | 8ye4.2