- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.69 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.5: 6 residues within 4Å:- Chain A: P.48, A.50, P.51, E.54
- Ligands: EDO.13, EDO.20
Ligand excluded by PLIPEDO.6: 5 residues within 4Å:- Chain A: T.179, R.182, E.184, Y.210, G.240
Ligand excluded by PLIPEDO.7: 3 residues within 4Å:- Chain A: Q.33, R.49
- Ligands: EDO.15
Ligand excluded by PLIPEDO.8: 5 residues within 4Å:- Chain A: P.48, E.54, E.56, W.61
- Ligands: EDO.20
Ligand excluded by PLIPEDO.9: 6 residues within 4Å:- Chain A: R.7, F.9, Y.28, D.30, D.31
- Ligands: EDO.12
Ligand excluded by PLIPEDO.10: 6 residues within 4Å:- Chain A: S.3, H.4, S.5, D.30, D.103
- Ligands: EDO.12
Ligand excluded by PLIPEDO.11: 7 residues within 4Å:- Chain A: G.208, D.239, T.241, F.242, Q.243
- Chain B: R.13, H.14
Ligand excluded by PLIPEDO.12: 5 residues within 4Å:- Chain A: S.5, D.30, D.31
- Ligands: EDO.9, EDO.10
Ligand excluded by PLIPEDO.13: 6 residues within 4Å:- Chain A: R.36, E.47, P.48, R.49
- Ligands: EDO.5, EDO.20
Ligand excluded by PLIPEDO.14: 4 residues within 4Å:- Chain A: T.191, H.192, H.193, W.275
Ligand excluded by PLIPEDO.15: 4 residues within 4Å:- Chain A: R.49
- Chain B: E.51, Y.68
- Ligands: EDO.7
Ligand excluded by PLIPEDO.16: 5 residues within 4Å:- Chain A: T.74, V.77, S.78, K.147, W.148
Ligand excluded by PLIPEDO.17: 7 residues within 4Å:- Chain A: M.6, Y.8, Q.64, Y.160, S.168, Y.172
- Ligands: EKG.22
Ligand excluded by PLIPEDO.18: 4 residues within 4Å:- Chain A: R.109, L.110, E.162, L.166
Ligand excluded by PLIPEDO.19: 6 residues within 4Å:- Chain A: D.31, P.236, G.240, T.241, F.242
- Ligands: EDO.27
Ligand excluded by PLIPEDO.20: 6 residues within 4Å:- Chain A: K.45, E.47, P.48
- Ligands: EDO.5, EDO.8, EDO.13
Ligand excluded by PLIPEDO.21: 4 residues within 4Å:- Chain A: L.267, P.268, E.269, L.271
Ligand excluded by PLIPEDO.23: 3 residues within 4Å:- Chain B: S.58, K.59, D.60
Ligand excluded by PLIPEDO.24: 6 residues within 4Å:- Chain A: V.13, R.22, I.24
- Chain B: S.34, D.35, L.55
Ligand excluded by PLIPEDO.25: 4 residues within 4Å:- Chain B: D.39, K.46, R.82, P.91
Ligand excluded by PLIPEDO.26: 8 residues within 4Å:- Chain A: W.205, L.207, R.235, Q.243
- Chain B: Y.11, S.12, H.14, P.15
Ligand excluded by PLIPEDO.27: 7 residues within 4Å:- Chain A: P.236
- Chain B: Y.27, S.53, Y.64, L.65, L.66
- Ligands: EDO.19
Ligand excluded by PLIP- 1 x EKG: (2R)-2,3-dihydroxypropyl hexadecanoate(Non-covalent)
EKG.22: 16 residues within 4Å:- Chain A: Y.8, S.10, F.23, V.25, Q.64, R.67, V.68, A.71, F.75, T.98, M.99, S.100, Q.156, W.157, Y.160
- Ligands: EDO.17
10 PLIP interactions:10 interactions with chain A- Hydrophobic interactions: A:Y.8, A:Y.8, A:F.23, A:R.67, A:V.68, A:A.71, A:F.75
- Hydrogen bonds: A:Q.156
- Water bridges: A:Y.160
- Salt bridges: A:R.67
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Shima, Y. et al., Crystal structures of lysophospholipid-bound MHC class I molecules. J.Biol.Chem. (2020)
- Release Date
- 2020-04-22
- Peptides
- MHC class I antigen: A
Beta-2-microglobulin: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.69 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x EKG: (2R)-2,3-dihydroxypropyl hexadecanoate(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Shima, Y. et al., Crystal structures of lysophospholipid-bound MHC class I molecules. J.Biol.Chem. (2020)
- Release Date
- 2020-04-22
- Peptides
- MHC class I antigen: A
Beta-2-microglobulin: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B