SMTL ID : 5mue.1

Self-assembled alpha-Tocopherol Transfer Protein Nanoparticles Promote Vitamin E Delivery Across an Endothelial Barrier

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-24-mer

Ligands

24 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain B: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain C: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain D: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain E: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain F: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain G: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.29: 4 residues within 4Å: Chain H: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.33: 4 residues within 4Å: Chain I: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.37: 4 residues within 4Å: Chain J: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.41: 4 residues within 4Å: Chain K: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.45: 4 residues within 4Å: Chain L: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.49: 4 residues within 4Å: Chain M: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.53: 4 residues within 4Å: Chain N: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.57: 4 residues within 4Å: Chain O: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.61: 4 residues within 4Å: Chain P: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.65: 4 residues within 4Å: Chain Q: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.69: 4 residues within 4Å: Chain R: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.73: 4 residues within 4Å: Chain S: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.77: 4 residues within 4Å: Chain T: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.81: 4 residues within 4Å: Chain U: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.85: 4 residues within 4Å: Chain V: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.89: 4 residues within 4Å: Chain W: K.143, R.145, K.170, R.174 Ligand excluded by PLIP SO4.93: 4 residues within 4Å: Chain X: K.143, R.145, K.170, R.174 Ligand excluded by PLIP

24 x VIV: (2R)-2,5,7,8-TETRAMETHYL-2-[(4R,8R)-4,8,12-TRIMETHYLTRIDECYL]CHROMAN-6-OL(Non-covalent)

VIV.2: 16 residues within 4Å: Chain A: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.72, A:V.85, A:F.86, A:F.86, A:I.107, A:F.111, A:W.116, A:I.132, A:I.132, A:V.135, A:L.136, A:F.140, A:I.147, A:F.156 Hydrogen bonds: A:S.89 VIV.6: 16 residues within 4Å: Chain B: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.72, B:V.85, B:F.86, B:F.86, B:I.107, B:F.111, B:W.116, B:I.132, B:I.132, B:V.135, B:L.136, B:F.140, B:I.147, B:F.156 Hydrogen bonds: B:S.89 VIV.10: 16 residues within 4Å: Chain C: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:I.72, C:V.85, C:F.86, C:F.86, C:I.107, C:F.111, C:W.116, C:I.132, C:I.132, C:V.135, C:L.136, C:F.140, C:I.147, C:F.156 Hydrogen bonds: C:S.89 VIV.14: 16 residues within 4Å: Chain D: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:I.72, D:V.85, D:F.86, D:F.86, D:I.107, D:F.111, D:W.116, D:I.132, D:I.132, D:V.135, D:L.136, D:F.140, D:I.147, D:F.156 Hydrogen bonds: D:S.89 VIV.18: 16 residues within 4Å: Chain E: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain E Hydrophobic interactions: E:I.72, E:V.85, E:F.86, E:F.86, E:I.107, E:F.111, E:W.116, E:I.132, E:I.132, E:V.135, E:L.136, E:F.140, E:I.147, E:F.156 Hydrogen bonds: E:S.89 VIV.22: 16 residues within 4Å: Chain F: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain F Hydrophobic interactions: F:I.72, F:V.85, F:F.86, F:F.86, F:I.107, F:F.111, F:W.116, F:I.132, F:I.132, F:V.135, F:L.136, F:F.140, F:I.147, F:F.156 Hydrogen bonds: F:S.89 VIV.26: 16 residues within 4Å: Chain G: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain G Hydrophobic interactions: G:I.72, G:V.85, G:F.86, G:F.86, G:I.107, G:F.111, G:W.116, G:I.132, G:I.132, G:V.135, G:L.136, G:F.140, G:I.147, G:F.156 Hydrogen bonds: G:S.89 VIV.30: 16 residues within 4Å: Chain H: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain H Hydrophobic interactions: H:I.72, H:V.85, H:F.86, H:F.86, H:I.107, H:F.111, H:W.116, H:I.132, H:I.132, H:V.135, H:L.136, H:F.140, H:I.147, H:F.156 Hydrogen bonds: H:S.89 VIV.34: 16 residues within 4Å: Chain I: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain I Hydrophobic interactions: I:I.72, I:V.85, I:F.86, I:F.86, I:I.107, I:F.111, I:W.116, I:I.132, I:I.132, I:V.135, I:L.136, I:F.140, I:I.147, I:F.156 Hydrogen bonds: I:S.89 VIV.38: 16 residues within 4Å: Chain J: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain J Hydrophobic interactions: J:I.72, J:V.85, J:F.86, J:F.86, J:I.107, J:F.111, J:W.116, J:I.132, J:I.132, J:V.135, J:L.136, J:F.140, J:I.147, J:F.156 Hydrogen bonds: J:S.89 VIV.42: 16 residues within 4Å: Chain K: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain K Hydrophobic interactions: K:I.72, K:V.85, K:F.86, K:F.86, K:I.107, K:F.111, K:W.116, K:I.132, K:I.132, K:V.135, K:L.136, K:F.140, K:I.147, K:F.156 Hydrogen bonds: K:S.89 VIV.46: 16 residues within 4Å: Chain L: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain L Hydrophobic interactions: L:I.72, L:V.85, L:F.86, L:F.86, L:I.107, L:F.111, L:W.116, L:I.132, L:I.132, L:V.135, L:L.136, L:F.140, L:I.147, L:F.156 Hydrogen bonds: L:S.89 VIV.50: 16 residues within 4Å: Chain M: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain M Hydrophobic interactions: M:I.72, M:V.85, M:F.86, M:F.86, M:I.107, M:F.111, M:W.116, M:I.132, M:I.132, M:V.135, M:L.136, M:F.140, M:I.147, M:F.156 Hydrogen bonds: M:S.89 VIV.54: 16 residues within 4Å: Chain N: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain N Hydrophobic interactions: N:I.72, N:V.85, N:F.86, N:F.86, N:I.107, N:F.111, N:W.116, N:I.132, N:I.132, N:V.135, N:L.136, N:F.140, N:I.147, N:F.156 Hydrogen bonds: N:S.89 VIV.58: 16 residues within 4Å: Chain O: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain O Hydrophobic interactions: O:I.72, O:V.85, O:F.86, O:F.86, O:I.107, O:F.111, O:W.116, O:I.132, O:I.132, O:V.135, O:L.136, O:F.140, O:I.147, O:F.156 Hydrogen bonds: O:S.89 VIV.62: 16 residues within 4Å: Chain P: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain P Hydrophobic interactions: P:I.72, P:V.85, P:F.86, P:F.86, P:I.107, P:F.111, P:W.116, P:I.132, P:I.132, P:V.135, P:L.136, P:F.140, P:I.147, P:F.156 Hydrogen bonds: P:S.89 VIV.66: 16 residues within 4Å: Chain Q: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain Q Hydrophobic interactions: Q:I.72, Q:V.85, Q:F.86, Q:F.86, Q:I.107, Q:F.111, Q:W.116, Q:I.132, Q:I.132, Q:V.135, Q:L.136, Q:F.140, Q:I.147, Q:F.156 Hydrogen bonds: Q:S.89 VIV.70: 16 residues within 4Å: Chain R: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain R Hydrophobic interactions: R:I.72, R:V.85, R:F.86, R:F.86, R:I.107, R:F.111, R:W.116, R:I.132, R:I.132, R:V.135, R:L.136, R:F.140, R:I.147, R:F.156 Hydrogen bonds: R:S.89 VIV.74: 16 residues within 4Å: Chain S: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain S Hydrophobic interactions: S:I.72, S:V.85, S:F.86, S:F.86, S:I.107, S:F.111, S:W.116, S:I.132, S:I.132, S:V.135, S:L.136, S:F.140, S:I.147, S:F.156 Hydrogen bonds: S:S.89 VIV.78: 16 residues within 4Å: Chain T: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain T Hydrophobic interactions: T:I.72, T:V.85, T:F.86, T:F.86, T:I.107, T:F.111, T:W.116, T:I.132, T:I.132, T:V.135, T:L.136, T:F.140, T:I.147, T:F.156 Hydrogen bonds: T:S.89 VIV.82: 16 residues within 4Å: Chain U: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain U Hydrophobic interactions: U:I.72, U:V.85, U:F.86, U:F.86, U:I.107, U:F.111, U:W.116, U:I.132, U:I.132, U:V.135, U:L.136, U:F.140, U:I.147, U:F.156 Hydrogen bonds: U:S.89 VIV.86: 16 residues within 4Å: Chain V: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain V Hydrophobic interactions: V:I.72, V:V.85, V:F.86, V:F.86, V:I.107, V:F.111, V:W.116, V:I.132, V:I.132, V:V.135, V:L.136, V:F.140, V:I.147, V:F.156 Hydrogen bonds: V:S.89 VIV.90: 16 residues within 4Å: Chain W: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain W Hydrophobic interactions: W:I.72, W:V.85, W:F.86, W:F.86, W:I.107, W:F.111, W:W.116, W:I.132, W:I.132, W:V.135, W:L.136, W:F.140, W:I.147, W:F.156 Hydrogen bonds: W:S.89 VIV.94: 16 residues within 4Å: Chain X: I.72, A.82, V.85, F.86, S.89, S.93, I.107, F.111, W.116, I.132, V.135, L.136, F.140, V.144, I.147, F.156 15 PLIP interactions: 15 interactions with chain X Hydrophobic interactions: X:I.72, X:V.85, X:F.86, X:F.86, X:I.107, X:F.111, X:W.116, X:I.132, X:I.132, X:V.135, X:L.136, X:F.140, X:I.147, X:F.156 Hydrogen bonds: X:S.89

24 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: H.178, S.185 Chain U: V.154 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain B: H.178, S.185 Chain X: V.154 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain C: H.178, S.185 Chain W: V.154 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain D: H.178, S.185 Chain V: V.154 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain E: H.178, S.185 Chain R: V.154 Ligand excluded by PLIP CL.23: 3 residues within 4Å: Chain F: H.178, S.185 Chain S: V.154 Ligand excluded by PLIP CL.27: 3 residues within 4Å: Chain G: H.178, S.185 Chain T: V.154 Ligand excluded by PLIP CL.31: 3 residues within 4Å: Chain H: H.178, S.185 Chain Q: V.154 Ligand excluded by PLIP CL.35: 3 residues within 4Å: Chain I: H.178, S.185 Chain O: V.154 Ligand excluded by PLIP CL.39: 3 residues within 4Å: Chain J: H.178, S.185 Chain N: V.154 Ligand excluded by PLIP CL.43: 3 residues within 4Å: Chain K: H.178, S.185 Chain M: V.154 Ligand excluded by PLIP CL.47: 3 residues within 4Å: Chain L: H.178, S.185 Chain P: V.154 Ligand excluded by PLIP CL.51: 3 residues within 4Å: Chain I: V.154 Chain M: H.178, S.185 Ligand excluded by PLIP CL.55: 3 residues within 4Å: Chain L: V.154 Chain N: H.178, S.185 Ligand excluded by PLIP CL.59: 3 residues within 4Å: Chain K: V.154 Chain O: H.178, S.185 Ligand excluded by PLIP CL.63: 3 residues within 4Å: Chain J: V.154 Chain P: H.178, S.185 Ligand excluded by PLIP CL.67: 3 residues within 4Å: Chain F: V.154 Chain Q: H.178, S.185 Ligand excluded by PLIP CL.71: 3 residues within 4Å: Chain G: V.154 Chain R: H.178, S.185 Ligand excluded by PLIP CL.75: 3 residues within 4Å: Chain H: V.154 Chain S: H.178, S.185 Ligand excluded by PLIP CL.79: 3 residues within 4Å: Chain E: V.154 Chain T: H.178, S.185 Ligand excluded by PLIP CL.83: 3 residues within 4Å: Chain C: V.154 Chain U: H.178, S.185 Ligand excluded by PLIP CL.87: 3 residues within 4Å: Chain B: V.154 Chain V: H.178, S.185 Ligand excluded by PLIP CL.91: 3 residues within 4Å: Chain A: V.154 Chain W: H.178, S.185 Ligand excluded by PLIP CL.95: 3 residues within 4Å: Chain D: V.154 Chain X: H.178, S.185 Ligand excluded by PLIP

24 x ETA: ETHANOLAMINE(Non-covalent)

ETA.4: 4 residues within 4Å: Chain A: W.20 Chain L: W.20 Ligands: ETA.24, ETA.48 No protein-ligand interaction detected (PLIP) ETA.8: 4 residues within 4Å: Chain B: W.20 Chain I: W.20 Ligands: ETA.32, ETA.36 No protein-ligand interaction detected (PLIP) ETA.12: 4 residues within 4Å: Chain C: W.20 Chain K: W.20 Ligands: ETA.28, ETA.44 No protein-ligand interaction detected (PLIP) ETA.16: 4 residues within 4Å: Chain D: W.20 Chain J: W.20 Ligands: ETA.20, ETA.40 No protein-ligand interaction detected (PLIP) ETA.20: 4 residues within 4Å: Chain D: W.20 Chain E: W.20 Ligands: ETA.16, ETA.40 No protein-ligand interaction detected (PLIP) ETA.24: 4 residues within 4Å: Chain A: W.20 Chain F: W.20 Ligands: ETA.4, ETA.48 No protein-ligand interaction detected (PLIP) ETA.28: 4 residues within 4Å: Chain C: W.20 Chain G: W.20 Ligands: ETA.12, ETA.44 No protein-ligand interaction detected (PLIP) ETA.32: 4 residues within 4Å: Chain B: W.20 Chain H: W.20 Ligands: ETA.8, ETA.36 No protein-ligand interaction detected (PLIP) ETA.36: 4 residues within 4Å: Chain H: W.20 Chain I: W.20 Ligands: ETA.8, ETA.32 No protein-ligand interaction detected (PLIP) ETA.40: 4 residues within 4Å: Chain E: W.20 Chain J: W.20 Ligands: ETA.16, ETA.20 No protein-ligand interaction detected (PLIP) ETA.44: 4 residues within 4Å: Chain G: W.20 Chain K: W.20 Ligands: ETA.12, ETA.28 No protein-ligand interaction detected (PLIP) ETA.48: 4 residues within 4Å: Chain F: W.20 Chain L: W.20 Ligands: ETA.4, ETA.24 No protein-ligand interaction detected (PLIP) ETA.52: 4 residues within 4Å: Chain M: W.20 Chain X: W.20 Ligands: ETA.72, ETA.96 No protein-ligand interaction detected (PLIP) ETA.56: 4 residues within 4Å: Chain N: W.20 Chain U: W.20 Ligands: ETA.80, ETA.84 No protein-ligand interaction detected (PLIP) ETA.60: 4 residues within 4Å: Chain O: W.20 Chain W: W.20 Ligands: ETA.76, ETA.92 No protein-ligand interaction detected (PLIP) ETA.64: 4 residues within 4Å: Chain P: W.20 Chain V: W.20 Ligands: ETA.68, ETA.88 No protein-ligand interaction detected (PLIP) ETA.68: 4 residues within 4Å: Chain P: W.20 Chain Q: W.20 Ligands: ETA.64, ETA.88 No protein-ligand interaction detected (PLIP) ETA.72: 4 residues within 4Å: Chain M: W.20 Chain R: W.20 Ligands: ETA.52, ETA.96 No protein-ligand interaction detected (PLIP) ETA.76: 4 residues within 4Å: Chain O: W.20 Chain S: W.20 Ligands: ETA.60, ETA.92 No protein-ligand interaction detected (PLIP) ETA.80: 4 residues within 4Å: Chain N: W.20 Chain T: W.20 Ligands: ETA.56, ETA.84 No protein-ligand interaction detected (PLIP) ETA.84: 4 residues within 4Å: Chain T: W.20 Chain U: W.20 Ligands: ETA.56, ETA.80 No protein-ligand interaction detected (PLIP) ETA.88: 4 residues within 4Å: Chain Q: W.20 Chain V: W.20 Ligands: ETA.64, ETA.68 No protein-ligand interaction detected (PLIP) ETA.92: 4 residues within 4Å: Chain S: W.20 Chain W: W.20 Ligands: ETA.60, ETA.76 No protein-ligand interaction detected (PLIP) ETA.96: 4 residues within 4Å: Chain R: W.20 Chain X: W.20 Ligands: ETA.52, ETA.72 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Aeschimann, W. et al., Self-assembled alpha-Tocopherol Transfer Protein Nanoparticles Promote Vitamin E Delivery Across an Endothelial Barrier. Sci Rep (2017)

Release Date

2017-07-19

Peptides

Alpha-tocopherol transfer protein: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

K
A

L
A

M
A

N
A

O
A

P
A

Q
A

R
A

S
A

T
A

U
A

V
A

W
A

X
A

Alpha-tocopherol transfer protein