SMTL ID : 8sjx.1

Structure of lens aquaporin-0 array in sphingomyelin/cholesterol bilayer (2SM:1Chol)

Coordinates

PDB Format Compare

Method

ELECTRON CRYSTALLOGRAPHY 2.50 Å

Oligo State

homo-octamer

Ligands

56 x HWP: [(E,2S,3R)-2-(hexadecanoylamino)-3-oxidanyl-octadec-4-enyl] 2-(trimethylazaniumyl)ethyl phosphate(Non-covalent)(Non-functional Binders)

HWP.1: 7 residues within 4Å: Chain A: I.193, F.198 Ligands: HWP.2, HWP.3, HWP.5, CLR.8, HWP.57 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.193, A:F.198 HWP.2: 6 residues within 4Å: Chain A: R.196 Ligands: HWP.1, HWP.3, HWP.5, HWP.6, HWP.7 No protein-ligand interaction detected (PLIP) HWP.3: 14 residues within 4Å: Chain A: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.1, HWP.2, HWP.4, HWP.6, HWP.7 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.17, A:V.91, A:L.94, A:L.94, A:L.95, A:V.98, A:Y.105, A:Y.105, A:R.196 Hydrogen bonds: A:Y.105 Salt bridges: A:R.196 HWP.4: 5 residues within 4Å: Chain A: A.102, V.103, Y.105, S.106 Ligands: HWP.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.105 Hydrogen bonds: A:S.106 HWP.5: 4 residues within 4Å: Ligands: HWP.1, HWP.2, HWP.6, CLR.8 No protein-ligand interaction detected (PLIP) HWP.6: 12 residues within 4Å: Chain A: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.2, HWP.3, HWP.5, HWP.7 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.10, A:W.10, A:I.13, A:F.14, A:F.17, A:F.17, A:F.17, A:V.91, A:L.95, A:L.95 HWP.7: 6 residues within 4Å: Chain A: W.10, F.14, L.95 Ligands: HWP.2, HWP.3, HWP.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.10, A:F.14, A:F.14, A:F.14, A:L.95, A:L.95 HWP.9: 7 residues within 4Å: Chain B: I.193, F.198 Ligands: HWP.10, HWP.11, HWP.13, CLR.16, HWP.49 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.193, B:F.198 HWP.10: 6 residues within 4Å: Chain B: R.196 Ligands: HWP.9, HWP.11, HWP.13, HWP.14, HWP.15 No protein-ligand interaction detected (PLIP) HWP.11: 14 residues within 4Å: Chain B: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.9, HWP.10, HWP.12, HWP.14, HWP.15 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.17, B:V.91, B:L.94, B:L.94, B:L.95, B:V.98, B:Y.105, B:Y.105, B:R.196 Hydrogen bonds: B:Y.105 Salt bridges: B:R.196 HWP.12: 5 residues within 4Å: Chain B: A.102, V.103, Y.105, S.106 Ligands: HWP.11 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.105 Hydrogen bonds: B:S.106 HWP.13: 4 residues within 4Å: Ligands: HWP.9, HWP.10, HWP.14, CLR.16 No protein-ligand interaction detected (PLIP) HWP.14: 12 residues within 4Å: Chain B: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.10, HWP.11, HWP.13, HWP.15 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:W.10, B:W.10, B:I.13, B:F.14, B:F.17, B:F.17, B:F.17, B:V.91, B:L.95, B:L.95 HWP.15: 6 residues within 4Å: Chain B: W.10, F.14, L.95 Ligands: HWP.10, HWP.11, HWP.14 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.10, B:F.14, B:F.14, B:F.14, B:L.95, B:L.95 HWP.17: 7 residues within 4Å: Chain C: I.193, F.198 Ligands: HWP.18, HWP.19, HWP.21, CLR.24, HWP.41 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:I.193, C:F.198 HWP.18: 6 residues within 4Å: Chain C: R.196 Ligands: HWP.17, HWP.19, HWP.21, HWP.22, HWP.23 No protein-ligand interaction detected (PLIP) HWP.19: 14 residues within 4Å: Chain C: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.17, HWP.18, HWP.20, HWP.22, HWP.23 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:F.17, C:V.91, C:L.94, C:L.94, C:L.95, C:V.98, C:Y.105, C:Y.105, C:R.196 Hydrogen bonds: C:Y.105 Salt bridges: C:R.196 HWP.20: 5 residues within 4Å: Chain C: A.102, V.103, Y.105, S.106 Ligands: HWP.19 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:Y.105 Hydrogen bonds: C:S.106 HWP.21: 4 residues within 4Å: Ligands: HWP.17, HWP.18, HWP.22, CLR.24 No protein-ligand interaction detected (PLIP) HWP.22: 12 residues within 4Å: Chain C: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.18, HWP.19, HWP.21, HWP.23 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:W.10, C:W.10, C:I.13, C:F.14, C:F.17, C:F.17, C:F.17, C:V.91, C:L.95, C:L.95 HWP.23: 6 residues within 4Å: Chain C: W.10, F.14, L.95 Ligands: HWP.18, HWP.19, HWP.22 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:W.10, C:F.14, C:F.14, C:F.14, C:L.95, C:L.95 HWP.25: 7 residues within 4Å: Chain D: I.193, F.198 Ligands: HWP.26, HWP.27, HWP.29, CLR.32, HWP.33 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:I.193, D:F.198 HWP.26: 6 residues within 4Å: Chain D: R.196 Ligands: HWP.25, HWP.27, HWP.29, HWP.30, HWP.31 No protein-ligand interaction detected (PLIP) HWP.27: 14 residues within 4Å: Chain D: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.25, HWP.26, HWP.28, HWP.30, HWP.31 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:F.17, D:V.91, D:L.94, D:L.94, D:L.95, D:V.98, D:Y.105, D:Y.105, D:R.196 Hydrogen bonds: D:Y.105 Salt bridges: D:R.196 HWP.28: 5 residues within 4Å: Chain D: A.102, V.103, Y.105, S.106 Ligands: HWP.27 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:Y.105 Hydrogen bonds: D:S.106 HWP.29: 4 residues within 4Å: Ligands: HWP.25, HWP.26, HWP.30, CLR.32 No protein-ligand interaction detected (PLIP) HWP.30: 12 residues within 4Å: Chain D: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.26, HWP.27, HWP.29, HWP.31 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:W.10, D:W.10, D:I.13, D:F.14, D:F.17, D:F.17, D:F.17, D:V.91, D:L.95, D:L.95 HWP.31: 6 residues within 4Å: Chain D: W.10, F.14, L.95 Ligands: HWP.26, HWP.27, HWP.30 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:W.10, D:F.14, D:F.14, D:F.14, D:L.95, D:L.95 HWP.33: 7 residues within 4Å: Chain E: I.193, F.198 Ligands: HWP.25, HWP.34, HWP.35, HWP.37, CLR.40 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:I.193, E:F.198 HWP.34: 6 residues within 4Å: Chain E: R.196 Ligands: HWP.33, HWP.35, HWP.37, HWP.38, HWP.39 No protein-ligand interaction detected (PLIP) HWP.35: 14 residues within 4Å: Chain E: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.33, HWP.34, HWP.36, HWP.38, HWP.39 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:F.17, E:V.91, E:L.94, E:L.94, E:L.95, E:V.98, E:Y.105, E:Y.105, E:R.196 Salt bridges: E:R.196 HWP.36: 5 residues within 4Å: Chain E: A.102, V.103, Y.105, S.106 Ligands: HWP.35 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:Y.105 Hydrogen bonds: E:S.106 HWP.37: 4 residues within 4Å: Ligands: HWP.33, HWP.34, HWP.38, CLR.40 No protein-ligand interaction detected (PLIP) HWP.38: 12 residues within 4Å: Chain E: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.34, HWP.35, HWP.37, HWP.39 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:W.10, E:W.10, E:I.13, E:F.14, E:F.17, E:F.17, E:F.17, E:V.91, E:L.95, E:L.95 HWP.39: 6 residues within 4Å: Chain E: W.10, F.14, L.95 Ligands: HWP.34, HWP.35, HWP.38 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:W.10, E:F.14, E:F.14, E:F.14, E:L.95, E:L.95 HWP.41: 7 residues within 4Å: Chain F: I.193, F.198 Ligands: HWP.17, HWP.42, HWP.43, HWP.45, CLR.48 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:I.193, F:F.198 HWP.42: 6 residues within 4Å: Chain F: R.196 Ligands: HWP.41, HWP.43, HWP.45, HWP.46, HWP.47 No protein-ligand interaction detected (PLIP) HWP.43: 14 residues within 4Å: Chain F: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.41, HWP.42, HWP.44, HWP.46, HWP.47 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:F.17, F:V.91, F:L.94, F:L.94, F:L.95, F:V.98, F:Y.105, F:Y.105, F:R.196 Salt bridges: F:R.196 HWP.44: 5 residues within 4Å: Chain F: A.102, V.103, Y.105, S.106 Ligands: HWP.43 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:Y.105 Hydrogen bonds: F:S.106 HWP.45: 4 residues within 4Å: Ligands: HWP.41, HWP.42, HWP.46, CLR.48 No protein-ligand interaction detected (PLIP) HWP.46: 12 residues within 4Å: Chain F: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.42, HWP.43, HWP.45, HWP.47 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:W.10, F:W.10, F:I.13, F:F.14, F:F.17, F:F.17, F:F.17, F:V.91, F:L.95, F:L.95 HWP.47: 6 residues within 4Å: Chain F: W.10, F.14, L.95 Ligands: HWP.42, HWP.43, HWP.46 6 PLIP interactions: 6 interactions with chain F Hydrophobic interactions: F:W.10, F:F.14, F:F.14, F:F.14, F:L.95, F:L.95 HWP.49: 7 residues within 4Å: Chain G: I.193, F.198 Ligands: HWP.9, HWP.50, HWP.51, HWP.53, CLR.56 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:I.193, G:F.198 HWP.50: 6 residues within 4Å: Chain G: R.196 Ligands: HWP.49, HWP.51, HWP.53, HWP.54, HWP.55 No protein-ligand interaction detected (PLIP) HWP.51: 14 residues within 4Å: Chain G: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.49, HWP.50, HWP.52, HWP.54, HWP.55 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:F.17, G:V.91, G:L.94, G:L.94, G:L.95, G:V.98, G:Y.105, G:Y.105, G:R.196 Salt bridges: G:R.196 HWP.52: 5 residues within 4Å: Chain G: A.102, V.103, Y.105, S.106 Ligands: HWP.51 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:Y.105 Hydrogen bonds: G:S.106 HWP.53: 4 residues within 4Å: Ligands: HWP.49, HWP.50, HWP.54, CLR.56 No protein-ligand interaction detected (PLIP) HWP.54: 12 residues within 4Å: Chain G: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.50, HWP.51, HWP.53, HWP.55 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:W.10, G:W.10, G:I.13, G:F.14, G:F.17, G:F.17, G:F.17, G:V.91, G:L.95, G:L.95 HWP.55: 6 residues within 4Å: Chain G: W.10, F.14, L.95 Ligands: HWP.50, HWP.51, HWP.54 6 PLIP interactions: 6 interactions with chain G Hydrophobic interactions: G:W.10, G:F.14, G:F.14, G:F.14, G:L.95, G:L.95 HWP.57: 7 residues within 4Å: Chain H: I.193, F.198 Ligands: HWP.1, HWP.58, HWP.59, HWP.61, CLR.64 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:I.193, H:F.198 HWP.58: 6 residues within 4Å: Chain H: R.196 Ligands: HWP.57, HWP.59, HWP.61, HWP.62, HWP.63 No protein-ligand interaction detected (PLIP) HWP.59: 14 residues within 4Å: Chain H: F.17, V.91, L.94, L.95, V.98, Y.105, I.193, L.194, R.196 Ligands: HWP.57, HWP.58, HWP.60, HWP.62, HWP.63 10 PLIP interactions: 10 interactions with chain H Hydrophobic interactions: H:F.17, H:V.91, H:L.94, H:L.94, H:L.95, H:V.98, H:Y.105, H:Y.105, H:R.196 Salt bridges: H:R.196 HWP.60: 5 residues within 4Å: Chain H: A.102, V.103, Y.105, S.106 Ligands: HWP.59 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:Y.105 Hydrogen bonds: H:S.106 HWP.61: 4 residues within 4Å: Ligands: HWP.57, HWP.58, HWP.62, CLR.64 No protein-ligand interaction detected (PLIP) HWP.62: 12 residues within 4Å: Chain H: W.10, I.13, F.14, F.17, L.84, C.88, V.91, L.95 Ligands: HWP.58, HWP.59, HWP.61, HWP.63 10 PLIP interactions: 10 interactions with chain H Hydrophobic interactions: H:W.10, H:W.10, H:I.13, H:F.14, H:F.17, H:F.17, H:F.17, H:V.91, H:L.95, H:L.95 HWP.63: 6 residues within 4Å: Chain H: W.10, F.14, L.95 Ligands: HWP.58, HWP.59, HWP.62 6 PLIP interactions: 6 interactions with chain H Hydrophobic interactions: H:W.10, H:F.14, H:F.14, H:F.14, H:L.95, H:L.95

8 x CLR: CHOLESTEROL(Non-covalent)

CLR.8: 9 residues within 4Å: Chain A: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.1, HWP.5 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.87, A:V.90, A:L.94, A:F.198, A:W.205, A:W.205, A:W.205, A:W.205, A:W.205 Hydrogen bonds: A:F.198 CLR.16: 9 residues within 4Å: Chain B: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.9, HWP.13 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:I.87, B:V.90, B:L.94, B:F.198, B:W.205, B:W.205, B:W.205, B:W.205, B:W.205 Hydrogen bonds: B:F.198 CLR.24: 9 residues within 4Å: Chain C: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.17, HWP.21 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:I.87, C:V.90, C:L.94, C:F.198, C:W.205, C:W.205, C:W.205, C:W.205, C:W.205 Hydrogen bonds: C:F.198 CLR.32: 9 residues within 4Å: Chain D: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.25, HWP.29 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:I.87, D:V.90, D:L.94, D:F.198, D:W.205, D:W.205, D:W.205, D:W.205, D:W.205 Hydrogen bonds: D:F.198 CLR.40: 9 residues within 4Å: Chain E: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.33, HWP.37 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:I.87, E:V.90, E:L.94, E:F.198, E:W.205, E:W.205, E:W.205, E:W.205, E:W.205 Hydrogen bonds: E:F.198 CLR.48: 9 residues within 4Å: Chain F: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.41, HWP.45 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:I.87, F:V.90, F:L.94, F:F.198, F:W.205, F:W.205, F:W.205, F:W.205, F:W.205 Hydrogen bonds: F:F.198 CLR.56: 9 residues within 4Å: Chain G: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.49, HWP.53 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:I.87, G:V.90, G:L.94, G:F.198, G:W.205, G:W.205, G:W.205, G:W.205, G:W.205 Hydrogen bonds: G:F.198 CLR.64: 9 residues within 4Å: Chain H: I.87, V.90, L.94, F.198, H.201, W.202, W.205 Ligands: HWP.57, HWP.61 10 PLIP interactions: 10 interactions with chain H Hydrophobic interactions: H:I.87, H:V.90, H:L.94, H:F.198, H:W.205, H:W.205, H:W.205, H:W.205, H:W.205 Hydrogen bonds: H:F.198

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chiu, P.-L. et al., Structure of aquaporin-0 arrays in sphingomyelin/cholesterol membranes and implications for lipid. To Be Published

Release Date

2024-04-24

Peptides

Lens fiber major intrinsic protein: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

Membrane

We predict this structure to be a membrane protein.
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Lens fiber major intrinsic protein

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