SMTL ID : 7lgu.1

Structure of human prestin in the presence of NaCl

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

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

CL.1: 4 residues within 4Å: Chain A: F.137, S.396, L.397, S.398 Ligand excluded by PLIP CL.56: 4 residues within 4Å: Chain B: F.137, S.396, L.397, S.398 Ligand excluded by PLIP

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 10 residues within 4Å: Chain A: I.240, Y.486, T.490, I.493, I.494, L.497 Ligands: D10.8, D10.14, CLR.57, D10.69 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.486, A:Y.486, A:T.490, A:I.493, A:I.494, A:L.497 CLR.57: 10 residues within 4Å: Chain A: I.493 Chain B: I.240, Y.486, T.490, I.493, L.497 Ligands: CLR.2, D10.14, D10.63, D10.69 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.240, B:Y.486, B:Y.486, B:T.490, B:I.493, B:L.497 Hydrogen bonds: B:Y.486, B:Y.486

50 x OCT: N-OCTANE(Non-functional Binders)(Non-covalent)

OCT.3: 1 residues within 4Å: Ligands: OCT.4 Ligand excluded by PLIP OCT.4: 5 residues within 4Å: Chain A: V.341, Y.486 Ligands: OCT.3, D10.13, D10.14 Ligand excluded by PLIP OCT.5: 9 residues within 4Å: Chain A: Y.204, V.492, L.496 Chain B: L.497, I.500, Y.501 Ligands: D10.13, D10.15, C14.86 Ligand excluded by PLIP OCT.6: 3 residues within 4Å: Chain A: V.195 Ligands: OCT.7, D10.17 Ligand excluded by PLIP OCT.7: 4 residues within 4Å: Chain A: M.63, F.64, R.197 Ligands: OCT.6 Ligand excluded by PLIP OCT.9: 4 residues within 4Å: Chain A: F.241, Y.245, F.481 Ligands: OCT.10 Ligand excluded by PLIP OCT.10: 7 residues within 4Å: Chain A: F.241, T.474, V.477, I.494 Ligands: D10.8, OCT.9, C14.30 Ligand excluded by PLIP OCT.18: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.20: 8 residues within 4Å: Chain A: G.91, L.95, M.420, L.423, V.424, T.428, F.432 Ligands: D10.19 Ligand excluded by PLIP OCT.25: 2 residues within 4Å: Chain A: I.384 Ligands: D12.24 Ligand excluded by PLIP OCT.28: 2 residues within 4Å: Ligands: D10.29, C14.31 Ligand excluded by PLIP OCT.38: 4 residues within 4Å: Chain A: L.262, G.263, L.266, M.267 Ligand excluded by PLIP OCT.40: 5 residues within 4Å: Chain A: F.230, L.251, V.254 Ligands: D10.36, D10.37 Ligand excluded by PLIP OCT.44: 2 residues within 4Å: Chain A: Y.62 Ligands: OCT.45 Ligand excluded by PLIP OCT.45: 3 residues within 4Å: Chain A: L.71, F.125 Ligands: OCT.44 Ligand excluded by PLIP OCT.46: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.47: 1 residues within 4Å: Chain A: Y.74 Ligand excluded by PLIP OCT.48: 2 residues within 4Å: Chain A: F.76, K.77 Ligand excluded by PLIP OCT.49: 1 residues within 4Å: Chain A: V.80 Ligand excluded by PLIP OCT.50: 2 residues within 4Å: Chain A: L.81 Ligands: OCT.51 Ligand excluded by PLIP OCT.51: 3 residues within 4Å: Chain A: P.287 Ligands: OCT.50, OCT.53 Ligand excluded by PLIP OCT.52: 2 residues within 4Å: Chain A: P.291, F.295 Ligand excluded by PLIP OCT.53: 7 residues within 4Å: Chain A: V.85, I.88, S.89, A.288, P.289, P.291 Ligands: OCT.51 Ligand excluded by PLIP OCT.54: 3 residues within 4Å: Chain A: L.271, L.292, A.296 Ligand excluded by PLIP OCT.55: 3 residues within 4Å: Chain A: F.269, G.270, E.277 Ligand excluded by PLIP OCT.58: 1 residues within 4Å: Ligands: OCT.59 Ligand excluded by PLIP OCT.59: 5 residues within 4Å: Chain B: V.341, Y.486 Ligands: OCT.58, D10.68, D10.69 Ligand excluded by PLIP OCT.60: 9 residues within 4Å: Chain A: L.497, I.500, Y.501 Chain B: Y.204, V.492, L.496 Ligands: C14.31, D10.68, D10.70 Ligand excluded by PLIP OCT.61: 3 residues within 4Å: Chain B: V.195 Ligands: OCT.62, D10.72 Ligand excluded by PLIP OCT.62: 4 residues within 4Å: Chain B: M.63, F.64, R.197 Ligands: OCT.61 Ligand excluded by PLIP OCT.64: 4 residues within 4Å: Chain B: F.241, Y.245, F.481 Ligands: OCT.65 Ligand excluded by PLIP OCT.65: 7 residues within 4Å: Chain B: F.241, T.474, V.477, I.494 Ligands: D10.63, OCT.64, C14.85 Ligand excluded by PLIP OCT.73: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.75: 8 residues within 4Å: Chain B: G.91, L.95, M.420, L.423, V.424, T.428, F.432 Ligands: D10.74 Ligand excluded by PLIP OCT.80: 2 residues within 4Å: Chain B: I.384 Ligands: D12.79 Ligand excluded by PLIP OCT.83: 2 residues within 4Å: Ligands: D10.84, C14.86 Ligand excluded by PLIP OCT.93: 4 residues within 4Å: Chain B: L.262, G.263, L.266, M.267 Ligand excluded by PLIP OCT.95: 5 residues within 4Å: Chain B: F.230, L.251, V.254 Ligands: D10.91, D10.92 Ligand excluded by PLIP OCT.99: 2 residues within 4Å: Chain B: Y.62 Ligands: OCT.100 Ligand excluded by PLIP OCT.100: 3 residues within 4Å: Chain B: L.71, F.125 Ligands: OCT.99 Ligand excluded by PLIP OCT.101: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP OCT.102: 1 residues within 4Å: Chain B: Y.74 Ligand excluded by PLIP OCT.103: 2 residues within 4Å: Chain B: F.76, K.77 Ligand excluded by PLIP OCT.104: 1 residues within 4Å: Chain B: V.80 Ligand excluded by PLIP OCT.105: 2 residues within 4Å: Chain B: L.81 Ligands: OCT.106 Ligand excluded by PLIP OCT.106: 3 residues within 4Å: Chain B: P.287 Ligands: OCT.105, OCT.108 Ligand excluded by PLIP OCT.107: 2 residues within 4Å: Chain B: P.291, F.295 Ligand excluded by PLIP OCT.108: 7 residues within 4Å: Chain B: V.85, I.88, S.89, A.288, P.289, P.291 Ligands: OCT.106 Ligand excluded by PLIP OCT.109: 3 residues within 4Å: Chain B: L.271, L.292, A.296 Ligand excluded by PLIP OCT.110: 3 residues within 4Å: Chain B: F.269, G.270, E.277 Ligand excluded by PLIP

36 x D10: DECANE(Non-functional Binders)(Non-covalent)

D10.8: 2 residues within 4Å: Ligands: CLR.2, OCT.10 Ligand excluded by PLIP D10.13: 7 residues within 4Å: Chain A: I.348, D.485, Y.486, L.488, I.489 Ligands: OCT.4, OCT.5 Ligand excluded by PLIP D10.14: 4 residues within 4Å: Chain A: I.489 Ligands: CLR.2, OCT.4, CLR.57 Ligand excluded by PLIP D10.15: 3 residues within 4Å: Chain A: Y.204 Chain B: Q.504 Ligands: OCT.5 Ligand excluded by PLIP D10.17: 3 residues within 4Å: Chain A: C.196 Ligands: OCT.6, D12.16 Ligand excluded by PLIP D10.19: 3 residues within 4Å: Chain A: V.298, T.301 Ligands: OCT.20 Ligand excluded by PLIP D10.21: 3 residues within 4Å: Chain A: L.419, L.423, L.426 Ligand excluded by PLIP D10.22: 1 residues within 4Å: Ligands: D10.23 Ligand excluded by PLIP D10.23: 6 residues within 4Å: Chain A: Y.118, L.325, L.326, P.327, F.388 Ligands: D10.22 Ligand excluded by PLIP D10.29: 3 residues within 4Å: Chain A: Y.501 Ligands: OCT.28, C14.31 Ligand excluded by PLIP D10.32: 1 residues within 4Å: Chain A: W.462 Ligand excluded by PLIP D10.33: 4 residues within 4Å: Chain A: F.455, S.456, P.459 Ligands: D10.34 Ligand excluded by PLIP D10.34: 4 residues within 4Å: Chain A: M.453, F.455, S.456 Ligands: D10.33 Ligand excluded by PLIP D10.35: 5 residues within 4Å: Chain A: V.248, L.251, Q.252 Ligands: HP6.27, D10.43 Ligand excluded by PLIP D10.36: 3 residues within 4Å: Chain A: L.251 Ligands: HP6.27, OCT.40 Ligand excluded by PLIP D10.37: 4 residues within 4Å: Chain A: F.222, L.229, F.230 Ligands: OCT.40 Ligand excluded by PLIP D10.39: 3 residues within 4Å: Chain A: C.260, Y.313 Ligands: HP6.41 Ligand excluded by PLIP D10.43: 2 residues within 4Å: Ligands: HP6.27, D10.35 Ligand excluded by PLIP D10.63: 2 residues within 4Å: Ligands: CLR.57, OCT.65 Ligand excluded by PLIP D10.68: 7 residues within 4Å: Chain B: I.348, D.485, Y.486, L.488, I.489 Ligands: OCT.59, OCT.60 Ligand excluded by PLIP D10.69: 4 residues within 4Å: Chain B: I.489 Ligands: CLR.2, CLR.57, OCT.59 Ligand excluded by PLIP D10.70: 3 residues within 4Å: Chain A: Q.504 Chain B: Y.204 Ligands: OCT.60 Ligand excluded by PLIP D10.72: 3 residues within 4Å: Chain B: C.196 Ligands: OCT.61, D12.71 Ligand excluded by PLIP D10.74: 3 residues within 4Å: Chain B: V.298, T.301 Ligands: OCT.75 Ligand excluded by PLIP D10.76: 3 residues within 4Å: Chain B: L.419, L.423, L.426 Ligand excluded by PLIP D10.77: 1 residues within 4Å: Ligands: D10.78 Ligand excluded by PLIP D10.78: 6 residues within 4Å: Chain B: Y.118, L.325, L.326, P.327, F.388 Ligands: D10.77 Ligand excluded by PLIP D10.84: 3 residues within 4Å: Chain B: Y.501 Ligands: OCT.83, C14.86 Ligand excluded by PLIP D10.87: 1 residues within 4Å: Chain B: W.462 Ligand excluded by PLIP D10.88: 4 residues within 4Å: Chain B: F.455, S.456, P.459 Ligands: D10.89 Ligand excluded by PLIP D10.89: 4 residues within 4Å: Chain B: M.453, F.455, S.456 Ligands: D10.88 Ligand excluded by PLIP D10.90: 5 residues within 4Å: Chain B: V.248, L.251, Q.252 Ligands: HP6.82, D10.98 Ligand excluded by PLIP D10.91: 3 residues within 4Å: Chain B: L.251 Ligands: HP6.82, OCT.95 Ligand excluded by PLIP D10.92: 4 residues within 4Å: Chain B: F.222, L.229, F.230 Ligands: OCT.95 Ligand excluded by PLIP D10.94: 4 residues within 4Å: Chain B: V.259, C.260, Y.313 Ligands: HP6.96 Ligand excluded by PLIP D10.98: 2 residues within 4Å: Ligands: HP6.82, D10.90 Ligand excluded by PLIP

10 x D12: DODECANE(Non-covalent)

D12.11: 6 residues within 4Å: Chain A: I.189, C.192, T.333, F.336 Ligands: HEX.26, D12.42 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.333, A:F.336 D12.12: 3 residues within 4Å: Chain A: F.191, N.330, S.383 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.191 D12.16: 4 residues within 4Å: Chain A: C.196, R.197, F.200 Ligands: D10.17 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.200, A:F.200 D12.24: 3 residues within 4Å: Chain A: P.328, N.330 Ligands: OCT.25 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.328 D12.42: 3 residues within 4Å: Chain A: H.337, I.344 Ligands: D12.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:H.337, A:I.344 D12.66: 6 residues within 4Å: Chain B: I.189, C.192, T.333, F.336 Ligands: HEX.81, D12.97 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:T.333, B:F.336 D12.67: 3 residues within 4Å: Chain B: F.191, N.330, S.383 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.191 D12.71: 4 residues within 4Å: Chain B: C.196, R.197, F.200 Ligands: D10.72 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.200, B:F.200 D12.79: 3 residues within 4Å: Chain B: P.328, N.330 Ligands: OCT.80 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:P.328 D12.97: 3 residues within 4Å: Chain B: H.337, I.344 Ligands: D12.66 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:H.337, B:I.344

2 x HEX: HEXANE(Non-covalent)

HEX.26: 2 residues within 4Å: Chain A: I.188 Ligands: D12.11 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.188 HEX.81: 2 residues within 4Å: Chain B: I.188 Ligands: D12.66 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.188

4 x HP6: HEPTANE(Non-covalent)

HP6.27: 7 residues within 4Å: Chain A: V.243, V.244, T.247, L.251 Ligands: D10.35, D10.36, D10.43 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.243, A:V.244, A:T.247, A:L.251 HP6.41: 5 residues within 4Å: Chain A: G.263, M.267, F.307, L.309 Ligands: D10.39 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.307, A:L.309 HP6.82: 7 residues within 4Å: Chain B: V.243, V.244, T.247, L.251 Ligands: D10.90, D10.91, D10.98 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.243, B:V.244, B:T.247, B:L.251 HP6.96: 6 residues within 4Å: Chain B: G.263, V.264, M.267, F.307, L.309 Ligands: D10.94 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.264, B:F.307, B:L.309

4 x C14: TETRADECANE(Non-covalent)

C14.30: 5 residues within 4Å: Chain A: K.466, T.470, T.474 Ligands: OCT.10, C14.31 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.466, A:T.470 C14.31: 7 residues within 4Å: Chain A: K.466, I.467, Y.501 Ligands: OCT.28, D10.29, C14.30, OCT.60 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.466, A:I.467, A:Y.501, A:Y.501 C14.85: 5 residues within 4Å: Chain B: K.466, T.470, T.474 Ligands: OCT.65, C14.86 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:K.466, B:T.470 C14.86: 7 residues within 4Å: Chain B: K.466, I.467, Y.501 Ligands: OCT.5, OCT.83, D10.84, C14.85 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:K.466, B:I.467, B:Y.501, B:Y.501

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ge, J. et al., Molecular mechanism of prestin electromotive signal amplification. Cell (2021)

Release Date

2021-08-25

Peptides

Prestin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Prestin

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