SMTL ID : 9g6e.1

CLC7(Y715C)/OSTM1 complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

2 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 10 residues within 4Å: Chain B: E.259, N.263, K.267 Chain D: M.148, A.149, D.150, R.151, Q.153, V.156, E.160 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.153, D:Q.153 NAG-NAG-BMA-MAN-MAN.2: 8 residues within 4Å: Chain B: M.148, A.149, D.150, R.151, Q.153, V.156 Chain D: N.263, K.267 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.153, B:Q.153

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

CL.3: 7 residues within 4Å: Chain A: G.245, E.247, G.248, G.512, V.513, F.514, I.515 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: S.204, G.512, V.513, F.514 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain A: A.202, G.203, S.204, G.205, P.207, Q.208 Ligand excluded by PLIP CL.11: 7 residues within 4Å: Chain C: G.245, E.247, G.248, G.512, V.513, F.514, I.515 Ligand excluded by PLIP CL.12: 4 residues within 4Å: Chain C: S.204, G.512, V.513, F.514 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain C: A.202, G.203, S.204, G.205, P.207, Q.208 Ligand excluded by PLIP

8 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.6: 10 residues within 4Å: Chain A: V.430, Y.433, S.434, R.436, F.453 Chain B: S.280, I.286, S.289, V.290, L.293 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:V.430, A:Y.433, B:I.286, B:I.286, B:V.290, B:L.293 Salt bridges: A:R.436 Hydrogen bonds: B:S.280 Y01.7: 7 residues within 4Å: Chain A: V.189, I.193, I.197, K.225, V.228, S.232, L.236 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.189, A:I.197, A:K.225, A:V.228, A:L.236 Salt bridges: A:K.225 Y01.8: 10 residues within 4Å: Chain A: F.119, R.120, E.123, I.124, W.127, V.128, A.131, F.329 Chain C: I.592, E.599 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:E.123, A:W.127, A:W.127, A:W.127, A:W.127, A:V.128, A:A.131, A:F.329, C:I.592, C:I.592, C:E.599 Y01.9: 9 residues within 4Å: Chain A: F.402, V.427, V.496, F.499, L.500, W.503 Chain B: Y.300, L.301, F.304 8 PLIP interactions: 6 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.402, A:V.427, A:V.496, A:L.500, A:W.503, A:W.503, B:Y.300, B:Y.300 Y01.10: 11 residues within 4Å: Chain A: I.592, E.599 Chain C: F.119, R.120, E.123, I.124, W.127, V.128, A.131, F.322, F.329 10 PLIP interactions: 8 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:R.120, C:W.127, C:W.127, C:W.127, C:W.127, C:V.128, C:A.131, C:F.329, A:I.592 Hydrogen bonds: A:E.599 Y01.14: 9 residues within 4Å: Chain C: L.399, F.402, V.427, V.496, F.499, W.503 Chain D: Y.300, L.301, F.304 10 PLIP interactions: 8 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:L.399, C:F.402, C:V.427, C:V.496, C:F.499, C:W.503, C:W.503, C:W.503, D:Y.300, D:Y.300 Y01.15: 9 residues within 4Å: Chain C: V.430, Y.433, S.434, F.453 Chain D: T.282, I.286, S.289, V.290, L.293 6 PLIP interactions: 1 interactions with chain C, 5 interactions with chain D Hydrophobic interactions: C:V.430, D:T.282, D:I.286, D:I.286, D:V.290, D:L.293 Y01.16: 7 residues within 4Å: Chain C: F.143, V.147, I.193, I.197, K.225, I.235, L.236 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:F.143, C:V.147, C:I.197, C:I.235, C:L.236 Salt bridges: C:K.225, C:K.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hilton, J. et al., Mechanism of phosphoinositide regulation of lysosomal pH via inhibition of CLC7. To Be Published

Release Date

2025-07-30

Peptides

H(+)/Cl(-) exchange transporter 7: AC
Osteopetrosis-associated transmembrane protein 1: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Membrane

We predict this structure to be a membrane protein.
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H(+)/Cl(-) exchange transporter 7

Osteopetrosis-associated transmembrane protein 1

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