SMTL ID : 9dnx.1

Human ClC-3:TMEM9, TMEM9 Protomer A and B: Complete

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

CL.1: 8 residues within 4Å: Chain A: G.280, K.281, E.282, G.283, P.284, G.525, F.527, I.528 Ligand excluded by PLIP CL.2: 8 residues within 4Å: Chain A: S.239, I.241, G.283, P.284, G.525, L.526, F.527, Y.630 Ligand excluded by PLIP CL.6: 8 residues within 4Å: Chain D: G.280, K.281, E.282, G.283, P.284, G.525, F.527, I.528 Ligand excluded by PLIP CL.7: 8 residues within 4Å: Chain D: S.239, I.241, G.283, P.284, G.525, L.526, F.527, Y.630 Ligand excluded by PLIP

4 x CLR: CHOLESTEROL(Non-covalent)

CLR.3: 8 residues within 4Å: Chain A: L.134, L.137, A.138, A.141, F.296, V.362, S.365, I.366 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.296, A:F.296, A:I.366, A:I.366 CLR.4: 15 residues within 4Å: Chain A: W.152, M.153, L.156, I.160, L.162, L.165, W.193, L.196, W.217, F.221, L.224, L.271 Chain C: Y.95, L.96, V.99 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:W.152, A:L.156, A:I.160, A:L.165, A:W.193, A:L.224, C:L.96 CLR.8: 8 residues within 4Å: Chain D: L.134, L.137, A.138, A.141, F.296, V.362, S.365, I.366 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:F.296, D:F.296, D:I.366, D:I.366 CLR.9: 15 residues within 4Å: Chain B: Y.95, L.96, V.99 Chain D: W.152, M.153, L.156, I.160, L.162, L.165, W.193, L.196, W.217, F.221, L.224, L.271 8 PLIP interactions: 7 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:W.152, D:L.156, D:I.160, D:L.162, D:L.165, D:W.193, D:L.224, B:L.96

2 x 01: (2R)-1-{[(S)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5E,8E,11E,13E)-icosa-5,8,11,13-tetraenoate

01.5: 28 residues within 4Å: Chain A: L.142, L.145, I.253, R.254, G.255, L.257, G.258, K.259, W.260, L.262, M.263, T.266, I.267, N.294, I.295, Y.298, K.310 Chain C: I.94, Y.95, V.98, A.101, L.102, Y.105, A.160, Q.161, R.163, W.164, Q.167 26 PLIP interactions: 6 interactions with chain C, 20 interactions with chain A Hydrophobic interactions: C:I.94, C:V.98, C:A.101, C:Y.105, A:L.142, A:L.145, A:L.145, A:K.259, A:W.260, A:L.262, A:M.263, A:I.267 Hydrogen bonds: C:Q.167, A:I.253, A:R.254, A:G.255, A:K.259, A:W.260, A:N.294, A:Y.298, A:Y.298, A:Y.298 Salt bridges: C:R.163, A:K.259, A:K.259, A:K.310 01.10: 28 residues within 4Å: Chain B: I.94, Y.95, V.98, A.101, L.102, Y.105, A.160, Q.161, R.163, W.164, Q.167 Chain D: L.142, L.145, I.253, R.254, G.255, L.257, G.258, K.259, W.260, L.262, M.263, T.266, I.267, N.294, I.295, Y.298, K.310 26 PLIP interactions: 6 interactions with chain B, 20 interactions with chain D Hydrophobic interactions: B:I.94, B:V.98, B:A.101, B:Y.105, D:L.142, D:L.145, D:L.145, D:K.259, D:W.260, D:L.262, D:M.263, D:I.267 Hydrogen bonds: B:Q.167, D:I.253, D:R.254, D:G.255, D:K.259, D:W.260, D:N.294, D:Y.298, D:Y.298, D:Y.298 Salt bridges: B:R.163, D:K.259, D:K.259, D:K.310

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schrecker, M. et al., Structural basis of ClC-3 inhibition by TMEM9 and PI(3,5)P 2. Biorxiv (2025)

Release Date

2025-04-02

Peptides

H(+)/Cl(-) exchange transporter 3: AD
Proton-transporting V-type ATPase complex assembly regulator TMEM9: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
C

B
D

C
B

Membrane

We predict this structure to be a membrane protein.
Show / Hide

H(+)/Cl(-) exchange transporter 3

Proton-transporting V-type ATPase complex assembly regulator TMEM9

Related Entries With Identical Sequence