SMTL ID : 8otx.1

Cryo-EM structure of Strongylocentrotus purpuratus sperm-specific Na+/H+ exchanger SLC9C1 in nanodisc

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x 3PH: 1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE(Non-covalent)

3PH.1: 21 residues within 4Å: Chain A: H.73, V.77, I.78, I.81, S.82, C.85, D.129, V.130, M.133, V.137, I.141, F.142, L.356, L.359 Chain B: V.137, I.141, L.305, A.306, Y.309, F.352 Ligands: 3PH.3 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:V.77, A:I.81, A:I.81, A:L.359, B:I.141, B:L.305, B:Y.309, B:Y.309, B:Y.309 Salt bridges: A:H.73 3PH.2: 9 residues within 4Å: Chain A: V.156, H.157, M.160, F.163, P.276, L.277, L.332, I.333, A.336 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.163, A:P.276, A:L.332 3PH.3: 21 residues within 4Å: Chain A: V.137, I.141, L.305, A.306, Y.309, F.352 Chain B: H.73, V.77, I.78, I.81, S.82, C.85, D.129, V.130, M.133, V.137, I.141, F.142, L.356, L.359 Ligands: 3PH.1 10 PLIP interactions: 5 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:V.77, B:I.81, B:I.81, B:L.359, A:I.141, A:L.305, A:Y.309, A:Y.309, A:Y.309 Salt bridges: B:H.73 3PH.4: 9 residues within 4Å: Chain B: V.156, H.157, M.160, F.163, P.276, L.277, L.332, I.333, A.336 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.163, B:P.276, B:L.332

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yeo, H. et al., Structure and electromechanical coupling of a voltage-gated Na + /H + exchanger. Nature (2023)

Release Date

2023-11-01

Peptides

Sperm-specific sodium proton exchanger: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Membrane

We predict this structure to be a membrane protein.
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Sperm-specific sodium proton exchanger

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