SMTL ID : 8xmf.1

Cryo-EM structure of human ZnT1 WT at a low PH, in the presence of zinc, determined in an inward-facing conformation.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.370, H.387, E.420, C.433 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.370, A:H.387, A:E.420, A:E.420, A:C.433 ZN.2: 4 residues within 4Å: Chain A: E.371, H.373, C.446, C.447 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.371, A:E.371, A:H.373, A:C.446, A:C.447 ZN.3: 4 residues within 4Å: Chain A: H.43, D.47, H.251, D.255 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.43, A:D.47, A:D.47, A:H.251, A:D.255 ZN.4: 3 residues within 4Å: Chain A: H.408, H.413 Chain B: C.437 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.437, A:H.408, A:H.413 ZN.8: 4 residues within 4Å: Chain A: C.437, Q.440 Chain B: H.408, H.413 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:H.408, B:H.413, A:C.437 ZN.9: 4 residues within 4Å: Chain B: H.370, H.387, E.420, C.433 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.370, B:H.387, B:E.420, B:C.433 ZN.10: 4 residues within 4Å: Chain B: E.371, H.373, C.446, C.447 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.371, B:H.373, B:C.446, B:C.446, B:C.447 ZN.11: 4 residues within 4Å: Chain B: H.43, D.47, H.251, D.255 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.43, B:D.47, B:H.251, B:D.255, B:D.255

2 x AV0: Lauryl Maltose Neopentyl Glycol(Non-covalent)

AV0.5: 7 residues within 4Å: Chain A: V.53, F.60, W.74, V.84 Chain B: L.336, L.341 Ligands: Y01.7 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:V.84, B:L.336, B:L.341 AV0.12: 7 residues within 4Å: Chain A: L.336, K.337, L.341 Chain B: V.53, W.74, V.84, F.88 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.53, B:V.84, B:F.88, A:L.336

3 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.6: 5 residues within 4Å: Chain A: L.97, C.326, L.329, Y.330, Y.333 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.97, A:L.329, A:L.329, A:Y.330, A:Y.333 Y01.7: 3 residues within 4Å: Chain A: L.49, F.88 Ligands: AV0.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.49, A:F.88 Y01.13: 3 residues within 4Å: Chain B: L.97, Y.330, Y.333 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.97, B:Y.330, B:Y.333, B:Y.333

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Long, Y. et al., Structural insights into human zinc transporter ZnT1 mediated Zn 2+ efflux. Embo Rep. (2024)

Release Date

2024-10-30

Peptides

Proton-coupled zinc antiporter SLC30A1: 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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Proton-coupled zinc antiporter SLC30A1

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