SMTL ID : 6iu3.1

Crystal structure of iron transporter VIT1 with zinc ions

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.1: 5 residues within 4Å: Chain A: L.187, I.188, Y.191, A.205, L.206 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.206 OLC.5: 5 residues within 4Å: Chain B: L.187, I.188, Y.191, A.205, L.206 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.206

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 7 residues within 4Å: Chain A: E.81, E.84, E.92, E.95, E.132 Ligands: ZN.3, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.81, A:E.81, A:E.84, A:E.132 ZN.3: 7 residues within 4Å: Chain A: E.81, E.92, E.95, M.128, E.132 Ligands: ZN.2, ZN.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.81, A:E.92, A:E.92, A:E.95, A:E.95 ZN.4: 6 residues within 4Å: Chain A: E.81, E.84, E.92, E.95 Ligands: ZN.2, ZN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.84, A:E.84, A:E.92, A:E.95 ZN.6: 7 residues within 4Å: Chain B: E.81, E.84, E.92, E.95, E.132 Ligands: ZN.7, ZN.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.81, B:E.81, B:E.84, B:E.132 ZN.7: 7 residues within 4Å: Chain B: E.81, E.92, E.95, M.128, E.132 Ligands: ZN.6, ZN.8 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.81, B:E.92, B:E.92, B:E.95, B:E.95 ZN.8: 6 residues within 4Å: Chain B: E.81, E.84, E.92, E.95 Ligands: ZN.6, ZN.7 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.84, B:E.84, B:E.92, B:E.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kato, T. et al., Crystal structure of plant vacuolar iron transporter VIT1. Nat Plants (2019)

Release Date

2019-02-06

Peptides

VIT1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Membrane

We predict this structure to be a membrane protein.
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VIT1

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