7LHV | pdb_00007lhv

Structure of Arabidopsis thaliana sulfate transporter AtSULTR4;1

PDB DOI: https://doi.org/10.2210/pdb7LHV/pdb
EM Map EMD-23351: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Arabidopsis thaliana
Expression System: Trichoplusia ni
Mutation(s): No
Membrane Protein: Yes OPM PDBTM MemProtMD mpstruc

Deposited: 2021-01-26 Released: 2021-08-11
Deposition Author(s): Wang, L., Chen, K., Zhou, M.
Funding Organization(s): National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK), National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.75 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structure and function of an Arabidopsis thaliana sulfate transporter.

Wang, L., Chen, K., Zhou, M.

(2021) Nat Commun 12: 4455-4455

PubMed: 34294705 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1038/s41467-021-24778-2
Primary Citation Related Structures:
7LHV

PubMed Abstract:
Plant sulfate transporters (SULTR) mediate absorption and distribution of sulfate (SO ₄ ^2-) and are essential for plant growth; however, our understanding of their structures and functions remains inadequate. Here we present the structure of a SULTR from Arabidopsis thaliana, AtSULTR4;1, in complex with SO ₄ ^2- at an overall resolution of 2.8 Å. AtSULTR4;1 forms a homodimer and has a structural fold typical of the SLC26 family of anion transporters. The bound SO ₄ ^2- is coordinated by side-chain hydroxyls and backbone amides, and further stabilized electrostatically by the conserved Arg393 and two helix dipoles. Proton and SO ₄ ^2- are co-transported by AtSULTR4;1 and a proton gradient significantly enhances SO ₄ ^2- transport. Glu347, which is ~7 Å from the bound SO ₄ ^2-, is required for H ⁺-driven transport. The cytosolic STAS domain interacts with transmembrane domains, and deletion of the STAS domain or mutations to the interface compromises dimer formation and reduces SO ₄ ^2- transport, suggesting a regulatory function of the STAS domain.

Organizational Affiliation

Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, TX, USA.

Macromolecule Content

Total Structure Weight: 153.57 kDa
Atom Count: 9,094
Modeled Residue Count: 1,150
Deposited Residue Count: 1,370
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sulfate transporter 4.1, chloroplastic	A, B	685	Arabidopsis thaliana	Mutation(s): 0 Gene Names: SULTR4, 1, At5g13550, MSH12.1 Membrane Entity: Yes
UniProt
Find proteins for Q9FY46 (Arabidopsis thaliana) Explore Q9FY46 Go to UniProtKB: Q9FY46
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9FY46
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
LBN Query on LBN Download:Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain E [auth A] MOL2 format, chain J [auth B] MOL2 format, chain E [auth A] mmCIF format, chain J [auth B] mmCIF format, chain E [auth A]	E [auth A], J [auth B]	1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine C₄₂ H₈₂ N O₈ P WTJKGGKOPKCXLL-VYOBOKEXSA-N		Interactions Focus chain E [auth A] Focus chain J [auth B] Interactions & Density Focus chain E [auth A] Focus chain J [auth B]
S1P Query on S1P Download:Ideal Coordinates CCD File SDF format, chain H [auth B] SDF format, chain G [auth B] SDF format, chain F [auth A] SDF format, chain C [auth A] MOL2 format, chain H [auth B] MOL2 format, chain G [auth B] MOL2 format, chain F [auth A] MOL2 format, chain C [auth A] mmCIF format, chain H [auth B] mmCIF format, chain G [auth B] mmCIF format, chain F [auth A] mmCIF format, chain C [auth A]	C [auth A], F [auth A], G [auth B], H [auth B]	(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate C₁₈ H₃₈ N O₅ P DUYSYHSSBDVJSM-KRWOKUGFSA-N		Interactions Focus chain C [auth A] Focus chain F [auth A] Focus chain G [auth B] Focus chain H [auth B] Interactions & Density Focus chain C [auth A] Focus chain F [auth A] Focus chain G [auth B] Focus chain H [auth B]
SO4 (Subject of Investigation/LOI) Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain D [auth A] MOL2 format, chain I [auth B] MOL2 format, chain D [auth A] mmCIF format, chain I [auth B] mmCIF format, chain D [auth A]	D [auth A], I [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain I [auth B] Interactions & Density Focus chain D [auth A] Focus chain I [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.75 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2021-08-11

Deposition Author(s):

Wang, L.

Chen, K.

Zhou, M.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)	United States	DK122784
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)	United States	HL086392