9F6Q | pdb_00009f6q

Human NRAMP1 (SLC11A1) in an occluded state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis for metal ion transport by the human SLC11 proteins DMT1 and NRAMP1.

Liziczai, M.Fuchs, A.Manatschal, C.Dutzler, R.

(2025) Nat Commun 16: 761-761

  • DOI: https://doi.org/10.1038/s41467-024-54705-0
  • Primary Citation of Related Structures:  
    9F6N, 9F6O, 9F6P, 9F6Q

  • PubMed Abstract: 

    Iron and manganese are essential nutrients whose transport across membranes is catalyzed by members of the SLC11 family. In humans, this protein family contains two paralogs, the ubiquitously expressed DMT1, which is involved in the uptake and distribution of Fe 2+ and Mn 2+ , and NRAMP1, which participates in the resistance against infections and nutrient recycling. Despite previous studies contributing to our mechanistic understanding of the family, the structures of human SLC11 proteins and their relationship to functional properties have remained elusive. Here we describe the cryo-electron microscopy structures of DMT1 and NRAMP1 and relate them to their functional properties. We show that both proteins catalyze selective metal ion transport coupled to the symport of H + , but additionally also mediate uncoupled H + flux. Their structures, while sharing general properties with known prokaryotic homologs, display distinct features that lead to stronger transition metal ion selectivity.


  • Organizational Affiliation
    • Department of Biochemistry, University of Zurich, Zurich, Switzerland.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Natural resistance-associated macrophage protein 1615Homo sapiensMutation(s): 0 
Gene Names: SLC11A1LSHNRAMPNRAMP1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P49279 (Homo sapiens)
Explore P49279 
Go to UniProtKB:  P49279
PHAROS:  P49279
GTEx:  ENSG00000018280 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49279
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland--

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-27
    Type: Initial release
  • Version 1.1: 2025-01-29
    Changes: Data collection, Database references
  • Version 1.2: 2025-02-05
    Changes: Data collection
  • Version 1.3: 2025-07-02
    Changes: Data collection