5JSZ

Folate ECF transporter: apo state

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.233 
  • R-Value Observed: 0.235 

wwPDB Validation   3D Report Full Report


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Literature

Structural insight in the toppling mechanism of an energy-coupling factor transporter.

Swier, L.J., Guskov, A., Slotboom, D.J.

(2016) Nat Commun 7: 11072

  • DOI: 10.1038/ncomms11072
  • Primary Citation of Related Structures:  
    5D0Y, 5JSZ, 5D3M

  • PubMed Abstract: 

    • Energy-coupling factor (ECF) transporters mediate uptake of micronutrients in prokaryotes. The transporters consist of an S-component that binds the transported substrate and an ECF module (EcfAA'T) that binds and hydrolyses ATP. The mechanism of transport is poorly understood but presumably involves an unusual step in which the membrane-embedded S-component topples over to carry the substrate across the membrane ...

    Energy-coupling factor (ECF) transporters mediate uptake of micronutrients in prokaryotes. The transporters consist of an S-component that binds the transported substrate and an ECF module (EcfAA'T) that binds and hydrolyses ATP. The mechanism of transport is poorly understood but presumably involves an unusual step in which the membrane-embedded S-component topples over to carry the substrate across the membrane. In many ECF transporters, the S-component dissociates from the ECF module after transport. Subsequently, substrate-bound S-components out-compete the empty proteins for re-binding to the ECF module in a new round of transport. Here we present crystal structures of the folate-specific transporter ECF-FolT from Lactobacillus delbrueckii. Interaction of the ECF module with FolT stabilizes the toppled state, and simultaneously destroys the high-affinity folate-binding site, allowing substrate release into the cytosol. We hypothesize that differences in the kinetics of toppling can explain how substrate-loaded FolT out-competes apo-FolT for association with the ECF module.

    Organizational Affiliation: 

    Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Energy-coupling factor transporter ATP-binding protein EcfA1 A, E300Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 = JCM 1002Mutation(s): 0 
Gene Names: ecfA1, cbiO1, Ldb0424
EC: 3.6.3 (PDB Primary Data), 7 (UniProt)
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
ATP Binding Cassette (ABC) Transporters		Protein: 
Group II energy-coupling factor (ECF) transporter for folate, substrate-bound S-component
Find proteins for Q1GBJ0 (Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081 / JCM 1002 / NBRC 13953 / NCIMB 11778))
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Go to UniProtKB:  Q1GBJ0
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Energy-coupling factor transporter ATP-binding protein EcfA2 B, F287Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 = JCM 1002Mutation(s): 0 
Gene Names: ecfA2, cbiO2, Ldb0425
EC: 3.6.3
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
ATP Binding Cassette (ABC) Transporters		Protein: 
Group II energy-coupling factor (ECF) transporter for folate, substrate-bound S-component
Find proteins for Q1GBI9 (Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081 / JCM 1002 / NBRC 13953 / NCIMB 11778))
Explore Q1GBI9 
Go to UniProtKB:  Q1GBI9
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Conserved hypothetical membrane protein C, G184Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 = JCM 1002Mutation(s): 0 
Gene Names: Ldb1625
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
ATP Binding Cassette (ABC) Transporters		Protein: 
Group II energy-coupling factor (ECF) transporter for folate, substrate-bound S-component
Find proteins for Q1G929 (Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081 / JCM 1002 / NBRC 13953 / NCIMB 11778))
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Go to UniProtKB:  Q1G929
Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Energy-coupling factor transporter transmembrane protein EcfT D, H265Lactobacillus delbrueckii subsp. bulgaricusMutation(s): 0 
Gene Names: ecfT, AT236_00396, CFL1_00754, SB57_06620, G5B51_01840
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
ATP Binding Cassette (ABC) Transporters		Protein: 
Group II energy-coupling factor (ECF) transporter for folate, substrate-bound S-component
Find proteins for A0A061BSU4 (Lactobacillus delbrueckii subsp. bulgaricus)
Explore A0A061BSU4 
Go to UniProtKB:  A0A061BSU4
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.233 
  • R-Value Observed: 0.235 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.82α = 83.45
b = 95.32β = 65.75
c = 107.57γ = 61.99
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
ERCNetherlands282083

Revision History  (Full details and data files)

  • Version 1.0: 2016-05-18
    Type: Initial release