6E9N

E. coli D-galactonate:proton symporter in the inward open form

• PDB DOI: https://doi.org/10.2210/pdb6E9N/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2018-08-01 Released: 2019-05-22 
• Deposition Author(s): Leano, J.B., Edwards, R.H., Stroud, R.M.
• Funding Organization(s): National Institutes of Health/National Institute of Mental Health (NIH/NIMH), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.92 Å
• R-Value Free: 0.297 
• R-Value Work: 0.243 
• R-Value Observed: 0.246 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 102.73 kDa 
• Atom Count: 6,472 
• Modelled Residue Count: 818 
• Deposited Residue Count: 920 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-galactonate transport	A, B	460	Escherichia coli	Mutation(s): 0  Gene Names: dgoT, BN17_36391, HMPREF3040_00185 Membrane Entity: Yes
UniProt
Find proteins for J7QAK3 (Escherichia coli) Explore J7QAK3  Go to UniProtKB:  J7QAK3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BNG	D [auth A], E [auth A], F [auth B], G [auth B], H [auth B]	nonyl beta-D-glucopyranoside C15 H30 O6 QFAPUKLCALRPLH-UXXRCYHCSA-N
GCO	C [auth A]	D-gluconic acid C6 H12 O7 RGHNJXZEOKUKBD-SQOUGZDYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.92 Å
• R-Value Free: 0.297 
• R-Value Work: 0.243 
• R-Value Observed: 0.246 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.7	α = 90
b = 107.63	β = 108.32
c = 103.21	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-05-22 
Deposition Author(s): Leano, J.B., Edwards, R.H., Stroud, R.M.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Mental Health (NIH/NIMH)	United States	MH50712
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM24485
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	NS089713
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM024485-37S1

Revision History  

• Version 1.0: 2019-05-22
  Type: Initial release
  
• Version 1.1: 2019-11-27
  Changes: Author supporting evidence
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description, Structure summary