6ZGT

Crystal structure of a MFS transporter with bound 2-naphthoic acid at 2.39 Angstroem resolution

• PDB DOI: https://doi.org/10.2210/pdb6ZGT/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Syntrophobacter fumaroxidans MPOB
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMD


• Deposited: 2020-06-19 Released: 2021-10-20 
• Deposition Author(s): Kalbermatter, D., Bosshart, P., Bonetti, S., Fotiadis, D.
• Funding Organization(s): Swiss National Science Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.240 
• R-Value Work: 0.215 
• R-Value Observed: 0.216 

Starting Model: experimental

Literature

The making of a potent L-lactate transport inhibitor

Bosshart, P.D., Kalbermatter, D., Bonetti, S., Fotiadis, D.

(2021) Commun Chem 4: 128

• DOI: https://doi.org/10.1038/s42004-021-00564-5

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 89.94 kDa 
• Atom Count: 5,822 
• Modelled Residue Count: 768 
• Deposited Residue Count: 840 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
L-lactate transporter	A, B	420	Syntrophobacter fumaroxidans MPOB	Mutation(s): 0  Gene Names: Sfum_3364 Membrane Entity: Yes
UniProt
Find proteins for A0LNN5 (Syntrophobacter fumaroxidans (strain DSM 10017 / MPOB)) Explore A0LNN5  Go to UniProtKB:  A0LNN5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FIV (Subject of Investigation/LOI)	C [auth A], D [auth B]	naphthalene-2-carboxylic acid C11 H8 O2 UOBYKYZJUGYBDK-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.240 
• R-Value Work: 0.215 
• R-Value Observed: 0.216 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.534	α = 90
b = 199.623	β = 90
c = 61.934	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-10-20 
Deposition Author(s): Kalbermatter, D., Bosshart, P., Bonetti, S., Fotiadis, D.

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Funding Organization	Location	Grant Number
Swiss National Science Foundation	Switzerland	310030_184980

Revision History  

• Version 1.0: 2021-10-20
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Refinement description