Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Cyclic - C4  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 30.53 kDa 
• Atom Count: 2003 
• Modelled Residue Count: 254 
• Deposited Residue Count: 281 
• Unique protein chains: 1

1LDF

CRYSTAL STRUCTURE OF THE E. COLI GLYCEROL FACILITATOR (GLPF) MUTATION W48F, F200T

• DOI: 10.2210/pdb1LDF/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Escherichia coli
• Expression System: Escherichia coli K-12
• Mutation(s): Yes 


• Deposited: 2002-04-08 Released: 2002-05-08 
• Deposition Author(s): Nollert, P., Miercke, L.J.W., O'Connell, J., Stroud, R.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.243 
• R-Value Work: 0.230 

Literature

Control of the selectivity of the aquaporin water channel family by global orientational tuning.

Tajkhorshid, E., Nollert, P., Jensen, M.O., Miercke, L.J., O'Connell, J., Stroud, R.M., Schulten, K.

(2002) Science 296: 525-530

• PubMed: 11964478 
• DOI: 10.1126/science.1067778
• Primary Citation of Related Structures:  
  1LDF, 1LDA, 1LDI


• PubMed Abstract: 
  

Aquaporins are transmembrane channels found in cell membranes of all life forms. We examine their apparently paradoxical property, facilitation of efficient permeation of water while excluding protons, which is of critical importance to preserving the electrochemical potential across the cell membrane. We have determined the structure of the Escherichia coli aquaglyceroporin GlpF with bound water, in native (2.7 angstroms) and in W48F/F200T mutant (2.1 angstroms) forms, and carried out 12-nanosecond molecular dynamics simulations that define the spatial and temporal probability distribution and orientation of a single file of seven to nine water molecules inside the channel. Two conserved asparagines force a central water molecule to serve strictly as a hydrogen bond donor to its neighboring water molecules. Assisted by the electrostatic potential generated by two half-membrane spanning loops, this dictates opposite orientations of water molecules in the two halves of the channel, and thus prevents the formation of a "proton wire," while permitting rapid water diffusion. Both simulations and observations revealed a more regular distribution of channel water and an increased water permeability for the W48F/F200T mutant.

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Related Citations: 

• Structure of a Glycerol-Conducting Channel and the Basis for Its Selectivity
  Fu, D., Libson, A., Miercke, L.J., Weitzman, C., Nollert, P., Krucinski, J., Stroud, R.M.
  (2000) Science 290: 481

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Organizational Affiliation: 

Theoretical Biophysics Group, Beckman Institute, University of Illinois at Urbana-Champaign, 405 North Mathews, Urbana, IL 61801, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycerol uptake facilitator protein	A	281	Escherichia coli	Mutation(s): 2
Membrane protein Mpstruc	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Channels: Aquaporins and Glyceroporins	Protein:  GlpF glycerol facilitator channel, W84F/F200T-mutant
Find proteins for P0AER0 (Escherichia coli (strain K12)) Explore P0AER0  Go to UniProtKB:  P0AER0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BOG	B [auth A], C [auth A]	octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N
GOL	F [auth A], G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
MG	D [auth A], E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.243 
• R-Value Work: 0.230 
• Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.925	α = 90
b = 96.925	β = 90
c = 185.433	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-04-08 
• Released Date: 2002-05-08 
Deposition Author(s): Nollert, P., Miercke, L.J.W., O'Connell, J., Stroud, R.M.

Revision History  

• Version 1.0: 2002-05-08
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary