6N1G

Crystal structure of Aquaglyceroporin AQP7


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.00 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.233 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Aquaporin-7: A Dynamic Aquaglyceroporin With Greater Water and Glycerol Permeability Than Its Bacterial Homolog GlpF.

Moss, F.J.Mahinthichaichan, P.Lodowski, D.T.Kowatz, T.Tajkhorshid, E.Engel, A.Boron, W.F.Vahedi-Faridi, A.

(2020) Front Physiol 11: 728-728

  • DOI: https://doi.org/10.3389/fphys.2020.00728
  • Primary Citation of Related Structures:  
    6N1G

  • PubMed Abstract: 

    Xenopus oocytes expressing human aquaporin-7 (AQP7) exhibit greater osmotic water permeability and 3 H-glycerol uptake vs. those expressing the bacterial glycerol facilitator GlpF. AQP7-expressing oocytes exposed to increasing extracellular [glycerol] under isosmolal conditions exhibit increasing swelling rates, whereas GlpF-expressing oocytes do not swell at all. To provide a structural basis for these observed physiological differences, we performed X-ray crystallographic structure determination of AQP7 and molecular-dynamics simulations on AQP7 and GlpF. The structure reveals AQP7 tetramers containing two monomers with 3 glycerols, and two monomers with 2 glycerols in the pore. In contrast to GlpF, no glycerol is bound at the AQP7 selectivity filter (SF), comprising residues F74, G222, Y223, and R229. The AQP7 SF is resolved in its closed state because F74 blocks the passage of small solutes. Molecular dynamics simulations demonstrate that F74 undergoes large and rapid conformational changes, allowing glycerol molecules to permeate without orientational restriction. The more rigid GlpF imposes orientational constraints on glycerol molecules passing through the SF. Moreover, GlpF-W48 (analogous to AQP7-F74) undergoes rare but long-lasting conformational changes that block the pore to H 2 O and glycerol.


  • Organizational Affiliation

    Department of Physiology and Biophysics, School of Medicine, Case Western Reserve University, Cleveland, OH, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Aquaporin-7A,
B [auth C],
C [auth B],
D
376Homo sapiensMutation(s): 0 
Gene Names: AQP7AQP7LAQP9
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for O14520 (Homo sapiens)
Explore O14520 
Go to UniProtKB:  O14520
PHAROS:  O14520
GTEx:  ENSG00000165269 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO14520
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth A]
F [auth A]
G [auth C]
H [auth C]
I [auth C]
E [auth A],
F [auth A],
G [auth C],
H [auth C],
I [auth C],
J [auth B],
K [auth B],
L [auth B],
M [auth D],
N [auth D],
O [auth D],
P [auth D]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.00 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.232 
  • R-Value Observed: 0.233 
  • Space Group: F 41 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 385.658α = 90
b = 385.658β = 90
c = 385.658γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-11-13
    Type: Initial release
  • Version 1.1: 2020-02-12
    Changes: Data collection, Derived calculations
  • Version 1.2: 2020-07-08
    Changes: Database references
  • Version 1.3: 2020-08-05
    Changes: Database references
  • Version 1.4: 2023-10-11
    Changes: Advisory, Data collection, Database references, Refinement description