6KXW | pdb_00006kxw

Crystal structure of human aquaporin AQP7 in bound to glycerol

• PDB DOI: https://doi.org/10.2210/pdb6KXW/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMD


• Deposited: 2019-09-13 Released: 2019-11-27 
• Deposition Author(s): Zhang, L., Yao, D., Zhou, F., Zhang, Q., Zhou, L., Cao, Y.
• Funding Organization(s): Ministry of Science and Technology (China), National Science Foundation (China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.70 Å
• R-Value Free: 
  0.322 (Depositor), 0.320 (DCC) 
• R-Value Work: 
  0.268 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.271 (Depositor) 

Starting Model: experimental

Literature

The structural basis for glycerol permeation by human AQP7

Zhang, L., Yao, D., Xia, Y., Zhang, Q., Zhou, F., Wang, Q., Qin, A., Zhao, J., Li, D., Li, Y., Zhou, L., Cao, Y.

(2020) Sci Bull (Beijing) 66: 1550-1558

• DOI: https://doi.org/10.1016/j.scib.2020.12.006

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 149.24 kDa 
• Atom Count: 7,586 
• Modeled Residue Count: 999 
• Deposited Residue Count: 1,368 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aquaporin-7	A, B, C, D	342	Homo sapiens	Mutation(s): 0  Gene Names: AQP7, AQP7L, AQP9 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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL (Subject of Investigation/LOI)	E [auth A], F [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.70 Å
• R-Value Free:  0.322 (Depositor), 0.320 (DCC) 
• R-Value Work:  0.268 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.271 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.508	α = 90
b = 106.286	β = 90
c = 214.416	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-11-27 
Deposition Author(s): Zhang, L., Yao, D., Zhou, F., Zhang, Q., Zhou, L., Cao, Y.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (China)	China	2017YFC1001303
Ministry of Science and Technology (China)	China	2018YFC1004704
National Science Foundation (China)	China	U1632132
National Science Foundation (China)	China	31670849

Revision History  

• Version 1.0: 2019-11-27
  Type: Initial release
  
• Version 1.1: 2020-12-16
  Changes: Database references
• Version 1.2: 2021-09-08
  Changes: Database references
• Version 1.3: 2023-11-22
  Changes: Data collection, Refinement description