Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration, NMR relaxation study

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 32.75 kDa 
• Atom Count: 1940 
• Modelled Residue Count: 206 
• Deposited Residue Count: 280 
• Unique protein chains: 1

7KJO

crystal structure of PLEKHA7 PH domain biding SO4

• PDB DOI: 10.2210/pdb7KJO/pdb

• Classification: CELL ADHESION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-10-26 Released: 2021-04-07 
• Deposition Author(s): Marassi, F.M., Aleshin, A.E., Liddington, R.C.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.171 
• R-Value Work: 0.153 
• R-Value Observed: 0.154 

Literature

Structural basis for the association of PLEKHA7 with membrane-embedded phosphatidylinositol lipids.

Aleshin, A.E., Yao, Y., Iftikhar, A., Bobkov, A.A., Yu, J., Cadwell, G., Klein, M.G., Dong, C., Bankston, L.A., Liddington, R.C., Im, W., Powis, G., Marassi, F.M.

(2021) Structure 29: 1029

• PubMed: 33878292 
• DOI: 10.1016/j.str.2021.03.018
• Primary Citation of Related Structures:  
  7KJO, 7KJZ, 7KK7


• PubMed Abstract: 
  

PLEKHA7 (pleckstrin homology domain containing family A member 7) plays key roles in intracellular signaling, cytoskeletal organization, and cell adhesion, and is associated with multiple human cancers. The interactions of its pleckstrin homology (PH) domain with membrane phosphatidyl-inositol-phosphate (PIP) lipids are critical for proper cellular localization and function, but little is known about how PLEKHA7 and other PH domains interact with membrane-embedded PIPs. Here we describe the structural basis for recognition of membrane-bound PIPs by PLEHA7. Using X-ray crystallography, nuclear magnetic resonance, molecular dynamics simulations, and isothermal titration calorimetry, we show that the interaction of PLEKHA7 with PIPs is multivalent, distinct from a discrete one-to-one interaction, and induces PIP clustering. Our findings reveal a central role of the membrane assembly in mediating protein-PIP association and provide a roadmap for understanding how the PH domain contributes to the signaling, adhesion, and nanoclustering functions of PLEKHA7.

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Organizational Affiliation: 

Cancer Center, Sanford Burnham Prebys Medical Discovery Institute, 10901 North Torrey Pines Road, La Jolla, CA 92037, USA. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pleckstrin homology domain-containing family A member 7	A, B	140	Homo sapiens	Mutation(s): 0  Gene Names: PLEKHA7
UniProt & NIH Common Fund Data Resources
Find proteins for Q6IQ23 (Homo sapiens) Explore Q6IQ23  Go to UniProtKB:  Q6IQ23
PHAROS:  Q6IQ23

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], E [auth A], H [auth B], I [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	D [auth A], F [auth B], G [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 0.171 
• R-Value Work: 0.153 
• R-Value Observed: 0.154 
• Space Group: P 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.83	α = 90
b = 64.83	β = 90
c = 59.233	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2020-10-26 
• Released Date: 2021-04-07 
Deposition Author(s): Marassi, F.M., Aleshin, A.E., Liddington, R.C.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	CA179087
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	CA160398

Revision History  

• Version 1.0: 2021-04-07
  Type: Initial release
  
• Version 1.1: 2021-05-05
  Changes: Database references
• Version 1.2: 2021-09-15
  Changes: Database references