7YIS image
Entry Detail
PDB ID:
7YIS
Title:
Crystal structure of N-terminal PH domain of ARAP3 protein in complex with inositol 1,3,4,5-tetrakisphosphate
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2022-07-18
Release Date:
2023-05-03
Method Details:
Experimental Method:
Resolution:
3.30 Å
R-Value Free:
0.27
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 61 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 3
Chain IDs:A
Chain Length:111
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structural Insights Uncover the Specific Phosphoinositide Recognition by the PH1 Domain of Arap3.
Int J Mol Sci 24 ? ? (2023)
PMID: 36674645 DOI: 10.3390/ijms24021125

Abstact

Arap3, a dual GTPase-activating protein (GAP) for the small GTPases Arf6 and RhoA, plays key roles in regulating a wide range of biological processes, including cancer cell invasion and metastasis. It is known that Arap3 is a PI3K effector that can bind directly to PI(3,4,5)P3, and the PI(3,4,5)P3-mediated plasma membrane recruitment is crucial for its function. However, the molecular mechanism of how the protein recognizes PI(3,4,5)P3 remains unclear. Here, using liposome pull-down and surface plasmon resonance (SPR) analysis, we found that the N-terminal first pleckstrin homology (PH) domain (Arap3-PH1) can interact with PI(3,4,5)P3 and, with lower affinity, with PI(4,5)P2. To understand how Arap3-PH1 and phosphoinositide (PIP) lipids interact, we solved the crystal structure of the Arap3-PH1 in the apo form and complex with diC4-PI(3,4,5)P3. We also characterized the interactions of Arap3-PH1 with diC4-PI(3,4,5)P3 and diC4-PI(4,5)P2 in solution by nuclear magnetic resonance (NMR) spectroscopy. Furthermore, we found overexpression of Arap3 could inhibit breast cancer cell invasion in vitro, and the PIPs-binding ability of the PH1 domain is essential for this function.

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Primary Citation of related structures