6IKN

Crystal structure of the GAS7 F-BAR domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.197 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Phagocytosis is mediated by two-dimensional assemblies of the F-BAR protein GAS7.

Hanawa-Suetsugu, K.Itoh, Y.Ab Fatah, M.Nishimura, T.Takemura, K.Takeshita, K.Kubota, S.Miyazaki, N.Wan Mohamad Noor, W.N.I.Inaba, T.Nguyen, N.T.H.Hamada-Nakahara, S.Oono-Yakura, K.Tachikawa, M.Iwasaki, K.Kohda, D.Yamamoto, M.Kitao, A.Shimada, A.Suetsugu, S.

(2019) Nat Commun 10: 4763-4763

  • DOI: https://doi.org/10.1038/s41467-019-12738-w
  • Primary Citation of Related Structures:  
    6IKN, 6IKO

  • PubMed Abstract: 

    Phagocytosis is a cellular process for internalization of micron-sized large particles including pathogens. The Bin-Amphiphysin-Rvs167 (BAR) domain proteins, including the FCH-BAR (F-BAR) domain proteins, impose specific morphologies on lipid membranes. Most BAR domain proteins are thought to form membrane invaginations or protrusions by assembling into helical submicron-diameter filaments, such as on clathrin-coated pits, caveolae, and filopodia. However, the mechanism by which BAR domain proteins assemble into micron-scale phagocytic cups was unclear. Here, we show that the two-dimensional sheet-like assembly of Growth Arrest-Specific 7 (GAS7) plays a critical role in phagocytic cup formation in macrophages. GAS7 has the F-BAR domain that possesses unique hydrophilic loops for two-dimensional sheet formation on flat membranes. Super-resolution microscopy reveals the similar assemblies of GAS7 on phagocytic cups and liposomes. The mutations of the loops abolishes both the membrane localization of GAS7 and phagocytosis. Thus, the sheet-like assembly of GAS7 plays a significant role in phagocytosis.


  • Organizational Affiliation

    Nara Institute of Science and Technology, Ikoma, 630-0192, Japan.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Growth arrest-specific protein 7
A, B, C, D
331Mus musculusMutation(s): 0 
Gene Names: Gas7
UniProt & NIH Common Fund Data Resources
Find proteins for Q60780 (Mus musculus)
Explore Q60780 
Go to UniProtKB:  Q60780
IMPC:  MGI:1202388
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ60780
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.194 
  • R-Value Observed: 0.197 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.264α = 80.98
b = 87.281β = 74.72
c = 88.793γ = 79.73
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
autoSHARPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of ScienceJapanKAKENHI 24687014
Japan Society for the Promotion of ScienceJapanKAKENHI 25121726
Japan Society for the Promotion of ScienceJapanKAKENHI 17K07309
Japan Society for the Promotion of ScienceJapanKAKENHI 26291037
Japan Society for the Promotion of ScienceJapanKAKENHI 15H0164
Japan Society for the Promotion of ScienceJapanKAKENHI 15H05902
Japan Society for the Promotion of ScienceJapanKAKENHI 17H03674
Japan Society for the Promotion of ScienceJapanKAKENHI 17H06006
Japan Society for the Promotion of ScienceJapanNEXT program LS031
Japan Society for the Promotion of ScienceJapanKAKENHI 16K07351
Japan Society for the Promotion of ScienceJapanKAKENHI 23121507

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-16
    Type: Initial release
  • Version 1.1: 2019-10-30
    Changes: Data collection, Database references