4JD2

Crystal structure of Bos taurus Arp2/3 complex binding with Mus musculus GMF


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.08 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 

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This is version 1.3 of the entry. See complete history


Literature

Structural basis for regulation of Arp2/3 complex by GMF.

Luan, Q.Nolen, B.J.

(2013) Nat Struct Mol Biol 20: 1062-1068

  • DOI: 10.1038/nsmb.2628
  • Primary Citation of Related Structures:  
    4JD2

  • PubMed Abstract: 
  • The Arp2/3 complex mediates formation of complex cellular structures such as lamellipodia by nucleating branched actin filaments. Arp2/3-complex activity is precisely controlled by over a dozen regulators, yet the structural mechanism by which regulators interact with the complex is unknown ...

    The Arp2/3 complex mediates formation of complex cellular structures such as lamellipodia by nucleating branched actin filaments. Arp2/3-complex activity is precisely controlled by over a dozen regulators, yet the structural mechanism by which regulators interact with the complex is unknown. GMF is a recently discovered regulator of the Arp2/3 complex that can inhibit nucleation and disassemble branches. We solved the structure of the 240-kDa assembly of Mus musculus GMF and Bos taurus Arp2/3 complex and found that GMF binds the barbed end of Arp2, overlapping with the proposed binding site of WASP-family proteins. The structure suggests that GMF can bind branch junctions in the manner that cofilin binds filament sides, consistent with a modified cofilin-like mechanism for debranching by GMF. The GMF-Arp2 interface reveals how the ADF-H actin-binding domain in GMF is exploited to specifically recognize Arp2/3 complex and not actin.


    Organizational Affiliation

    1] Institute of Molecular Biology, University of Oregon, Eugene, Oregon, USA. [2] Department of Chemistry and Biochemistry, University of Oregon, Eugene, Oregon, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 3A418Bos taurusMutation(s): 0 
Gene Names: ACTR3ARP3
UniProt
Find proteins for P61157 (Bos taurus)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 2B394Bos taurusMutation(s): 0 
Gene Names: ACTR2ARP2
UniProt
Find proteins for A7MB62 (Bos taurus)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 2/3 complex subunit 1BC372Bos taurusMutation(s): 0 
Gene Names: ARPC1B
UniProt
Find proteins for Q58CQ2 (Bos taurus)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 2/3 complex subunit 2D300Bos taurusMutation(s): 0 
Gene Names: ARPC2
UniProt
Find proteins for Q3MHR7 (Bos taurus)
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 2/3 complex subunit 3E178Bos taurusMutation(s): 0 
Gene Names: ARPC3
UniProt
Find proteins for Q3T035 (Bos taurus)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 2/3 complex subunit 4F168Bos taurusMutation(s): 0 
Gene Names: ARPC4
UniProt
Find proteins for Q148J6 (Bos taurus)
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Actin-related protein 2/3 complex subunit 5G151Bos taurusMutation(s): 0 
Gene Names: ARPC5
UniProt
Find proteins for Q3SYX9 (Bos taurus)
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Glia maturation factor gammaH142Mus musculusMutation(s): 0 
Gene Names: Gmfg
UniProt & NIH Common Fund Data Resources
Find proteins for Q9ERL7 (Mus musculus)
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IMPC:  MGI:1927135
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP (Subject of Investigation/LOI)
Query on ATP

Download Ideal Coordinates CCD File 
J [auth A], L [auth B]ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
PG4
Query on PG4

Download Ideal Coordinates CCD File 
M [auth B], N [auth F]TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

Download Ideal Coordinates CCD File 
I [auth A], K [auth B]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.08 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 
  • Space Group: P 65
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 231.538α = 90
b = 231.538β = 90
c = 109.743γ = 120
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

  • Deposited Date: 2013-02-22 
  • Released Date: 2013-07-17 
  • Deposition Author(s): Nolen, B.J., Luan, Q.

Revision History  (Full details and data files)

  • Version 1.0: 2013-07-17
    Type: Initial release
  • Version 1.1: 2013-07-24
    Changes: Database references
  • Version 1.2: 2013-08-14
    Changes: Database references
  • Version 1.3: 2013-09-18
    Changes: Database references