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 

wwPDB Validation 3D Report Full Report


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

  • 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 regula ...

    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

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 3
A
418Bos taurusGene Names: ACTR3 (ARP3)
Find proteins for P61157 (Bos taurus)
Go to Gene View: ACTR3
Go to UniProtKB:  P61157
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 2
B
394Bos taurusGene Names: ACTR2 (ARP2)
Find proteins for A7MB62 (Bos taurus)
Go to Gene View: ACTR2
Go to UniProtKB:  A7MB62
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 2/3 complex subunit 1B
C
372Bos taurusGene Names: ARPC1B
Find proteins for Q58CQ2 (Bos taurus)
Go to Gene View: ARPC1B
Go to UniProtKB:  Q58CQ2
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 2/3 complex subunit 2
D
300Bos taurusGene Names: ARPC2
Find proteins for Q3MHR7 (Bos taurus)
Go to Gene View: ARPC2
Go to UniProtKB:  Q3MHR7
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 2/3 complex subunit 3
E
178Bos taurusGene Names: ARPC3
Find proteins for Q3T035 (Bos taurus)
Go to Gene View: ARPC3
Go to UniProtKB:  Q3T035
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 2/3 complex subunit 4
F
168Bos taurusGene Names: ARPC4
Find proteins for Q148J6 (Bos taurus)
Go to Gene View: ARPC4
Go to UniProtKB:  Q148J6
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Actin-related protein 2/3 complex subunit 5
G
151Bos taurusGene Names: ARPC5
Find proteins for Q3SYX9 (Bos taurus)
Go to Gene View: ARPC5
Go to UniProtKB:  Q3SYX9
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Glia maturation factor gamma
H
142Mus musculusGene Names: Gmfg
Find proteins for Q9ERL7 (Mus musculus)
Go to UniProtKB:  Q9ERL7
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download SDF File 
Download CCD File 
A, B
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
CA
Query on CA

Download SDF File 
Download CCD File 
A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
PG4
Query on PG4

Download SDF File 
Download CCD File 
B, F
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-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 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 231.538α = 90.00
b = 231.538β = 90.00
c = 109.743γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

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

Revision History 

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