4HMY

Structural basis for recruitment and activation of the AP-1 clathrin adaptor complex by Arf1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 7.00 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.200 

wwPDB Validation   3D Report Full Report


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Literature

Structural Basis for Recruitment and Activation of the AP-1 Clathrin Adaptor Complex by Arf1.

Ren, X.Farias, G.G.Canagarajah, B.J.Bonifacino, J.S.Hurley, J.H.

(2013) Cell 152: 755-767

  • DOI: 10.1016/j.cell.2012.12.042
  • Primary Citation of Related Structures:  
    4HMY

  • PubMed Abstract: 
  • AP-1 is a clathrin adaptor complex that sorts cargo between the trans-Golgi network and endosomes. AP-1 recruitment to these compartments requires Arf1-GTP. The crystal structure of the tetrameric core of AP-1 in complex with Arf1-GTP, together with biochemical analyses, shows that Arf1 activates cargo binding by unlocking AP-1 ...

    AP-1 is a clathrin adaptor complex that sorts cargo between the trans-Golgi network and endosomes. AP-1 recruitment to these compartments requires Arf1-GTP. The crystal structure of the tetrameric core of AP-1 in complex with Arf1-GTP, together with biochemical analyses, shows that Arf1 activates cargo binding by unlocking AP-1. Unlocking is driven by two molecules of Arf1 that bridge two copies of AP-1 at two interaction sites. The GTP-dependent switch I and II regions of Arf1 bind to the N terminus of the β1 subunit of one AP-1 complex, while the back side of Arf1 binds to the central part of the γ subunit trunk of a second AP-1 complex. A third Arf1 interaction site near the N terminus of the γ subunit is important for recruitment, but not activation. These observations lead to a model for the recruitment and activation of AP-1 by Arf1.


    Organizational Affiliation

    Cell Biology and Metabolism Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
AP-1 complex subunit gamma-1 A601Mus musculusMutation(s): 0 
Gene Names: AdtgAp1g1Clapg1
Find proteins for P22892 (Mus musculus)
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Go to UniProtKB:  P22892
NIH Common Fund Data Resources
IMPC:  MGI:101919
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
AP-1 complex subunit beta-1 B586Homo sapiensMutation(s): 3 
Gene Names: ADTB1AP1B1BAM22CLAPB2
Find proteins for Q10567 (Homo sapiens)
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PHAROS:  Q10567
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
AP-1 complex subunit mu-1 M423Mus musculusMutation(s): 0 
Gene Names: Ap1m1Cltnm
Find proteins for P35585 (Mus musculus)
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
AP-1 complex subunit sigma-3 S154Homo sapiensMutation(s): 1 
Gene Names: AP1S3
Find proteins for Q96PC3 (Homo sapiens)
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PHAROS:  Q96PC3
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
ADP-ribosylation factor 1 C172Homo sapiensMutation(s): 1 
Gene Names: ARF1
Find proteins for P84077 (Homo sapiens)
Explore P84077 
Go to UniProtKB:  P84077
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PHAROS:  P84077
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download Ideal Coordinates CCD File 
C
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
C
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 7.00 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.200 
  • Space Group: P 64
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 267.5α = 90
b = 267.5β = 90
c = 191.4γ = 120
Software Package:
Software NamePurpose
HKL-2000data collection
CNSrefinement
HKL-2000data reduction
HKL-2000data scaling
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-03-06
    Type: Initial release