4CLC

Crystal structure of Ybr137w protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.211 

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This is version 1.2 of the entry. See complete history


Literature

Structural and Functional Characterization of Ybr137Wp Implicate its Involvement in the Targeting of Tail-Anchored Proteins to Membranes.

Yeh, Y.Lin, T.Li, Y.Tung, J.Lin, C.Hsiao, C.

(2014) Mol Cell Biol 34: 4500

  • DOI: 10.1128/MCB.00697-14
  • Primary Citation of Related Structures:  
    4CLC

  • PubMed Abstract: 
  • Nearly 5% of membrane proteins are guided to nuclear, endoplasmic reticulum (ER), mitochondrial, Golgi, or peroxisome membranes by their C-terminal transmembrane domain and are classified as tail-anchored (TA) membrane proteins. In Saccharomyces cerevisiae, the guided entry of TA protein (GET) pathway has been shown to function in the delivery of TA proteins to the ER ...

    Nearly 5% of membrane proteins are guided to nuclear, endoplasmic reticulum (ER), mitochondrial, Golgi, or peroxisome membranes by their C-terminal transmembrane domain and are classified as tail-anchored (TA) membrane proteins. In Saccharomyces cerevisiae, the guided entry of TA protein (GET) pathway has been shown to function in the delivery of TA proteins to the ER. The sorting complex for this pathway is comprised of Sgt2, Get4, and Get5 and facilitates the loading of nascent tail-anchored proteins onto the Get3 ATPase. Multiple pulldown assays also indicated that Ybr137wp associates with this complex in vivo. Here, we report a 2.8-Å-resolution crystal structure for Ybr137wp from Saccharomyces cerevisiae. The protein is a decamer in the crystal and also in solution, as observed by size exclusion chromatography and analytical ultracentrifugation. In addition, isothermal titration calorimetry indicated that the C-terminal acidic motif of Ybr137wp interacts with the tetratricopeptide repeat (TPR) domain of Sgt2. Moreover, an in vivo study demonstrated that Ybr137wp is induced in yeast exiting the log phase and ameliorates the defect of TA protein delivery and cell viability derived by the impaired GET system under starvation conditions. Therefore, this study suggests a possible role for Ybr137wp related to targeting of tail-anchored proteins.


    Related Citations: 
    • A Chaperone Cascade Sorts Proteins for Posttranslational Membrane Insertion Into the Endoplasmic Reticulum.
      Wang, F., Brown, E.C., Mak, G., Zhuang, J., Denic, V.
      (2010) Mol Cell 40: 159

    Organizational Affiliation

    Institute of Molecular Biology, Academia Sinica, Taipei, Taiwan hsiao@gate.sinica.edu.tw.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
UPF0303 PROTEIN YBR137WA179Saccharomyces cerevisiaeMutation(s): 0 
UniProt
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
UPF0303 PROTEIN YBR137WB179Saccharomyces cerevisiaeMutation(s): 0 
UniProt
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
UPF0303 PROTEIN YBR137WC179Saccharomyces cerevisiaeMutation(s): 0 
UniProt
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
UPF0303 PROTEIN YBR137WD179Saccharomyces cerevisiaeMutation(s): 0 
UniProt
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Protein Feature View
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
UPF0303 PROTEIN YBR137WE179Saccharomyces cerevisiaeMutation(s): 0 
UniProt
Find proteins for P38276 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38276 
Go to UniProtKB:  P38276
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.211 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 135.254α = 90
b = 135.254β = 90
c = 121.5γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
SCALEPACKdata scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-11-19
    Type: Initial release
  • Version 1.1: 2014-11-26
    Changes: Database references
  • Version 1.2: 2019-10-16
    Changes: Data collection, Experimental preparation, Other