2J3T

The crystal structure of the bet3-trs33-bet5-trs23 complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.207 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The Architecture of the Multisubunit Trapp I Complex Suggests a Model for Vesicle Tethering.

Kim, Y.Raunser, S.Munger, C.Wagner, J.Song, Y.Cygler, M.Walz, T.Oh, B.Sacher, M.

(2006) Cell 127: 817

  • DOI: 10.1016/j.cell.2006.09.029
  • Primary Citation of Related Structures:  
    2J3R, 2J3W, 2J3T

  • PubMed Abstract: 
  • Transport protein particle (TRAPP) I is a multisubunit vesicle tethering factor composed of seven subunits involved in ER-to-Golgi trafficking. The functional mechanism of the complex and how the subunits interact to form a functional unit are unknow ...

    Transport protein particle (TRAPP) I is a multisubunit vesicle tethering factor composed of seven subunits involved in ER-to-Golgi trafficking. The functional mechanism of the complex and how the subunits interact to form a functional unit are unknown. Here, we have used a multidisciplinary approach that includes X-ray crystallography, electron microscopy, biochemistry, and yeast genetics to elucidate the architecture of TRAPP I. The complex is organized through lateral juxtaposition of the subunits into a flat and elongated particle. We have also localized the site of guanine nucleotide exchange activity to a highly conserved surface encompassing several subunits. We propose that TRAPP I attaches to Golgi membranes with its large flat surface containing many highly conserved residues and forms a platform for protein-protein interactions. This study provides the most comprehensive view of a multisubunit vesicle tethering complex to date, based on which a model for the function of this complex, involving Rab1-GTP and long, coiled-coil tethers, is presented.


    Organizational Affiliation

    Center for Biomolecular Recognition and Division of Molecular and Life Sciences, Department of Life Sciences, Pohang University of Science and Technology, Pohang, Kyungbuk 790-784, South Korea.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 3A182Mus musculusMutation(s): 0 
Gene Names: Trappc3Bet3
Find proteins for O55013 (Mus musculus)
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Go to UniProtKB:  O55013
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 6AB159Homo sapiensMutation(s): 0 
Gene Names: TRAPPC6AHSPC289
Find proteins for O75865 (Homo sapiens)
Explore O75865 
Go to UniProtKB:  O75865
NIH Common Fund Data Resources
PHAROS  O75865
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 1C145Mus musculusMutation(s): 0 
Gene Names: Trappc1
Find proteins for Q5NCF2 (Mus musculus)
Explore Q5NCF2 
Go to UniProtKB:  Q5NCF2
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Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
TRAFFICKING PROTEIN PARTICLE COMPLEX SUBUNIT 4D219Homo sapiensMutation(s): 0 
Gene Names: TRAPPC4SBDNCGI-104HSPC172PTD009
Find proteins for Q9Y296 (Homo sapiens)
Explore Q9Y296 
Go to UniProtKB:  Q9Y296
NIH Common Fund Data Resources
PHAROS  Q9Y296
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PLM
Query on PLM

Download CCD File 
A
PALMITIC ACID
C16 H32 O2
IPCSVZSSVZVIGE-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.207 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.602α = 90
b = 66.336β = 90
c = 200.808γ = 90
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data scaling
SOLVEphasing

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2006-08-23 
  • Released Date: 2006-11-22 
  • Deposition Author(s): Kim, Y., Oh, B.

Revision History 

  • Version 1.0: 2006-11-22
    Type: Initial release
  • Version 1.1: 2011-10-26
    Changes: Atomic model, Database references, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary, Version format compliance