6EHR

The crystal structure of the human LAMTOR-RagA CTD-RagC CTD complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.219 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Crystal structure of the human lysosomal mTORC1 scaffold complex and its impact on signaling.

de Araujo, M.E.G.Naschberger, A.Furnrohr, B.G.Stasyk, T.Dunzendorfer-Matt, T.Lechner, S.Welti, S.Kremser, L.Shivalingaiah, G.Offterdinger, M.Lindner, H.H.Huber, L.A.Scheffzek, K.

(2017) Science 358: 377-381

  • DOI: https://doi.org/10.1126/science.aao1583
  • Primary Citation of Related Structures:  
    6EHP, 6EHR

  • PubMed Abstract: 

    The LAMTOR [late endosomal and lysosomal adaptor and MAPK (mitogen-activated protein kinase) and mTOR (mechanistic target of rapamycin) activator] complex, also known as "Ragulator," controls the activity of mTOR complex 1 (mTORC1) on the lysosome. The crystal structure of LAMTOR consists of two roadblock/LC7 domain-folded heterodimers wrapped and apparently held together by LAMTOR1, which assembles the complex on lysosomes. In addition, the Rag guanosine triphosphatases (GTPases) associated with the pentamer through their carboxyl-terminal domains, predefining the orientation for interaction with mTORC1. In vitro reconstitution and experiments with site-directed mutagenesis defined the physiological importance of LAMTOR1 in assembling the remaining components to ensure fidelity of mTORC1 signaling. Functional data validated the effect of two short LAMTOR1 amino acid regions in recruitment and stabilization of the Rag GTPases.


  • Organizational Affiliation

    Division of Cell Biology, Biocenter, Medical University of Innsbruck, 6020 Innsbruck, Austria.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ragulator complex protein LAMTOR3127Homo sapiensMutation(s): 0 
Gene Names: LAMTOR3MAP2K1IP1MAPKSP1PRO2783
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Go to UniProtKB:  Q9UHA4
PHAROS:  Q9UHA4
GTEx:  ENSG00000109270 
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UniProt GroupQ9UHA4
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Ragulator complex protein LAMTOR2126Homo sapiensMutation(s): 0 
Gene Names: LAMTOR2MAPBPIPROBLD3HSPC003
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Go to UniProtKB:  Q9Y2Q5
PHAROS:  Q9Y2Q5
GTEx:  ENSG00000116586 
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UniProt GroupQ9Y2Q5
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Ragulator complex protein LAMTOR591Homo sapiensMutation(s): 0 
Gene Names: LAMTOR5HBXIPXIP
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PHAROS:  O43504
GTEx:  ENSG00000134248 
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UniProt GroupO43504
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Ragulator complex protein LAMTOR499Homo sapiensMutation(s): 0 
Gene Names: LAMTOR4C7orf59
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Find proteins for Q0VGL1 (Homo sapiens)
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PHAROS:  Q0VGL1
GTEx:  ENSG00000188186 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Ragulator complex protein LAMTOR1145Homo sapiensMutation(s): 0 
Gene Names: LAMTOR1C11orf59PDROPP7157
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Find proteins for Q6IAA8 (Homo sapiens)
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PHAROS:  Q6IAA8
GTEx:  ENSG00000149357 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Ras-related GTP-binding protein A132Homo sapiensMutation(s): 0 
Gene Names: RRAGA
EC: 3.6.5
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Find proteins for Q7L523 (Homo sapiens)
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PHAROS:  Q7L523
GTEx:  ENSG00000155876 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Ras-related GTP-binding protein C163Homo sapiensMutation(s): 0 
Gene Names: RRAGC
EC: 3.6.5
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Find proteins for Q9HB90 (Homo sapiens)
Explore Q9HB90 
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PHAROS:  Q9HB90
GTEx:  ENSG00000116954 
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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.219 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 87.09α = 90
b = 92.448β = 90
c = 127.2γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
AustriaP 26682

Revision History  (Full details and data files)

  • Version 1.0: 2017-10-04
    Type: Initial release
  • Version 1.1: 2017-11-01
    Changes: Database references
  • Version 1.2: 2018-02-28
    Changes: Source and taxonomy
  • Version 1.3: 2019-04-24
    Changes: Data collection, Source and taxonomy
  • Version 1.4: 2024-05-08
    Changes: Data collection, Database references