7MRJ

Crystal structure of a novel ubiquitin-like TINCR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.12 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.193 

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Ligand Structure Quality Assessment 


This is version 2.2 of the entry. See complete history


Literature

The TINCR ubiquitin-like microprotein is a tumor suppressor in squamous cell carcinoma.

Morgado-Palacin, L.Brown, J.A.Martinez, T.F.Garcia-Pedrero, J.M.Forouhar, F.Quinn, S.A.Reglero, C.Vaughan, J.Heydary, Y.H.Donaldson, C.Rodriguez-Perales, S.Allonca, E.Granda-Diaz, R.Fernandez, A.F.Fraga, M.F.Kim, A.L.Santos-Juanes, J.Owens, D.M.Rodrigo, J.P.Saghatelian, A.Ferrando, A.A.

(2023) Nat Commun 14: 1328-1328

  • DOI: https://doi.org/10.1038/s41467-023-36713-8
  • Primary Citation of Related Structures:  
    7MRJ

  • PubMed Abstract: 

    The TINCR (Terminal differentiation-Induced Non-Coding RNA) gene is selectively expressed in epithelium tissues and is involved in the control of human epidermal differentiation and wound healing. Despite its initial report as a long non-coding RNA, the TINCR locus codes for a highly conserved ubiquitin-like microprotein associated with keratinocyte differentiation. Here we report the identification of TINCR as a tumor suppressor in squamous cell carcinoma (SCC). TINCR is upregulated by UV-induced DNA damage in a TP53-dependent manner in human keratinocytes. Decreased TINCR protein expression is prevalently found in skin and head and neck squamous cell tumors and TINCR expression suppresses the growth of SCC cells in vitro and in vivo. Consistently, Tincr knockout mice show accelerated tumor development following UVB skin carcinogenesis and increased penetrance of invasive SCCs. Finally, genetic analyses identify loss-of-function mutations and deletions encompassing the TINCR gene in SCC clinical samples supporting a tumor suppressor role in human cancer. Altogether, these results demonstrate a role for TINCR as protein coding tumor suppressor gene recurrently lost in squamous cell carcinomas.


  • Organizational Affiliation

    Institute for Cancer Genetics, Columbia University, New York, NY, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin domain-containing protein TINCR
A, B
105Homo sapiensMutation(s): 0 
Gene Names: TINCR
UniProt & NIH Common Fund Data Resources
Find proteins for A0A2R8Y7D0 (Homo sapiens)
Explore A0A2R8Y7D0 
Go to UniProtKB:  A0A2R8Y7D0
GTEx:  ENSG00000223573 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2R8Y7D0
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.12 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.193 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.676α = 90
b = 67.676β = 90
c = 89.528γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
Aimlessdata scaling
PHASERphasing
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesR35 CA210065

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-16
    Type: Initial release
  • Version 2.0: 2022-06-22
    Changes: Advisory, Atomic model, Database references, Derived calculations, Experimental preparation, Non-polymer description, Polymer sequence, Source and taxonomy, Structure summary
  • Version 2.1: 2023-03-22
    Changes: Database references
  • Version 2.2: 2023-10-25
    Changes: Data collection, Refinement description