1G6Q

CRYSTAL STRUCTURE OF YEAST ARGININE METHYLTRANSFERASE, HMT1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.253 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

The structure and oligomerization of the yeast arginine methyltransferase, Hmt1.

Weiss, V.H.McBride, A.E.Soriano, M.A.Filman, D.J.Silver, P.A.Hogle, J.M.

(2000) Nat Struct Biol 7: 1165-1171

  • DOI: https://doi.org/10.1038/82028
  • Primary Citation of Related Structures:  
    1G6Q

  • PubMed Abstract: 

    Protein methylation at arginines is ubiquitous in eukaryotes and affects signal transduction, gene expression and protein sorting. Hmt1/Rmt1, the major arginine methyltransferase in yeast, catalyzes methylation of arginine residues in several mRNA-binding proteins and facilitates their export from the nucleus. We now report the crystal structure of Hmt1 at 2.9 A resolution. Hmt1 forms a hexamer with approximate 32 symmetry. The surface of the oligomer is dominated by large acidic cavities at the dimer interfaces. Mutation of dimer contact sites eliminates activity of Hmt1 both in vivo and in vitro. Mutating residues in the acidic cavity significantly reduces binding and methylation of the substrate Npl3.


  • Organizational Affiliation

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
HNRNP ARGININE N-METHYLTRANSFERASE328Saccharomyces cerevisiaeMutation(s): 3 
Gene Names: HMT1
EC: 2.1.1
UniProt
Find proteins for P38074 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38074 
Go to UniProtKB:  P38074
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP38074
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.253 
  • R-Value Observed: 0.253 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 84.1α = 90
b = 129.43β = 102.74
c = 101.43γ = 90
Software Package:
Software NamePurpose
SOLVEphasing
MLPHAREphasing
DMmodel building
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
DMphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-12-06
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2011-07-27
    Changes: Atomic model, Derived calculations
  • Version 1.4: 2021-10-27
    Changes: Database references
  • Version 1.5: 2024-02-07
    Changes: Data collection