1G6Q

CRYSTAL STRUCTURE OF YEAST ARGININE METHYLTRANSFERASE, HMT1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.253 

wwPDB Validation 3D Report Full Report


This is version 1.3 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.Mol.Biol. 7: 1165-1171

  • DOI: 10.1038/82028

  • 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-bi ...

    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.


    Related Citations: 
    • Analysis of the yeast arginine methyltransferase Hmt1p/Rmt1p and its in vivo function. Cofactor binding and substrate interactions.
      McBride, A.E.,Weiss, V.H.,Kim, H.K.,Hogle, J.M.,Silver, P.A.
      (2000) J.Biol.Chem. 275: 3128
    • Arginine methylation facilitates the nuclear export of hnRNP proteins.
      shen, e.c.,Henry, M.F.,Weiss, V.H.,Valentini, S.R.,Silver, P.A.,Lee, M.S.
      (1998) Genes Dev. 12: 679
    • Arginine methylation and binding of Hrp1p to the efficiency element for mRNA 3'-end formation.
      valentini, s.r.,weiss, v.h.,silver, p.a.
      (1999) rna 5: 272
    • A novel methyltransferase (Hmt1p) modifies poly(A)+RNA binding proteins.
      henry, m.f.,silver, p.a.
      (1996) Mol.Cell.Biol. 16: 3668


    Organizational Affiliation

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




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HNRNP ARGININE N-METHYLTRANSFERASE
1, 2, 3, 4, 5, 6
328Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 3 
Gene Names: HMT1 (ODP1, RMT1)
EC: 2.1.1.-
Find proteins for P38074 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P38074
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.253 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 84.100α = 90.00
b = 129.430β = 102.74
c = 101.430γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
DMmodel building
DENZOdata reduction
MLPHAREphasing
SOLVEphasing
SCALEPACKdata scaling
DMphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-12-06
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2011-07-27
    Type: Atomic model, Derived calculations