1L2Q

Crystal Structure of the Methanosarcina barkeri Monomethylamine Methyltransferase (MtmB)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.175 
  • R-Value Work: 0.161 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

A new UAG-encoded residue in the structure of a methanogen methyltransferase.

Hao, B.Gong, W.Ferguson, T.K.James, C.M.Krzycki, J.A.Chan, M.K.

(2002) Science 296: 1462-1466

  • DOI: 10.1126/science.1069556
  • Primary Citation of Related Structures:  1L2R, 1NTH

  • PubMed Abstract: 
  • Genes encoding methanogenic methylamine methyltransferases all contain an in-frame amber (UAG) codon that is read through during translation. We have identified the UAG-encoded residue in a 1.55 angstrom resolution structure of the Methanosarcina bar ...

    Genes encoding methanogenic methylamine methyltransferases all contain an in-frame amber (UAG) codon that is read through during translation. We have identified the UAG-encoded residue in a 1.55 angstrom resolution structure of the Methanosarcina barkeri monomethylamine methyltransferase (MtmB). This structure reveals a homohexamer comprised of individual subunits with a TIM barrel fold. The electron density for the UAG-encoded residue is distinct from any of the 21 natural amino acids. Instead it appears consistent with a lysine in amide-linkage to (4R,5R)-4-substituted-pyrroline-5-carboxylate. We suggest that this amino acid be named l-pyrrolysine.


    Organizational Affiliation

    Department of Biochemistry, The Ohio State University, 484 West 12th Avenue, Columbus, OH 43210, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
monomethylamine methyltransferase
A
458Methanosarcina barkeriGene Names: mtmB1 (mtmB)
EC: 2.1.1.248
Find proteins for O30642 (Methanosarcina barkeri)
Go to UniProtKB:  O30642
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NH4
Query on NH4

Download SDF File 
Download CCD File 
A
AMMONIUM ION
H4 N
QGZKDVFQNNGYKY-UHFFFAOYSA-O
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
XPL
Query on XPL
A
L-PEPTIDE LINKINGC12 H24 N4 O3PYL
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.175 
  • R-Value Work: 0.161 
  • Space Group: P 63 2 2
Unit Cell:
Length (Å)Angle (°)
a = 158.070α = 90.00
b = 158.070β = 90.00
c = 135.891γ = 120.00
Software Package:
Software NamePurpose
PHASESphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-06-05
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance
  • Version 1.3: 2014-08-13
    Type: Non-polymer description, Structure summary