1TV3

Crystal structure of the N-methyl-hydroxylamine MtmB complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.146 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Reactivity and chemical synthesis of L-pyrrolysine- the 22(nd) genetically encoded amino acid

Hao, B.Zhao, G.Kang, P.T.Soares, J.A.Ferguson, T.K.Gallucci, J.Krzycki, J.A.Chan, M.K.

(2004) Chem.Biol. 11: 1317-1324

  • DOI: 10.1016/j.chembiol.2004.07.011
  • Primary Citation of Related Structures:  1TV2, 1TV4

  • PubMed Abstract: 
  • L-pyrrolysine, the 22(nd) genetically encoded amino acid, was previously deduced to be (4R, 5R)-4-substituted-pyrroline-5-carboxylate attached to the epsilon-nitrogen of lysine based on the crystal structure of the M. barkeri monomethylamine methyltr ...

    L-pyrrolysine, the 22(nd) genetically encoded amino acid, was previously deduced to be (4R, 5R)-4-substituted-pyrroline-5-carboxylate attached to the epsilon-nitrogen of lysine based on the crystal structure of the M. barkeri monomethylamine methyltransferase (MtmB). To confirm L-pyrrolysine's identity, structures of MtmB have been determined following treatment with hydroxylamine, N-methylhydroxylamine, or dithionite. Analysis of these structures has provided additional support for the presence of the pyrroline ring and, together with previous mass spectroscopy data, has led us to assign the C(4)-substituent to a methyl group. Based on this assignment, synthetic L-pyrrolysine was prepared by chemical methods. Detailed study of this chemically synthesized L-pyrrolysine has allowed us to characterize its physical properties, to study its chemical stability, and to elucidate the role of its C(4) substituent. Future applications of this synthetic L-pyrrolysine include its in vivo incorporation into recombinant proteins.


    Organizational Affiliation

    Department of Biochemistry, The Ohio State University, Columbus, OH 43210, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Monomethylamine methyltransferase mtmB1
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
BG4
Query on BG4

Download SDF File 
Download CCD File 
A
5-(HYDROXY-METHYL-AMINO)-3-METHYL-PYRROLIDINE-2-CARBOXYLIC ACID
C7 H14 N2 O3
PGYJBAGGGAUHGV-HSUXUTPPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.146 
  • Space Group: P 63 2 2
Unit Cell:
Length (Å)Angle (°)
a = 157.987α = 90.00
b = 157.987β = 90.00
c = 136.914γ = 120.00
Software Package:
Software NamePurpose
DENZOdata reduction
CNSrefinement
SCALEPACKdata scaling
CNSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-10-19
    Type: Initial release
  • Version 1.1: 2007-10-16
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance