Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 50.34 kDa 
• Atom Count: 3982 
• Modelled Residue Count: 457 
• Deposited Residue Count: 458 
• Unique protein chains: 1

1TV2

Crystal structure of the hydroxylamine MtmB complex

• DOI: 10.2210/pdb1TV2/pdb

• Classification: TRANSFERASE
• Organism(s): Methanosarcina barkeri
• Mutation(s): No 


• Deposited: 2004-06-26 Released: 2004-10-19 
• Deposition Author(s): Hao, B., Zhao, G., Kang, P.T., Soares, J.A., Ferguson, T.K., Gallucci, J., Krzycki, J.A., Chan, M.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.183 
• R-Value Work: 0.165 
• R-Value Observed: 0.165 

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

• PubMed: 15380192 
• DOI: 10.1016/j.chembiol.2004.07.011
• Primary Citation of Related Structures:  
  1TV2, 1TV4, 1TV3


• 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 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Monomethylamine methyltransferase mtmB1	A	458	Methanosarcina barkeri	Mutation(s): 0  Gene Names: mtmB1, mtmB EC: 2.1.1 (PDB Primary Data), 2.1.1.248 (UniProt)
Find proteins for O30642 (Methanosarcina barkeri) Explore O30642  Go to UniProtKB:  O30642

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BG5	A	5-HYDROXYAMINO-3-METHYL-PYRROLIDINE-2-CARBOXYLIC ACID C6 H12 N2 O3 PEFGUPQPFCDBPY-UOWFLXDJSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.183 
• R-Value Work: 0.165 
• R-Value Observed: 0.165 
• Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 158.17	α = 90
b = 158.17	β = 90
c = 136.21	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-06-26 
• Released Date: 2004-10-19 
Deposition Author(s): Hao, B., Zhao, G., Kang, P.T., Soares, J.A., Ferguson, T.K., Gallucci, J., Krzycki, J.A., Chan, M.K.

Revision History  

• Version 1.0: 2004-10-19
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2011-11-16
  Changes: Atomic model