Crystal structure of branched-chain aminotransferase from thermophilic archaea Geoglobus acetivorans

Experimental Data Snapshot

  • Resolution: 1.90 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.153 

Starting Model: experimental
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Thermostable Branched-Chain Amino Acid Transaminases From the Archaea Geoglobus acetivorans and Archaeoglobus fulgidus : Biochemical and Structural Characterization.

Isupov, M.N.Boyko, K.M.Sutter, J.M.James, P.Sayer, C.Schmidt, M.Schonheit, P.Nikolaeva, A.Y.Stekhanova, T.N.Mardanov, A.V.Ravin, N.V.Bezsudnova, E.Y.Popov, V.O.Littlechild, J.A.

(2019) Front Bioeng Biotechnol 7: 7-7

  • DOI: https://doi.org/10.3389/fbioe.2019.00007
  • Primary Citation of Related Structures:  
    5CM0, 5E25, 5MQZ, 5MR0

  • PubMed Abstract: 

    Two new thermophilic branched chain amino acid transaminases have been identified within the genomes of different hyper-thermophilic archaea, Geoglobus acetivorans , and Archaeoglobus fulgidus . These enzymes belong to the class IV of transaminases as defined by their structural fold. The enzymes have been cloned and over-expressed in Escherichia coli and the recombinant enzymes have been characterized both biochemically and structurally. Both enzymes showed high thermostability with optimal temperature for activity at 80 and 85°C, respectively. They retain good activity after exposure to 50% of the organic solvents, ethanol, methanol, DMSO and acetonitrile. The enzymes show a low activity to ( R )-methylbenzylamine but no activity to ( S )-methylbenzylamine. Both enzymes have been crystallized and their structures solved in the internal aldimine form, to 1.9 Å resolution for the Geoglobus enzyme and 2.0 Å for the Archaeoglobus enzyme. Also the Geoglobus enzyme structure has been determined in complex with the amino acceptor α-ketoglutarate and the Archaeoglobus enzyme in complex with the inhibitor gabaculine. These two complexes have helped to determine the conformation of the enzymes during enzymatic turnover and have increased understanding of their substrate specificity. A comparison has been made with another ( R ) selective class IV transaminase from the fungus Nectria haematococca which was previously studied in complex with gabaculine. The subtle structural differences between these enzymes has provided insight regarding their different substrate specificities.

  • Organizational Affiliation

    Henry Wellcome Building for Biocatalysis, Biosciences, University of Exeter, Exeter, United Kingdom.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Branched-chain transaminase
A, B, C
292Geoglobus acetivoransMutation(s): 0 
Gene Names: GACE_1900
Find proteins for A0A0A7GJ30 (Geoglobus acetivorans)
Explore A0A0A7GJ30 
Go to UniProtKB:  A0A0A7GJ30
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0A7GJ30
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.90 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.153 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 117.65α = 90
b = 117.65β = 90
c = 135.98γ = 120
Software Package:
Software NamePurpose
HKL-2000data reduction
XSCALEdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Russian Scientific FundRussian Federation--
ERA-IB ("Thermogene") 7th EU Framework Programme--

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-14
    Type: Initial release
  • Version 1.1: 2017-03-15
    Changes: Structure summary
  • Version 1.2: 2021-03-31
    Changes: Database references, Derived calculations, Structure summary
  • Version 1.3: 2024-01-10
    Changes: Data collection, Database references, Refinement description