The crystal structure of aspartate aminotransferases Lpg0070 from Legionella pneumophila

Experimental Data Snapshot

  • Resolution: 1.70 Å
  • R-Value Free: 0.172 
  • R-Value Work: 0.155 

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Crystal structure of an aspartate aminotransferase Lpg0070 from Legionella pneumophila.

Gao, Y.Yang, X.Hua, L.Wang, M.Ge, Q.Wang, W.Wang, N.Ma, J.Ge, H.

(2023) Biochem Biophys Res Commun 689: 149230-149230

  • DOI: https://doi.org/10.1016/j.bbrc.2023.149230
  • Primary Citation of Related Structures:  
    8WKJ, 8WOU

  • PubMed Abstract: 

    Legionella pneumophila aspartate aminotransferase (Lpg0070) is a member of the transaminase and belongs to the pyridoxal 5'-phosphate (PLP)-dependent superfamily. It is responsible for the transfer of α-amino between aspartate and α-ketoglutarate to form glutamate and oxaloacetate. Here, we report the crystal structure of Lpg0070 at the resolution of 2.14 Å and 1.7 Å, in apo-form and PLP-bound, respectively. Our structural analysis revealed the specific residues involved in the PLP binding and free form against PLP-bound supported conformational changes before substrate recognition. In vitro enzyme activity proves that the absence of the N-terminal arm reduces the enzyme activity of Lpg0070. These data provide further evidence to support the N-terminal arm plays a crucial role in catalytic activity.

  • Organizational Affiliation

    Institutes of Material Science and Information Technology, Anhui University, Hefei, 230601, China; School of Resources and Environmental Engineering, Anhui University, Hefei, 230601, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Aminotransferase399Legionella pneumophilaMutation(s): 0 
Gene Names: C3927_15565DIZ43_09905ERS253283_01083NCTC12000_00087
EC: 2.6.1
Find proteins for A0A130QXX8 (Legionella pneumophila)
Explore A0A130QXX8 
Go to UniProtKB:  A0A130QXX8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A130QXX8
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PLP (Subject of Investigation/LOI)
Query on PLP

Download Ideal Coordinates CCD File 
C8 H10 N O6 P
Experimental Data & Validation

Experimental Data

  • Resolution: 1.70 Å
  • R-Value Free: 0.172 
  • R-Value Work: 0.155 
  • Space Group: I 41 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.425α = 90
b = 105.425β = 90
c = 165.471γ = 90
Software Package:
Software NamePurpose
HKL-3000data scaling
PDB_EXTRACTdata extraction
HKL-3000data reduction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31970103

Revision History  (Full details and data files)

  • Version 1.0: 2023-12-06
    Type: Initial release