1GCK

THERMUS THERMOPHILUS ASPARTATE AMINOTRANSFERASE DOUBLE MUTANT 1 COMPLEXED WITH ASPARTATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.217 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.4 of the entry. See complete history


Literature

Substrate recognition mechanism of thermophilic dual-substrate enzyme.

Ura, H.Nakai, T.Kawaguchi, S.I.Miyahara, I.Hirotsu, K.Kuramitsu, S.

(2001) J Biochem 130: 89-98

  • DOI: 10.1093/oxfordjournals.jbchem.a002966
  • Primary Citation of Related Structures:  
    1B5O, 1B5P, 1GC3, 1GC4, 1GCK, 5BJ3, 5BJ4

  • PubMed Abstract: 
  • Aspartate aminotransferase from an extremely thermophilic bacterium, Thermus thermophilus HB8 (ttAspAT), has been believed to be specific for an acidic substrate. However, stepwise introduction of mutations in the active-site residues finally changed its substrate specificity to that of a dual-substrate enzyme ...

    Aspartate aminotransferase from an extremely thermophilic bacterium, Thermus thermophilus HB8 (ttAspAT), has been believed to be specific for an acidic substrate. However, stepwise introduction of mutations in the active-site residues finally changed its substrate specificity to that of a dual-substrate enzyme. The final mutant, [S15D, T17V, K109S, S292R] ttAspAT, is active toward both acidic and hydrophobic substrates. During the course of stepwise mutation, the activities toward acidic and hydrophobic substrates changed independently. The introduction of a mobile Arg292* residue into ttAspAT was the key step in the change to a "dual-substrate" enzyme. The substrate recognition mechanism of this thermostable "dual-substrate" enzyme was confirmed by X-ray crystallography. This work together with previous studies on various enzymes suggest that this unique "dual-substrate recognition" mechanism is a feature of not only aminotransferases but also other enzymes.


    Related Citations: 
    • Structure of Thermus thermophilus HB8 Aspartate Aminotransferase and its Complex with Maleate.
      Nakai, T., Okada, K., Akutsu, S., Miyahara, I., Kawaguchi, S., Kato, R., Kuramitsu, S., Hirotsu, K.
      (1999) Biochemistry 38: 2413
    • The novel Substrate Recognition Mechanism Utilized by Aspartate Aminotransferase of the Extreme Thermophile thermus thermophilus HB8.
      Nobe, Y., Kawaguchi, S., Ura, H., Nakai, T., Hirotsu, K., Kato, R., Kuramitsu, S.
      (1998) J Biol Chem 273: 29554
    • An Aspartate Aminotransferase from an Extremely Thermophilic Bacterium, Thermus thermophilus HB8.
      Okamoto, A., Kato, R., Masui, R., Yamagishi, A., Oshima, T., Kuramitsu, S.
      (1996) J Biochem 119: 135

    Organizational Affiliation

    Department of Biology, Graduate School of Science, Osaka University, Machikaneyama-cho, Toyonaka, Osaka 560-0043, Japan.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ASPARTATE AMINOTRANSFERASEA, B385Thermus thermophilus HB8Mutation(s): 2 
Gene Names: aspCTTHA0046
EC: 2.6.1.1 (PDB Primary Data), 2.6.1.78 (UniProt)
UniProt
Find proteins for Q56232 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
Explore Q56232 
Go to UniProtKB:  Q56232
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ56232
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PLP
Query on PLP

Download Ideal Coordinates CCD File 
D [auth A],
F [auth B]
PYRIDOXAL-5'-PHOSPHATE
C8 H10 N O6 P
NGVDGCNFYWLIFO-UHFFFAOYSA-N
 Ligand Interaction
ASP
Query on ASP

Download Ideal Coordinates CCD File 
C [auth A],
E [auth B]
ASPARTIC ACID
C4 H7 N O4
CKLJMWTZIZZHCS-REOHCLBHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.217 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.75α = 90
b = 74.89β = 90
c = 163.9γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
X-PLORrefinement

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-11-14
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Source and taxonomy, Version format compliance
  • Version 1.3: 2019-10-16
    Changes: Data collection, Database references, Derived calculations
  • Version 1.4: 2021-11-10
    Changes: Database references, Derived calculations