4UUG | pdb_00004uug

The (R)-selective amine transaminase from Aspergillus fumigatus with inhibitor bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 
    0.148 (Depositor), 0.158 (DCC) 
  • R-Value Work: 
    0.134 (Depositor), 0.146 (DCC) 
  • R-Value Observed: 
    0.134 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history

Literature

Structural and Biochemical Characterization of the Dual Substrate Recognition of the (R)-Selective Amine Transaminase from Aspergillus Fumigatus

Skalden, L.Thomsen, M.Hohne, M.Bornscheuer, U.T.Hinrichs, W.

(2015) FEBS J 282: 407

  • DOI: https://doi.org/10.1111/febs.13149
  • Primary Citation Related Structures: 
    4UUG

  • PubMed Abstract: 

    Chiral amines are important precursors for the pharmaceutical and fine-chemical industries. Because of this, the demand for enantiopure amines is currently increasing. Amine transaminases can produce a large spectrum of chiral amines in the (R)- or (S)-configuration, depending on their substrate scope and stereo-preference, by converting a prochiral ketone into the chiral amine while using alanine as the amine donor producing pyruvate as an α-keto acid product. In order to guide the protein engineering of transaminases to improve substrate specificity and enantioselectivity, we carried out a crystal structure analysis at 1.6 Å resolution of the (R)-amine transaminase from Aspergillus fumigatus with the bound inhibitor gabaculine. This revealed that Arg126 has an important role in the dual substrate recognition of this enzyme because mutating this residue to alanine reduced substantially the ability of the enzyme to use pyruvate as an amino acceptor.


  • Organizational Affiliation
    • Institut für Biochemie, Universität Greifswald, Germany.

Macromolecule Content 

  • Total Structure Weight: 75.66 kDa 
  • Atom Count: 6,503 
  • Modeled Residue Count: 641 
  • Deposited Residue Count: 664 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
AMINE TRANSAMINASE
A, B
332Aspergillus fumigatus Af293Mutation(s): 0 
EC: 2.6.1.42 (PDB Primary Data), 2.6.1 (UniProt)
UniProt
Find proteins for Q4WH08 (Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293))
Explore Q4WH08 
Go to UniProtKB:  Q4WH08
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4WH08
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PXG

Query on PXG



Download:Ideal Coordinates CCD File
C [auth A],
H [auth B]
3-[O-PHOSPHONOPYRIDOXYL]--AMINO-BENZOIC ACID
C15 H17 N2 O7 P
WSOQXCGRIUHULI-UHFFFAOYSA-N
MRD

Query on MRD



Download:Ideal Coordinates CCD File
D [auth A](4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
MPD

Query on MPD



Download:Ideal Coordinates CCD File
I [auth B](4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
FMT

Query on FMT



Download:Ideal Coordinates CCD File
E [auth A]
F [auth A]
G [auth A]
J [auth B]
K [auth B]
E [auth A],
F [auth A],
G [auth A],
J [auth B],
K [auth B],
L [auth B]
FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
NA

Query on NA



Download:Ideal Coordinates CCD File
M [auth B]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free:  0.148 (Depositor), 0.158 (DCC) 
  • R-Value Work:  0.134 (Depositor), 0.146 (DCC) 
  • R-Value Observed: 0.134 (Depositor) 
Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 144.449α = 90
b = 144.449β = 90
c = 96.112γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-11-26
    Type: Initial release
  • Version 1.1: 2015-02-04
    Changes: Database references
  • Version 1.2: 2022-05-04
    Changes: Data collection, Database references, Derived calculations, Other
  • Version 1.3: 2024-01-10
    Changes: Data collection, Refinement description