5YY3

Crystal structure of AsqI

• PDB DOI: https://doi.org/10.2210/pdb5YY3/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Aspergillus nidulans FGSC A4
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-12-07 Released: 2018-08-01 
• Deposition Author(s): Hara, K., Hashimoto, H., Kishimoto, S., Watanabe, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free: 
  0.220 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Literature

Enzymatic one-step ring contraction for quinolone biosynthesis.

Kishimoto, S., Hara, K., Hashimoto, H., Hirayama, Y., Champagne, P.A., Houk, K.N., Tang, Y., Watanabe, K.

(2018) Nat Commun 9: 2826-2826

• PubMed: 30026518 
• DOI: https://doi.org/10.1038/s41467-018-05221-5
• Primary Citation of Related Structures:  
  5YY2, 5YY3


• PubMed Abstract: 
  

  The 6,6-quinolone scaffolds on which viridicatin-type fungal alkaloids are built are frequently found in metabolites that display useful biological activities. Here we report in vitro and computational analyses leading to the discovery of a hemocyanin-like protein AsqI from the Aspergillus nidulans aspoquinolone biosynthetic pathway that forms viridicatins via a conversion of the cyclopenin-type 6,7-bicyclic system into the viridicatin-type 6,6-bicyclic core through elimination of carbon dioxide and methylamine through methyl isocyanate.

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Organizational Affiliation: 

Department of Pharmaceutical Sciences, University of Shizuoka, Shizuoka, 422-8526, Japan.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 85.64 kDa 
• Atom Count: 4,943 
• Modelled Residue Count: 577 
• Deposited Residue Count: 749 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein AsqI	A	749	Aspergillus nidulans FGSC A4	Mutation(s): 0  Gene Names: ANIA_11193 EC: 4.1.99.27
UniProt
Find proteins for C8VJQ3 (Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139)) Explore C8VJQ3  Go to UniProtKB:  C8VJQ3

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free:  0.220 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.082	α = 90
b = 117.435	β = 90
c = 159	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-08-01 
Deposition Author(s): Hara, K., Hashimoto, H., Kishimoto, S., Watanabe, K.

Revision History  

• Version 1.0: 2018-08-01
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references