8QFU | pdb_00008qfu

Diels-Alderase AbyU mutant - Y76F

• PDB DOI: https://doi.org/10.2210/pdb8QFU/pdb
• Entry: 8QFU supersedes: 7Z6P

• Classification: LIGASE
• Organism(s): Micromonospora maris AB-18-032
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2023-09-05 Released: 2024-09-18 
• Deposition Author(s): Tiwari, K., Burton, N.M., Yang, S., Race, P.R.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 
  0.208 (Depositor), 0.204 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.170 (DCC) 

Starting Model: experimental

Literature

Structure of Diels-Alderase AbyU mutant Y76F at 1.56 Angstroms resolution.

Tiwari, K., Burton, N.M., Yang, S., Race, P.R.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 71.94 kDa 
• Atom Count: 4,697 
• Modeled Residue Count: 532 
• Deposited Residue Count: 640 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
YD repeat-containing protein	A, B, C, D	160	Micromonospora maris AB-18-032	Mutation(s): 1  Gene Names: VAB18032_16470

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	E [auth A], F [auth B], G [auth C], H [auth D]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free:  0.208 (Depositor), 0.204 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.170 (DCC) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.71	α = 90.11
b = 53.82	β = 96.98
c = 60.48	γ = 94.66

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-09-18 
Deposition Author(s): Tiwari, K., Burton, N.M., Yang, S., Race, P.R.
• This entry supersedes: 7Z6P

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/T001968/1
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/M012107/1
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/M025624/1

Revision History  

• Version 1.0: 2024-09-18
  Type: Initial release