8XIY | pdb_00008xiy

Crystal structure of an omega-transaminase mutant I77L/Q97E/H210N/N245D from Aspergillus terreus in complex with PLP

• PDB DOI: https://doi.org/10.2210/pdb8XIY/pdb

• Classification: TRANSFERASE
• Organism(s): Aspergillus terreus NIH2624
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2023-12-20 Released: 2024-02-07 
• Deposition Author(s): Lu, Z.Y., Hu, D., Xu, D.Z., He, Y.C.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 
  0.216 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.171 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.173 (Depositor) 

Starting Model: experimental

Literature

Efficient bioamination with an omega-transaminase mutant from Aspergillus terreus

He, Y.C.

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 (software)

Biological Assembly Evidence: homology

Macromolecule Content 

• Total Structure Weight: 75.25 kDa 
• Atom Count: 5,515 
• Modeled Residue Count: 638 
• Deposited Residue Count: 670 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-aminoacid aminotransferase-like PLP-dependent enzyme	A, B	335	Aspergillus terreus NIH2624	Mutation(s): 4  Gene Names: ATEG_10023
UniProt
Find proteins for Q0C8G1 (Aspergillus terreus (strain NIH 2624 / FGSC A1156)) Explore Q0C8G1  Go to UniProtKB:  Q0C8G1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLP (Subject of Investigation/LOI)	C [auth A], D [auth B]	PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free:  0.216 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.171 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.173 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.42	α = 90
b = 135.79	β = 90
c = 116.93	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data scaling
HKL-3000	data reduction
AMPLE	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-02-07 
Deposition Author(s): Lu, Z.Y., Hu, D., Xu, D.Z., He, Y.C.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	21978072

Revision History  

• Version 1.0: 2024-02-07
  Type: Initial release