8BRS | pdb_00008brs

Crystal structure of a variant of penicillin G acylase from Bacillaceae i. s. sp. FJAT-27231 with reduced surface entropy and additionally engineered crystal contact.

• PDB DOI: https://doi.org/10.2210/pdb8BRS/pdb

• Classification: HYDROLASE
• Organism(s): Bacillus sp. FJAT-27231
• Expression System: Priestia megaterium
• Mutation(s): Yes 


• Deposited: 2022-11-23 Released: 2023-05-03 
• Deposition Author(s): Wichmann, J., Mayer, J., Mattes, H., Lukat, P., Blankenfeldt, W., Biedendieck, R.
• Funding Organization(s): German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 
  0.156 (Depositor), 0.160 (DCC) 
• R-Value Work: 
  0.144 (Depositor), 0.140 (DCC) 
• R-Value Observed: 
  0.145 (Depositor) 

Starting Model: experimental

Literature

Multistep Engineering of a Penicillin G Acylase for Systematic Improvement of Crystallization Efficiency

Wichmann, J., Mayer, J., Hintmann, M., Lukat, P., Blankenfeldt, W., Biedendieck, R.

(2023) Cryst Growth Des 

• DOI: https://doi.org/10.1021/acs.cgd.2c01408

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 86.66 kDa 
• Atom Count: 6,797 
• Modeled Residue Count: 719 
• Deposited Residue Count: 750 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin G acylase	A	212	Bacillus sp. FJAT-27231	Mutation(s): 3  Gene Names: AC623_04440

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin G acylase	B	538	Bacillus sp. FJAT-27231	Mutation(s): 7  Gene Names: AC623_04440

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	C [auth B]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
BU3	D [auth B], E [auth B], F [auth B]	(R,R)-2,3-BUTANEDIOL C4 H10 O2 OWBTYPJTUOEWEK-QWWZWVQMSA-N
CA	G [auth B], H [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free:  0.156 (Depositor), 0.160 (DCC) 
• R-Value Work:  0.144 (Depositor), 0.140 (DCC) 
• R-Value Observed: 0.145 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.322	α = 90
b = 101.627	β = 90
c = 139.435	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data processing
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-05-03 
Deposition Author(s): Wichmann, J., Mayer, J., Mattes, H., Lukat, P., Blankenfeldt, W., Biedendieck, R.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	--

Revision History  

• Version 1.0: 2023-05-03
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection