8BPQ | pdb_00008bpq

crystal structure of N-ethylmaleimide reductase with mutation Y187F (nemA Y187F) from Escherichia coli

• PDB DOI: https://doi.org/10.2210/pdb8BPQ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2022-11-17 Released: 2024-06-05 
• Deposition Author(s): Pfister, P., Tinzl, M., Erb, T.
• Funding Organization(s): Max Planck Society, European Research Council (ERC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.245 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.196 (Depositor) 

Literature

Development of the Biocatalytic Reductive Aldol Reaction

Tinzl, M., Stoffel, G.M.M., Saez, D.A., Gerlinger, P.D., Recabarren, R., Bradley, T., Westedt, H., Pfister, P., Gomez, A., Ebert, M.O., Voehringer-Martinez, E., Erb, T.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Macromolecule Content

• Total Structure Weight: 121.68 kDa 
• Atom Count: 9,206 
• Modelled Residue Count: 1,086 
• Deposited Residue Count: 1,095 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
N-ethylmaleimide reductase	A, B, C	365	Escherichia coli	Mutation(s): 1  Gene Names: nemA, ydhN, b1650, JW1642 EC: 1.3.1
UniProt
Find proteins for P77258 (Escherichia coli (strain K12)) Explore P77258  Go to UniProtKB:  P77258

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
7MT	E [auth A], G [auth B], I [auth C]	Tb-Xo4 C20 H23 N5 O4 Tb JWLMJALAUZUFRC-UHFFFAOYSA-L
FMN (Subject of Investigation/LOI)	D [auth A], F [auth B], H [auth C]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.245 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.196 (Depositor) 

Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.062	α = 90
b = 96.062	β = 90
c = 100.35	γ = 120

Software Package:

Software Name	Purpose
SCALA	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-05 
Deposition Author(s): Pfister, P., Tinzl, M., Erb, T.

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Funding Organization	Location	Grant Number
Max Planck Society	Germany	190003
European Research Council (ERC)	European Union	637675

Revision History  

• Version 1.0: 2024-06-05
  Type: Initial release