4C3Q | pdb_00004c3q

Neutron structure of a perdeuterated Toho-1 R274N R276N double mutant Beta-lactamase in complex with a fully deuterated boronic acid (BZB) at 100K

• PDB DOI: https://doi.org/10.2210/pdb4C3Q/pdb

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


• Deposited: 2013-08-26 Released: 2014-07-09 
• Deposition Author(s): Coates, L., Tomanicek, S.J., Schrader, T., Weiss, K.L., Ng, J.D., Ostermann, A.

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Experimental Data Snapshot

• Method: NEUTRON DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.240 (Depositor) 
• R-Value Work: 
  0.192 (Depositor) 
• R-Value Observed: 
  0.194 (Depositor) 

Literature

Cryogenic Neutron Protein Crystallography: Routine Methods and Potential Benefits

Coates, L., Tomanicek, S.J., Schrader, T., Weiss, K.L., Ng, J.D., Ostermann, A.

(2014) J Appl Crystallogr 47

• DOI: https://doi.org/10.1107/S1600576714010772

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 28.28 kDa 
• Atom Count: 2,107 
• Modeled Residue Count: 261 
• Deposited Residue Count: 261 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BETA-LACTAMASE TOHO-1	A	261	Escherichia coli BL21	Mutation(s): 2  EC: 3.5.2.6
UniProt
Find proteins for Q47066 (Escherichia coli) Explore Q47066  Go to UniProtKB:  Q47066

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BZB	B [auth A]	BENZO[B]THIOPHENE-2-BORONIC ACID C8 H7 B O2 S YNCYPMUJDDXIRH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: NEUTRON DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.240 (Depositor) 
• R-Value Work:  0.192 (Depositor) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.889	α = 90
b = 72.889	β = 90
c = 98.189	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-07-09 
Deposition Author(s): Coates, L., Tomanicek, S.J., Schrader, T., Weiss, K.L., Ng, J.D., Ostermann, A.

Revision History  

• Version 1.0: 2014-07-09
  Type: Initial release
  
• Version 1.1: 2017-03-22
  Changes: Atomic model, Data collection
• Version 1.2: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary