Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 19337.24 
• Atom Count: 1414 
• Residue Count: 160 
• Unique protein chains: 1

3QL0

Crystal structure of N23PP/S148A mutant of E. coli dihydrofolate reductase

• DOI: 10.2210/pdb3QL0/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Escherichia coli (strain UTI89 / UPEC)
• Expression System: Escherichia coli
• Mutation(s): 2 


• Deposited: 2011-02-02 Released: 2011-04-20 
• Deposition Author(s): Bhabha, G., Ekiert, D.C., Wright, P.E., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.6 Å
• R-Value Free: 0.245 
• R-Value Work: 0.208 

Literature

A dynamic knockout reveals that conformational fluctuations influence the chemical step of enzyme catalysis.

Bhabha, G., Lee, J., Ekiert, D.C., Gam, J., Wilson, I.A., Dyson, H.J., Benkovic, S.J., Wright, P.E.

(2011) Science 332: 234-238

• PubMed: 21474759 
• DOI: 10.1126/science.1198542
• Primary Citation of Related Structures:  
  3QL3


• PubMed Abstract: 
  

Conformational dynamics play a key role in enzyme catalysis. Although protein motions have clear implications for ligand flux, a role for dynamics in the chemical step of enzyme catalysis has not been clearly established. We generated a mutant of Escherichia coli dihydrofolate reductase that abrogates millisecond-time-scale fluctuations in the enzyme active site without perturbing its structural and electrostatic preorganization. This dynamic knockout severely impairs hydride transfer. Thus, we have found a link between conformational fluctuations on the millisecond time scale and the chemical step of an enzymatic reaction, with broad implications for our understanding of enzyme mechanisms and for design of novel protein catalysts.

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Organizational Affiliation: 

Department of Molecular Biology and Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Dihydrofolate reductase	A	160	Escherichia coli (strain UTI89 / UPEC)	Mutation(s): 2  Gene Names: folA EC: 1.5.1.3
Find proteins for Q1RGF0 (Escherichia coli (strain UTI89 / UPEC)) Go to UniProtKB:  Q1RGF0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
NA	A	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N
NAP	A	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N
FOL	A	FOLIC ACID C19 H19 N7 O6 OVBPIULPVIDEAO-LBPRGKRZSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.6 Å
• R-Value Free: 0.245 
• R-Value Work: 0.208 
• Space Group: P 3₂ 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 79.662	α = 90.00
b = 79.662	β = 90.00
c = 71.464	γ = 120.00

Software Package:

Software Name	Purpose
Blu-Ice	data collection
REFMAC	refinement
XPREP	data reduction
PHASER	phasing
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-02-02 
• Released Date: 2011-04-20 
• Deposition Author(s): Bhabha, G., Ekiert, D.C., Wright, P.E., Wilson, I.A.

Revision History 

• Version 1.0: 2011-04-20
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance
• Version 1.2: 2014-11-12
  Type: Structure summary