Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 19.34 kDa 
• Atom Count: 1613 
• 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 UTI89
• Expression System: Escherichia coli
• Mutation(s): Yes 


• 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: 1.60 Å
• R-Value Free: 0.245 
• R-Value Work: 0.208 
• R-Value Observed: 0.210 

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
• Structures With Same Primary Citation


• 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

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Dihydrofolate reductase	A	160	Escherichia coli UTI89	Mutation(s): 2  Gene Names: folA, UTI89_C0054 EC: 1.5.1.3
Find proteins for Q1RGF0 (Escherichia coli (strain UTI89 / UPEC)) Explore Q1RGF0  Go to UniProtKB:  Q1RGF0

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.245 
• R-Value Work: 0.208 
• R-Value Observed: 0.210 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.662	α = 90
b = 79.662	β = 90
c = 71.464	γ = 120

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
XPREP	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
  Changes: Version format compliance
• Version 1.2: 2014-11-12
  Changes: Structure summary