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.

Macromolecule Content

• Total Structure Weight: 29228.68 
• Atom Count: 2001 
• Residue Count: 261 
• Unique protein chains: 1

1YNS

Crystal Structure Of Human Enolase-phosphatase E1 and its complex with a substrate analog

• DOI: 10.2210/pdb1YNS/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2005-01-25 Released: 2005-05-17 
• Deposition Author(s): Wang, H., Pang, H., Bartlam, M., Rao, Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.7 Å
• R-Value Free: 0.234 
• R-Value Work: 0.225 

Literature

Crystal structure of human e1 enzyme and its complex with a substrate analog reveals the mechanism of its phosphatase/enolase

Wang, H., Pang, H., Bartlam, M., Rao, Z.

(2005) J.Mol.Biol. 348: 917-926

• PubMed: 15843022 
• DOI: 10.1016/j.jmb.2005.01.072
• Primary Citation of Related Structures:  
  1ZS9, 1WDH


• PubMed Abstract: 
  

Enolase-phosphatase E1 (MASA) is a bifunctional enzyme in the ubiquitous methionine salvage pathway that catalyzes the continuous reactions of 2,3-diketo-5-methylthio-1-phosphopentane to yield the aci-reductone metabolite using Mg2+ as cofactor. In this study, we have determined the crystal structure of MASA and its complex with a substrate analog to 1.7A resolution by multi-wavelength anomalous diffraction and molecular replacement techniques, respectively. The structures support the proposed mechanism of phosphatase activity and further suggest the probable mechanism of enolization. We establish a model for substrate binding to describe in detail the enzymatic reaction and the formation of the transition state, which will provide insight into the reaction mechanisms of other enzymes in the same family.

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Organizational Affiliation: 

Laboratory of Structural Biology, School of Medicine, Tsinghua University, Beijing 100084, China.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
E-1 enzyme	A	261	Homo sapiens	Mutation(s): 0  Gene Names: ENOPH1 (MASA) EC: 3.1.3.77
Find proteins for Q9UHY7 (Homo sapiens) Go to Gene View: ENOPH1 Go to UniProtKB:  Q9UHY7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
HPO	A	2-OXOHEPTYLPHOSPHONIC ACID C7 H15 O4 P ACMQFLCUSWMWKH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.7 Å
• R-Value Free: 0.234 
• R-Value Work: 0.225 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 54.017	α = 90.00
b = 57.546	β = 90.00
c = 87.318	γ = 90.00

Software Package:

Software Name	Purpose
CNS	phasing
CNS	refinement
HKL-2000	data collection
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-01-25 
• Released Date: 2005-05-17 
• Deposition Author(s): Wang, H., Pang, H., Bartlam, M., Rao, Z.

Revision History 

• Version 1.0: 2005-05-17
  Type: Initial release
• Version 1.1: 2008-04-30
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-10-11
  Type: Refinement description