4P69

Acek (D477A) ICDH complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.180 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history. 


Literature

The phosphatase mechanism of bifunctional kinase/phosphatase AceK.

Wang, S., Shen, Q., Chen, G., Zheng, J., Tan, H., Jia, Z.

(2014) Chem Commun (Camb) 50: 14117-14120

  • DOI: https://doi.org/10.1039/c4cc05375c
  • Primary Citation of Related Structures:  
    4P69

  • PubMed Abstract: 

    We have revealed that bifunctional AceK kinase/phosphatase utilizes a stepwise addition-elimination mechanism in its dephosphorylation reaction. This work explains how AceK enables opposite kinase and phosphatase activities with Asp477 and a single Mg(2+) ion.

    • Organizational Affiliation: 

    College of Chemistry, Beijing Normal University, Beijing, 100875, China. [email protected] [email protected].


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isocitrate dehydrogenase kinase/phosphatase
A, B
568Escherichia coli O157:H7Mutation(s): 1 
Gene Names: aceK, Z5602, ECs4934
EC: 2.7.11.5 (PDB Primary Data), 3.1.3 (PDB Primary Data)
UniProt
Find proteins for Q8X607 (Escherichia coli O157:H7)
Explore Q8X607 
Go to UniProtKB:  Q8X607
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8X607
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Isocitrate dehydrogenase [NADP]
C, D
415Escherichia coli K-12Mutation(s): 0 
Gene Names: icd, icdA, icdE, b1136, JW1122
EC: 1.1.1.42
UniProt
Find proteins for P08200 (Escherichia coli (strain K12))
Explore P08200 
Go to UniProtKB:  P08200
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08200
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.180 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 198.16α = 90
b = 198.16β = 90
c = 156.071γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-10-08
    Type: Initial release
  • Version 1.1: 2017-11-22
    Changes: Advisory, Data collection, Database references, Derived calculations, Other, Refinement description, Source and taxonomy
  • Version 1.2: 2018-05-16
    Changes: Data collection, Database references
  • Version 1.3: 2018-05-30
    Changes: Advisory, Data collection, Derived calculations, Source and taxonomy
  • Version 1.4: 2023-12-27
    Changes: Data collection, Database references, Refinement description