Literature DB >> 9201917

Crystal structure of holo inorganic pyrophosphatase from Escherichia coli at 1.9 A resolution. Mechanism of hydrolysis.

E H Harutyunyan1, V Y Oganessyan, N N Oganessyan, S M Avaeva, T I Nazarova, N N Vorobyeva, S A Kurilova, R Huber, T Mather.   

Abstract

Crystalline holo inorganic pyrophosphatase from Escherichia coli was grown in the presence of 250 mM MgCl2. The crystal structure has been solved by Patterson search techniques and refined to an R-factor of 17.6% at 1.9 A resolution. The upper estimate of the root-mean-square error in atomic positions is 0.26 A. These crystals belong to space group P3(2)21 with unit cell dimensions a = b = 110.27 A and c = 78.17 A. The asymmetric unit contains a trimer of subunits, i.e., half of the hexameric molecule. In the central cavity of the enzyme molecule, three Mg2+ ions, each shared by two subunits of the hexamer, are found. In the active sites of two crystallographically independent subunits, two Mg2+ ions are bound. The second active site Mg2+ ion is missing in the third subunit. A mechanism of catalysis is proposed whereby a water molecule activated by a Mg2+ ion and Tyr 55 play essential roles.

Entities:  

Mesh:

Substances:

Year:  1997        PMID: 9201917     DOI: 10.1021/bi962637u

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  10 in total

1.  Structures of Trypanosome Vacuolar Soluble Pyrophosphatases: Antiparasitic Drug Targets.

Authors:  Yunyun Yang; Tzu-Ping Ko; Chun-Chi Chen; Guozhong Huang; Yingying Zheng; Weidong Liu; Iren Wang; Meng-Ru Ho; Shang-Te Danny Hsu; Bing O'Dowd; Hannah C Huff; Chun-Hsiang Huang; Roberto Docampo; Eric Oldfield; Rey-Ting Guo
Journal:  ACS Chem Biol       Date:  2016-03-04       Impact factor: 5.100

2.  Inorganic pyrophosphatase crystals from Thermococcus thioreducens for X-ray and neutron diffraction.

Authors:  Ronny C Hughes; Leighton Coates; Matthew P Blakeley; Steve J Tomanicek; Paul Langan; Andrey Y Kovalevsky; Juan M García-Ruiz; Joseph D Ng
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2012-11-14

3.  Predicting Ca2+ -binding sites using refined carbon clusters.

Authors:  Kun Zhao; Xue Wang; Hing C Wong; Robert Wohlhueter; Michael P Kirberger; Guantao Chen; Jenny J Yang
Journal:  Proteins       Date:  2012-07-31

4.  Sulfolobus acidocaldarius inorganic pyrophosphatase: structure, thermostability, and effect of metal ion in an archael pyrophosphatase.

Authors:  V M Leppänen; H Nummelin; T Hansen; R Lahti; G Schäfer; A Goldman
Journal:  Protein Sci       Date:  1999-06       Impact factor: 6.725

5.  Structure of the Mycobacterium tuberculosis soluble inorganic pyrophosphatase Rv3628 at pH 7.0.

Authors:  Stefano Benini; Keith Wilson
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-07-26

6.  Mechanism by which metal cofactors control substrate specificity in pyrophosphatase.

Authors:  Anton B Zyryanov; Alexander S Shestakov; Reijo Lahti; Alexander A Baykov
Journal:  Biochem J       Date:  2002-11-01       Impact factor: 3.857

7.  Binding site in eag voltage sensor accommodates a variety of ions and is accessible in closed channel.

Authors:  William R Silverman; John P A Bannister; Diane M Papazian
Journal:  Biophys J       Date:  2004-09-03       Impact factor: 4.033

8.  Mg(2+) modulates voltage-dependent activation in ether-à-go-go potassium channels by binding between transmembrane segments S2 and S3.

Authors:  W R Silverman; C Y Tang; A F Mock; K B Huh; D M Papazian
Journal:  J Gen Physiol       Date:  2000-11       Impact factor: 4.086

9.  First attempts to crystallize a non-homogeneous sample of thioredoxin from Litopenaeus vannamei: What to do when you have diffraction data of a protein that is not the target?

Authors:  Adam A Campos-Acevedo; Adelaida Díaz-Vilchis; Rogerio R Sotelo-Mundo; Enrique Rudiño-Piñera
Journal:  Biochem Biophys Rep       Date:  2016-10-15

10.  The structure of a purple acid phosphatase involved in plant growth and pathogen defence exhibits a novel immunoglobulin-like fold.

Authors:  Svetlana Vladimirovna Antonyuk; Mariusz Olczak; Teresa Olczak; Justyna Ciuraszkiewicz; Richard William Strange
Journal:  IUCrJ       Date:  2014-02-28       Impact factor: 4.769

  10 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.