Literature DB >> 36261450

CryoEM structural exploration of catalytically active enzyme pyruvate carboxylase.

Jorge Pedro López-Alonso1,2, Melisa Lázaro1, David Gil-Cartón1,3,2, Philip H Choi4, Liang Tong4, Mikel Valle5.   

Abstract

Pyruvate carboxylase (PC) is a tetrameric enzyme that contains two active sites per subunit that catalyze two consecutive reactions. A mobile domain with an attached prosthetic biotin links both reactions, an initial biotin carboxylation and the subsequent carboxyl transfer to pyruvate substrate to produce oxaloacetate. Reaction sites are at long distance, and there are several co-factors that play as allosteric regulators. Here, using cryoEM we explore the structure of active PC tetramers focusing on active sites and on the conformational space of the oligomers. The results capture the mobile domain at both active sites and expose catalytic steps of both reactions at high resolution, allowing the identification of substrates and products. The analysis of catalytically active PC tetramers reveals the role of certain motions during enzyme functioning, and the structural changes in the presence of additional cofactors expose the mechanism for allosteric regulation.
© 2022. The Author(s).

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Year:  2022        PMID: 36261450      PMCID: PMC9581989          DOI: 10.1038/s41467-022-33987-2

Source DB:  PubMed          Journal:  Nat Commun        ISSN: 2041-1723            Impact factor:   17.694


  52 in total

1.  XMIPP: a new generation of an open-source image processing package for electron microscopy.

Authors:  C O S Sorzano; R Marabini; J Velázquez-Muriel; J R Bilbao-Castro; S H W Scheres; J M Carazo; A Pascual-Montano
Journal:  J Struct Biol       Date:  2004-11       Impact factor: 2.867

2.  Interaction between the biotin carboxyl carrier domain and the biotin carboxylase domain in pyruvate carboxylase from Rhizobium etli.

Authors:  Adam D Lietzan; Ann L Menefee; Tonya N Zeczycki; Sudhanshu Kumar; Paul V Attwood; John C Wallace; W Wallace Cleland; Martin St Maurice
Journal:  Biochemistry       Date:  2011-10-18       Impact factor: 3.162

Review 3.  Cryo-electron microscopy for structural analysis of dynamic biological macromolecules.

Authors:  Kazuyoshi Murata; Matthias Wolf
Journal:  Biochim Biophys Acta Gen Subj       Date:  2017-07-27       Impact factor: 3.770

4.  Structural and functional studies of pyruvate carboxylase regulation by cyclic di-AMP in lactic acid bacteria.

Authors:  Philip H Choi; Thu Minh Ngoc Vu; Huong Thi Pham; Joshua J Woodward; Mark S Turner; Liang Tong
Journal:  Proc Natl Acad Sci U S A       Date:  2017-08-14       Impact factor: 11.205

5.  Domain architecture of pyruvate carboxylase, a biotin-dependent multifunctional enzyme.

Authors:  Martin St Maurice; Laurie Reinhardt; Kathy H Surinya; Paul V Attwood; John C Wallace; W Wallace Cleland; Ivan Rayment
Journal:  Science       Date:  2007-08-24       Impact factor: 47.728

6.  Acetyl-CoA-dependent pyruvate carboxylase from the photosynthetic bacterium Rhodobacter capsulatus: rapid and efficient purification using dye-ligand affinity chromatography.

Authors:  H V Modak; D J Kelly
Journal:  Microbiology (Reading)       Date:  1995-10       Impact factor: 2.777

7.  CTFFIND4: Fast and accurate defocus estimation from electron micrographs.

Authors:  Alexis Rohou; Nikolaus Grigorieff
Journal:  J Struct Biol       Date:  2015-08-13       Impact factor: 2.867

8.  New tools for automated high-resolution cryo-EM structure determination in RELION-3.

Authors:  Jasenko Zivanov; Takanori Nakane; Björn O Forsberg; Dari Kimanius; Wim Jh Hagen; Erik Lindahl; Sjors Hw Scheres
Journal:  Elife       Date:  2018-11-09       Impact factor: 8.140

Review 9.  Pyruvate carboxylase and cancer progression.

Authors:  Violet A Kiesel; Madeline P Sheeley; Michael F Coleman; Eylem Kulkoyluoglu Cotul; Shawn S Donkin; Stephen D Hursting; Michael K Wendt; Dorothy Teegarden
Journal:  Cancer Metab       Date:  2021-04-30

10.  An ensemble of cryo-EM structures of TRiC reveal its conformational landscape and subunit specificity.

Authors:  Mingliang Jin; Wenyu Han; Caixuan Liu; Yunxiang Zang; Jiawei Li; Fangfang Wang; Yanxing Wang; Yao Cong
Journal:  Proc Natl Acad Sci U S A       Date:  2019-09-06       Impact factor: 11.205

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