New insights into the mechanism of substrates trafficking in Glyoxylate/Hydroxypyruvate reductases

被引:25
作者
Lassalle, Louise [1 ,2 ,3 ]
Engilberge, Sylvain [1 ,2 ,3 ]
Madern, Dominique [1 ,2 ,3 ]
Vauclare, Pierre [1 ,2 ,3 ]
Franzetti, Bruno [1 ,2 ,3 ]
Girard, Eric [1 ,2 ,3 ]
机构
[1] Univ Grenoble Alpes, IBS, F-38044 Grenoble, France
[2] CNRS, IBS, F-38044 Grenoble, France
[3] CEA, IBS, F-38044 Grenoble, France
关键词
ARCHAEAL GLYOXYLATE REDUCTASE; HYDROXYPYRUVATE REDUCTASE; STRUCTURAL BASIS; GENE; DEHYDROGENASE; EXPRESSION; PROTEIN; MODEL; SPECIFICITY; SEQUENCE;
D O I
10.1038/srep20629
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Glyoxylate accumulation within cells is highly toxic. In humans, it is associated with hyperoxaluria type 2 (PH2) leading to renal failure. The glyoxylate content within cells is regulated by the NADPH/NADH dependent glyoxylate/hydroxypyruvate reductases (GRHPR). These are highly conserved enzymes with a dual activity as they are able to reduce glyoxylate to glycolate and to convert hydroxypyruvate into D-glycerate. Despite the determination of high-resolution X-ray structures, the substrate recognition mode of this class of enzymes remains unclear. We determined the structure at 2.0 angstrom resolution of a thermostable GRHPR from Archaea as a ternary complex in the presence of D-glycerate and NADPH. This shows a binding mode conserved between human and archeal enzymes. We also determined the first structure of GRHPR in presence of glyoxylate at 1.40 angstrom resolution. This revealed the pivotal role of Leu53 and Trp138 in substrate trafficking. These residues act as gatekeepers at the entrance of a tunnel connecting the active site to protein surface. Taken together, these results allowed us to propose a general model for GRHPR mode of action.
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页数:12
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共 39 条
[1]   Methods used in the structure determination of bovine mitochondrial F-1 ATPase [J].
Abrahams, JP ;
Leslie, AGW .
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 1996, 52 :30-42
[2]   PHENIX: a comprehensive Python']Python-based system for macromolecular structure solution [J].
Adams, Paul D. ;
Afonine, Pavel V. ;
Bunkoczi, Gabor ;
Chen, Vincent B. ;
Davis, Ian W. ;
Echols, Nathaniel ;
Headd, Jeffrey J. ;
Hung, Li-Wei ;
Kapral, Gary J. ;
Grosse-Kunstleve, Ralf W. ;
McCoy, Airlie J. ;
Moriarty, Nigel W. ;
Oeffner, Robert ;
Read, Randy J. ;
Richardson, David C. ;
Richardson, Jane S. ;
Terwilliger, Thomas C. ;
Zwart, Peter H. .
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2010, 66 :213-221
[3]   Glycolate and glyoxylate metabolism in HepG2 cells [J].
Baker, PRS ;
Cramer, SD ;
Kennedy, M ;
Assimos, DG ;
Holmes, RP .
AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY, 2004, 287 (05) :C1359-C1365
[4]   Structural basis of substrate specificity in human glyoxylate reductase/hydroxypyruvate reductase [J].
Booth, Michael P. S. ;
Conners, R. ;
Rumsby, Gill ;
Brady, R. Leo .
JOURNAL OF MOLECULAR BIOLOGY, 2006, 360 (01) :178-189
[5]   Generation, representation and flow of phase information in structure determination:: recent developments in and around SHARP 2.0 [J].
Bricogne, G ;
Vonrhein, C ;
Flensburg, C ;
Schiltz, M ;
Paciorek, W .
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 2003, 59 :2023-2030
[6]   The Buccaneer software for automated model building.: 1.: Tracing protein chains [J].
Cowtan, Kevin .
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY, 2006, 62 :1002-1011
[7]   Molecular Analysis of the Glyoxylate Reductase (GRHPR) Gene and Description of Mutations Underlying Primary Hyperoxaluria Type 2 [J].
Cregeen, David P. ;
Williams, Emma L. ;
Hulton, Sally ;
Rumsby, Gill .
HUMAN MUTATION, 2003, 22 (06)
[8]   Better models by discarding data? [J].
Diederichs, K. ;
Karplus, P. A. .
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2013, 69 :1215-1222
[9]  
Diederichs K, 2016, METHODS MOL BIOL, V1320, P147, DOI 10.1007/978-1-4939-2763-0_10
[10]   Recombinant production of eight human cytosolic aminotransferases and assessment of their potential involvement in glyoxylate metabolism [J].
Donini, Stefano ;
Ferrari, Manuela ;
Fedeli, Chiara ;
Faini, Marco ;
Lamberto, Ilaria ;
Marletta, Ada Serena ;
Mellini, Lara ;
Panini, Michela ;
Percudani, Riccardo ;
Pollegioni, Loredano ;
Caldinelli, Laura ;
Petrucco, Stefania ;
Peracchi, Alessio .
BIOCHEMICAL JOURNAL, 2009, 422 :265-272