Redox-dependent rearrangements of the NiFeS cluster of carbon monoxide dehydrogenase

被引:40
作者
Wittenborn, Elizabeth C. [1 ,7 ]
Merrouch, Meriem [2 ]
Ueda, Chie [3 ]
Fradale, Laura [2 ]
Leger, Christophe [2 ]
Fourmond, Vincent [2 ]
Pandelia, Maria-Eirini [3 ]
Dementin, Sebastien [2 ]
Drennan, Catherine L. [1 ,4 ,5 ,6 ]
机构
[1] MIT, Dept Chem, Cambridge, MA 02139 USA
[2] Aix Marseille Univ, CNRS, Lab Bioenerget & Ingn Prot, Marseille, France
[3] Brandeis Univ, Dept Chem, Waltham, MA 02254 USA
[4] MIT, Dept Biol, Cambridge, MA 02139 USA
[5] MIT, Howard Hughes Med Inst, Cambridge, MA 02139 USA
[6] Canadian Inst Adv Res, Bioinspired Solar Energy Program, Toronto, ON, Canada
[7] Univ Calif Berkeley, Calif Inst Quantitat Biosci, Berkeley, CA 94720 USA
来源
ELIFE | 2018年 / 7卷
基金
美国国家卫生研究院;
关键词
CO DEHYDROGENASE; ACTIVE-SITE; ACETYL-COA; CLOSTRIDIUM-THERMOACETICUM; CRYSTAL-STRUCTURE; STRUCTURAL BASIS; NI; MECHANISM; OXIDATION; SYNTHASE;
D O I
10.7554/eLife.39451
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
The C-cluster of the enzyme carbon monoxide dehydrogenase (CODH) is a structurally distinctive Ni-Fe-S cluster employed to catalyze the reduction of CO2 to CO as part of the Wood-Ljungdahl carbon fixation pathway. Using X-ray crystallography, we have observed unprecedented conformational dynamics in the C-cluster of the CODH from Desulfovibrio vulgaris, providing the first view of an oxidized state of the cluster. Combined with supporting spectroscopic data, our structures reveal that this novel, oxidized cluster arrangement plays a role in avoiding irreversible oxidative degradation at the C-cluster. Furthermore, mutagenesis of a conserved cysteine residue that binds the C-cluster in the oxidized state but not in the reduced state suggests that the oxidized conformation could be important for proper cluster assembly, in particular Ni incorporation. Together, these results lay a foundation for future investigations of C-cluster activation and assembly, and contribute to an emerging paradigm of metallocluster plasticity.
引用
收藏
页数:17
相关论文
共 52 条
  • [1] PHENIX: a comprehensive Python']Python-based system for macromolecular structure solution
    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.
    [J]. ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2010, 66 : 213 - 221
  • [2] Spectroscopic states of the CO oxidation CO2 reduction active site of carbon monoxide dehydrogenase and mechanistic implications
    Anderson, ME
    Lindahl, PA
    [J]. BIOCHEMISTRY, 1996, 35 (25) : 8371 - 8380
  • [3] ORGANIZATION OF CLUSTERS AND INTERNAL ELECTRON PATHWAYS IN CO DEHYDROGENASE FROM CLOSTRIDIUM-THERMOACETICUM - RELEVANCE TO THE MECHANISM OF CATALYSIS AND CYANIDE INHIBITION
    ANDERSON, ME
    LINDAHL, PA
    [J]. BIOCHEMISTRY, 1994, 33 (29) : 8702 - 8711
  • [4] MICROBIAL-METABOLISM OF CARBON-MONOXIDE IN CULTURE AND IN SOIL
    BARTHOLOMEW, GW
    ALEXANDER, M
    [J]. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 1979, 37 (05) : 932 - 937
  • [5] Iron-sulfur clusters: Nature's modular, multipurpose structures
    Beinert, H
    Holm, RH
    Munck, E
    [J]. SCIENCE, 1997, 277 (5326) : 653 - 659
  • [6] Improvement of molecular-replacement models with Sculptor
    Bunkoczi, Gabor
    Read, Randy J.
    [J]. ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2011, 67 : 303 - 312
  • [7] Infrared studies of carbon monoxide binding to carbon monoxide dehydrogenase/acetyl-CoA synthase from Moorella thermoacetica
    Chen, JY
    Huang, S
    Seravalli, J
    Gutzman, H
    Swartz, DJ
    Ragsdale, SW
    Bagley, KA
    [J]. BIOCHEMISTRY, 2003, 42 (50) : 14822 - 14830
  • [8] MolProbity: all-atom structure validation for macromolecular crystallography
    Chen, Vincent B.
    Arendall, W. Bryan, III
    Headd, Jeffrey J.
    Keedy, Daniel A.
    Immormino, Robert M.
    Kapral, Gary J.
    Murray, Laura W.
    Richardson, Jane S.
    Richardson, David C.
    [J]. ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 2010, 66 : 12 - 21
  • [9] Detection of sulfide release from the oxygen-sensing [4Fe-4S] cluster of FNR
    Crack, Jason C.
    Green, Jeffrey
    Le Brun, Nick E.
    Thomson, Andrew J.
    [J]. JOURNAL OF BIOLOGICAL CHEMISTRY, 2006, 281 (28) : 18909 - 18913
  • [10] Ni-Zn-[Fe4-S4] and Ni-Ni-[Fe4-S4] clusters in closed and open subunits of acetyl-CoA synthase/carbon monoxide dehydrogenase
    Darnault, C
    Volbeda, A
    Kim, EJ
    Legrand, P
    Vernéde, X
    Lindahl, PA
    Fontecilla-Camps, JC
    [J]. NATURE STRUCTURAL BIOLOGY, 2003, 10 (04) : 271 - 279