Hydrogenase maturation protease family

In molecular biology, the hydrogenase maturation protease family is a family of aspartic endopeptidases belonging to MEROPS family A31.

Hydrogenase maturation protease
hydrogenase maturating endopeptidase hybd from e. coli
Identifiers
SymbolHycI
PfamPF01750
Pfam clanCL0095
InterProIPR000671
MEROPSA31
SCOP21cfz / SCOPe / SUPFAM

The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesized as a precursor devoid of the metalloenzyme active site. This precursor undergoes a complex post-translational maturation process that requires a number of accessory proteins.[1][2][3] At one step of this process, after nickel incorporation, each hydrogenase isoenzyme is processed by proteolytic cleavage at the C-terminal end by the corresponding hydrogenase maturation endopeptidase.[4] For example, Escherichia coli HycI is involved in processing of pre-HycE (the large subunit of hydrogenase 3),;[5][6] HybD is involved in processing of pre-HybC (the large subunit of hydrogenase 2);[7] and HyaD is assumed to be involved in processing of the large subunit of hydrogenase 1.

The cleavage site is after a His or an Arg, liberating a short peptide.[5][8] This cleavage occurs only in the presence of nickel, and the endopeptidase probably uses the metal in the large subunit of [NiFe]-hydrogenases as a recognition motif.[4] There is no direct evidence for the active site or substrate-binding site, but there are predictions based on an available structure.[7]

Nomenclature note: the following names are used in different organisms for members of this family: HycI, HybD, HyaD, HoxM, HoxW, HupD, HynC, HupM, VhoD, VhtD.[1] Gene/protein names are sometimes used interchangeably to designate various "hydrogenase cluster" proteins unrelated to each other in various organisms. For example, the following names are used for members of this group, but also for unrelated proteins: HupD is used in Azotobacter chroococcum and Anabaena species to designate an unrelated hydrogenase maturation factor; HydD is used to designate hydrogenase structural genes in Thermococcus litoralis, Pyrococcus abyssi, and other species.

References
  1. Casalot L, Rousset M (May 2001). "Maturation of the [NiFe] hydrogenases". Trends Microbiol. 9 (5): 228–37. doi:10.1016/S0966-842X(01)02009-1. PMID 11336840.
  2. Blokesch M, Paschos A, Theodoratou E, Bauer A, Hube M, Huth S, Bock A (August 2002). "Metal insertion into NiFe-hydrogenases". Biochem. Soc. Trans. 30 (4): 674–80. doi:10.1042/bst0300674. PMID 12196162.
  3. Maroney MJ (April 1999). "Structure/function relationships in nickel metallobiochemistry". Curr Opin Chem Biol. 3 (2): 188–99. doi:10.1016/S1367-5931(99)80032-5. PMID 10226043.
  4. Theodoratou E, Paschos A, Magalon A, Fritsche E, Huber R, Bock A (April 2000). "Nickel serves as a substrate recognition motif for the endopeptidase involved in hydrogenase maturation". Eur. J. Biochem. 267 (7): 1995–9. doi:10.1046/j.1432-1327.2000.01202.x. PMID 10727938.
  5. Rossmann R, Sauter M, Lottspeich F, Bock A (March 1994). "Maturation of the large subunit (HYCE) of Escherichia coli hydrogenase 3 requires nickel incorporation followed by C-terminal processing at Arg537". Eur. J. Biochem. 220 (2): 377–84. doi:10.1111/j.1432-1033.1994.tb18634.x. PMID 8125094.
  6. Theodoratou E, Paschos A, Mintz-Weber, Bock A (February 2000). "Analysis of the cleavage site specificity of the endopeptidase involved in the maturation of the large subunit of hydrogenase 3 from Escherichia coli". Arch. Microbiol. 173 (2): 110–6. doi:10.1007/s002039900116. PMID 10795682. S2CID 5613272.
  7. Fritsche E, Paschos A, Beisel HG, Bock A, Huber R (May 1999). "Crystal structure of the hydrogenase maturating endopeptidase HYBD from Escherichia coli". J. Mol. Biol. 288 (5): 989–98. doi:10.1006/jmbi.1999.2719. PMID 10331925.
  8. Menon NK, Robbins J, Der Vartanian M, Patil D, Peck HD, Menon AL, Robson RL, Przybyla AE (September 1993). "Carboxy-terminal processing of the large subunit of [NiFe] hydrogenases". FEBS Lett. 331 (1–2): 91–5. doi:10.1016/0014-5793(93)80303-C. PMID 8405419. S2CID 39302159.
This article incorporates text from the public domain Pfam and InterPro: IPR000671
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