Ornithine decarboxylase
Ornithine decarboxylase dimer, Human
Identifiers
EC no.4.1.1.17
CAS no.9024-60-6
Databases
IntEnzIntEnz view
BRENDABRENDA entry
ExPASyNiceZyme view
KEGGKEGG entry
MetaCycmetabolic pathway
PRIAMprofile
PDB structuresRCSB PDB PDBe PDBsum
Gene OntologyAmiGO / QuickGO
Search
PMCarticles
PubMedarticles
NCBIproteins
ornithine decarboxylase
Identifiers
SymbolODC1
NCBI gene4953
HGNC8109
OMIM165640
RefSeqNM_002539
UniProtP11926
Other data
EC number4.1.1.17
LocusChr. 2 p25
Search for
StructuresSwiss-model
DomainsInterPro

The enzyme ornithine decarboxylase (EC 4.1.1.17, ODC) catalyzes the decarboxylation of ornithine (a product of the urea cycle) to form putrescine. This reaction is the committed step in polyamine synthesis.[1] In humans, this protein has 461 amino acids and forms a homodimer.[2]

In humans, ornithine decarboxylase (ODC) is expressed by the gene ODC1. The protein ODC is sometimes referred to as "ODC1" in research pertaining to humans and mice, but certain species such as Drosophila (dODC2),[3] species of Solanaceae plant family (ODC2),[4] and the lactic acid bacteria Paucilactobacillus wasatchensis (odc2)[5] have been shown to have a second ODC gene.

Reaction mechanism

Lysine 69 on ornithine decarboxylase (ODC) binds the cofactor pyridoxal phosphate to form a Schiff base.[6] Ornithine displaces the lysine to form a Schiff base attached to orthonine, which decarboxylates to form a quinoid intermediate. This intermediate rearranges to form a Schiff base attached to putrescine, which is attacked by lysine to release putrescine product and reform PLP-bound ODC.[7] This is the first step and the rate-limiting step in humans for the production of polyamines, compounds required for cell division.

Reaction of ODC with ornithine

Spermidine synthase can then catalyze the conversion of putrescine to spermidine by the attachment of an aminopropyl moiety.[8] Spermidine is a precursor to other polyamines, such as spermine and its structural isomer thermospermine.

Structure

3D crystal structure of ornithine decarboxylase.[9]

The active form of ornithine decarboxylase is a homodimer. Each monomer contains a barrel domain, consisting of an alpha-beta barrel, and a sheet domain, composed of two beta-sheets. The domains are connected by loops. The monomers connect to each other via interactions between the barrel of one monomer and the sheet of the other. Binding between monomers is relatively weak, and ODC interconverts rapidly between monomeric and dimeric forms in the cell.[1]

The pyridoxal phosphate cofactor binds lysine 69 at the C-terminus end of the barrel domain. The active site is at the interface of the two domains, in a cavity formed by loops from both monomers.[1]

Function

The ornithine decarboxylation reaction catalyzed by ornithine decarboxylase is the first and committed step in the synthesis of polyamines, particularly putrescine, spermidine and spermine. Polyamines are important for stabilizing DNA structure, the DNA double strand-break repair pathway and as antioxidants. Therefore, ornithine decarboxylase is an essential enzyme for cell growth, producing the polyamines necessary to stabilize newly synthesized DNA. Lack of ODC causes cell apoptosis in embryonic mice, induced by DNA damage.[10]

Proteasomal degradation

ODC is the most well-characterized cellular protein subject to ubiquitin-independent proteasomal degradation. Although most proteins must first be tagged with multiple ubiquitin molecules before they are bound and degraded by the proteasome, ODC degradation is instead mediated by several recognition sites on the protein and its accessory factor antizyme. The ODC degradation process is regulated in a negative feedback loop by its reaction products.[11]

Until a report by Sheaff et al. (2000),[12] which demonstrated that the cyclin-dependent kinase (Cdk) inhibitor p21Cip1 is also degraded by the proteasome in a ubiquitin-independent manner, ODC was the only clear example of ubiquitin-independent proteasomal degradation.[13]

Clinical significance

ODC is a transcriptional target of the oncogene Myc[14] and is upregulated in a wide variety of cancers. The polyamine products of the pathway initialized by ODC are associated with increased cell growth and reduced apoptosis.[15] Ultraviolet light,[16] asbestos[17] and androgens released by the prostate gland[18] are all known to induce increased ODC activity associated with cancer. Inhibitors of ODC such as eflornithine have been shown to effectively reduce cancers in animal models,[19] and drugs targeting ODC are being tested for potential clinical use. The mechanism by which ODC promotes carcinogenesis is complex and not entirely known. Along with their direct effect on DNA stability, polyamines also upregulate gap junction genes[20] and downregulate tight junction genes. Gap junction genes are involved in communication between carcinogenic cells and tight junction genes act as tumor suppressors.[15]

Mutations of the ODC1 gene have been shown to cause Bachmann-Bupp syndrome (BABS), a rare neurometabolic disorder characterized by global developmental delay, alopecia, macrocephaly, dysmorphic features, and behavioral abnormalities.[21] BABS is typically caused by an autosomal dominant de novo ODC1 variant.[21]

ODC gene expression is induced by a large number of biological stimuli including seizure activity in the brain.[22] Inactivation of ODC by difluoromethylornithine (DMFO, eflornithine) is used to treat cancer and facial hair growth in postmenopausal females.

ODC is also an enzyme indispensable to parasites like Trypanosoma, Giardia, and Plasmodium, a fact exploited by the drug eflornithine.[23]

Immunological significance

In antigen-activated T cells, ODC enzymatic activity increases after activation, which corresponds with increase in polyamine synthesis in T cells after activation.[24] As with ODC and cancer, MYC, also referred to as c-Myc for cellular Myc, is the master regulator of polyamine biosynthesis in T cells.[25]

A 2020 study by Wu et al. using T-cell specific ODC cKO mice showed that T cells can function and proliferate normally in vivo and other polyamine synthesis pathways can compensate for lack of ODC.[26] However, blocking polyamine synthesis via ODC with DMFO and polyamine uptake with AMXT 1501 depleted the polyamine pool and inhibited T-cell proliferation and suppressed T-cell inflammation.[26]

Recent studies have shown the importance of ODC and polyamine synthesis in T helper cell fate commitment.[27] A 2021 study by Puleston et al. showed that TH1 and TH2 cells express higher levels of ODC than regulatory T (Treg) cells and TH17 cells, which corresponded to higher levels of polyamine biosynthesis in TH1 and TH2.[28] A 2021 study by Wagner et al. showed a promotion of a Treg program in Odc1-/- mice.[29] They concluded that polyamine-related enzyme expression was enhanced in pathogenic TH17 and suppressed in Treg cells.[29]

References

  1. 1 2 3 Kern AD, Oliveira MA, Coffino P, Hackert ML (May 1999). "Structure of mammalian ornithine decarboxylase at 1.6 A resolution: stereochemical implications of PLP-dependent amino acid decarboxylases". Structure. 7 (5): 567–581. doi:10.1016/S0969-2126(99)80073-2. PMID 10378276.
  2. ↑ Pegg AE (May 2006). "Regulation of ornithine decarboxylase". The Journal of Biological Chemistry. 281 (21): 14529–14532. doi:10.1074/jbc.R500031200. PMID 16459331.
  3. ↑ Rom E, Kahana C (1993). "Isolation and characterization of the Drosophila ornithine decarboxylase locus: evidence for the presence of two transcribed ODC genes in the Drosophila genome". DNA and Cell Biology. 12 (6): 499–508. doi:10.1089/dna.1993.12.499. PMID 8329117.
  4. ↑ Qin X, Chetelat RT (May 2021). "Ornithine decarboxylase genes contribute to S-RNase-independent pollen rejection". Plant Physiology. 186 (1): 452–468. doi:10.1093/plphys/kiab062. PMC 8154068. PMID 33576789.
  5. ↑ Berthoud H, Wechsler D, Irmler S (2022-03-03). "Production of Putrescine and Cadaverine by Paucilactobacillus wasatchensis". Frontiers in Microbiology. 13: 842403. doi:10.3389/fmicb.2022.842403. PMC 8928434. PMID 35308356.
  6. ↑ Oliveira EF, Cerqueira NM, Fernandes PA, Ramos MJ (October 2011). "Mechanism of formation of the internal aldimine in pyridoxal 5'-phosphate-dependent enzymes". Journal of the American Chemical Society. 133 (39): 15496–15505. doi:10.1021/ja204229m. PMID 21854048.
  7. ↑ Brooks HB, Phillips MA (December 1997). "Characterization of the reaction mechanism for Trypanosoma brucei ornithine decarboxylase by multiwavelength stopped-flow spectroscopy". Biochemistry. 36 (49): 15147–15155. doi:10.1021/bi971652b. PMID 9398243.
  8. ↑ Teti D, Visalli M, McNair H (December 2002). "Analysis of polyamines as markers of (patho)physiological conditions". Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences. 781 (1–2): 107–149. doi:10.1016/S1570-0232(02)00669-4. PMID 12450656.
  9. ↑ PDB: 1d7k​; Almrud JJ, Oliveira MA, Kern AD, Grishin NV, Phillips MA, Hackert ML (January 2000). "Crystal structure of human ornithine decarboxylase at 2.1 A resolution: structural insights to antizyme binding". Journal of Molecular Biology. 295 (1): 7–16. doi:10.1006/jmbi.1999.3331. PMID 10623504.; rendered via PyMOL.
  10. ↑ Pendeville H, Carpino N, Marine JC, Takahashi Y, Muller M, Martial JA, Cleveland JL (October 2001). "The ornithine decarboxylase gene is essential for cell survival during early murine development". Molecular and Cellular Biology. 21 (19): 6549–6558. doi:10.1128/MCB.21.19.6549-6558.2001. PMC 99801. PMID 11533243.
  11. ↑ Zhang M, Pickart CM, Coffino P (April 2003). "Determinants of proteasome recognition of ornithine decarboxylase, a ubiquitin-independent substrate". The EMBO Journal. 22 (7): 1488–1496. doi:10.1093/emboj/cdg158. PMC 152902. PMID 12660156.
  12. ↑ Sheaff RJ, Singer JD, Swanger J, Smitherman M, Roberts JM, Clurman BE (February 2000). "Proteasomal turnover of p21Cip1 does not require p21Cip1 ubiquitination". Molecular Cell. 5 (2): 403–410. doi:10.1016/S1097-2765(00)80435-9. PMID 10882081.
  13. ↑ Verma R, Deshaies RJ (May 2000). "A proteasome howdunit: the case of the missing signal". Cell. 101 (4): 341–344. doi:10.1016/S0092-8674(00)80843-0. PMID 10830160. S2CID 18425370.
  14. ↑ Bello-Fernandez C, Packham G, Cleveland JL (August 1993). "The ornithine decarboxylase gene is a transcriptional target of c-Myc". Proceedings of the National Academy of Sciences of the United States of America. 90 (16): 7804–7808. Bibcode:1993PNAS...90.7804B. doi:10.1073/pnas.90.16.7804. PMC 47231. PMID 8356088.
  15. 1 2 Gerner EW, Meyskens FL (October 2004). "Polyamines and cancer: old molecules, new understanding". Nature Reviews. Cancer. 4 (10): 781–792. doi:10.1038/nrc1454. PMID 15510159. S2CID 37647479.
  16. ↑ Ahmad N, Gilliam AC, Katiyar SK, O'Brien TG, Mukhtar H (September 2001). "A definitive role of ornithine decarboxylase in photocarcinogenesis". The American Journal of Pathology. 159 (3): 885–892. doi:10.1016/S0002-9440(10)61764-6. PMC 1850478. PMID 11549581.
  17. ↑ Marsh JP, Mossman BT (January 1991). "Role of asbestos and active oxygen species in activation and expression of ornithine decarboxylase in hamster tracheal epithelial cells". Cancer Research. 51 (1): 167–173. PMID 1846307.
  18. ↑ Crozat A, Palvimo JJ, Julkunen M, Jänne OA (March 1992). "Comparison of androgen regulation of ornithine decarboxylase and S-adenosylmethionine decarboxylase gene expression in rodent kidney and accessory sex organs". Endocrinology. 130 (3): 1131–1144. doi:10.1210/endo.130.3.1537280. PMID 1537280.
  19. ↑ Meyskens FL, Gerner EW (May 1999). "Development of difluoromethylornithine (DFMO) as a chemoprevention agent". Clinical Cancer Research. 5 (5): 945–951. PMID 10353725.
  20. ↑ Shore L, McLean P, Gilmour SK, Hodgins MB, Finbow ME (July 2001). "Polyamines regulate gap junction communication in connexin 43-expressing cells". The Biochemical Journal. 357 (Pt 2): 489–495. doi:10.1042/0264-6021:3570489. PMC 1221976. PMID 11439099.
  21. 1 2 Bupp C, Michael J, VanSickle E, Rajasekaran S, Bachmann AS (1993). "Bachmann-Bupp Syndrome". In Adam MP, Mirzaa GM, Pagon RA, Wallace SE (eds.). GeneReviews. Seattle (WA): University of Washington, Seattle. PMID 36007106. Retrieved 2023-06-28.
  22. ↑ Herberg LJ, Rose IC, de Belleroche JS, Mintz M (March 1992). "Ornithine decarboxylase induction and polyamine synthesis in the kindling of seizures: the effect of alpha-difluoromethylornithine". Epilepsy Research. 11 (1): 3–7. doi:10.1016/0920-1211(92)90015-L. PMID 1563337. S2CID 1221264.
  23. ↑ Heby O, Persson L, Rentala M (August 2007). "Targeting the polyamine biosynthetic enzymes: a promising approach to therapy of African sleeping sickness, Chagas' disease, and leishmaniasis". Amino Acids. 33 (2): 359–366. doi:10.1007/s00726-007-0537-9. PMID 17610127. S2CID 26273053.
  24. ↑ Hesterberg RS, Cleveland JL, Epling-Burnette PK (March 2018). "Role of Polyamines in Immune Cell Functions". Medical Sciences. 6 (1): 22. doi:10.3390/medsci6010022. PMC 5872179. PMID 29517999.
  25. ↑ Miller DM, Thomas SD, Islam A, Muench D, Sedoris K (October 2012). "c-Myc and cancer metabolism". Clinical Cancer Research. 18 (20): 5546–5553. doi:10.1158/1078-0432.CCR-12-0977. PMC 3505847. PMID 23071356.
  26. 1 2 Wu R, Chen X, Kang S, Wang T, Gnanaprakasam JR, Yao Y, et al. (December 2020). "De novo synthesis and salvage pathway coordinately regulate polyamine homeostasis and determine T cell proliferation and function". Science Advances. 6 (51). Bibcode:2020SciA....6.4275W. doi:10.1126/sciadv.abc4275. PMC 7744078. PMID 33328226.
  27. ↑ Shi H, Chi H (August 2021). "Polyamine: A metabolic compass for T helper cell fate direction". Cell. 184 (16): 4109–4112. doi:10.1016/j.cell.2021.07.012. PMID 34358466.
  28. ↑ Puleston DJ, Baixauli F, Sanin DE, Edwards-Hicks J, Villa M, Kabat AM, et al. (August 2021). "Polyamine metabolism is a central determinant of helper T cell lineage fidelity". Cell. 184 (16): 4186–4202.e20. doi:10.1016/j.cell.2021.06.007. PMC 8358979. PMID 34216540.
  29. 1 2 Wagner A, Wang C, Fessler J, DeTomaso D, Avila-Pacheco J, Kaminski J, et al. (August 2021). "Metabolic modeling of single Th17 cells reveals regulators of autoimmunity". Cell. 184 (16): 4168–4185.e21. doi:10.1016/j.cell.2021.05.045. PMC 8621950. PMID 34216539.
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