LigD

Search for
Structures	Swiss-model
Domains	InterPro

Multifunctional non-homologous end joining protein LigD
Multifunctional non-homologous end joining protein LigD
Identifiers
Organism	Mycolicibacterium smegmatis ATCC 700084
Symbol	ligD
Orthologs	OMA: entry
UniProt	A0R3R7
Structures
Search for
Structures	Swiss-model
Domains	InterPro

LigD is a multifunctional ligase/polymerase/nuclease (3'-phosphoesterase) found in bacterial non-homologous end joining (NHEJ) DNA repair systems. It is much more error-prone than the more complex eukaryotic system of NHEJ, which uses multiple enzymes to fill its role. The polymerase preferentially use rNTPs (RNA nucleotides), possibly advantageous in dormant cells.

The actual architecture of LigD is variable.

The LigD homolog in Bacillus subtilis does not have the nuclease domain.
LigD with its ligase domain artificially removed can perform its function (with loss of fidelity) with a separate LigC acting as the ligase.
The LigD homolog in the archaeon Methanocella paludicola is broken into three single-domain proteins sharing an operon.

References

↑ Della M, Palmbos PL, Tseng HM, et al. (October 2004). "Mycobacterial Ku and ligase proteins constitute a two-component NHEJ repair machine". Science. 306 (5696): 683–5. Bibcode:2004Sci...306..683D. doi:10.1126/science.1099824. PMID 15499016. S2CID 38823696.
1 2 Gong C, Bongiorno P, Martins A, et al. (April 2005). "Mechanism of nonhomologous end-joining in mycobacteria: a low-fidelity repair system driven by Ku, ligase D and ligase C". Nat. Struct. Mol. Biol. 12 (4): 304–12. doi:10.1038/nsmb915. PMID 15778718. S2CID 6879518.
↑ Pitcher RS, Green AJ, Brzostek A, Korycka-Machala M, Dziadek J, Doherty AJ (September 2007). "NHEJ protects mycobacteria in stationary phase against the harmful effects of desiccation" (PDF). DNA Repair (Amst.). 6 (9): 1271–6. doi:10.1016/j.dnarep.2007.02.009. PMID 17360246.
↑ Bartlett, EJ; Brissett, NC; Doherty, AJ (28 May 2013). "Ribonucleolytic resection is required for repair of strand displaced nonhomologous end-joining intermediates". Proceedings of the National Academy of Sciences of the United States of America. 110 (22): E1984-91. Bibcode:2013PNAS..110E1984B. doi:10.1073/pnas.1302616110. PMC 3670387. PMID 23671117.

[pmid15499016-1] Della M, Palmbos PL, Tseng HM, et al. (October 2004). "Mycobacterial Ku and ligase proteins constitute a two-component NHEJ repair machine". Science. 306 (5696): 683–5. Bibcode:2004Sci...306..683D. doi:10.1126/science.1099824. PMID 15499016. S2CID 38823696.

[pmid15778718-2] 1 2 Gong C, Bongiorno P, Martins A, et al. (April 2005). "Mechanism of nonhomologous end-joining in mycobacteria: a low-fidelity repair system driven by Ku, ligase D and ligase C". Nat. Struct. Mol. Biol. 12 (4): 304–12. doi:10.1038/nsmb915. PMID 15778718. S2CID 6879518.

[pmid17360246-3] Pitcher RS, Green AJ, Brzostek A, Korycka-Machala M, Dziadek J, Doherty AJ (September 2007). "NHEJ protects mycobacteria in stationary phase against the harmful effects of desiccation" (PDF). DNA Repair (Amst.). 6 (9): 1271–6. doi:10.1016/j.dnarep.2007.02.009. PMID 17360246.

[4] Bartlett, EJ; Brissett, NC; Doherty, AJ (28 May 2013). "Ribonucleolytic resection is required for repair of strand displaced nonhomologous end-joining intermediates". Proceedings of the National Academy of Sciences of the United States of America. 110 (22): E1984-91. Bibcode:2013PNAS..110E1984B. doi:10.1073/pnas.1302616110. PMC 3670387. PMID 23671117.