Gene Rv0938
in Mycobacterium tuberculosis H37Rv
General annotation
| Type | CDS |
| Function | Involved in DNA double-strand break repair, by nonhomologous end joining (NHEJ). Interacts with KU (Rv0937c) [catalytic activity:ATP + {deoxyribonucleotide}(N) + {deoxyribonucleotide}(M) = AMP + diphosphate + {deoxyribonucleotide}(N+M)]. |
| Product | ATP dependent DNA ligase LigD (ATP dependent polydeoxyribonucleotide synthase) (thermostable DNA ligase) (ATP dependent polynucleotide ligase) (sealase) (DNA repair enzyme) (DNA joinase) |
| Comments | Rv0938, (MTCY08D9.01c, MTCY10D7.36c), len: 759 aa. ligD, ATP-dependent DNA ligase, with its C-terminus similar to N-terminal parts of many ATP-dependent DNA ligases e.g. NP_250828.1|NC_002516 probable ATP-dependent DNA ligase from Pseudomonas aeruginosa (840 aa); NP_105436.1|NC_002678 ATP-dependent DNA ligase from Mesorhizobium loti (829 aa); CAB92891.1|AL356932 probable ATP-dependent DNA ligase from Streptomyces coelicolor (326 aa); etc. The N-terminal half shows similarity with hypothetical proteins from Mycobacterium tuberculosis Rv0269c and Rv3730c; and the C-terminal half with the DNA ligases Rv3731 and Rv3062. |
| Functional category | Information pathways |
| Proteomics | Identified in the cell membrane fraction of M. tuberculosis H37Rv using 2DLC/MS (See Mawuenyega et al., 2005). |
| Mutant | Non-essential gene for in vitro growth of H37Rv in a MtbYM rich medium, by Himar1 transposon mutagenesis (see Minato et al. 2019). Non-essential gene for in vitro growth of H37Rv, by analysis of saturated Himar1 transposon libraries (see DeJesus et al. 2017). Essential gene for in vitro growth of H37Rv, by Himar1 transposon mutagenesis (See Griffin et al., 2011). M. tuberculosis Erdman mutant is defective in nonhomologous DNA end joining (See Gong et al., 2004). Check for mutants available at TARGET website |
Coordinates
| Type | Start | End | Orientation |
|---|---|---|---|
| CDS | 1046136 | 1048415 | + |
Genomic sequence
Feature type
Upstream flanking region (bp)
Downstream flanking region (bp)
Update
Protein sequence
>Mycobacterium tuberculosis H37Rv|Rv0938|ligD
MGSASEQRVTLTNADKVLYPATGTTKSDIFDYYAGVAEVMLGHIAGRPATRKRWPNGVDQPAFFEKQLALSAPPWLSRATVAHRSGTTTYPIIDSATGLAWIAQQAALEVHVPQWRFVAEPGSGELNPGPATRLVFDLDPGEGVMMAQLAEVARAVRDLLADIGLVTFPVTSGSKGLHLYTPLDEPVSSRGATVLAKRVAQRLEQAMPALVTSTMTKSLRAGKVFVDWSQNSGSKTTIAPYSLRGRTHPTVAAPRTWAELDDPALRQLSYDEVLTRIARDGDLLERLDADAPVADRLTRYRRMRDASKTPEPIPTAKPVTGDGNTFVIQEHHARRPHYDFRLECDGVLVSWAVPKNLPDNTSVNHLAIHTEDHPLEYATFEGAIPSGEYGAGKVIIWDSGTYDTEKFHDDPHTGEVIVNLHGGRISGRYALIRTNGDRWLAHRLKNQKDQKVFEFDNLAPMLATHGTVAGLKASQWAFEGKWDGYRLLVEADHGAVRLRSRSGRDVTAEYPQLRALAEDLADHHVVLDGEAVVLDSSGVPSFSQMQNRGRDTRVEFWAFDLLYLDGRALLGTRYQDRRKLLETLANATSLTVPELLPGDGAQAFACSRKHGWEGVIAKRRDSRYQPGRRCASWVKDKHWNTQEVVIGGWRAGEGGRSSGVGSLLMGIPGPGGLQFAGRVGTGLSERELANLKEMLAPLHTDESPFDVPLPARDAKGITYVKPALVAEVRYSEWTPEGRLRQSSWRGLRPDKKPSEVVRE
Bibliography
- Weller GR et al. [2002]. Identification of a DNA nonhomologous end-joining complex in bacteria. Function Product
- Della M et al. [2004]. Mycobacterial Ku and ligase proteins constitute a two-component NHEJ repair machine. Function Product
- Gong C et al. [2004]. Biochemical and genetic analysis of the four DNA ligases of mycobacteria. Biochemistry Function Mutant
- Gong C et al. [2005]. Mechanism of nonhomologous end-joining in mycobacteria: a low-fidelity repair system driven by Ku, ligase D and ligase C. Function Mutant
- Pitcher RS et al. [2005]. Domain structure of a NHEJ DNA repair ligase from Mycobacterium tuberculosis. Biochemistry Function
- Mawuenyega KG et al. [2005]. Mycobacterium tuberculosis functional network analysis by global subcellular protein profiling. Proteomics
- Akey D et al. [2006]. Crystal structure and nonhomologous end-joining function of the ligase component of Mycobacterium DNA ligase D. Structure
- Pitcher RS et al. [2007]. Structure and function of a mycobacterial NHEJ DNA repair polymerase. Structure
- Brissett NC et al. [2007]. Structure of a NHEJ polymerase-mediated DNA synaptic complex. Structure
- Malyarchuk S et al. [2007]. Expression of Mycobacterium tuberculosis Ku and Ligase D in Escherichia coli results in RecA and RecB-independent DNA end-joining at regions of microhomology. Biochemistry
- Griffin JE et al. [2011]. High-resolution phenotypic profiling defines genes essential for mycobacterial growth and cholesterol catabolism. Mutant
- DeJesus MA et al. [2017]. Comprehensive Essentiality Analysis of the Mycobacterium tuberculosis Genome via Saturating Transposon Mutagenesis. Mutant
- Minato Y et al. [2019]. Genomewide Assessment of Mycobacterium tuberculosis Conditionally Essential Metabolic Pathways. Mutant
