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Table 3 Other proteins involved in DNA repair

From: Environmental adaptability and stress tolerance of Laribacter hongkongensis: a genome-wide analysis

Repair pathways/Types of enzymes Gene Protein Function of protein encoded CDS Closest match organism Amino acid Identity (%) Best E-value
TLS (translesion DNA synthesis) factors        
Y-family DNA polymerases dinB DNA Polymerase IV Poorly processive, error-prone DNA polymerase involves in translesional DNA synthesis LHK_01833 L. nitroferrum 69.32 2.00E-128
  umuD Protein UmuD Essential for induced (or SOS) mutagenesis, modifies DNA replication machinery to allow bypass synthesis across a damaged template LHK_01580 Legionella pneumophila subsp. pneumophila 48.65 9.00E-32
Other SOS response factors dinG Probable ATP-dependent helicase DinG Damage-inducible helicase, unwinds DNA duplex with a 5'-3'-polarity LHK_02134 L. nitroferrum 64.79 0
  dnaA Chromosomal replication initiator protein DnaA Initiates and regulates chromosomal replication LHK_03240 L. nitroferrum 76.72 0
Modulation of nucleotide pools dut dUTPase Produces dUMP, immediate precursor of thymidine nucleotides and decreases intracellular concentration of dUTP LHK_01910 L. nitroferrum 78.45 1.00E-46
  nrdA Ribonucleoside-diphosphate reductase 1 subunit alpha Catalyzes biosynthesis of deoxyribo-nucleotides from the corresponding ribonucleotides LHK_01803 L. nitroferrum 71 0
  nrdB Ribonucleoside-diphosphate reductase 1 subunit beta Catalyzes biosynthesis of deoxyribo-nucleotides from the corresponding ribonucleotides LHK_01801 L. nitroferrum 83.1 5.00E-177
  nrdE Ribonucleoside-diphosphate reductase 2 subunit alpha Catalyzes biosynthesis of deoxyribo-nucleotides from the corresponding ribonucleotides LHK_01596 L. nitroferrum 79.73 0
  mutT Mutator MutT protein Removes oxidatively damaged guanine from DNA and the nucleotide pool, degrades 8-oxo-dGTP to monophosphate LHK_02262 C. violaceum 60.12 2.00E-56
Other factors involved in DNA repair ligA DNA ligase Catalyzes phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA, essential for DNA replication and repair LHK_02877 Cupriavidus taiwanensis 65.83 0
  recJ Single-stranded-DNA-specific exonuclease RecJ Single-stranded-DNA-specific exonuclease required for many recombinational events LHK_02397 L. nitroferrum 71.58 0
  polA DNA polymerase I DNA polymerase exhibits 3' to 5' and 5' to 3' exonuclease activity LHK_02983 C. violaceum 68.03 0
  ssb Single-stranded DNA binding protein, SSB Forms homotetramer and binds single-stranded DNA to protect susceptible ssDNA from nucleolytic digestion and prevents secondary-structure formation LHK_01479 M. flagellatus 82.24 4.00E-46
  ssb2 Single-stranded DNA binding protein Forms a homotetramer and binds single-stranded DNA to protect susceptible ssDNA from nucleolytic digestion and prevents secondary-structure formation LHK_01496 L. hongkongensis HLHK9 (SSB protein) 68 3E-57
  recA Protein RecA Catalyzes ATP-dependent uptake of single-stranded DNA by duplex DNA, and hybridization of homologous single-stranded DNA LHK_00793 L. nitroferrum 86.75 4.00E-137
  recN DNA repair protein RecN Coordinates alignment of broken segments with intact duplexes to facilitate recombination LHK_01210 C. violaceum 62.43 5.00E-159
  uvrD DNA helicase II ATPase and helicase involves in post-incision events of nucleotide excision repair and methyl-directed mismatch repair LHK_00065 C. violaceum 65.68 0
  rep ATP-dependent DNA helicase Rep Helicase and ATPase involves in DNA replication, binds to single-stranded DNA, initiates unwinding at a nick LHK_00318 L. nitroferrum 72.86 0