Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   LmYK1_RS09045 Genome accession   NZ_AP025728
Coordinates   1832519..1833889 (-) Length   456 a.a.
NCBI ID   WP_135998716.1    Uniprot ID   -
Organism   Ligilactobacillus murinus strain YK1     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1827519..1838889
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LmYK1_RS09025 (LmYK1_17600) - 1827759..1828154 (-) 396 WP_004051767.1 Mini-ribonuclease 3 -
  LmYK1_RS09030 (LmYK1_17610) cysS 1828156..1829565 (-) 1410 WP_172477380.1 cysteine--tRNA ligase -
  LmYK1_RS09035 (LmYK1_17620) gltX 1829811..1831301 (-) 1491 WP_153551142.1 glutamate--tRNA ligase -
  LmYK1_RS09040 (LmYK1_17630) - 1831391..1832500 (-) 1110 WP_135057617.1 PIN/TRAM domain-containing protein -
  LmYK1_RS09045 (LmYK1_17640) radA 1832519..1833889 (-) 1371 WP_135998716.1 DNA repair protein RadA Machinery gene
  LmYK1_RS09050 (LmYK1_17650) - 1833966..1834502 (-) 537 WP_004051774.1 dUTP pyrophosphatase -
  LmYK1_RS09055 (LmYK1_17660) - 1834639..1834926 (+) 288 WP_039936561.1 GNAT family N-acetyltransferase -
  LmYK1_RS09060 (LmYK1_17670) rpiA 1834951..1835637 (+) 687 WP_286294737.1 ribose-5-phosphate isomerase RpiA -
  LmYK1_RS09065 (LmYK1_17680) - 1835774..1837108 (+) 1335 WP_004051777.1 C1 family peptidase -
  LmYK1_RS09070 (LmYK1_17690) - 1837156..1837827 (-) 672 WP_004051778.1 2,3-diphosphoglycerate-dependent phosphoglycerate mutase -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 49292.67 Da        Isoelectric Point: 6.9502

>NTDB_id=93792 LmYK1_RS09045 WP_135998716.1 1832519..1833889(-) (radA) [Ligilactobacillus murinus strain YK1]
MAKVKTRYVCQNCGYVSPRYLGRCPNCSEWNTLVEEVEQKSAAVKATPRVTLTGTTNAPQKIDTIKISQTPRVDTKNGEL
NRVLGGGVVPGSMVLIGGDPGIGKSTLLLQVSGSLSDQGGKLLYVSGEESANQIKMRAQRLGVSGSEFYLYPETDMGSIL
QNIEDLKPDYVIIDSVQTMQMPEVTSAVGSVAQIREVTAALMQVAKTNGITIFIVGHVTKGGAIAGPKILEHMVDTVLYF
EGDMHRTYRILRAVKNRFGSTNEIGVFEMRDGGLVEVPNPSEIFLEERLSGATGSAVVVSMEGTRPILAEIQALVTPTAF
GNAKRTTTGLDHNRVSLIMAVLEKRAGLLLQNQDAYLKAAGGVKLDEPAIDLAIAMSLVSSYRDQQTAPDDCFIGELGLT
GEIRRVTRIDQRIAEAAKLGFRRVFIPQNNLNGLELPTNIDVVGVKTISEALRHVF

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=93792 LmYK1_RS09045 WP_135998716.1 1832519..1833889(-) (radA) [Ligilactobacillus murinus strain YK1]
ATGGCAAAAGTCAAAACTAGATATGTATGTCAAAATTGTGGCTATGTATCACCACGTTATTTGGGGCGGTGTCCTAACTG
TAGCGAATGGAACACTTTAGTTGAAGAAGTTGAACAAAAAAGTGCAGCGGTTAAAGCTACCCCACGCGTTACTTTGACAG
GAACAACGAATGCCCCACAAAAGATCGATACGATCAAGATCTCACAAACACCTAGAGTCGATACGAAAAATGGTGAATTG
AATCGGGTCTTAGGTGGGGGCGTTGTTCCTGGTTCAATGGTCTTGATCGGGGGCGATCCTGGGATCGGTAAATCAACGTT
ACTTTTACAAGTTTCGGGAAGTTTATCAGATCAAGGGGGAAAGTTGCTCTACGTTTCGGGTGAAGAAAGTGCAAACCAGA
TCAAGATGCGGGCCCAACGCTTGGGAGTCTCAGGCAGTGAATTTTACCTTTACCCTGAGACCGATATGGGCAGTATTTTA
CAAAATATCGAAGACTTAAAACCAGACTATGTCATCATTGACTCAGTTCAAACGATGCAGATGCCAGAAGTTACTTCGGC
GGTCGGAAGTGTGGCGCAGATCCGCGAGGTGACTGCTGCTTTGATGCAAGTTGCTAAGACAAATGGGATCACGATCTTTA
TCGTTGGTCATGTGACCAAAGGTGGCGCGATCGCTGGGCCCAAGATCTTAGAGCATATGGTCGATACGGTGTTGTACTTT
GAAGGTGACATGCATCGCACCTACCGGATCTTACGTGCAGTCAAAAATCGTTTTGGTTCGACTAATGAGATCGGTGTGTT
TGAGATGAGAGATGGCGGGCTAGTTGAAGTCCCTAATCCATCTGAGATCTTCTTAGAAGAGCGTTTAAGTGGTGCGACCG
GTTCGGCTGTCGTGGTCTCAATGGAAGGAACACGGCCGATCTTGGCAGAGATCCAAGCGTTAGTCACCCCAACAGCCTTT
GGCAACGCTAAGCGGACCACGACAGGACTAGATCACAATCGGGTCTCGTTGATCATGGCAGTGCTTGAAAAGCGGGCGGG
GCTACTTTTACAAAATCAAGATGCTTACTTAAAAGCTGCTGGGGGCGTTAAATTAGACGAACCAGCGATCGATCTAGCGA
TCGCGATGAGTTTGGTATCGAGTTATCGTGACCAACAGACCGCACCAGATGACTGTTTTATCGGTGAATTAGGTTTGACC
GGTGAGATCAGACGGGTGACTCGGATCGACCAAAGAATAGCTGAAGCAGCTAAATTAGGCTTTAGACGGGTCTTTATCCC
CCAAAATAATTTAAATGGTCTGGAATTGCCAACTAATATCGATGTAGTTGGCGTTAAGACGATCAGTGAAGCTTTACGGC
ATGTTTTTTAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(74-222)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(364-430)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  radA Streptococcus pneumoniae Rx1

68.421

100

0.684
  radA Streptococcus pneumoniae D39

68.421

100

0.684
  radA Streptococcus pneumoniae R6

68.421

100

0.684
  radA Streptococcus pneumoniae TIGR4

68.421

100

0.684
  radA Streptococcus mitis NCTC 12261

68.202

100

0.682
  radA Streptococcus mitis SK321

68.202

100

0.682
  radA Bacillus subtilis subsp. subtilis str. 168

62.914

99.342

0.625

Multiple sequence alignment