Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   SCIM_RS08350 Genome accession   NC_018073
Coordinates   1733315..1734730 (-) Length   471 a.a.
NCBI ID   WP_003076150.1    Uniprot ID   -
Organism   Streptococcus intermedius JTH08     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1728315..1739730
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SCIM_RS08325 (SCIM_1512) - 1728444..1729124 (-) 681 WP_003073952.1 rhomboid family intramembrane serine protease -
  SCIM_RS08330 (SCIM_1513) - 1729117..1729644 (-) 528 WP_003075962.1 5-formyltetrahydrofolate cyclo-ligase -
  SCIM_RS09850 (SCIM_1514) - 1729690..1730820 (-) 1131 WP_003076069.1 N-acetyldiaminopimelate deacetylase -
  SCIM_RS09855 (SCIM_1515) dapD 1730833..1731531 (-) 699 WP_003075982.1 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase -
  SCIM_RS08345 (SCIM_1516) gltX 1731649..1733106 (-) 1458 WP_003075851.1 glutamate--tRNA ligase -
  SCIM_RS08350 (SCIM_1517) radA 1733315..1734730 (-) 1416 WP_003076150.1 DNA repair protein RadA Machinery gene
  SCIM_RS08355 (SCIM_1518) - 1734688..1735158 (-) 471 WP_003075964.1 cysteine hydrolase family protein -
  SCIM_RS08360 (SCIM_1519) - 1735168..1735611 (-) 444 WP_003075842.1 dUTP diphosphatase -
  SCIM_RS08365 (SCIM_1520) - 1735705..1736739 (-) 1035 WP_003076122.1 S66 peptidase family protein -
  SCIM_RS08370 (SCIM_1521) - 1737803..1738819 (+) 1017 WP_003076007.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -

Sequence

Protein


Download         Length: 471 a.a.        Molecular weight: 51677.23 Da        Isoelectric Point: 6.7134

>NTDB_id=51902 SCIM_RS08350 WP_003076150.1 1733315..1734730(-) (radA) [Streptococcus intermedius JTH08]
MADCWNSNERRITIAKKKTTFVCQECGYNSPKYLGRCPNCSSWSSFVEEVEVAEVKNARVSLTGEKTRPVKLNQVTSSQA
TRVKTNMEEFNRVLGGGVVPGSLVLIGGDPGIGKSTLLLQVSTQLANKGTVFYVSGEESAEQIKLRSERLGDIDNEFYLY
AETNMQSIRAEIEKIQPDFLIIDSIQTVMSPEISSVQGSVSQVREVTAELMQLAKTNNIATFIVGHVTKEGTLAGPRMLE
HMVDTVLYFEGERQHTFRILRAVKNRFGSTNEIGIFEMRSGGLVEVLNPSQVFLEERLDGATGSAIVVTMEGTRPILAEV
QALVTPTVFGNAKRTTTGLDFNRVSLIMAVLEKRCGLLLQNQDAYLKSAGGVRLDEPAIDLAVAVAIASSYKEKPTNPQE
CYIGEIGLTGEIRRVNRIEQRLNEASKLGFTKIFVPKNSLSGLTIPQGIQIVGVTTVGEVLKKVFDEVNKN

Nucleotide


Download         Length: 1416 bp        

>NTDB_id=51902 SCIM_RS08350 WP_003076150.1 1733315..1734730(-) (radA) [Streptococcus intermedius JTH08]
ATGGCAGATTGCTGGAATAGTAACGAAAGGAGAATTACCATAGCTAAGAAAAAAACAACTTTTGTCTGTCAAGAGTGCGG
TTATAATTCGCCCAAGTATCTGGGACGTTGTCCTAATTGCTCGTCTTGGTCTTCTTTTGTTGAAGAGGTTGAAGTTGCTG
AGGTAAAAAATGCTCGCGTTTCACTGACAGGTGAGAAGACACGGCCAGTCAAGTTAAATCAGGTCACCTCCAGCCAAGCC
ACTAGAGTCAAGACCAATATGGAAGAATTCAACCGTGTTTTGGGCGGTGGTGTTGTACCAGGCAGTCTGGTTCTTATTGG
CGGCGATCCCGGTATCGGGAAATCGACCCTACTTTTGCAGGTTTCAACACAATTAGCCAATAAAGGAACTGTTTTTTATG
TTTCTGGTGAAGAATCAGCGGAGCAGATCAAGTTGCGTAGCGAGCGTCTTGGTGATATTGACAATGAGTTTTATCTCTAT
GCTGAAACTAATATGCAAAGTATTCGTGCTGAGATTGAAAAAATCCAGCCTGATTTTTTAATTATTGATTCTATTCAAAC
AGTGATGAGTCCTGAAATTTCCAGTGTTCAAGGTTCTGTTTCTCAGGTGCGTGAAGTGACAGCAGAATTAATGCAATTAG
CTAAAACCAATAACATTGCGACTTTTATTGTTGGACATGTGACTAAAGAAGGAACCTTAGCTGGACCGCGAATGTTAGAA
CACATGGTGGACACTGTGCTCTACTTTGAAGGCGAGCGGCAGCATACTTTTCGTATCTTACGAGCCGTTAAAAATCGCTT
TGGTTCTACTAATGAGATTGGTATTTTTGAAATGAGGTCGGGTGGTTTGGTTGAGGTTTTGAATCCCAGCCAAGTTTTTT
TAGAAGAGCGTCTAGATGGAGCAACAGGCTCAGCTATTGTTGTTACCATGGAAGGAACACGGCCTATTTTAGCGGAAGTA
CAAGCCCTAGTAACACCAACTGTTTTTGGTAATGCTAAACGGACAACAACAGGACTGGACTTTAATCGTGTTAGTTTGAT
TATGGCGGTTTTGGAGAAGCGCTGCGGCCTTTTATTGCAAAATCAAGATGCCTATCTCAAATCAGCTGGTGGTGTGCGCT
TAGATGAGCCTGCTATTGATTTAGCGGTTGCGGTAGCCATTGCTTCCAGTTATAAGGAAAAGCCAACCAACCCTCAAGAA
TGTTATATTGGTGAAATTGGTTTGACAGGTGAAATTCGTCGTGTTAATCGTATCGAACAACGTCTCAATGAAGCTAGTAA
GCTTGGTTTTACCAAGATTTTTGTACCCAAAAATTCCCTGTCAGGTTTAACGATTCCACAAGGTATTCAGATAGTTGGTG
TGACAACTGTTGGTGAGGTTTTGAAAAAGGTGTTTGACGAAGTAAATAAAAACTGA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(77-231)

Subunit ChlI of Mg-chelatase (ChlI)

(375-438)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(21-48)


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

88.938

95.966

0.854
  radA Streptococcus pneumoniae D39

88.938

95.966

0.854
  radA Streptococcus pneumoniae R6

88.938

95.966

0.854
  radA Streptococcus pneumoniae TIGR4

88.938

95.966

0.854
  radA Streptococcus mitis SK321

88.938

95.966

0.854
  radA Streptococcus mitis NCTC 12261

88.717

95.966

0.851
  radA Bacillus subtilis subsp. subtilis str. 168

61.589

96.178

0.592

Multiple sequence alignment