Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   JJC03_RS06605 Genome accession   NZ_CP067377
Coordinates   1373228..1374589 (-) Length   453 a.a.
NCBI ID   WP_088397514.1    Uniprot ID   -
Organism   Flavobacterium oreochromis strain Costa Rica 04-02-TN     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1368228..1379589
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JJC03_RS18720 - 1368957..1370003 (-) 1047 WP_309597790.1 DUF4139 domain-containing protein -
  JJC03_RS18725 - 1369900..1370121 (-) 222 WP_309597765.1 hypothetical protein -
  JJC03_RS18730 - 1370265..1370576 (-) 312 WP_309597766.1 DUF4140 domain-containing protein -
  JJC03_RS06595 (JJC03_06595) - 1370635..1372611 (-) 1977 WP_258932476.1 transglycosylase domain-containing protein -
  JJC03_RS06600 (JJC03_06600) - 1372613..1373128 (-) 516 WP_088397614.1 hypothetical protein -
  JJC03_RS06605 (JJC03_06605) radA 1373228..1374589 (-) 1362 WP_088397514.1 DNA repair protein RadA Machinery gene
  JJC03_RS06610 (JJC03_06610) - 1374596..1375861 (-) 1266 WP_088444962.1 alpha/beta hydrolase -
  JJC03_RS17510 - 1375993..1376271 (-) 279 WP_258932480.1 hypothetical protein -
  JJC03_RS06615 (JJC03_06615) - 1376292..1376954 (-) 663 WP_258932482.1 lysylphosphatidylglycerol synthase transmembrane domain-containing protein -
  JJC03_RS06620 (JJC03_06620) panD 1376956..1377306 (-) 351 WP_088397511.1 aspartate 1-decarboxylase -
  JJC03_RS06625 (JJC03_06625) panC 1377321..1378169 (-) 849 WP_235874196.1 pantoate--beta-alanine ligase -
  JJC03_RS06630 (JJC03_06630) - 1378277..1379086 (+) 810 WP_088397509.1 glycogen/starch synthase -

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49999.50 Da        Isoelectric Point: 5.9766

>NTDB_id=525741 JJC03_RS06605 WP_088397514.1 1373228..1374589(-) (radA) [Flavobacterium oreochromis strain Costa Rica 04-02-TN]
MAKIKTSFFCQSCGTQFAKWQGQCTSCKEWNTLVEEIVQKEEKVNWKTDSPSHKRVSKPLLVHEIDSTEEIRMNTTDGEL
NRVLGGGLVPGSLTLLGGEPGIGKSTLLLQISLKLPYKTLYVSGEESQKQIKMRAERITSNNDNCYILTETKTQNIFRQI
EVIEPDVVIIDSIQTLQTDYIESSAGSISQIKECTAELIKFAKETNTPVILIGHITKDGTIAGPKILEHMVDTVLQFEGD
RNHIYRILRSLKNRFGSTSELGIYEMLGSGLREVANPSEILISHKEEELSGTAIATTMEGMRPLMIEIQALVSTAVYGTP
QRSTTGYNAKRLNMILAVLEKRAGFRLGSKDVFLNITGGITVDDPAIDLAVVAAILSSNEDIPVGKDMCFAGEVGLSGEI
RPVNRIDQRIQEAEKLGFSTIFVSKYSKISLKNHLIAVKQVAKIEDVVSELFG

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=525741 JJC03_RS06605 WP_088397514.1 1373228..1374589(-) (radA) [Flavobacterium oreochromis strain Costa Rica 04-02-TN]
ATGGCTAAAATAAAAACATCTTTTTTTTGTCAAAGTTGCGGGACTCAATTTGCCAAATGGCAAGGTCAATGTACATCCTG
TAAAGAATGGAATACTCTAGTTGAAGAAATTGTACAAAAAGAAGAAAAAGTTAATTGGAAAACAGATAGTCCTTCTCATA
AAAGAGTTTCTAAACCTCTTTTAGTTCATGAAATAGATTCTACTGAAGAGATTCGAATGAATACAACTGACGGAGAGTTA
AATCGTGTTTTAGGCGGTGGATTAGTTCCTGGTTCACTCACCTTGTTAGGAGGTGAACCAGGAATAGGCAAAAGTACTTT
ATTACTCCAAATATCACTTAAATTACCTTACAAAACACTATATGTTTCCGGTGAAGAAAGTCAGAAACAAATAAAAATGC
GAGCGGAACGTATTACCTCTAACAATGATAATTGCTACATACTAACCGAAACAAAAACACAAAATATATTTAGGCAAATT
GAAGTAATAGAACCTGACGTAGTCATAATTGATTCGATACAAACTTTACAAACAGACTATATAGAATCCTCTGCTGGTAG
CATTTCCCAAATTAAAGAATGTACAGCAGAATTAATAAAATTTGCTAAAGAAACAAATACTCCTGTTATTTTAATAGGAC
ATATCACAAAGGATGGAACCATTGCAGGTCCAAAAATTCTAGAACACATGGTAGATACCGTGCTACAGTTTGAAGGCGAT
CGAAATCATATTTATCGAATTTTACGCTCGCTCAAAAATCGCTTTGGTTCTACATCTGAATTAGGTATTTATGAAATGCT
TGGATCAGGACTTAGAGAAGTGGCCAACCCTTCTGAGATATTAATATCTCACAAAGAAGAAGAATTATCAGGCACAGCCA
TAGCCACTACGATGGAAGGTATGCGCCCTTTAATGATTGAAATACAAGCTCTCGTTTCTACAGCAGTATATGGTACTCCT
CAGAGAAGCACTACAGGTTATAATGCTAAAAGACTAAATATGATACTCGCTGTTTTAGAAAAAAGAGCTGGTTTCCGATT
AGGATCAAAAGACGTTTTTCTAAATATAACAGGCGGAATTACAGTAGATGACCCAGCTATTGACCTTGCTGTTGTTGCTG
CTATACTTTCTTCAAATGAAGATATTCCTGTAGGAAAGGATATGTGTTTTGCAGGTGAAGTGGGCTTATCAGGTGAAATA
CGGCCTGTAAACAGAATAGACCAACGAATACAAGAAGCTGAAAAACTGGGATTTTCAACAATATTTGTTTCTAAATACAG
TAAAATATCATTAAAAAACCATCTAATAGCAGTTAAACAAGTAGCAAAAATTGAAGACGTAGTCAGCGAATTATTCGGAT
AA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(72-219)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(9-35)

Subunit ChlI of Mg-chelatase (ChlI)

(315-425)


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 D39

49.672

100

0.501
  radA Streptococcus pneumoniae Rx1

49.672

100

0.501
  radA Streptococcus pneumoniae R6

49.672

100

0.501
  radA Streptococcus pneumoniae TIGR4

49.672

100

0.501
  radA Streptococcus mitis SK321

49.342

100

0.497
  radA Streptococcus mitis NCTC 12261

49.342

100

0.497
  radA Bacillus subtilis subsp. subtilis str. 168

50.939

94.04

0.479