Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   SIDU_RS09125 Genome accession   NZ_CP013070
Coordinates   1860355..1861722 (-) Length   455 a.a.
NCBI ID   WP_007687127.1    Uniprot ID   A0A8E0WV06
Organism   Sphingobium indicum B90A     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1855355..1866722
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SIDU_RS09100 (SIDU_08955) rpsP 1855805..1856272 (-) 468 WP_007687139.1 30S ribosomal protein S16 -
  SIDU_RS09105 (SIDU_08960) ffh 1856374..1857825 (-) 1452 WP_007687133.1 signal recognition particle protein -
  SIDU_RS09110 (SIDU_08965) - 1858113..1859435 (-) 1323 WP_007687132.1 aminopeptidase P family protein -
  SIDU_RS09115 (SIDU_08970) - 1859555..1859737 (-) 183 WP_007687130.1 general stress protein CsbD -
  SIDU_RS09120 (SIDU_08975) - 1859829..1860344 (-) 516 WP_007687129.1 CvpA family protein -
  SIDU_RS09125 (SIDU_08980) radA 1860355..1861722 (-) 1368 WP_007687127.1 DNA repair protein RadA Machinery gene
  SIDU_RS09130 (SIDU_08985) - 1861812..1862510 (+) 699 WP_025771699.1 endonuclease/exonuclease/phosphatase family protein -
  SIDU_RS09140 (SIDU_08990) - 1863118..1863816 (-) 699 WP_007687118.1 N-acetylmuramoyl-L-alanine amidase -
  SIDU_RS09145 (SIDU_08995) - 1863930..1864832 (-) 903 WP_007687116.1 protein-glutamate O-methyltransferase CheR -
  SIDU_RS09150 (SIDU_09000) - 1864832..1865908 (-) 1077 WP_007687115.1 chemotaxis protein CheB -
  SIDU_RS09155 (SIDU_09005) - 1865991..1866356 (-) 366 WP_007687112.1 response regulator -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 47755.67 Da        Isoelectric Point: 6.5868

>NTDB_id=159560 SIDU_RS09125 WP_007687127.1 1860355..1861722(-) (radA) [Sphingobium indicum B90A]
MAKAKRKFVCQQCGTVSGRWQGQCDDCGEWNSIVEEAAETVFSARHDLHSGGRALMLVGLDDKVELPPRTTTGIAEFDRA
LGGGIVSGSATLIGGDPGIGKSTLLLQAAARIASAGHSVAYISGEEASDQVRLRAQRLGLGNAPVQLASATSVRDILTTL
GEGAPPALLIIDSIQTMHSDLIEGAPGTVSQVRASSQELIRFAKQRGTALILVGHVTKDGSIAGPRVLEHMVDTVLSFEG
ERSHQYRILRAIKNRFGGTDEIGVFAMVAEGLEEVANPSALFLTHRDENVTGATVFPALEGTRPVLVEIQALVVRLSSGA
TPRRAVVGWDSGRLAMVLAVLEARCGLSFSTCEVYLNVAGGYRLSDPAADLAVAAALMSALSERPVPADVVLFGEIALSG
EIRPVAHAPLRLREAAKLGFNRAFVPAAVADGVKGISVSGYRALAQLVDQMLGRG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=159560 SIDU_RS09125 WP_007687127.1 1860355..1861722(-) (radA) [Sphingobium indicum B90A]
ATGGCAAAAGCAAAGCGCAAATTCGTCTGTCAGCAATGCGGCACCGTTTCCGGCCGGTGGCAGGGGCAGTGCGACGATTG
CGGCGAATGGAACAGCATCGTCGAGGAAGCGGCGGAGACGGTCTTTTCCGCCCGCCATGACCTGCATAGCGGGGGCAGGG
CGCTGATGCTGGTGGGGCTGGACGACAAGGTGGAGCTGCCGCCGCGCACCACGACCGGGATCGCGGAATTCGACCGGGCA
TTGGGTGGCGGGATCGTTTCCGGTTCGGCCACGCTGATCGGCGGCGATCCGGGCATCGGCAAGTCGACGCTGCTGTTGCA
GGCGGCGGCGCGCATCGCTTCGGCCGGGCACAGCGTCGCCTATATCAGCGGCGAGGAGGCGTCGGACCAGGTCCGGCTGC
GCGCCCAGCGCCTGGGTCTGGGCAATGCGCCGGTGCAACTGGCCAGCGCCACTTCCGTGCGCGACATACTGACCACGCTG
GGGGAGGGCGCCCCGCCCGCGCTGCTGATCATCGATTCGATCCAGACGATGCACAGCGACCTGATCGAGGGCGCGCCGGG
CACGGTCAGCCAGGTGCGCGCTTCCAGCCAGGAACTGATCCGCTTCGCCAAGCAGCGCGGCACCGCGCTGATCCTGGTCG
GCCATGTGACCAAGGACGGCAGCATTGCCGGTCCCCGCGTGCTGGAGCATATGGTCGACACGGTGTTGAGCTTCGAGGGC
GAGCGCAGTCATCAATATCGTATCCTGCGCGCCATCAAGAACCGCTTTGGCGGCACGGACGAGATCGGGGTGTTTGCCAT
GGTGGCGGAAGGGCTGGAGGAGGTCGCCAACCCCTCCGCCCTGTTCCTCACGCATCGCGACGAGAATGTGACCGGCGCGA
CCGTGTTTCCCGCGCTGGAGGGGACGCGGCCGGTGCTGGTGGAGATCCAGGCGCTGGTGGTGCGGCTTTCCAGCGGCGCG
ACCCCCCGCCGCGCCGTGGTGGGGTGGGACAGCGGGCGGCTTGCCATGGTGCTGGCCGTGCTGGAGGCGCGCTGCGGCCT
CAGCTTCTCGACCTGCGAAGTCTATCTGAACGTCGCGGGCGGCTATCGCCTGTCGGACCCGGCAGCCGACCTTGCCGTCG
CCGCCGCGTTGATGTCGGCCCTGTCGGAGCGTCCCGTGCCCGCCGATGTCGTCCTCTTCGGCGAAATCGCGCTGTCGGGG
GAAATCCGTCCCGTGGCGCATGCCCCGCTGCGGCTGCGGGAAGCCGCCAAGCTGGGTTTCAACCGCGCCTTCGTCCCCGC
CGCCGTGGCGGACGGGGTCAAGGGCATTTCGGTCAGCGGCTATCGCGCCCTTGCGCAACTTGTTGACCAGATGCTTGGGC
GCGGATAG

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(82-220)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(343-427)


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 Bacillus subtilis subsp. subtilis str. 168

48.052

100

0.488
  radA Streptococcus mitis NCTC 12261

46.053

100

0.462
  radA Streptococcus pneumoniae Rx1

45.833

100

0.459
  radA Streptococcus pneumoniae D39

45.833

100

0.459
  radA Streptococcus pneumoniae R6

45.833

100

0.459
  radA Streptococcus pneumoniae TIGR4

45.833

100

0.459
  radA Streptococcus mitis SK321

47.235

95.385

0.451

Multiple sequence alignment