Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   R3O32_RS05875 Genome accession   NZ_CP178464
Coordinates   1467758..1469125 (-) Length   455 a.a.
NCBI ID   WP_005810649.1    Uniprot ID   -
Organism   Bacteroides hominis strain Tbg-6     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 1461294..1484133 1467758..1469125 within 0


Gene organization within MGE regions


Location: 1461294..1484133
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R3O32_RS05850 (R3O32_005850) - 1461294..1462268 (+) 975 WP_101604242.1 hypothetical protein -
  R3O32_RS05855 (R3O32_005855) - 1462465..1464867 (-) 2403 WP_005778641.1 TonB-dependent receptor -
  R3O32_RS05860 (R3O32_005860) - 1465105..1465704 (-) 600 WP_032537738.1 response regulator transcription factor -
  R3O32_RS05865 (R3O32_005865) - 1465713..1467302 (-) 1590 WP_195316662.1 NAD(P)/FAD-dependent oxidoreductase -
  R3O32_RS05870 (R3O32_005870) - 1467344..1467718 (-) 375 WP_032540283.1 GxxExxY protein -
  R3O32_RS05875 (R3O32_005875) radA 1467758..1469125 (-) 1368 WP_005810649.1 DNA repair protein RadA Machinery gene
  R3O32_RS05880 (R3O32_005880) - 1469949..1470356 (+) 408 WP_005778632.1 BT0820 family HAD-type phosphatase -
  R3O32_RS05885 (R3O32_005885) - 1470451..1472751 (-) 2301 WP_195316663.1 GumC family protein -
  R3O32_RS05890 (R3O32_005890) - 1472770..1473723 (-) 954 WP_080546242.1 polysaccharide biosynthesis/export family protein -
  R3O32_RS05895 (R3O32_005895) thrA 1474390..1476825 (+) 2436 WP_005778625.1 bifunctional aspartate kinase/homoserine dehydrogenase I -
  R3O32_RS05900 (R3O32_005900) - 1476836..1478047 (+) 1212 WP_195316664.1 cofactor-independent phosphoglycerate mutase -
  R3O32_RS05905 (R3O32_005905) thrC 1478197..1479498 (+) 1302 WP_195316665.1 threonine synthase -
  R3O32_RS05910 (R3O32_005910) - 1479827..1480774 (+) 948 WP_032531769.1 DMT family transporter -
  R3O32_RS05915 (R3O32_005915) - 1480728..1481351 (-) 624 WP_195316666.1 thiamine diphosphokinase -
  R3O32_RS05920 (R3O32_005920) pnuC 1481338..1481910 (-) 573 WP_005823108.1 nicotinamide riboside transporter PnuC -
  R3O32_RS05925 (R3O32_005925) - 1481914..1484133 (-) 2220 WP_195316667.1 TonB-dependent receptor -

Sequence

Protein


Download         Length: 455 a.a.        Molecular weight: 50199.95 Da        Isoelectric Point: 6.1360

>NTDB_id=1089681 R3O32_RS05875 WP_005810649.1 1467758..1469125(-) (radA) [Bacteroides hominis strain Tbg-6]
MAKEKTVYVCSNCGQESPKWVGKCPSCGEWNTYVEEIVRKEVPNKRPVSGIESPKAKPVTLNEIEADEEPRIDMHDEELN
RVLGGGLVPGSLVLIGGEPGIGKSTLVLQTVLHMPERRILYISGEESARQLKLRADRLTQTSSDCLIVCETSLEQIYVHI
KNTRPDLVIIDSIQTISTESIESSPGSIAQVRECSASILRFAKETHTPVLLIGHINKEGSIAGPKVLEHIVDTVLQFEGD
QHYMYRILRSIKNRFGSTAELGIYEMRQDGLRQVSNPSELLLSQDHEGMSGVAIASAIEGVRPFLIETQALVSSAVYGNP
QRSATGFDIRRMNMLLAVLEKRVGFKLAQKDVFLNIAGGLKVNDPAIDLAVISAILSSNMDAAIEPEVCMAGEIGLSGEI
RPVNRIEQRIGEAEKLGFKRFILPKYNMQGIDMKKLKIELVPVRKVEEAFRGLFG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=1089681 R3O32_RS05875 WP_005810649.1 1467758..1469125(-) (radA) [Bacteroides hominis strain Tbg-6]
ATGGCAAAAGAGAAAACCGTTTATGTATGCAGTAACTGCGGACAGGAATCACCCAAATGGGTGGGCAAGTGTCCTTCGTG
TGGCGAGTGGAATACTTATGTAGAAGAAATCGTACGCAAGGAGGTTCCGAATAAACGTCCGGTATCGGGCATCGAATCGC
CTAAAGCCAAACCTGTCACCCTGAACGAGATCGAAGCGGACGAGGAACCCCGCATCGACATGCACGACGAGGAGTTGAAC
CGGGTACTGGGCGGCGGACTGGTGCCGGGATCACTGGTGCTGATCGGTGGCGAACCGGGTATCGGAAAATCAACTCTGGT
ACTTCAAACCGTGCTCCACATGCCCGAACGCAGGATACTCTACATCTCCGGAGAAGAGAGTGCAAGGCAACTGAAGCTCC
GCGCGGACCGACTGACACAAACGTCGAGCGACTGCCTGATTGTGTGCGAAACGTCGTTGGAGCAGATCTATGTGCACATT
AAGAATACACGTCCGGACCTGGTAATCATCGACTCCATACAGACCATATCCACCGAAAGCATCGAGTCTTCGCCGGGAAG
TATCGCGCAAGTGCGGGAGTGCTCGGCCTCCATTCTCCGTTTTGCCAAAGAGACGCATACTCCGGTATTACTGATCGGGC
ATATCAACAAAGAAGGCAGCATTGCCGGTCCAAAGGTACTGGAACACATCGTAGACACCGTGCTCCAGTTTGAGGGGGAC
CAGCATTATATGTACCGCATCCTGCGCAGCATCAAGAACCGCTTTGGCAGTACGGCCGAACTGGGTATTTACGAGATGCG
GCAAGATGGTCTTCGCCAGGTCAGCAACCCGTCGGAGCTGTTGCTGTCGCAAGATCACGAAGGCATGAGCGGGGTAGCCA
TCGCATCTGCCATCGAAGGAGTCAGGCCGTTCCTGATAGAAACACAGGCACTTGTCAGTTCCGCCGTTTACGGCAATCCG
CAACGTTCGGCAACCGGATTCGATATCCGCCGCATGAACATGCTGCTGGCTGTGCTTGAGAAACGTGTCGGCTTCAAGTT
AGCACAGAAAGATGTCTTTCTAAATATTGCCGGGGGGCTGAAGGTGAACGACCCTGCCATCGACCTGGCTGTTATCAGTG
CCATCCTTTCATCCAATATGGATGCCGCCATCGAACCGGAAGTATGTATGGCAGGTGAAATCGGGTTGTCCGGTGAAATC
CGTCCGGTGAACCGGATCGAACAACGTATCGGTGAAGCCGAGAAGCTTGGATTCAAACGGTTTATCCTGCCTAAGTATAA
TATGCAGGGAATCGACATGAAGAAGCTGAAGATAGAACTGGTGCCGGTGAGAAAGGTGGAAGAGGCGTTCCGGGGACTCT
TCGGATGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(341-427)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(73-219)


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

51.528

100

0.519
  radA Streptococcus pneumoniae Rx1

48.352

100

0.484
  radA Streptococcus pneumoniae D39

48.352

100

0.484
  radA Streptococcus pneumoniae R6

48.352

100

0.484
  radA Streptococcus pneumoniae TIGR4

48.352

100

0.484
  radA Streptococcus mitis NCTC 12261

48.352

100

0.484
  radA Streptococcus mitis SK321

48.132

100

0.481

Multiple sequence alignment