Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   EE52_RS06575 Genome accession   NZ_CP036542
Coordinates   1543014..1544381 (-) Length   455 a.a.
NCBI ID   WP_005810649.1    Uniprot ID   -
Organism   Bacteroides fragilis strain DCMOUH0018B     
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 1536474..1559372 1543014..1544381 within 0


Gene organization within MGE regions


Location: 1536474..1559372
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EE52_RS06550 (EE52_006555) - 1536474..1537448 (+) 975 WP_005810656.1 zinc ribbon domain-containing protein -
  EE52_RS06555 (EE52_006560) - 1537711..1540113 (-) 2403 WP_044302181.1 TonB-dependent receptor -
  EE52_RS06560 (EE52_006565) - 1540361..1540960 (-) 600 WP_032531771.1 response regulator transcription factor -
  EE52_RS06565 (EE52_006570) - 1540969..1542558 (-) 1590 WP_032538157.1 NAD(P)/FAD-dependent oxidoreductase -
  EE52_RS06570 (EE52_006575) - 1542600..1542974 (-) 375 WP_032540283.1 GxxExxY protein -
  EE52_RS06575 (EE52_006580) radA 1543014..1544381 (-) 1368 WP_005810649.1 DNA repair protein RadA Machinery gene
  EE52_RS06580 (EE52_006585) - 1545205..1545612 (+) 408 WP_005778632.1 BT0820 family HAD-type phosphatase -
  EE52_RS06585 (EE52_006590) - 1545707..1548001 (-) 2295 WP_022011551.1 tyrosine-protein kinase -
  EE52_RS06590 (EE52_006595) - 1548020..1548973 (-) 954 WP_080783896.1 polysaccharide biosynthesis/export family protein -
  EE52_RS06595 (EE52_006600) thrA 1549640..1552075 (+) 2436 WP_005778625.1 bifunctional aspartate kinase/homoserine dehydrogenase I -
  EE52_RS06600 (EE52_006605) - 1552087..1553298 (+) 1212 WP_044302180.1 cofactor-independent phosphoglycerate mutase -
  EE52_RS06605 (EE52_006610) thrC 1553448..1554749 (+) 1302 WP_044302179.1 threonine synthase -
  EE52_RS06610 (EE52_006615) - 1555066..1556013 (+) 948 WP_044302227.1 DMT family transporter -
  EE52_RS06615 (EE52_006620) - 1555967..1556590 (-) 624 WP_005810634.1 thiamine diphosphokinase -
  EE52_RS06620 (EE52_006625) pnuC 1556577..1557149 (-) 573 WP_005810632.1 nicotinamide riboside transporter PnuC -
  EE52_RS06625 (EE52_006630) - 1557153..1559372 (-) 2220 WP_032536851.1 TonB-dependent receptor -

Sequence

Protein


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

>NTDB_id=349542 EE52_RS06575 WP_005810649.1 1543014..1544381(-) (radA) [Bacteroides fragilis strain DCMOUH0018B]
MAKEKTVYVCSNCGQESPKWVGKCPSCGEWNTYVEEIVRKEVPNKRPVSGIESPKAKPVTLNEIEADEEPRIDMHDEELN
RVLGGGLVPGSLVLIGGEPGIGKSTLVLQTVLHMPERRILYISGEESARQLKLRADRLTQTSSDCLIVCETSLEQIYVHI
KNTRPDLVIIDSIQTISTESIESSPGSIAQVRECSASILRFAKETHTPVLLIGHINKEGSIAGPKVLEHIVDTVLQFEGD
QHYMYRILRSIKNRFGSTAELGIYEMRQDGLRQVSNPSELLLSQDHEGMSGVAIASAIEGVRPFLIETQALVSSAVYGNP
QRSATGFDIRRMNMLLAVLEKRVGFKLAQKDVFLNIAGGLKVNDPAIDLAVISAILSSNMDAAIEPEVCMAGEIGLSGEI
RPVNRIEQRIGEAEKLGFKRFILPKYNMQGIDMKKLKIELVPVRKVEEAFRGLFG

Nucleotide


Download         Length: 1368 bp        

>NTDB_id=349542 EE52_RS06575 WP_005810649.1 1543014..1544381(-) (radA) [Bacteroides fragilis strain DCMOUH0018B]
ATGGCAAAAGAGAAAACCGTTTATGTATGCAGTAACTGCGGACAGGAATCACCCAAATGGGTAGGCAAGTGTCCTTCGTG
TGGCGAGTGGAATACTTATGTAGAAGAAATCGTACGCAAGGAGGTTCCGAATAAACGTCCGGTATCGGGCATCGAATCGC
CTAAAGCCAAACCTGTCACCCTGAACGAGATCGAAGCGGACGAGGAACCCCGCATCGACATGCACGACGAGGAGTTGAAC
CGGGTACTGGGCGGCGGACTGGTGCCGGGATCACTGGTGCTGATCGGTGGCGAACCGGGTATCGGAAAATCGACTCTGGT
ACTTCAAACCGTGCTCCACATGCCCGAACGCAGGATACTCTACATCTCCGGAGAAGAGAGTGCAAGGCAACTGAAGCTCC
GCGCGGACCGACTGACACAAACGTCGAGCGACTGCCTGATTGTGTGCGAAACGTCGTTGGAGCAGATCTATGTGCACATT
AAGAATACACGTCCGGACCTGGTAATCATCGACTCCATACAGACCATATCCACCGAAAGCATCGAGTCTTCGCCGGGAAG
TATCGCGCAAGTGCGGGAGTGCTCGGCCTCCATTCTCCGTTTTGCCAAAGAGACGCATACTCCGGTATTACTGATCGGGC
ATATCAACAAAGAAGGCAGCATTGCCGGTCCGAAGGTACTGGAACACATCGTAGACACCGTGCTCCAGTTTGAGGGGGAC
CAGCATTATATGTACCGCATCCTGCGCAGCATCAAGAACCGCTTTGGCAGTACGGCCGAACTGGGTATTTACGAGATGCG
GCAAGACGGTCTTCGCCAGGTCAGCAACCCGTCGGAGCTGTTGCTATCGCAAGATCACGAAGGCATGAGCGGGGTAGCCA
TCGCATCTGCCATCGAAGGAGTCAGGCCGTTCCTGATAGAAACACAGGCACTTGTCAGTTCTGCCGTTTACGGCAATCCG
CAACGTTCGGCAACCGGATTCGATATCCGCCGCATGAACATGCTGCTGGCTGTGCTTGAGAAACGTGTCGGCTTCAAGTT
AGCACAGAAAGATGTCTTTCTAAATATTGCCGGGGGGCTGAAGGTGAACGACCCTGCCATCGACCTGGCTGTTATCAGTG
CCATCCTTTCATCCAATATGGATGCCGCCATCGAACCGGAAGTCTGTATGGCAGGTGAAATCGGGTTGTCCGGTGAAATC
CGTCCGGTGAACCGAATCGAACAACGTATCGGTGAAGCCGAGAAGCTTGGATTCAAACGGTTTATCCTGCCTAAGTATAA
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