Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   IB211_RS07730 Genome accession   NZ_CP011307
Coordinates   1629123..1630493 (-) Length   456 a.a.
NCBI ID   WP_033116693.1    Uniprot ID   A0A0S2W3W1
Organism   Intestinimonas butyriciproducens strain AF211     
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 1618673..1647474 1629123..1630493 within 0


Gene organization within MGE regions


Location: 1618673..1647474
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IB211_RS07665 (IB211_01634c) - 1618673..1619635 (-) 963 Protein_1569 DUF6179 domain-containing protein -
  IB211_RS07675 (IB211_01636c) - 1619628..1620083 (-) 456 WP_033116712.1 DUF6323 family protein -
  IB211_RS07680 (IB211_01637) - 1620337..1621158 (+) 822 WP_058117704.1 formate/nitrite transporter family protein -
  IB211_RS07685 (IB211_01638c) - 1621163..1621783 (-) 621 WP_058117705.1 Crp/Fnr family transcriptional regulator -
  IB211_RS07690 (IB211_01639) leuC 1621882..1623159 (+) 1278 WP_058117706.1 3-isopropylmalate dehydratase large subunit -
  IB211_RS07695 (IB211_01640) - 1623156..1623641 (+) 486 WP_058117707.1 3-isopropylmalate dehydratase small subunit -
  IB211_RS07700 (IB211_01641) leuB 1623638..1624714 (+) 1077 WP_058117708.1 3-isopropylmalate dehydrogenase -
  IB211_RS07705 (IB211_01642) - 1624867..1625667 (+) 801 WP_227151522.1 type III pantothenate kinase -
  IB211_RS07710 (IB211_01643) - 1625765..1626394 (+) 630 WP_058117710.1 ECF transporter S component -
  IB211_RS07715 (IB211_01644c) - 1626462..1627115 (-) 654 WP_058117711.1 HAD family hydrolase -
  IB211_RS07720 (IB211_01645) - 1627236..1627790 (+) 555 WP_033116703.1 amidase domain-containing protein -
  IB211_RS07725 (IB211_01646c) - 1627787..1628815 (-) 1029 WP_058118746.1 tyrosine-type recombinase/integrase -
  IB211_RS07730 (IB211_01647c) radA 1629123..1630493 (-) 1371 WP_033116693.1 DNA repair protein RadA Machinery gene
  IB211_RS07735 (IB211_01648c) - 1630483..1631232 (-) 750 WP_147586118.1 N-acetylmuramoyl-L-alanine amidase -
  IB211_RS07740 (IB211_01649c) - 1631283..1632659 (-) 1377 WP_058117712.1 MATE family efflux transporter -
  IB211_RS07745 (IB211_01650) - 1632846..1633304 (+) 459 WP_058117713.1 spore coat protein CotJB -
  IB211_RS07750 (IB211_01651) - 1633305..1633901 (+) 597 WP_033116692.1 manganese catalase family protein -
  IB211_RS07755 (IB211_01652c) - 1633965..1635326 (-) 1362 WP_058117714.1 radical SAM protein -
  IB211_RS07760 (IB211_01653c) ligA 1635468..1637444 (-) 1977 WP_058117715.1 NAD-dependent DNA ligase LigA -
  IB211_RS07765 - 1637422..1638036 (-) 615 WP_081959787.1 VanZ family protein -
  IB211_RS07770 (IB211_01654c) yunB 1638050..1638745 (-) 696 WP_082636035.1 sporulation protein YunB -
  IB211_RS07775 (IB211_01655c) - 1638776..1640026 (-) 1251 WP_058118747.1 aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme -
  IB211_RS07780 (IB211_01656c) - 1640062..1641054 (-) 993 WP_058117717.1 M42 family metallopeptidase -
  IB211_RS07785 (IB211_01657c) - 1641071..1642093 (-) 1023 WP_058117718.1 M42 family metallopeptidase -
  IB211_RS07790 (IB211_01658c) - 1642087..1643127 (-) 1041 WP_242857430.1 M42 family peptidase -
  IB211_RS07795 (IB211_01659c) murD 1643206..1644582 (-) 1377 WP_058117719.1 UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase -
  IB211_RS07800 (IB211_01660c) - 1645173..1645901 (-) 729 WP_058117720.1 YebC/PmpR family DNA-binding transcriptional regulator -
  IB211_RS07805 (IB211_01661c) - 1645976..1646776 (-) 801 WP_058117721.1 Nif3-like dinuclear metal center hexameric protein -
  IB211_RS07810 - 1646764..1647474 (-) 711 WP_058117722.1 tRNA (adenine(22)-N(1))-methyltransferase -

Sequence

Protein


Download         Length: 456 a.a.        Molecular weight: 49180.75 Da        Isoelectric Point: 5.8674

>NTDB_id=144367 IB211_RS07730 WP_033116693.1 1629123..1630493(-) (radA) [Intestinimonas butyriciproducens strain AF211]
MRAKTIFYCTECGNETPKWVGKCPACGSWNTMVEQPQEAKKKGSPVAQGISVRGSSVSRPKSLAEVETTDELRFPTGLSE
LDRVLGGGAVQGSLVLVGGAPGIGKSTLMLQICDNLCRFSKVLYVSGEESERQIKLRAERLGVRSESLYLLAETSLENIL
ESVHELKPDVLIVDSIQTMYDEEQTTSPGSVGQVKCCTMSLMQLAKGEGITVFVIGHVNKEGSIAGPKVLEHMVDCVLYF
EGEPHMSYRILRAAKNRFGATNEIGVFEMADSGLVEVPNPSETLLAGRPKDTPGTCVTCVMEGNRPVLAEIQALLAPTSF
GNPRRTSNGFDYNRAMLLLAVLEKRGGLIVSSCDAYMNVIGGLYLDEPAADLAAIISIASSFRDKPVPGELTAIGEVGLT
GELRSVSALGQRLSEVRRLGFKRCLIPAQNSMKLVEPEGLQLVRVRNIREALSAVL

Nucleotide


Download         Length: 1371 bp        

>NTDB_id=144367 IB211_RS07730 WP_033116693.1 1629123..1630493(-) (radA) [Intestinimonas butyriciproducens strain AF211]
ATGAGGGCTAAAACGATTTTTTATTGTACGGAATGCGGCAATGAAACGCCCAAATGGGTAGGGAAGTGTCCTGCCTGCGG
GAGCTGGAATACTATGGTGGAACAGCCCCAAGAGGCCAAAAAGAAAGGGAGTCCTGTGGCTCAGGGGATATCTGTCAGAG
GGAGTTCTGTCAGTCGTCCTAAATCTCTTGCAGAGGTCGAAACTACAGATGAACTGCGATTCCCCACAGGCCTGAGTGAG
TTGGACCGTGTCTTGGGCGGCGGAGCTGTTCAGGGATCTCTGGTTTTGGTGGGCGGTGCTCCGGGGATTGGAAAGTCTAC
GCTGATGCTTCAAATCTGCGATAATCTTTGCCGCTTTTCCAAAGTGCTCTATGTATCCGGCGAAGAGTCTGAACGGCAGA
TCAAGCTGCGGGCCGAGCGGTTAGGCGTCCGCAGTGAGAGCCTTTATCTGCTGGCTGAAACTAGTCTGGAGAATATTCTG
GAGTCCGTCCATGAGTTAAAACCCGATGTACTTATTGTGGACTCTATTCAGACCATGTACGACGAGGAGCAGACTACTTC
TCCAGGCAGTGTAGGTCAGGTAAAGTGCTGTACCATGTCACTGATGCAGCTCGCAAAAGGAGAGGGAATCACTGTATTCG
TCATTGGACATGTGAACAAGGAAGGCTCCATTGCCGGGCCCAAGGTACTGGAACATATGGTAGACTGTGTTCTATACTTT
GAAGGGGAGCCCCATATGTCCTATCGGATCCTGCGAGCAGCAAAGAACCGGTTCGGAGCCACCAATGAGATCGGTGTTTT
TGAGATGGCCGACAGCGGTCTCGTCGAGGTCCCAAATCCCTCCGAGACACTATTGGCAGGCCGCCCCAAGGACACTCCAG
GAACCTGTGTGACTTGTGTTATGGAGGGAAATCGACCTGTGCTGGCTGAGATCCAGGCGCTGCTTGCCCCTACAAGTTTT
GGAAACCCTCGCAGGACCAGCAATGGGTTTGACTACAACCGCGCGATGCTCTTGCTGGCGGTTTTGGAAAAGAGGGGCGG
GCTCATAGTAAGTTCTTGTGACGCCTATATGAATGTGATAGGCGGACTTTATCTGGATGAACCCGCTGCGGACTTAGCTG
CAATTATTTCCATTGCATCTAGTTTTCGGGACAAGCCTGTACCGGGCGAATTGACTGCAATTGGCGAGGTGGGGCTTACC
GGCGAACTCCGTTCCGTCAGCGCCTTGGGGCAGCGTCTTTCTGAAGTTAGGCGTTTGGGCTTTAAACGGTGTCTGATCCC
AGCTCAAAACAGTATGAAGCTGGTGGAACCTGAGGGCTTACAGCTTGTCCGAGTCCGAAATATTCGGGAGGCGCTCAGTG
CAGTTTTGTGA

Domains

Predicted by InterproScan.

Lon protease (S16) C-terminal proteolytic domain (Lon_C)

(366-450)

AAA domain (AAA_25)

(65-222)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(7-34)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A0S2W3W1

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

55.044

100

0.55
  radA Streptococcus mitis NCTC 12261

50.549

99.781

0.504
  radA Streptococcus pneumoniae Rx1

50.549

99.781

0.504
  radA Streptococcus pneumoniae D39

50.549

99.781

0.504
  radA Streptococcus pneumoniae R6

50.549

99.781

0.504
  radA Streptococcus pneumoniae TIGR4

50.549

99.781

0.504
  radA Streptococcus mitis SK321

50.549

99.781

0.504

Multiple sequence alignment