Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   M0R79_RS00085 Genome accession   NZ_CP096206
Coordinates   18178..19557 (+) Length   459 a.a.
NCBI ID   WP_248416946.1    Uniprot ID   -
Organism   Ignavigranum ruoffiae strain CPL 242382-20     
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)
Prophage 79..18167 18178..19557 flank 11


Gene organization within MGE regions


Location: 79..19557
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M0R79_RS00005 (M0R79_03125) dnaA 79..1410 (+) 1332 WP_092570977.1 chromosomal replication initiator protein DnaA -
  M0R79_RS00010 (M0R79_03120) dnaN 1572..2729 (+) 1158 WP_248416956.1 DNA polymerase III subunit beta -
  M0R79_RS00015 (M0R79_03115) yaaA 2893..3126 (+) 234 WP_092570981.1 S4 domain-containing protein YaaA -
  M0R79_RS00020 (M0R79_03110) recF 3123..4250 (+) 1128 WP_259560622.1 DNA replication/repair protein RecF -
  M0R79_RS00025 (M0R79_03105) gyrB 4268..6190 (+) 1923 WP_248416954.1 DNA topoisomerase (ATP-hydrolyzing) subunit B -
  M0R79_RS00030 (M0R79_03100) gyrA 6217..8742 (+) 2526 WP_248416953.1 DNA gyrase subunit A -
  M0R79_RS00035 (M0R79_03095) rpsF 8904..9203 (+) 300 WP_092570987.1 30S ribosomal protein S6 -
  M0R79_RS00040 (M0R79_03090) ssb 9241..9762 (+) 522 WP_248416952.1 single-stranded DNA-binding protein Machinery gene
  M0R79_RS00045 (M0R79_03085) rpsR 9795..10028 (+) 234 WP_092570991.1 30S ribosomal protein S18 -
  M0R79_RS00050 (M0R79_03080) - 10139..12145 (+) 2007 WP_248416951.1 DHH family phosphoesterase -
  M0R79_RS00055 (M0R79_03075) rplI 12148..12600 (+) 453 WP_248416950.1 50S ribosomal protein L9 -
  M0R79_RS00060 (M0R79_03070) dnaB 12637..14010 (+) 1374 WP_375163560.1 replicative DNA helicase -
  M0R79_RS00065 (M0R79_03065) - 14118..15014 (-) 897 WP_248416949.1 cation diffusion facilitator family transporter -
  M0R79_RS00070 (M0R79_03060) - 15034..15873 (-) 840 WP_259560629.1 C39 family peptidase -
  M0R79_RS00075 (M0R79_03055) glnA 16148..17488 (+) 1341 WP_248416947.1 type I glutamate--ammonia ligase -
  M0R79_RS00080 (M0R79_03050) - 17631..18167 (+) 537 WP_375163561.1 dUTP diphosphatase -
  M0R79_RS00085 (M0R79_03045) radA 18178..19557 (+) 1380 WP_248416946.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 459 a.a.        Molecular weight: 50682.38 Da        Isoelectric Point: 5.5555

>NTDB_id=680344 M0R79_RS00085 WP_248416946.1 18178..19557(+) (radA) [Ignavigranum ruoffiae strain CPL 242382-20]
MAKKKVIYECTACGYESPRWLGRCPNCGGWNTLEEQYVAPEPASNTLSNLTQRSANHPEASTLQNIPLMEAERISSKLAE
FDRVLGGGIVPGSLVLIGGDPGIGKSTLLLQVSLLLAEQNQQLLYVSGEESLSQIKLRAHRLSVQESELLLLAETDLTII
ANEINKTQPTIVIIDSIQTMTLPDHQGIAGSVSQVREVTGQLMRIAKDNQIAIFIVGHVTKEGNIAGPRMLEHMVDTVLY
FEGEKYNRFRILRAVKNRFGSTNEMGVFEMLDSGLKEVTNPSQMFLEERLPGAIGSIVVPALEGSRVVLAEIQSLMTPTV
FGNAKRTSSGMEYQKVSLILAVMEKHCGLLVQNQDAFFKTAGGVRLDDPAIDLALAMSIASSYWNRPTKVADCFVGEIGL
TGEIRRVNQIRDRIKEADKLGFKRIFIPKNNQDQLETDYEIEIVPISTIQEAVRLVFPR

Nucleotide


Download         Length: 1380 bp        

>NTDB_id=680344 M0R79_RS00085 WP_248416946.1 18178..19557(+) (radA) [Ignavigranum ruoffiae strain CPL 242382-20]
ATGGCAAAGAAAAAAGTAATCTACGAATGCACAGCTTGTGGTTATGAATCACCAAGATGGCTAGGCAGGTGTCCAAATTG
TGGTGGCTGGAATACTTTAGAAGAGCAATATGTTGCACCTGAACCTGCATCGAATACCTTGTCGAATTTAACTCAACGAT
CAGCCAACCATCCAGAAGCCAGCACTTTACAGAATATTCCTCTGATGGAGGCTGAACGAATTTCCAGTAAGCTGGCAGAA
TTTGATCGTGTCCTAGGTGGGGGCATCGTTCCAGGATCTTTAGTCTTGATTGGTGGAGATCCTGGCATTGGCAAGTCCAC
TCTATTATTACAAGTATCCTTGTTATTGGCCGAGCAGAATCAACAACTTCTATATGTATCCGGCGAAGAGAGTTTAAGCC
AAATAAAATTAAGAGCCCATCGCTTATCAGTACAAGAATCTGAATTATTATTATTAGCTGAGACGGATCTTACGATTATT
GCTAACGAAATTAATAAAACTCAGCCAACGATTGTAATTATTGACTCGATTCAAACGATGACTTTGCCAGATCATCAAGG
AATTGCCGGTTCTGTATCCCAAGTTCGAGAAGTCACCGGTCAATTGATGAGGATAGCTAAAGATAATCAAATCGCAATCT
TTATCGTTGGTCATGTTACCAAGGAAGGGAATATAGCTGGACCACGAATGTTAGAACATATGGTGGATACAGTTCTTTAT
TTCGAGGGAGAAAAGTACAATCGTTTCCGCATTTTGCGAGCTGTAAAGAATCGTTTTGGTTCGACGAATGAAATGGGTGT
CTTTGAGATGCTGGACTCGGGCTTAAAAGAAGTAACCAATCCTTCGCAAATGTTTTTGGAAGAACGGTTACCGGGAGCCA
TTGGCTCCATCGTGGTGCCTGCCCTGGAGGGGAGCCGGGTGGTCCTGGCTGAAATTCAATCCCTAATGACTCCCACCGTC
TTTGGGAATGCTAAGCGGACCAGTAGTGGTATGGAATATCAGAAAGTTTCTTTAATTTTGGCTGTAATGGAGAAACATTG
CGGTTTGTTAGTCCAAAATCAAGACGCCTTCTTTAAAACGGCAGGTGGTGTTCGTTTAGATGATCCAGCCATTGATTTAG
CTTTGGCGATGAGTATTGCATCTAGTTACTGGAACCGGCCGACTAAAGTGGCGGATTGCTTTGTGGGTGAAATTGGTCTA
ACAGGAGAAATTCGCAGAGTCAATCAAATCCGCGATCGAATTAAAGAGGCCGATAAGTTAGGCTTTAAACGAATCTTCAT
TCCTAAAAATAATCAGGACCAGTTAGAAACAGATTATGAGATTGAGATTGTTCCAATTAGTACGATTCAAGAAGCCGTAA
GACTAGTTTTTCCGCGATAA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(69-223)

Subunit ChlI of Mg-chelatase (ChlI)

(368-431)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)


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 mitis NCTC 12261

59.081

99.564

0.588
  radA Streptococcus mitis SK321

59.081

99.564

0.588
  radA Streptococcus pneumoniae Rx1

59.081

99.564

0.588
  radA Streptococcus pneumoniae D39

59.081

99.564

0.588
  radA Streptococcus pneumoniae R6

59.081

99.564

0.588
  radA Streptococcus pneumoniae TIGR4

59.081

99.564

0.588
  radA Bacillus subtilis subsp. subtilis str. 168

55.947

98.911

0.553