Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   FBF37_RS02345 Genome accession   NZ_CP040004
Coordinates   447759..449108 (-) Length   449 a.a.
NCBI ID   WP_138079112.1    Uniprot ID   A0A4P9A396
Organism   Candidatus Nanosynbacter featherlites strain BB001     
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)
ICE 420284..465328 447759..449108 within 0


Gene organization within MGE regions


Location: 420284..465328
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FBF37_RS02205 (FBF37_02205) - 420284..420772 (-) 489 WP_138079066.1 tyrosine-type recombinase/integrase -
  FBF37_RS02210 (FBF37_02210) - 420950..421321 (+) 372 WP_138079068.1 EXLDI protein -
  FBF37_RS02220 (FBF37_02220) - 421695..422987 (-) 1293 WP_138079070.1 hypothetical protein -
  FBF37_RS02225 (FBF37_02225) - 423543..424172 (+) 630 WP_138079072.1 hypothetical protein -
  FBF37_RS02230 (FBF37_02230) - 424214..425944 (+) 1731 WP_138079074.1 LamG-like jellyroll fold domain-containing protein -
  FBF37_RS02240 (FBF37_02240) - 426055..426669 (+) 615 WP_138079076.1 hypothetical protein -
  FBF37_RS02245 (FBF37_02245) - 426731..427192 (+) 462 WP_138079078.1 hypothetical protein -
  FBF37_RS02250 (FBF37_02250) - 427213..427740 (+) 528 WP_138079080.1 hypothetical protein -
  FBF37_RS02255 (FBF37_02255) typA 427785..429608 (+) 1824 WP_138079082.1 translational GTPase TypA -
  FBF37_RS02260 (FBF37_02260) - 429689..430240 (-) 552 WP_138079084.1 hypothetical protein -
  FBF37_RS02265 (FBF37_02265) treF 430311..431909 (+) 1599 WP_138079086.1 alpha,alpha-trehalase TreF -
  FBF37_RS02270 (FBF37_02270) - 431911..433083 (-) 1173 WP_138079088.1 replication-associated recombination protein A -
  FBF37_RS02275 (FBF37_02275) - 433163..434707 (+) 1545 WP_138079090.1 metallophosphoesterase -
  FBF37_RS02280 (FBF37_02280) - 434750..436324 (-) 1575 WP_138079092.1 alpha-amylase family glycosyl hydrolase -
  FBF37_RS02285 (FBF37_02285) - 436380..437834 (-) 1455 WP_138079094.1 hypothetical protein -
  FBF37_RS02305 (FBF37_02305) - 438345..438557 (-) 213 WP_138079096.1 hypothetical protein -
  FBF37_RS02310 (FBF37_02310) rsmD 438692..439240 (-) 549 WP_138079098.1 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD -
  FBF37_RS02315 (FBF37_02315) - 439237..440052 (-) 816 WP_138079100.1 hypothetical protein -
  FBF37_RS02320 (FBF37_02320) recG 440054..442096 (-) 2043 WP_138079102.1 ATP-dependent DNA helicase RecG -
  FBF37_RS02325 (FBF37_02325) - 442097..442852 (-) 756 WP_138079104.1 HAD-IIB family hydrolase -
  FBF37_RS02330 (FBF37_02330) tyrS 442852..444072 (-) 1221 WP_138079106.1 tyrosine--tRNA ligase -
  FBF37_RS02335 (FBF37_02335) - 444159..446813 (+) 2655 WP_174843586.1 transglycosylase domain-containing protein -
  FBF37_RS02340 (FBF37_02340) - 446810..447733 (-) 924 WP_138079110.1 PIN/TRAM domain-containing protein -
  FBF37_RS02345 (FBF37_02345) radA 447759..449108 (-) 1350 WP_138079112.1 DNA repair protein RadA Machinery gene
  FBF37_RS02350 (FBF37_02350) - 449108..450085 (-) 978 WP_138079114.1 hypothetical protein -
  FBF37_RS04230 - 450072..450341 (-) 270 WP_420887534.1 hypothetical protein -
  FBF37_RS02360 (FBF37_02360) - 450429..452520 (-) 2092 Protein_445 ATP-dependent Clp protease ATP-binding subunit -
  FBF37_RS02365 (FBF37_02365) nusA 452573..453697 (-) 1125 WP_138079120.1 transcription termination factor NusA -
  FBF37_RS02370 (FBF37_02370) - 453809..454594 (-) 786 WP_138079122.1 hypothetical protein -
  FBF37_RS02375 (FBF37_02375) - 454684..455433 (+) 750 WP_138079124.1 hypothetical protein -
  FBF37_RS02380 (FBF37_02380) - 455439..456125 (-) 687 WP_138079126.1 HNH endonuclease family protein -
  FBF37_RS02385 (FBF37_02385) - 456201..458726 (+) 2526 WP_138079128.1 M1 family metallopeptidase -
  FBF37_RS02390 (FBF37_02390) - 458865..459134 (+) 270 WP_138079130.1 hypothetical protein -
  FBF37_RS02395 (FBF37_02395) - 459221..460237 (-) 1017 WP_236861220.1 ribonuclease HII -
  FBF37_RS02400 (FBF37_02400) - 460392..460598 (+) 207 WP_138079134.1 hypothetical protein -
  FBF37_RS02405 (FBF37_02405) - 460630..461130 (-) 501 WP_138079136.1 hypothetical protein -
  FBF37_RS04235 (FBF37_02410) rplS 461193..461714 (-) 522 WP_411912119.1 50S ribosomal protein L19 -
  FBF37_RS02415 (FBF37_02415) - 461892..462095 (-) 204 WP_138079140.1 hypothetical protein -
  FBF37_RS02420 (FBF37_02420) - 462108..462425 (-) 318 WP_138079142.1 hypothetical protein -
  FBF37_RS02425 (FBF37_02425) - 462532..463665 (+) 1134 WP_138079144.1 NAD(P)-dependent malic enzyme -
  FBF37_RS02430 (FBF37_02430) - 463697..465319 (-) 1623 WP_174843587.1 GspE/PulE family protein -

Sequence

Protein


Download         Length: 449 a.a.        Molecular weight: 47248.94 Da        Isoelectric Point: 7.3245

>NTDB_id=361550 FBF37_RS02345 WP_138079112.1 447759..449108(-) (radA) [Candidatus Nanosynbacter featherlites strain BB001]
MARAKSQFICQQCGASYPKWVGKCENCGEWNSLVEQLPVDTGASAVARSSGKGKALTTLKLSETATETKQARLATGIADL
DAVLGGGFLPGGVVLVAGQPGIGKSTLLAQVAAFVARQQPVLYVSGEESVSQVKLRAERLGAVDSENLQLASSNSAEDIA
ASIQTGQYDLVIVDSIQTLSLAEIASAPGSVSQITNSSNVIIRAAKASNTAVILVGHVTKEGSIAGPKVLEHLVDVVLNF
EGDRYGGFRVVRAQKNRYGSTNEAAIFEMHEDGLQIVANPSASLLAERQNLDGSIVLATMEGARPLLVEIQALVNPTNFG
YPKRAASGFDLNRLNLLVAVLEKRTKLNLSDKDIYINVVGGLKLSDPAADLAVAMAIASASAGRKLSDEAVVFGEVGLGG
EVRSAQGWHARVKEAKKLGFIYAIAPKTHKDAFVRGVGDLRQALIDYLQ

Nucleotide


Download         Length: 1350 bp        

>NTDB_id=361550 FBF37_RS02345 WP_138079112.1 447759..449108(-) (radA) [Candidatus Nanosynbacter featherlites strain BB001]
ATGGCCCGGGCAAAATCACAATTCATTTGCCAACAGTGTGGCGCTAGCTATCCGAAATGGGTTGGCAAGTGTGAAAATTG
TGGTGAGTGGAACTCGCTGGTTGAGCAACTACCAGTCGATACTGGTGCGTCGGCGGTAGCCCGCAGCAGCGGTAAGGGCA
AGGCGCTCACCACGCTCAAGCTCAGCGAAACGGCTACTGAAACTAAACAGGCGCGACTGGCAACCGGCATTGCTGACCTT
GACGCGGTGCTCGGCGGCGGCTTTTTGCCAGGCGGCGTGGTGCTAGTGGCGGGGCAGCCGGGAATTGGCAAAAGTACCCT
GCTGGCACAAGTCGCGGCGTTTGTTGCTCGGCAGCAACCGGTGCTCTATGTCAGTGGCGAAGAGTCGGTGTCGCAGGTCA
AATTGCGGGCTGAGCGGCTGGGTGCGGTCGACTCGGAGAACTTACAATTGGCGTCCAGTAATAGCGCCGAAGACATCGCG
GCGTCCATCCAGACTGGCCAGTATGATCTGGTGATCGTCGATTCCATCCAGACATTGTCACTGGCAGAAATTGCTTCAGC
GCCAGGCTCAGTCAGTCAAATCACCAATTCATCCAACGTCATCATTCGCGCCGCCAAAGCCTCGAATACCGCAGTGATTT
TGGTTGGCCACGTCACCAAAGAAGGCTCAATTGCCGGGCCGAAAGTTCTGGAGCATTTGGTTGACGTGGTGCTGAATTTT
GAGGGTGATCGCTACGGTGGTTTTCGCGTAGTGCGGGCGCAGAAAAATCGCTATGGTTCGACCAATGAGGCGGCAATTTT
TGAGATGCATGAGGACGGTCTACAGATTGTGGCTAATCCATCGGCTAGTTTGCTAGCGGAGCGGCAAAATCTCGACGGCT
CCATCGTCCTCGCGACCATGGAGGGGGCGCGGCCGCTATTGGTGGAGATTCAGGCGCTGGTCAATCCGACGAATTTTGGC
TATCCCAAGCGGGCGGCTAGTGGCTTTGATCTCAACCGCTTGAATTTGTTAGTGGCGGTGCTGGAAAAGCGCACCAAGCT
TAATCTCTCCGACAAAGATATTTACATCAACGTGGTTGGCGGCCTGAAACTCAGCGATCCAGCGGCGGACTTGGCGGTCG
CCATGGCCATTGCCTCAGCCTCGGCTGGCCGCAAACTGAGCGACGAAGCGGTGGTGTTTGGTGAAGTCGGTTTGGGCGGT
GAAGTCCGCTCAGCTCAAGGCTGGCACGCCCGCGTCAAAGAGGCGAAGAAGCTCGGTTTTATCTACGCCATTGCGCCCAA
AACTCACAAGGACGCATTCGTGCGCGGCGTCGGCGATCTCAGACAAGCGCTAATTGATTATTTACAATAA

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(345-428)

AAA domain (AAA_25)

(71-222)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A4P9A396

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

47.712

100

0.488
  radA Streptococcus pneumoniae Rx1

48.605

95.768

0.465
  radA Streptococcus pneumoniae D39

48.605

95.768

0.465
  radA Streptococcus pneumoniae R6

48.605

95.768

0.465
  radA Streptococcus pneumoniae TIGR4

48.605

95.768

0.465
  radA Streptococcus mitis SK321

48.605

95.768

0.465
  radA Streptococcus mitis NCTC 12261

48.372

95.768

0.463

Multiple sequence alignment