Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   PUW73_RS10670 Genome accession   NZ_CP118092
Coordinates   2089422..2090795 (-) Length   457 a.a.
NCBI ID   WP_004562734.1    Uniprot ID   A0A806TIP1
Organism   Limosilactobacillus fermentum strain VSI05     
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 2088256..2100809 2089422..2090795 within 0


Gene organization within MGE regions


Location: 2088256..2100809
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PUW73_RS10665 (PUW73_10665) - 2088256..2089389 (-) 1134 WP_101889084.1 PIN/TRAM domain-containing protein -
  PUW73_RS10670 (PUW73_10670) radA 2089422..2090795 (-) 1374 WP_004562734.1 DNA repair protein RadA Machinery gene
  PUW73_RS10675 (PUW73_10675) - 2090808..2091347 (-) 540 WP_004563338.1 dUTP diphosphatase -
  PUW73_RS10680 (PUW73_10680) - 2091547..2091858 (+) 312 WP_004562732.1 GNAT family N-acetyltransferase -
  PUW73_RS10685 (PUW73_10685) rpiA 2091870..2092556 (+) 687 WP_014562151.1 ribose-5-phosphate isomerase RpiA -
  PUW73_RS10690 (PUW73_10690) - 2092584..2093198 (+) 615 WP_004563340.1 sugar O-acetyltransferase -
  PUW73_RS10695 (PUW73_10695) - 2093262..2094599 (+) 1338 WP_021349749.1 C1 family peptidase -
  PUW73_RS10700 (PUW73_10700) - 2095029..2096015 (+) 987 WP_274983118.1 IS30 family transposase -
  PUW73_RS10705 (PUW73_10705) - 2096097..2097029 (+) 933 WP_086031772.1 IS30 family transposase -
  PUW73_RS10710 (PUW73_10710) - 2097082..2097957 (-) 876 WP_004562728.1 alpha/beta hydrolase -
  PUW73_RS10715 (PUW73_10715) - 2097961..2098638 (-) 678 WP_004562727.1 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase -
  PUW73_RS10720 (PUW73_10720) - 2098927..2099883 (-) 957 WP_004562726.1 AEC family transporter -

Sequence

Protein


Download         Length: 457 a.a.        Molecular weight: 49381.79 Da        Isoelectric Point: 8.7358

>NTDB_id=790052 PUW73_RS10670 WP_004562734.1 2089422..2090795(-) (radA) [Limosilactobacillus fermentum strain VSI05]
MAKAKTHFVCQNCGYNSPRYLGRCPNCGQWSTLVEEVEQASTPAAKNATATLTGIVARPQRIQEIDTKKTPRVKTRLNEL
NRVLGGGIVPGSLVLIGGDPGIGKSTLLLQVSGQLSVEHHKVLYVSGEESASQIKLRAQRLDVSGEDFYIYPETNMEAIR
ATIDSIQPEFVIIDSVQTMQAADVTSAIGSVSQIRAVTAQLMQIAKGQNITVFVVGHVTKGGVLAGPKILEHMVDTVLYF
EGDLHHTYRILRSVKNRFGSTNELGIFEMNTRGLTEVANPSEIFLEERLKDATGSAVVVSLEGTRPILVEIQALITPTVF
GNAQRTATGLNRNRVSLIMAVLEKRANLLLQNQDAYLKAAGGVKLDEPAIDLAIAVAIASSYRDKGTRPTDAFVGEVGLT
GEIRRVSRIEQRVAEAAKLGFKRILVPKNNLAGWNPPQDIEVVGVTTLGEALKIALG

Nucleotide


Download         Length: 1374 bp        

>NTDB_id=790052 PUW73_RS10670 WP_004562734.1 2089422..2090795(-) (radA) [Limosilactobacillus fermentum strain VSI05]
ATGGCAAAAGCCAAAACACACTTTGTCTGCCAAAACTGCGGTTACAATTCACCGCGCTATTTAGGGCGGTGTCCCAATTG
TGGCCAGTGGAGTACCTTAGTTGAAGAAGTCGAGCAGGCAAGTACCCCGGCGGCTAAAAACGCTACGGCAACCTTAACCG
GGATTGTGGCCCGGCCCCAGCGAATCCAAGAAATTGACACCAAAAAAACGCCCCGGGTTAAGACCCGCTTAAATGAGTTA
AACCGGGTGCTAGGTGGCGGAATTGTACCCGGCTCGTTGGTCTTAATTGGTGGGGATCCCGGGATCGGAAAGTCCACCCT
GCTCTTACAAGTGTCGGGGCAACTGAGCGTGGAACACCACAAGGTTCTTTACGTTTCCGGGGAAGAATCGGCCTCCCAAA
TTAAATTGCGGGCCCAACGCTTAGACGTTTCCGGCGAGGACTTTTATATCTACCCGGAAACCAACATGGAAGCCATCCGG
GCGACGATTGATTCCATTCAGCCCGAGTTTGTAATCATTGACTCGGTTCAGACGATGCAGGCGGCCGACGTGACCTCGGC
GATTGGGTCGGTCTCCCAAATCCGGGCGGTCACCGCCCAGTTGATGCAGATTGCCAAGGGGCAAAACATCACGGTCTTCG
TGGTTGGTCACGTCACCAAGGGTGGGGTCTTAGCCGGGCCCAAGATCTTGGAACACATGGTTGACACGGTGCTGTACTTT
GAAGGGGACCTCCACCACACCTACCGGATTTTACGGTCGGTCAAAAACCGGTTTGGGTCCACCAATGAGTTAGGGATCTT
CGAAATGAATACCCGCGGTTTGACCGAGGTCGCAAACCCCTCGGAAATCTTTTTGGAAGAGCGGCTTAAGGATGCCACCG
GGTCGGCCGTGGTCGTATCCCTGGAGGGAACCCGACCGATCCTGGTTGAAATCCAGGCCTTGATCACGCCAACCGTCTTT
GGAAACGCCCAAAGAACGGCGACAGGTTTAAACCGCAACCGGGTTTCCTTGATCATGGCGGTCCTAGAAAAACGGGCGAA
CCTGCTCTTACAAAACCAGGATGCCTACTTGAAGGCGGCCGGGGGCGTTAAGTTAGACGAGCCGGCCATCGACCTTGCGA
TCGCGGTGGCAATTGCTTCTTCTTACCGGGATAAGGGGACCCGGCCGACCGACGCCTTCGTCGGTGAAGTTGGCTTAACC
GGGGAGATCCGTCGGGTGAGCCGAATTGAACAGCGGGTGGCCGAAGCCGCTAAACTAGGCTTTAAGCGGATTTTAGTGCC
CAAAAACAATTTAGCGGGTTGGAACCCGCCGCAAGACATCGAAGTCGTGGGGGTAACGACCCTTGGCGAAGCACTTAAAA
TTGCCCTTGGATAG

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(364-430)

AAA domain (AAA_25)

(64-222)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A806TIP1

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 SK321

68.212

99.125

0.676
  radA Streptococcus mitis NCTC 12261

67.991

99.125

0.674
  radA Streptococcus pneumoniae Rx1

67.991

99.125

0.674
  radA Streptococcus pneumoniae D39

67.991

99.125

0.674
  radA Streptococcus pneumoniae R6

67.991

99.125

0.674
  radA Streptococcus pneumoniae TIGR4

67.991

99.125

0.674
  radA Bacillus subtilis subsp. subtilis str. 168

63.676

100

0.637