Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   NHN16_RS01565 Genome accession   NZ_CP100352
Coordinates   334823..336196 (+) Length   457 a.a.
NCBI ID   WP_096493406.1    Uniprot ID   -
Organism   Limosilactobacillus fermentum strain DM075     
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 327855..336196 334823..336196 within 0


Gene organization within MGE regions


Location: 327855..336196
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NHN16_RS01525 (NHN16_01525) - 327855..328730 (+) 876 WP_004562728.1 alpha/beta hydrolase -
  NHN16_RS01530 (NHN16_01530) - 329047..330384 (-) 1338 WP_070955393.1 C1 family peptidase -
  NHN16_RS01535 (NHN16_01535) - 330448..331062 (-) 615 WP_070955394.1 sugar O-acetyltransferase -
  NHN16_RS01540 (NHN16_01540) rpiA 331090..331776 (-) 687 WP_163587042.1 ribose-5-phosphate isomerase RpiA -
  NHN16_RS01545 (NHN16_01545) tnpA 331809..332264 (-) 456 WP_173031744.1 IS200/IS605 family transposase -
  NHN16_RS01550 (NHN16_01550) - 332340..333590 (+) 1251 WP_035168979.1 RNA-guided endonuclease TnpB family protein -
  NHN16_RS01555 (NHN16_01555) - 333745..334071 (-) 327 WP_035437471.1 GNAT family N-acetyltransferase -
  NHN16_RS01560 (NHN16_01560) - 334271..334810 (+) 540 WP_163586750.1 dUTP diphosphatase -
  NHN16_RS01565 (NHN16_01565) radA 334823..336196 (+) 1374 WP_096493406.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 457 a.a.        Molecular weight: 49367.76 Da        Isoelectric Point: 8.7358

>NTDB_id=704727 NHN16_RS01565 WP_096493406.1 334823..336196(+) (radA) [Limosilactobacillus fermentum strain DM075]
MAKAKTHFVCQNCGYNSPRYLGRCPNCGQWSTLVEEVEQASTPAAKNATATLTGIVARPQRIQEIDTKKTPRVKTRLNEL
NRVLGGGIVPGSLVLIGGDPGIGKSTLLLQVSGQLSVEHHKILYVSGEESASQIKLRAQRLDVSGEDFYIYPETNMEAIR
ATIDSIQPEFVIIDSVQTMQAADVTSAIGSVSQIRAVTAQLMQIAKGQNITVFVVGHVTKGGALAGPKILEHMVDTVLYF
EGDLHHTYRILRSVKNRFGSTNELGIFEMNTRGLTEVANPSEIFLEERLKDATGSAVVVSLEGTRPILVEIQALITPTVF
GNAQRTATGLNRNRVSLIMAVLEKRANLLLQNQDAYLKAAGGVKLDEPAIDLAIAVAIASSYRDKGTRPTDAFVGEVGLT
GEIRRVSRIEQRVAEAAKLGFKRILVPKNNLAGWNPPQDIEVVGVTTLGEALKIALG

Nucleotide


Download         Length: 1374 bp        

>NTDB_id=704727 NHN16_RS01565 WP_096493406.1 334823..336196(+) (radA) [Limosilactobacillus fermentum strain DM075]
ATGGCAAAAGCCAAAACACACTTTGTCTGCCAAAACTGCGGTTACAATTCACCGCGCTATTTAGGGCGGTGTCCCAATTG
TGGCCAGTGGAGTACCTTAGTTGAAGAAGTCGAGCAGGCAAGTACCCCGGCGGCTAAAAACGCTACGGCAACCTTAACCG
GGATTGTGGCCCGGCCCCAGCGAATCCAAGAAATTGACACCAAAAAAACGCCCCGGGTTAAGACCCGCTTAAATGAGTTA
AACCGGGTGCTAGGTGGCGGAATTGTACCCGGCTCGTTGGTCTTAATTGGTGGGGATCCCGGGATCGGAAAGTCCACCCT
GCTCTTACAAGTGTCGGGGCAACTGAGCGTGGAACACCACAAGATTCTTTACGTTTCCGGGGAAGAATCGGCCTCCCAAA
TTAAATTGCGGGCCCAACGCTTAGACGTTTCCGGCGAGGACTTTTATATCTACCCGGAAACCAACATGGAAGCCATCCGG
GCGACGATTGATTCCATTCAGCCCGAGTTTGTAATCATTGACTCGGTTCAGACGATGCAGGCGGCCGACGTGACCTCGGC
GATTGGGTCGGTCTCCCAAATCCGGGCGGTCACCGCCCAGTTGATGCAGATTGCCAAGGGGCAAAACATCACGGTCTTCG
TGGTTGGTCACGTCACCAAGGGTGGGGCCTTAGCCGGTCCCAAGATCTTGGAACACATGGTTGACACGGTGCTGTACTTT
GAAGGGGACCTCCACCACACCTACCGGATTTTACGGTCGGTCAAAAACCGGTTTGGGTCCACCAATGAGTTAGGGATCTT
CGAAATGAATACCCGCGGTTTGACCGAGGTCGCAAACCCCTCGGAAATCTTTTTGGAAGAGCGGCTTAAGGATGCCACCG
GGTCGGCCGTAGTCGTATCCCTGGAGGGAACCCGACCGATCCTGGTTGAAATCCAGGCCTTGATCACGCCAACCGTCTTT
GGAAACGCCCAAAGAACGGCGACGGGTTTAAACCGCAACCGGGTTTCCTTGATCATGGCGGTCCTAGAAAAACGGGCGAA
CCTGCTCTTACAAAACCAGGATGCCTACTTGAAGGCGGCCGGGGGCGTTAAGTTAGACGAGCCGGCCATCGACCTTGCGA
TCGCGGTGGCAATTGCTTCTTCTTACCGGGATAAGGGGACCCGGCCGACCGACGCCTTCGTCGGTGAAGTTGGCTTAACC
GGGGAGATCCGTCGGGTGAGCCGAATTGAACAGCGGGTGGCCGAAGCCGCTAAACTAGGCTTTAAGCGGATTTTAGTGCC
CAAAAACAATTTAGCGGGTTGGAACCCGCCGCAAGACATCGAAGTCGTGGGGGTAACGACCCTTGGCGAAGCACTTAAAA
TTGCCCTTGGATAG

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(364-430)

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(64-222)


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 SK321

67.991

99.125

0.674
  radA Streptococcus mitis NCTC 12261

67.77

99.125

0.672
  radA Streptococcus pneumoniae Rx1

67.77

99.125

0.672
  radA Streptococcus pneumoniae D39

67.77

99.125

0.672
  radA Streptococcus pneumoniae R6

67.77

99.125

0.672
  radA Streptococcus pneumoniae TIGR4

67.77

99.125

0.672
  radA Bacillus subtilis subsp. subtilis str. 168

63.457

100

0.635