Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   GKO49_RS21000 Genome accession   NZ_CP046148
Coordinates   4392532..4393923 (-) Length   463 a.a.
NCBI ID   WP_011258418.1    Uniprot ID   A0A854CLX6
Organism   Xanthomonas oryzae pv. oryzae strain ITCCBB0002     
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)
IScluster/Tn 4380225..4395110 4392532..4393923 within 0


Gene organization within MGE regions


Location: 4380225..4395110
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GKO49_RS20955 (GKO49_20955) - 4380225..4381193 (+) 969 WP_011258802.1 IS5-like element ISXo1 family transposase -
  GKO49_RS20960 (GKO49_20960) - 4381406..4382725 (-) 1320 WP_109182069.1 IS701-like element ISXo15 family transposase -
  GKO49_RS20965 (GKO49_20965) - 4382965..4385310 (-) 2346 WP_154741261.1 T6SS effector BTH_I2691 family protein -
  GKO49_RS20970 (GKO49_20970) - 4385328..4386059 (-) 732 WP_041182891.1 putative type VI secretion system effector -
  GKO49_RS20975 (GKO49_20975) - 4386384..4387352 (-) 969 WP_011258802.1 IS5-like element ISXo1 family transposase -
  GKO49_RS20980 (GKO49_20980) - 4387404..4389593 (-) 2190 WP_257102051.1 T6SS effector BTH_I2691 family protein -
  GKO49_RS20985 (GKO49_20985) - 4389618..4390346 (-) 729 WP_014503414.1 putative type VI secretion system effector -
  GKO49_RS20990 (GKO49_20990) - 4390693..4391371 (-) 679 Protein_3995 transposase -
  GKO49_RS20995 (GKO49_20995) - 4391501..4392151 (+) 651 Protein_3996 IS701-like element ISXo15 family transposase -
  GKO49_RS21000 (GKO49_21000) radA 4392532..4393923 (-) 1392 WP_011258418.1 DNA repair protein RadA Machinery gene
  GKO49_RS21005 (GKO49_21005) - 4394009..4395050 (-) 1042 Protein_3998 IS3 family transposase -

Sequence

Protein


Download         Length: 463 a.a.        Molecular weight: 48847.13 Da        Isoelectric Point: 7.3924

>NTDB_id=401695 GKO49_RS21000 WP_011258418.1 4392532..4393923(-) (radA) [Xanthomonas oryzae pv. oryzae strain ITCCBB0002]
MAKAKTAYVCGECGAEYTKWQGQCTECGVWNTLSEIVLESATPGGKASPATSRRIGWAGKAEAPKITALKDVQQSEQARV
STGIGEFDRVLGGGLVEGAVVLIGGDPGIGKSTLLLQALASMASTLPVLYVTGEESLAQVAGRAVRLDLPLDGLNALSET
GIEHILQHASVARPRLIVADSVQTLWTESLTAAPGSVSQVRESAARLVRYAKETGTAVFLVGHVTKEGGIAGPRVLEHMV
DAVLYFEGESGSRFRLLRAFKNRFGAVNELGVFAMGEKGLKEVSNPSAIFLSGGSTQQPGSCVMVTREGTRPLMVEVQAL
VDASPLSNPRRVAVGLEQNRLAMLLAVLHRHGGIVVGDQDVFVNVVGGIRVQETAADLPVLLAVLSSLRDRPLAEKTIAF
GEVGLSGEIRPVPNGEDRLKEAATHGFKRAIVPRANAPKTTSIKGMEIIAVERLRQALEVAAD

Nucleotide


Download         Length: 1392 bp        

>NTDB_id=401695 GKO49_RS21000 WP_011258418.1 4392532..4393923(-) (radA) [Xanthomonas oryzae pv. oryzae strain ITCCBB0002]
ATGGCGAAGGCGAAGACGGCCTACGTGTGCGGGGAGTGCGGTGCCGAGTACACAAAGTGGCAGGGGCAGTGCACCGAGTG
CGGTGTCTGGAACACGCTGAGCGAAATTGTGCTCGAAAGCGCAACGCCGGGCGGCAAGGCCTCGCCTGCGACCTCGCGGC
GTATCGGTTGGGCCGGCAAGGCCGAGGCGCCCAAGATCACTGCGCTCAAGGACGTGCAGCAGTCCGAGCAGGCGCGCGTG
TCCACCGGCATCGGCGAGTTCGACCGGGTGTTGGGCGGCGGGTTGGTCGAGGGGGCGGTGGTGCTGATCGGCGGCGACCC
GGGCATCGGCAAATCGACGCTGCTGCTGCAGGCGCTGGCGAGCATGGCCTCTACGTTGCCGGTGTTGTACGTCACCGGCG
AAGAATCGCTGGCCCAGGTAGCAGGGCGCGCGGTGCGCCTGGATCTGCCGCTGGACGGCCTGAACGCCCTGTCCGAAACC
GGTATCGAACACATCCTGCAGCACGCCAGCGTGGCGCGGCCGAGGCTGATCGTGGCCGATTCGGTGCAGACCTTGTGGAC
CGAATCGCTTACCGCAGCGCCAGGCTCGGTGAGCCAGGTGCGCGAGAGCGCAGCGCGGCTGGTGCGCTACGCCAAGGAAA
CCGGCACCGCCGTGTTTCTGGTCGGCCATGTGACCAAGGAAGGCGGTATCGCCGGGCCACGCGTGCTTGAGCACATGGTC
GATGCGGTGCTGTATTTCGAAGGCGAAAGTGGCAGCCGATTCCGCCTGTTGCGCGCGTTCAAGAACCGCTTCGGTGCGGT
CAACGAGCTAGGCGTCTTCGCGATGGGCGAGAAGGGCCTCAAGGAAGTCTCCAACCCATCGGCAATCTTCCTGTCCGGTG
GCAGCACTCAGCAACCGGGCAGTTGCGTGATGGTCACCCGCGAAGGCACCCGCCCCCTGATGGTGGAGGTGCAGGCCTTG
GTGGATGCCTCGCCGTTGTCCAATCCGCGCCGCGTTGCGGTGGGGCTGGAGCAGAACCGGCTGGCGATGTTGCTGGCGGT
CCTGCACCGCCATGGCGGCATCGTGGTCGGCGATCAGGACGTGTTCGTCAATGTGGTGGGTGGCATCCGCGTGCAGGAAA
CGGCAGCCGATCTGCCCGTGCTGCTGGCGGTGCTGTCGTCGCTGCGCGACCGGCCGTTGGCCGAAAAGACCATCGCGTTC
GGCGAAGTGGGACTGTCCGGCGAAATCCGCCCGGTGCCCAACGGCGAGGACCGCCTGAAGGAAGCGGCGACGCATGGCTT
CAAGCGCGCCATTGTGCCCCGCGCCAATGCGCCCAAGACGACCAGCATCAAGGGAATGGAAATTATCGCAGTGGAGCGCT
TGAGACAGGCGCTGGAGGTGGCGGCAGACTGA

Domains

Predicted by InterproScan.

AAA domain (AAA_25)

(90-228)

Subunit ChlI of Mg-chelatase (ChlI)

(352-436)

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
  AlphaFold DB A0A854CLX6

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

48.38

100

0.484
  radA Streptococcus mitis NCTC 12261

42.484

99.136

0.421
  radA Streptococcus pneumoniae Rx1

42.484

99.136

0.421
  radA Streptococcus pneumoniae D39

42.484

99.136

0.421
  radA Streptococcus pneumoniae R6

42.484

99.136

0.421
  radA Streptococcus pneumoniae TIGR4

42.484

99.136

0.421
  radA Streptococcus mitis SK321

42.266

99.136

0.419

Multiple sequence alignment