Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   STAB904_RS01160 Genome accession   NZ_CP007241
Coordinates   209672..211033 (+) Length   453 a.a.
NCBI ID   WP_002986109.1    Uniprot ID   A0A4Q1R665
Organism   Streptococcus pyogenes strain 1E1     
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 177143..209591 209672..211033 flank 81


Gene organization within MGE regions


Location: 177143..211033
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  STAB904_RS01005 (STAB904_01085) polA 177143..179785 (+) 2643 WP_038433878.1 DNA polymerase I -
  STAB904_RS01010 (STAB904_01090) - 179973..180428 (+) 456 WP_002986334.1 CoA-binding protein -
  STAB904_RS01015 (STAB904_01095) perR 180480..180947 (+) 468 WP_002986328.1 peroxide-responsive transcriptional repressor PerR -
  STAB904_RS01020 (STAB904_01100) - 181166..181402 (+) 237 WP_014635252.1 hypothetical protein -
  STAB904_RS01025 (STAB904_01105) - 181624..182958 (+) 1335 WP_002987923.1 phosphoadenosine phosphosulfate reductase -
  STAB904_RS01030 (STAB904_01110) - 182951..183481 (+) 531 WP_002987925.1 IbrB-like domain-containing protein -
  STAB904_RS09310 - 183528..183677 (-) 150 Protein_157 ISL3 family transposase -
  STAB904_RS09215 (STAB904_01120) - 183809..184959 (-) 1151 Protein_158 IS3 family transposase -
  STAB904_RS01055 (STAB904_01130) - 185037..186347 (-) 1311 WP_002984130.1 SLC13 family permease -
  STAB904_RS01060 (STAB904_01135) nadC 186571..187443 (+) 873 WP_002987937.1 carboxylating nicotinate-nucleotide diphosphorylase -
  STAB904_RS01075 (STAB904_01160) - 189171..190034 (-) 864 WP_011888568.1 DUF975 family protein -
  STAB904_RS09555 (STAB904_01165) - 190071..190257 (+) 187 Protein_163 hypothetical protein -
  STAB904_RS01080 (STAB904_01170) tgt 190254..191396 (+) 1143 WP_023079306.1 tRNA guanosine(34) transglycosylase Tgt -
  STAB904_RS08790 (STAB904_01175) - 191613..191924 (+) 312 WP_002987947.1 CHY zinc finger protein -
  STAB904_RS01085 (STAB904_01180) - 191928..192467 (+) 540 WP_038433883.1 biotin transporter BioY -
  STAB904_RS01090 (STAB904_01185) - 192606..193385 (+) 780 WP_038433884.1 MBL fold metallo-hydrolase -
  STAB904_RS01095 (STAB904_01190) tadA 193385..193900 (+) 516 WP_030126469.1 tRNA adenosine(34) deaminase TadA -
  STAB904_RS01100 (STAB904_01195) - 194514..195746 (-) 1233 WP_009880892.1 transglutaminase domain-containing protein -
  STAB904_RS01105 (STAB904_01205) speG 196146..196850 (+) 705 WP_010921857.1 streptococcal pyrogenic exotoxin SpeG -
  STAB904_RS01110 (STAB904_01220) - 197306..198655 (+) 1350 WP_011888573.1 glucose-6-phosphate isomerase -
  STAB904_RS01115 (STAB904_01225) - 199003..200511 (-) 1509 WP_038433885.1 helix-turn-helix domain-containing protein -
  STAB904_RS01120 (STAB904_01245) - 201199..201870 (+) 672 WP_038433886.1 rhomboid family intramembrane serine protease -
  STAB904_RS01125 (STAB904_01250) galU 201969..202868 (-) 900 WP_002986125.1 UTP--glucose-1-phosphate uridylyltransferase GalU -
  STAB904_RS01130 (STAB904_01255) - 202901..203917 (-) 1017 WP_002986123.1 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase -
  STAB904_RS01135 (STAB904_01265) - 204215..204664 (+) 450 WP_002986120.1 MarR family winged helix-turn-helix transcriptional regulator -
  STAB904_RS01140 (STAB904_01270) - 204657..206363 (+) 1707 WP_038433887.1 ABC transporter ATP-binding protein -
  STAB904_RS01145 (STAB904_01275) - 206366..208150 (+) 1785 WP_002992923.1 ABC transporter ATP-binding protein -
  STAB904_RS01150 (STAB904_01280) - 208268..209035 (+) 768 WP_002986113.1 epoxyqueuosine reductase QueH -
  STAB904_RS01155 (STAB904_01285) - 209145..209591 (+) 447 WP_002986111.1 dUTP diphosphatase -
  STAB904_RS01160 (STAB904_01290) radA 209672..211033 (+) 1362 WP_002986109.1 DNA repair protein RadA Machinery gene

Sequence

Protein


Download         Length: 453 a.a.        Molecular weight: 49386.68 Da        Isoelectric Point: 6.0962

>NTDB_id=118068 STAB904_RS01160 WP_002986109.1 209672..211033(+) (radA) [Streptococcus pyogenes strain 1E1]
MAKKKATFICQECGYQSPKYLGRCPNCSAWSSFVEEVEVKEVKNARVSLAGEKSRPVKLKDVDNISYHRTQTDMSEFNRV
LGGGVVPGSLILIGGDPGIGKSTLLLQVSTQLANKGTVLYVSGEESAEQIKLRSERLGDIDNEFYLYAETNMQAIRTEIE
NIKPDFLIIDSIQTIMSPDITGVQGSVSQVREVTAELMQLAKTNNIATFIVGHVTKEGTLAGPRMLEHMVDTVLYFEGER
HHTFRILRAVKNRFGSTNEIGIFEMQSGGLVEVLNPSQVFLEERLDGATGSAVVVTMEGSRPILAEVQSLVTPTVFGNAR
RTTTGLDFNRVSLIMAVLEKRCGLLLQNQDAYLKSAGGVKLDEPAIDLAVAVAIASSYKEKPTSPQEAFLGEIGLTGEIR
RVTRIEQRINEAAKLGFTKVYAPKNALQGIDIPQGIEVVGVTTVGQVLKAVFS

Nucleotide


Download         Length: 1362 bp        

>NTDB_id=118068 STAB904_RS01160 WP_002986109.1 209672..211033(+) (radA) [Streptococcus pyogenes strain 1E1]
ATGGCAAAGAAAAAAGCAACCTTTATCTGTCAGGAGTGTGGCTACCAGTCGCCAAAGTATTTAGGGCGCTGTCCAAATTG
CTCGGCCTGGTCTTCTTTTGTGGAAGAAGTAGAGGTCAAAGAAGTCAAAAATGCCCGTGTTAGTCTAGCTGGAGAAAAGT
CCAGACCGGTTAAACTAAAAGATGTGGATAATATTAGTTATCACAGAACACAGACTGACATGTCTGAATTTAATAGAGTT
CTTGGAGGGGGTGTGGTTCCTGGAAGCTTGATTTTAATTGGTGGTGATCCAGGTATTGGAAAATCTACCTTACTCTTGCA
GGTATCCACGCAGCTCGCTAATAAGGGAACGGTTCTCTATGTGTCTGGGGAAGAATCAGCAGAGCAGATTAAACTGCGGA
GTGAGCGTCTGGGTGATATTGACAATGAATTTTACCTCTATGCCGAAACCAATATGCAAGCTATTCGCACAGAAATTGAA
AATATTAAACCAGATTTTTTAATTATTGACTCCATTCAGACTATCATGAGCCCTGATATTACAGGTGTTCAAGGATCAGT
CAGTCAGGTGAGAGAAGTCACTGCAGAATTGATGCAGCTTGCAAAGACGAACAACATTGCAACCTTTATTGTGGGTCATG
TCACCAAGGAAGGAACCTTGGCTGGGCCTCGTATGTTAGAACATATGGTGGATACCGTTCTCTACTTTGAAGGGGAAAGG
CATCACACCTTTCGCATTCTTCGGGCTGTGAAAAACCGCTTTGGCTCCACTAACGAGATTGGCATCTTTGAAATGCAGTC
TGGCGGCTTGGTAGAGGTCTTAAATCCTAGTCAAGTCTTTTTAGAGGAACGCTTAGATGGGGCAACAGGATCGGCTGTCG
TTGTAACGATGGAAGGAAGTCGTCCTATCTTAGCAGAGGTGCAATCTTTAGTGACACCAACCGTTTTTGGCAATGCCAGA
CGAACCACTACGGGACTTGATTTCAATCGCGTAAGCCTAATAATGGCAGTTTTAGAAAAGCGTTGTGGTTTACTCTTACA
AAATCAAGATGCCTACCTCAAGTCGGCTGGTGGTGTCAAACTAGACGAACCTGCCATTGATTTGGCAGTCGCTGTGGCTA
TCGCATCCAGTTATAAGGAAAAACCAACCAGCCCTCAAGAAGCTTTCTTAGGCGAGATCGGGTTAACAGGTGAGATTCGG
CGAGTGACCCGTATTGAGCAACGGATTAATGAAGCAGCAAAGCTTGGATTTACCAAGGTCTATGCTCCTAAAAATGCTTT
GCAAGGCATTGATATCCCTCAAGGTATTGAGGTTGTTGGAGTGACTACGGTTGGTCAGGTTTTAAAGGCAGTTTTTAGCT
AG

Domains

Predicted by InterproScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

Subunit ChlI of Mg-chelatase (ChlI)

(360-425)

AAA domain (AAA_25)

(56-218)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A4Q1R665

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

85.872

100

0.859
  radA Streptococcus pneumoniae D39

85.651

100

0.857
  radA Streptococcus pneumoniae R6

85.651

100

0.857
  radA Streptococcus pneumoniae Rx1

85.651

100

0.857
  radA Streptococcus mitis SK321

85.651

100

0.857
  radA Streptococcus pneumoniae TIGR4

85.651

100

0.857
  radA Bacillus subtilis subsp. subtilis str. 168

61.369

100

0.614

Multiple sequence alignment