Detailed information    

insolico Bioinformatically predicted

Overview

Name   radA   Type   Machinery gene
Locus tag   HG560_RS01180 Genome accession   NZ_CP051507
Coordinates   245869..247215 (+) Length   448 a.a.
NCBI ID   WP_014534194.1    Uniprot ID   -
Organism   Helicobacter pylori strain SHIM-002     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 240869..252215
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HG560_RS01155 (HG560_01150) - 241872..242423 (-) 552 WP_000846558.1 YbhB/YbcL family Raf kinase inhibitor-like protein -
  HG560_RS01160 (HG560_01155) - 242568..243029 (+) 462 WP_014662195.1 helix-turn-helix domain-containing protein -
  HG560_RS01165 (HG560_01160) - 243202..244365 (+) 1164 WP_000941703.1 NifS family cysteine desulfurase -
  HG560_RS01170 (HG560_01165) - 244387..245367 (+) 981 WP_001051963.1 iron-sulfur cluster assembly scaffold protein NifU -
  HG560_RS01175 (HG560_01170) - 245523..245756 (+) 234 WP_202170338.1 ribbon-helix-helix domain-containing protein -
  HG560_RS01180 (HG560_01175) radA 245869..247215 (+) 1347 WP_014534194.1 DNA repair protein RadA Machinery gene
  HG560_RS01185 (HG560_01180) msrB 247338..248417 (+) 1080 WP_000866564.1 peptide-methionine (R)-S-oxide reductase MsrB -
  HG560_RS01190 (HG560_01185) - 248570..249358 (+) 789 WP_001140588.1 hypothetical protein -
  HG560_RS01195 (HG560_01190) - 249361..249585 (+) 225 WP_000188956.1 hypothetical protein -
  HG560_RS01200 (HG560_01195) - 249582..250061 (+) 480 WP_000571647.1 hypothetical protein -
  HG560_RS01205 (HG560_01200) comB2 250058..250348 (+) 291 WP_000736104.1 TrbC/VirB2 family protein Machinery gene
  HG560_RS01210 (HG560_01205) comB3 250358..250621 (+) 264 WP_001177721.1 hypothetical protein Machinery gene
  HG560_RS01215 (HG560_01210) - 250633..250869 (+) 237 WP_000806906.1 hypothetical protein -
  HG560_RS01220 (HG560_01215) - 250869..251752 (+) 884 Protein_243 transporter -

Sequence

Protein


Download         Length: 448 a.a.        Molecular weight: 49482.38 Da        Isoelectric Point: 7.8021

>NTDB_id=384972 HG560_RS01180 WP_014534194.1 245869..247215(+) (radA) [Helicobacter pylori strain SHIM-002]
MAKKTSLFECQHCGFTSPKWLGKCVQCNAWESFIELNQTQKEVLNTLKNPLPKAQKSVSIAEIEHEEVIKFSSTQSELDI
VLGGGIAKGGLYLVGGSPGVGKSTLLLKVASGLAKNQQKVLYVSGEESLSQIKMRATRLDCIEKELYLLNEINWPVIKAN
IESENYFACVIDSIQTLYSPEISSAPGSISQVREITFELMRLAKTRNIAVFIIGHITKEGSIAGPRVLEHMVDSVLYFEG
DPSRELRILRSFKNRFGPTSEIGLFEMKEQGLVSAKEASSLFFSQEEPMEGSAITITLEGSRALILEIQALVSECSFGAP
KRLANGFDTNRLNMLIALLEKKLEIPLNRHDVFINVSGGIKISEPACDLAVIASILSSFKNRKIDNKTAFLGEVSLNGRI
LEAPNLNARLKEMENYGFLKAILPKKPSQKTSIKCYEANAVGKIVEWM

Nucleotide


Download         Length: 1347 bp        

>NTDB_id=384972 HG560_RS01180 WP_014534194.1 245869..247215(+) (radA) [Helicobacter pylori strain SHIM-002]
TTGGCTAAAAAAACTTCTTTATTTGAGTGTCAGCATTGCGGTTTTACAAGCCCTAAGTGGCTAGGAAAGTGCGTTCAATG
CAACGCATGGGAAAGTTTTATAGAATTGAACCAAACCCAAAAGGAAGTTTTAAACACGCTTAAAAACCCTCTCCCAAAAG
CGCAAAAAAGCGTTTCTATCGCTGAAATTGAACATGAAGAAGTGATCAAGTTTTCTTCCACTCAAAGCGAGTTGGATATT
GTTTTAGGTGGGGGGATTGCTAAAGGAGGGTTGTATTTGGTGGGGGGGAGTCCTGGGGTGGGGAAATCCACTCTGCTTTT
AAAAGTGGCTTCTGGCTTAGCCAAAAACCAGCAAAAGGTTTTGTATGTGAGCGGGGAAGAGAGCTTGAGCCAGATTAAAA
TGCGCGCCACTAGATTGGATTGCATAGAAAAAGAATTGTATCTGCTCAATGAAATCAACTGGCCTGTGATTAAGGCGAAT
ATTGAAAGCGAAAATTATTTTGCTTGCGTGATTGATTCCATTCAAACGCTTTATTCGCCAGAGATTTCTTCAGCGCCCGG
CTCTATTTCGCAAGTGCGAGAGATTACTTTTGAGCTCATGCGTTTGGCCAAAACAAGAAATATTGCTGTTTTTATCATCG
GTCATATCACTAAAGAAGGGAGCATCGCAGGGCCTAGAGTGTTAGAGCATATGGTGGATAGCGTGCTGTATTTTGAAGGC
GATCCCAGTAGGGAATTAAGGATTTTAAGGAGTTTTAAAAACCGCTTTGGCCCTACGAGTGAAATCGGCTTGTTTGAAAT
GAAAGAGCAGGGTTTGGTGAGCGCAAAAGAAGCTTCAAGCCTGTTTTTTTCTCAAGAAGAGCCTATGGAGGGGAGCGCGA
TCACCATCACTTTAGAAGGCTCAAGGGCGTTGATTTTAGAGATTCAGGCGTTGGTGAGCGAGTGCAGTTTCGGAGCGCCC
AAACGATTAGCGAACGGGTTTGACACCAACCGCCTTAACATGCTCATCGCTTTATTAGAAAAAAAGCTAGAAATCCCCTT
AAACCGCCATGATGTGTTCATTAATGTGAGCGGAGGGATTAAGATTAGCGAGCCGGCTTGCGATTTAGCGGTCATTGCCA
GCATCCTTTCAAGCTTTAAAAACAGAAAAATTGACAATAAAACGGCGTTTTTGGGCGAAGTGAGTTTGAATGGCAGGATT
TTAGAAGCCCCTAATTTGAACGCCAGATTGAAAGAAATGGAAAATTACGGCTTTTTAAAAGCCATTTTGCCTAAAAAACC
CAGCCAAAAAACCTCGATCAAATGCTATGAAGCCAATGCGGTGGGCAAGATTGTTGAATGGATGTGA

Domains

Predicted by InterProScan.

Rubredoxin metal binding domain (Zn_ribbon_LapB)

(8-35)

AAA domain (AAA_25)

(62-220)

Subunit ChlI of Mg-chelatase (ChlI)

(344-426)


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 pneumoniae R6

46.714

95.089

0.444
  radA Streptococcus pneumoniae Rx1

46.714

95.089

0.444
  radA Streptococcus pneumoniae D39

46.714

95.089

0.444
  radA Streptococcus pneumoniae TIGR4

46.714

95.089

0.444
  radA Streptococcus mitis SK321

46.714

95.089

0.444
  radA/sms Bacillus subtilis subsp. subtilis str. 168

46.604

95.313

0.444
  radA Streptococcus mitis NCTC 12261

46.479

95.089

0.442

Multiple sequence alignment