Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   EBA09_RS09695 Genome accession   NZ_CP033177
Coordinates   1905301..1906755 (-) Length   484 a.a.
NCBI ID   WP_024743350.1    Uniprot ID   -
Organism   Xanthomonas oryzae pv. oryzae strain CFBP7324     
Function   regulate pilin expression (predicted from homology)   
Competence regulation

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)
ICE 1856941..1934658 1905301..1906755 within 0


Gene organization within MGE regions


Location: 1856941..1934658
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EBA09_RS09460 (EBA09_09430) thiD 1857385..1858194 (-) 810 WP_024745471.1 bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase -
  EBA09_RS09465 (EBA09_09435) - 1858279..1858761 (-) 483 WP_024745470.1 hypothetical protein -
  EBA09_RS09470 (EBA09_09440) - 1858761..1860158 (-) 1398 WP_024745469.1 PhoH family protein -
  EBA09_RS09475 (EBA09_09445) - 1860241..1860723 (-) 483 WP_024745468.1 peroxiredoxin -
  EBA09_RS09480 (EBA09_09450) - 1860761..1861111 (-) 351 WP_024745467.1 ribonuclease E inhibitor RraB -
  EBA09_RS09485 (EBA09_09455) - 1861123..1861749 (-) 627 WP_082324274.1 glycine cleavage system protein R -
  EBA09_RS09490 (EBA09_09460) dapA 1861844..1862752 (+) 909 WP_024745465.1 4-hydroxy-tetrahydrodipicolinate synthase -
  EBA09_RS09495 (EBA09_09465) - 1862769..1863287 (+) 519 WP_024745464.1 hypothetical protein -
  EBA09_RS09500 (EBA09_09470) fdxA 1863412..1863735 (-) 324 WP_006453280.1 ferredoxin FdxA -
  EBA09_RS09505 (EBA09_09475) - 1863818..1864696 (-) 879 WP_024745463.1 2-dehydro-3-deoxygalactonokinase -
  EBA09_RS09510 (EBA09_09480) - 1864693..1865604 (-) 912 WP_053513916.1 SMP-30/gluconolactonase/LRE family protein -
  EBA09_RS09515 (EBA09_09485) dgoD 1865598..1866746 (-) 1149 WP_024745461.1 galactonate dehydratase -
  EBA09_RS09520 (EBA09_09490) - 1866743..1867375 (-) 633 WP_024745460.1 2-dehydro-3-deoxy-6-phosphogalactonate aldolase -
  EBA09_RS09525 (EBA09_09495) - 1867787..1868758 (+) 972 WP_024745459.1 LysR family transcriptional regulator -
  EBA09_RS09530 (EBA09_09500) - 1868956..1869332 (-) 377 Protein_1742 relaxation protein -
  EBA09_RS09535 (EBA09_09505) - 1869306..1870859 (+) 1554 Protein_1743 TIM-barrel domain-containing protein -
  EBA09_RS09540 (EBA09_09510) - 1870951..1873276 (+) 2326 Protein_1744 glycoside hydrolase family 95 protein -
  EBA09_RS09545 (EBA09_09515) xylB 1873273..1874766 (+) 1494 WP_024745456.1 xylulokinase -
  EBA09_RS09550 (EBA09_09520) xylA 1874815..1876152 (+) 1338 WP_053513079.1 xylose isomerase -
  EBA09_RS09555 (EBA09_09525) - 1876238..1877665 (+) 1428 WP_024745610.1 sugar porter family MFS transporter -
  EBA09_RS09565 (EBA09_09535) - 1878116..1879195 (+) 1080 WP_133264998.1 IS630 family transposase -
  EBA09_RS09575 (EBA09_09545) - 1879272..1880315 (+) 1044 WP_234372814.1 IS3 family transposase -
  EBA09_RS23135 (EBA09_09550) - 1880349..1880492 (+) 144 Protein_1750 IS5/IS1182 family transposase -
  EBA09_RS09585 (EBA09_09555) - 1880580..1881956 (-) 1377 WP_082324099.1 IS5 family transposase -
  EBA09_RS09590 (EBA09_09560) - 1882201..1883169 (-) 969 WP_058419068.1 IS5-like element ISXo1 family transposase -
  EBA09_RS09595 - 1883637..1884527 (-) 891 WP_130625389.1 hypothetical protein -
  EBA09_RS09600 (EBA09_09565) - 1884866..1885977 (+) 1112 WP_234372813.1 IS3 family transposase -
  EBA09_RS09605 (EBA09_09570) - 1886313..1886705 (+) 393 WP_024745347.1 H-NS family nucleoid-associated regulatory protein -
  EBA09_RS09610 - 1886778..1886969 (+) 192 WP_130625388.1 hypothetical protein -
  EBA09_RS09615 (EBA09_09575) - 1887064..1888032 (-) 969 WP_058419069.1 IS5-like element ISXo1 family transposase -
  EBA09_RS09620 (EBA09_09580) glgX 1888364..1890496 (-) 2133 WP_024743362.1 glycogen debranching protein GlgX -
  EBA09_RS09625 (EBA09_09585) rimK 1890971..1891888 (+) 918 WP_195842805.1 30S ribosomal protein S6--L-glutamate ligase -
  EBA09_RS09630 (EBA09_09590) - 1892101..1892490 (+) 390 WP_053514089.1 hypothetical protein -
  EBA09_RS09635 (EBA09_09595) - 1892568..1893245 (+) 678 WP_003490678.1 response regulator transcription factor -
  EBA09_RS09640 (EBA09_09600) - 1893714..1895048 (+) 1335 WP_033003293.1 HAMP domain-containing sensor histidine kinase -
  EBA09_RS09645 (EBA09_09605) coaE 1895275..1895880 (-) 606 WP_024743358.1 dephospho-CoA kinase -
  EBA09_RS09650 (EBA09_09610) - 1895894..1896757 (-) 864 WP_024743357.1 A24 family peptidase -
  EBA09_RS09655 (EBA09_09615) pilC 1896764..1898023 (-) 1260 WP_024743356.1 type II secretion system F family protein Machinery gene
  EBA09_RS09660 (EBA09_09620) pilA2 1898379..1898804 (+) 426 WP_053514082.1 pilin Machinery gene
  EBA09_RS09665 (EBA09_09625) - 1898939..1900528 (+) 1590 WP_053514081.1 phosphoethanolamine transferase -
  EBA09_RS09670 (EBA09_09630) - 1900599..1901180 (+) 582 WP_234372812.1 hypothetical protein -
  EBA09_RS23915 (EBA09_09635) - 1901150..1902675 (+) 1526 Protein_1769 hypothetical protein -
  EBA09_RS09680 (EBA09_09640) pilB 1902710..1904443 (+) 1734 WP_024743351.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EBA09_RS09685 (EBA09_09645) - 1904452..1904904 (-) 453 WP_195842804.1 Fic family protein -
  EBA09_RS23440 - 1904897..1905154 (-) 258 WP_230078506.1 hypothetical protein -
  EBA09_RS09695 (EBA09_09655) pilR 1905301..1906755 (-) 1455 WP_024743350.1 sigma-54 dependent transcriptional regulator Regulator
  EBA09_RS09700 (EBA09_09660) - 1907026..1908639 (-) 1614 WP_024743349.1 HAMP domain-containing sensor histidine kinase -
  EBA09_RS09705 (EBA09_09665) sucC 1908873..1910042 (+) 1170 WP_019300809.1 ADP-forming succinate--CoA ligase subunit beta -
  EBA09_RS09710 (EBA09_09670) sucD 1910067..1910942 (+) 876 WP_024743348.1 succinate--CoA ligase subunit alpha -
  EBA09_RS23920 (EBA09_09675) - 1911046..1911455 (+) 410 Protein_1777 DNA-binding protein -
  EBA09_RS09720 (EBA09_09680) - 1911459..1911761 (+) 303 WP_053514077.1 type II toxin-antitoxin system RelE/ParE family toxin -
  EBA09_RS09725 (EBA09_09685) - 1911761..1913416 (+) 1656 WP_033003284.1 NAD+ synthase -
  EBA09_RS09730 (EBA09_09690) - 1913574..1914455 (-) 882 WP_024743345.1 outer membrane protein assembly factor BamD -
  EBA09_RS09735 (EBA09_09695) rluD 1914576..1915571 (+) 996 WP_053514075.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  EBA09_RS09740 (EBA09_09700) pgeF 1915573..1916385 (+) 813 WP_053514073.1 peptidoglycan editing factor PgeF -
  EBA09_RS09745 (EBA09_09705) - 1916388..1916912 (+) 525 WP_053514085.1 DUF4166 domain-containing protein -
  EBA09_RS09750 (EBA09_09710) - 1916899..1917332 (+) 434 Protein_1784 thiol-disulfide oxidoreductase DCC family protein -
  EBA09_RS23785 (EBA09_09715) - 1917484..1918649 (-) 1166 Protein_1785 methyl-accepting chemotaxis protein -
  EBA09_RS09760 (EBA09_09720) - 1919332..1921770 (-) 2439 WP_195842806.1 glucose/quinate/shikimate family membrane-bound PQQ-dependent dehydrogenase -
  EBA09_RS09765 (EBA09_09725) otsA 1922412..1923779 (-) 1368 WP_024743731.1 alpha,alpha-trehalose-phosphate synthase (UDP-forming) -
  EBA09_RS09770 (EBA09_09730) - 1923776..1925554 (-) 1779 WP_024743730.1 glycoside hydrolase family 15 protein -
  EBA09_RS09775 (EBA09_09735) otsB 1925599..1926357 (-) 759 WP_024743729.1 trehalose-phosphatase -
  EBA09_RS09780 (EBA09_09740) xopY 1926563..1927177 (-) 615 WP_230078504.1 type III secretion system effector XopY -
  EBA09_RS09785 (EBA09_09745) - 1927635..1930070 (-) 2436 WP_024743727.1 TonB-dependent receptor -
  EBA09_RS09790 (EBA09_09750) - 1930307..1930780 (+) 474 WP_024743726.1 DUF3574 domain-containing protein -
  EBA09_RS09795 (EBA09_09755) - 1930877..1931953 (-) 1077 WP_024743725.1 aldose 1-epimerase family protein -
  EBA09_RS09800 (EBA09_09760) - 1932400..1934001 (+) 1602 WP_053514069.1 hypothetical protein -

Sequence

Protein


Download         Length: 484 a.a.        Molecular weight: 52489.20 Da        Isoelectric Point: 6.6433

>NTDB_id=322044 EBA09_RS09695 WP_024743350.1 1905301..1906755(-) (pilR) [Xanthomonas oryzae pv. oryzae strain CFBP7324]
MRRDPLDNCRPSSRWAIVRSMSEPKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLANNPYDLCLTDMRLPD
GNGIELVTEIARQYPQTPVAMITAFGSMDLAVEALKAGAFDFVSKPVDIGVLRGLVKHALELNNRDRPAPPPPPPEQASS
LLGDSSAMESLRATIGKVARSQAPVYIVGESGVGKELVARTIHEQGARAAGPFVPVNCGAIPAELMESEFFGHKKGSFTG
AHADKPGLFQAAHGGTLFLDEVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYY
RINVIELRVPPLRERGGDLPQLAAAIIARLAHSHGRPIPLLTQSALDALDHYGFPGNVRELENILERALALAEDDQISAT
DLRLPAHGGHRLAATPGSAAVEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKK
LGME

Nucleotide


Download         Length: 1455 bp        

>NTDB_id=322044 EBA09_RS09695 WP_024743350.1 1905301..1906755(-) (pilR) [Xanthomonas oryzae pv. oryzae strain CFBP7324]
TTGCGCCGCGACCCGCTCGACAATTGTCGACCATCATCACGCTGGGCTATCGTGCGCAGCATGAGCGAACCCAAAAGTGC
CCTGGTTGTCGATGACGAGCGTGATATTCGCGAGTTGCTTGTTCTCACCTTGGGCCGTATGGGGCTGCGCATCAGCACCG
CTGCCAATCTGGCCGAAGCGCGCGAATTGCTGGCCAACAATCCCTACGATCTGTGCCTGACCGACATGCGCTTGCCCGAC
GGCAATGGCATCGAGCTGGTCACCGAAATCGCCAGGCAGTACCCGCAGACGCCGGTGGCGATGATCACCGCGTTCGGCAG
CATGGACCTGGCCGTGGAAGCGCTGAAAGCCGGCGCCTTCGATTTCGTCAGCAAACCGGTGGACATCGGCGTGCTGCGCG
GCCTGGTCAAGCACGCGCTGGAATTGAACAACCGCGACCGCCCTGCTCCACCGCCGCCGCCACCGGAACAGGCCAGCAGC
CTGCTCGGCGACTCAAGCGCGATGGAGAGCCTGCGCGCCACCATCGGCAAGGTGGCGCGCAGTCAGGCGCCGGTCTACAT
CGTCGGCGAATCCGGGGTGGGCAAGGAGCTGGTTGCACGCACCATCCACGAACAAGGCGCACGCGCCGCCGGCCCGTTCG
TGCCGGTCAACTGCGGCGCCATTCCCGCCGAGCTGATGGAAAGCGAATTCTTCGGCCACAAGAAAGGCAGCTTCACCGGC
GCGCATGCCGACAAGCCCGGGCTGTTCCAGGCTGCGCACGGCGGCACCTTGTTCCTGGACGAAGTGGCCGAATTGCCGTT
GCAGATGCAGGTCAAGCTGCTGCGCGCCATTCAGGAAAAATCGGTGCGTCCGGTCGGCGCCTCCGGCGAAACCCTGGTGG
ACGTACGCATCCTGTCGGCCACCCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGTTTTCGACACGATCTGTACTAC
CGCATCAACGTGATCGAACTGCGCGTGCCGCCGCTGCGCGAACGCGGCGGCGACTTGCCGCAGCTGGCCGCTGCCATCAT
CGCGCGCCTGGCGCACAGCCACGGCCGCCCCATTCCACTGCTGACCCAATCCGCGCTCGACGCACTGGATCACTACGGCT
TCCCCGGCAACGTGCGCGAACTGGAAAACATCCTCGAACGCGCCCTGGCACTGGCCGAAGACGACCAGATCAGCGCCACC
GACCTGCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCACACCCGGCAGCGCCGCCGTGGAACCACGCGAAGCCGT
CGTCGACATCGACCCCGCCTCGGCAGCCCTACCCTCCTACATCGAACAACTGGAACGCGCCGCGATCCAGAAAGCGCTGG
AGGAAAACCGCTGGAACAAGACCAAGACCGCTGCGCAATTAGGCATCACGTTTCGGGCGTTGCGTTACAAGTTAAAGAAG
TTGGGGATGGAGTGA

Domains

Predicted by InterproScan.

Response regulator receiver domain (Response_reg)

(28-134)

Sigma-54 interaction domain (Sigma54_activat)

(162-327)

Bacterial regulatory protein, Fis family (HTH_8)

(441-481)


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
  pilR Pseudomonas aeruginosa PAK

63.283

95.661

0.605
  pilR Acinetobacter baumannii strain A118

48.922

95.868

0.469

Multiple sequence alignment