Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   IXO1104_RS17560 Genome accession   NZ_CP047492
Coordinates   3791808..3793259 (+) Length   483 a.a.
NCBI ID   WP_171970756.1    Uniprot ID   -
Organism   Xanthomonas oryzae pv. oryzae strain IXO1104     
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)
Genomic island 3786957..3811931 3791808..3793259 within 0


Gene organization within MGE regions


Location: 3786957..3811931
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IXO1104_RS17540 (IXO1104_17510) - 3786957..3787448 (-) 492 WP_027703282.1 hypothetical protein -
  IXO1104_RS17545 (IXO1104_17515) sucD 3787621..3788496 (-) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  IXO1104_RS17550 (IXO1104_17520) sucC 3788521..3789690 (-) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  IXO1104_RS17555 (IXO1104_17525) - 3789924..3791537 (+) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  IXO1104_RS17560 (IXO1104_17530) pilR 3791808..3793259 (+) 1452 WP_171970756.1 sigma-54 dependent transcriptional regulator Regulator
  IXO1104_RS17565 (IXO1104_17535) - 3793332..3793538 (+) 207 WP_027703281.1 YhfG family protein -
  IXO1104_RS17570 - 3793600..3793761 (+) 162 WP_153296778.1 hypothetical protein -
  IXO1104_RS17575 - 3793849..3794109 (+) 261 WP_011408073.1 Fic family protein -
  IXO1104_RS17580 (IXO1104_17545) pilB 3794118..3795851 (-) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IXO1104_RS17585 (IXO1104_17550) - 3795886..3797412 (-) 1527 WP_041182621.1 membrane protein -
  IXO1104_RS17590 (IXO1104_17555) - 3797382..3798011 (-) 630 WP_011408070.1 hypothetical protein -
  IXO1104_RS17595 (IXO1104_17560) - 3798022..3799611 (-) 1590 WP_075240477.1 phosphoethanolamine transferase -
  IXO1104_RS17600 (IXO1104_17565) pilA2 3799746..3800171 (-) 426 WP_011408068.1 pilin Machinery gene
  IXO1104_RS17605 (IXO1104_17570) pilC 3800526..3801785 (+) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  IXO1104_RS17610 (IXO1104_17575) - 3801792..3802655 (+) 864 WP_011258358.1 A24 family peptidase -
  IXO1104_RS17615 (IXO1104_17580) coaE 3802669..3803277 (+) 609 WP_011258357.1 dephospho-CoA kinase -
  IXO1104_RS17620 (IXO1104_17585) - 3803348..3804667 (+) 1320 WP_263113775.1 IS701-like element ISXo15 family transposase -
  IXO1104_RS17625 (IXO1104_17590) - 3804909..3805871 (+) 963 WP_041182297.1 IS1595-like element ISXo2 family transposase -
  IXO1104_RS17630 (IXO1104_17595) - 3806308..3806610 (-) 303 WP_158645227.1 hypothetical protein -
  IXO1104_RS17635 (IXO1104_17600) - 3806644..3807600 (-) 957 WP_041182719.1 IS30-like element IS1112b family transposase -
  IXO1104_RS17640 (IXO1104_17605) - 3807839..3809158 (-) 1320 WP_151420504.1 IS701 family transposase -
  IXO1104_RS17645 (IXO1104_17610) - 3809273..3809641 (-) 369 WP_011408064.1 DUF6869 domain-containing protein -
  IXO1104_RS17650 (IXO1104_17615) - 3809647..3811155 (-) 1509 WP_075240223.1 RHS repeat-associated core domain-containing protein -
  IXO1104_RS17655 (IXO1104_17620) - 3811157..3811486 (-) 330 WP_143685531.1 hypothetical protein -
  IXO1104_RS17660 (IXO1104_17625) - 3811483..3811782 (-) 300 WP_125168747.1 hypothetical protein -

Sequence

Protein


Download         Length: 483 a.a.        Molecular weight: 52446.18 Da        Isoelectric Point: 6.8290

>NTDB_id=413810 IXO1104_RS17560 WP_171970756.1 3791808..3793259(+) (pilR) [Xanthomonas oryzae pv. oryzae strain IXO1104]
MRRAPLDNCRPSSRWAIVRSMSEPKSALVVDDERDIRELLVLTLSRMGLRISTAANLAEARELLANNPYDLCLTDMRLPD
GNGIELVTEIARQYPQTPVAMITAFGSMDLAVEALKAGAFDFVSKPVDIGVLRGLVKHALELNNHDRPAPPPPPEQASRL
LGDSSAMESLRATIGKVARSQAPIYIVGESGVGKELVARTIHEQGARAAGPFVPVNCGAIPAELMESEFFGHKKGSFTGA
HADKPGLFQAAHGGTLFLDEVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYR
INVIELRVPPLRERGGDLPQLAAAIIARLAHSHGRTIPLLTQSALDALDHYGFPGNVRELENILERALALAEDDQISATD
LRLPAHGGHRLAATPGSAAVEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKKL
GME

Nucleotide


Download         Length: 1452 bp        

>NTDB_id=413810 IXO1104_RS17560 WP_171970756.1 3791808..3793259(+) (pilR) [Xanthomonas oryzae pv. oryzae strain IXO1104]
TTGCGCCGCGCCCCACTCGACAATTGTCGACCATCATCACGCTGGGCTATCGTGCGCAGCATGAGCGAACCCAAAAGTGC
CCTGGTTGTCGATGACGAGCGTGATATTCGCGAGTTGCTTGTTCTCACCTTGAGCCGTATGGGGCTGCGCATCAGCACCG
CTGCCAATCTGGCCGAAGCGCGCGAATTGCTGGCCAACAATCCCTACGATCTGTGCCTGACCGACATGCGCCTGCCCGAC
GGCAATGGCATCGAGCTGGTCACCGAAATCGCCAGGCAGTACCCGCAGACGCCGGTGGCGATGATCACCGCGTTCGGCAG
CATGGACCTGGCCGTGGAAGCGCTGAAAGCCGGCGCCTTCGATTTCGTCAGCAAACCGGTGGACATCGGCGTGCTGCGCG
GCTTGGTCAAGCACGCGCTGGAATTGAACAACCACGACCGCCCTGCTCCGCCGCCGCCACCTGAACAGGCCAGCCGCCTG
CTCGGCGACTCCAGCGCGATGGAGAGCCTGCGCGCCACCATCGGCAAGGTGGCGCGCAGTCAGGCGCCGATCTACATCGT
CGGCGAATCCGGGGTGGGCAAGGAGCTGGTTGCACGCACCATCCACGAACAAGGCGCACGCGCCGCCGGCCCGTTCGTCC
CGGTCAACTGCGGCGCCATTCCCGCCGAGCTGATGGAAAGCGAATTCTTCGGCCACAAGAAAGGCAGCTTCACCGGCGCG
CATGCCGACAAGCCCGGGCTATTCCAGGCCGCGCACGGCGGCACCTTGTTCCTGGACGAAGTGGCCGAATTGCCGTTGCA
GATGCAGGTCAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGTCCGGTCGGCGCCTCCGGCGAAACCCTGGTGGACG
TACGCATCCTGTCGGCCACCCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGTTTTCGACACGATCTGTACTACCGC
ATCAACGTGATCGAACTGCGCGTGCCGCCGCTGCGCGAACGCGGCGGCGACTTGCCGCAGCTGGCCGCTGCCATCATCGC
GCGCCTGGCGCACAGCCACGGCCGCACCATTCCACTGCTGACCCAATCCGCGCTCGACGCACTGGATCACTACGGCTTCC
CCGGCAACGTGCGCGAACTGGAAAACATCCTTGAACGCGCCCTTGCCCTGGCCGAAGACGACCAGATCAGCGCCACCGAC
CTGCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCACACCCGGCAGCGCCGCCGTGGAACCACGCGAAGCCGTCGT
CGACATCGACCCCGCCTCGGCCGCCCTACCCTCCTACATCGAACAACTGGAACGCGCCGCGATCCAGAAAGCGCTGGAAG
AAAACCGCTGGAACAAGACCAAGACCGCCGCGCAGTTGGGTATCACGTTTCGGGCGCTGCGTTACAAGCTCAAGAAGTTG
GGGATGGAGTGA

Domains

Predicted by InterproScan.

Bacterial regulatory protein, Fis family (HTH_8)

(440-480)

Sigma-54 interaction domain (Sigma54_activat)

(161-326)

Response regulator receiver domain (Response_reg)

(28-134)


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

62.987

95.652

0.602
  pilR Acinetobacter baumannii strain A118

48.268

95.652

0.462

Multiple sequence alignment