Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   DXO233_RS17245 Genome accession   NZ_CP059580
Coordinates   3743882..3745273 (+) Length   463 a.a.
NCBI ID   WP_033013168.1    Uniprot ID   A0A854DU87
Organism   Xanthomonas oryzae pv. oryzae strain DXO-233     
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 3738971..3763945 3743882..3745273 within 0


Gene organization within MGE regions


Location: 3738971..3763945
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DXO233_RS17225 (DXO233_17175) - 3738971..3739462 (-) 492 WP_027703282.1 hypothetical protein -
  DXO233_RS17230 (DXO233_17180) sucD 3739635..3740510 (-) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  DXO233_RS17235 (DXO233_17185) sucC 3740535..3741704 (-) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  DXO233_RS17240 (DXO233_17190) - 3741938..3743551 (+) 1614 WP_011258366.1 PAS domain-containing sensor histidine kinase -
  DXO233_RS17245 (DXO233_17195) pilR 3743882..3745273 (+) 1392 WP_033013168.1 sigma-54 dependent transcriptional regulator Regulator
  DXO233_RS17250 (DXO233_17200) - 3745346..3745552 (+) 207 WP_027703281.1 YhfG family protein -
  DXO233_RS17255 - 3745614..3745775 (+) 162 WP_153296778.1 hypothetical protein -
  DXO233_RS17260 - 3745863..3746123 (+) 261 WP_011408073.1 Fic family protein -
  DXO233_RS17265 (DXO233_17210) pilB 3746132..3747865 (-) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DXO233_RS17270 (DXO233_17215) - 3747900..3749426 (-) 1527 WP_041182621.1 membrane protein -
  DXO233_RS17275 (DXO233_17220) - 3749396..3750025 (-) 630 WP_011408070.1 hypothetical protein -
  DXO233_RS17280 (DXO233_17225) - 3750036..3751625 (-) 1590 WP_075240477.1 phosphoethanolamine transferase -
  DXO233_RS17285 (DXO233_17230) pilA2 3751760..3752185 (-) 426 WP_011408068.1 pilin Machinery gene
  DXO233_RS17290 (DXO233_17235) pilC 3752540..3753799 (+) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  DXO233_RS17295 (DXO233_17240) - 3753806..3754669 (+) 864 WP_011258358.1 A24 family peptidase -
  DXO233_RS17300 (DXO233_17245) coaE 3754683..3755291 (+) 609 WP_011258357.1 dephospho-CoA kinase -
  DXO233_RS17305 (DXO233_17250) - 3755362..3756681 (+) 1320 WP_263113775.1 IS701-like element ISXo15 family transposase -
  DXO233_RS17310 (DXO233_17255) - 3756923..3757885 (+) 963 WP_041182297.1 IS1595-like element ISXo2 family transposase -
  DXO233_RS23810 - 3758110..3758415 (-) 306 Protein_3323 hypothetical protein -
  DXO233_RS17315 (DXO233_17260) - 3758322..3758624 (-) 303 WP_158645227.1 hypothetical protein -
  DXO233_RS17320 (DXO233_17265) - 3758658..3759614 (-) 957 WP_041182719.1 IS30-like element IS1112b family transposase -
  DXO233_RS17325 (DXO233_17270) - 3759853..3761172 (-) 1320 WP_117231491.1 IS701-like element ISXo15 family transposase -
  DXO233_RS17330 (DXO233_17275) - 3761287..3761655 (-) 369 WP_011408064.1 DUF6869 domain-containing protein -
  DXO233_RS17335 (DXO233_17280) - 3761661..3763112 (-) 1452 Protein_3328 RHS repeat domain-containing protein -
  DXO233_RS17340 (DXO233_17285) - 3763171..3763500 (-) 330 WP_143685531.1 hypothetical protein -
  DXO233_RS17345 (DXO233_17290) - 3763497..3763796 (-) 300 WP_125168747.1 hypothetical protein -

Sequence

Protein


Download         Length: 463 a.a.        Molecular weight: 50092.42 Da        Isoelectric Point: 6.3268

>NTDB_id=470958 DXO233_RS17245 WP_033013168.1 3743882..3745273(+) (pilR) [Xanthomonas oryzae pv. oryzae strain DXO-233]
MSEPKSALVVDDERDIRELLVLTLSRMGLRISTAANLAEARELLANNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDIGVLRGLVKHALELNNHDRPAPPPPPEQASRLLGDSSAMESLRATIGKVARS
QAPIYIVGESGVGKELVARTIHEQGARAAGPFVPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLDE
VAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERGGDLPQ
LAAAIIARLAHSHGRTIPLLTQSALDALDHYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGHRLAATPGSAAV
EPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1392 bp        

>NTDB_id=470958 DXO233_RS17245 WP_033013168.1 3743882..3745273(+) (pilR) [Xanthomonas oryzae pv. oryzae strain DXO-233]
ATGAGCGAACCCAAAAGTGCCCTGGTTGTCGATGACGAGCGTGATATTCGCGAGTTGCTTGTTCTCACCTTGAGCCGTAT
GGGGCTGCGCATCAGCACCGCTGCCAATCTGGCCGAAGCGCGCGAATTGCTGGCCAACAATCCCTACGATCTGTGCCTGA
CCGACATGCGCCTGCCCGACGGCAATGGCATCGAGCTGGTCACCGAAATCGCCAGGCAGTACCCGCAGACGCCGGTGGCG
ATGATCACCGCGTTCGGCAGCATGGACCTGGCCGTGGAAGCGCTGAAAGCCGGCGCCTTCGATTTCGTCAGCAAACCGGT
GGACATCGGCGTGCTGCGCGGCTTGGTCAAGCACGCGCTGGAATTGAACAACCACGACCGCCCTGCTCCGCCGCCGCCAC
CTGAACAGGCCAGCCGCCTGCTCGGCGACTCCAGCGCGATGGAGAGCCTGCGCGCCACCATCGGCAAGGTGGCGCGCAGT
CAGGCGCCGATCTACATCGTCGGCGAATCCGGGGTGGGCAAGGAGCTGGTTGCACGCACCATCCACGAACAAGGCGCACG
CGCCGCCGGCCCGTTCGTCCCGGTCAACTGCGGCGCCATTCCCGCCGAGCTGATGGAAAGCGAATTCTTCGGCCACAAGA
AAGGCAGCTTCACCGGCGCGCATGCCGACAAGCCCGGGCTATTCCAGGCCGCGCACGGCGGCACCTTGTTCCTGGACGAA
GTGGCCGAATTGCCGTTGCAGATGCAGGTCAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGTCCGGTCGGCGCCTC
CGGCGAAACCCTGGTGGACGTACGCATCCTGTCGGCCACCCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGTTTTC
GACACGATCTGTACTACCGCATCAACGTGATCGAACTGCGCGTGCCGCCGCTGCGCGAACGCGGCGGCGACTTGCCGCAG
CTGGCCGCTGCCATCATCGCGCGCCTGGCGCACAGCCACGGCCGCACCATTCCACTGCTGACCCAATCCGCGCTCGACGC
ACTGGATCACTACGGCTTCCCCGGCAACGTGCGCGAACTGGAAAACATCCTTGAACGCGCCCTTGCCCTGGCCGAAGACG
ACCAGATCAGCGCCACCGACCTGCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCACACCCGGCAGCGCCGCCGTG
GAACCACGCGAAGCCGTCGTCGACATCGACCCCGCCTCGGCCGCCCTACCCTCCTACATCGAACAACTGGAACGCGCCGC
GATCCAGAAAGCGCTGGAAGAAAACCGCTGGAACAAGACCAAGACCGCCGCGCAGTTGGGTATCACGTTTCGGGCGCTGC
GTTACAAGCTCAAGAAGTTGGGGATGGAGTGA

Domains

Predicted by InterproScan.

Bacterial regulatory protein, Fis family (HTH_8)

(420-460)

Sigma-54 interaction domain (Sigma54_activat)

(141-306)

Response regulator receiver domain (Response_reg)

(8-114)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A854DU87

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

99.784

0.629
  pilR Acinetobacter baumannii strain A118

48.268

99.784

0.482