Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   JH283_RS05625 Genome accession   NZ_CP066921
Coordinates   1346810..1348204 (-) Length   464 a.a.
NCBI ID   WP_043921909.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain 5055     
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 1322467..1346618 1346810..1348204 flank 192


Gene organization within MGE regions


Location: 1322467..1348204
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH283_RS05505 (JH283_05475) - 1322964..1323194 (-) 231 WP_181920809.1 hypothetical protein -
  JH283_RS05510 (JH283_05480) - 1323258..1323404 (+) 147 WP_076054137.1 hypothetical protein -
  JH283_RS05515 (JH283_05485) - 1323588..1323983 (+) 396 WP_042594933.1 hypothetical protein -
  JH283_RS05520 (JH283_05490) - 1324074..1324466 (+) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JH283_RS05525 (JH283_05495) glgX 1325000..1327129 (-) 2130 WP_274299339.1 glycogen debranching protein GlgX -
  JH283_RS05530 (JH283_05500) rimK 1327625..1328500 (+) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  JH283_RS05535 (JH283_05505) - 1329150..1329827 (+) 678 WP_003490678.1 response regulator transcription factor -
  JH283_RS05540 (JH283_05510) - 1329820..1331154 (+) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  JH283_RS05545 (JH283_05515) - 1331253..1331523 (-) 271 Protein_1075 SymE family type I addiction module toxin -
  JH283_RS05550 (JH283_05520) coaE 1331702..1332325 (-) 624 WP_225042504.1 dephospho-CoA kinase -
  JH283_RS05555 (JH283_05525) - 1332339..1333202 (-) 864 WP_011038216.1 A24 family peptidase -
  JH283_RS05560 (JH283_05530) pilC 1333209..1334471 (-) 1263 WP_104570928.1 type II secretion system F family protein Machinery gene
  JH283_RS05565 (JH283_05535) pilA/pilAI 1334822..1335220 (+) 399 WP_104570927.1 pilin Machinery gene
  JH283_RS05570 (JH283_05540) - 1335321..1335743 (+) 423 WP_104570926.1 pilin -
  JH283_RS05575 (JH283_05545) - 1335802..1337622 (+) 1821 WP_147308815.1 hypothetical protein -
  JH283_RS05580 (JH283_05550) - 1337746..1338504 (+) 759 WP_274299340.1 class I SAM-dependent methyltransferase -
  JH283_RS05585 (JH283_05555) - 1339001..1339687 (+) 687 WP_258872788.1 glycosyltransferase family 9 protein -
  JH283_RS05590 (JH283_05560) - 1339690..1340532 (-) 843 WP_147308817.1 glycosyltransferase -
  JH283_RS05595 (JH283_05565) - 1340526..1341698 (-) 1173 WP_181920810.1 glycosyltransferase -
  JH283_RS05600 (JH283_05570) - 1341683..1342546 (-) 864 WP_116921534.1 glycosyltransferase -
  JH283_RS05605 (JH283_05575) - 1342596..1343447 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  JH283_RS05610 (JH283_05580) pilB 1343603..1345336 (+) 1734 WP_274299341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH283_RS05615 (JH283_05585) - 1345519..1346256 (-) 738 WP_274299342.1 zeta toxin family protein -
  JH283_RS05620 (JH283_05590) - 1346256..1346612 (-) 357 WP_139328384.1 hypothetical protein -
  JH283_RS05625 (JH283_05595) pilR 1346810..1348204 (-) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 50279.66 Da        Isoelectric Point: 6.3588

>NTDB_id=523179 JH283_RS05625 WP_043921909.1 1346810..1348204(-) (pilR) [Xanthomonas campestris pv. raphani strain 5055]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALDTYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGHRLAASPGSAA
IEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTRTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=523179 JH283_RS05625 WP_043921909.1 1346810..1348204(-) (pilR) [Xanthomonas campestris pv. raphani strain 5055]
ATGAACGAAACGAAAAGTGCCCTGGTCGTCGATGACGAGCGTGACATCCGCGAATTGCTTGTTCTCACCCTGGGCCGCAT
GGGGCTGCGCATCAGCACCGCCGCCAACCTGGCCGAAGCACGCGAGTTGCTGGCCAGCAACCCGTACGACCTGTGCCTGA
CCGACATGCGGTTGCCCGACGGCAACGGCATCGAACTGGTGACCGAGATCGCGCGCCAATACCCGCAGACGCCGGTGGCC
ATGATCACCGCGTTCGGCAGCATGGACCTGGCGGTGGAAGCGCTGAAAGCCGGCGCGTTCGACTTCGTCAGCAAGCCGGT
GGACATCAGCGTGCTGCGTGGCCTGGTCAAGCACGCACTGGAATTGAACAACCGCGACCGGCCGGCGCCGCCACCGCCTC
CGCCGGAACAGGCCAGCCGCCTGCTCGGCGATTCGACCGCCATGGAGAGCCTGCGCTCCACCATCGGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTCGGCGAATCCGGCGTGGGCAAGGAACTGGTGGCCCGCACCATCCACGAGCAGGGCGC
GCGCGCGGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCGATCCCGGCCGAGCTGATGGAGAGCGAGTTCTTCGGCCATA
AGAAGGGCAGCTTTACCGGCGCGCATGCCGACAAGCCCGGCCTGTTTCAGGCCGCGCATGGCGGCACGCTGTTTCTGGAC
GAAGTGGCCGAGCTGCCGCTGCAGATGCAGGTCAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGCCCGGTCGGCGC
GTCGGGCGAGACGCTGGTGGACGTGCGCATTCTGTCGGCCACGCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGTCACGACCTGTATTACCGCATCAACGTGATCGAACTCCGTGTGCCACCGCTGCGCGAGCGCAGTGGCGACCTGCCG
CAACTGGCCGCCGCCATCATTGCGCGGCTGGCCCGCAGCCATGGCCGCCCGATTCCGCTGCTGACCCAGTCAGCCCTGGA
TGCATTGGATACTTACGGCTTTCCGGGCAACGTGCGCGAGCTGGAAAACATCCTCGAGCGTGCACTTGCCCTGGCCGAAG
ACGACCAGATCAGCGCCACCGACCTCCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCAGCCCCGGCAGCGCCGCC
ATCGAACCGCGCGAAGCCGTGGTCGACATCGATCCCGCCTCGGCCGCCCTGCCCTCTTACATCGAACAACTGGAACGCGC
CGCGATCCAGAAGGCGCTGGAAGAAAACCGGTGGAACAAGACCAGAACTGCCGCGCAGCTAGGCATCACGTTTCGTGCGC
TGCGCTACAAGCTCAAGAAATTGGGGATGGAGTGA

Domains

Predicted by InterproScan.

Response regulator receiver domain (Response_reg)

(8-115)

Sigma-54 interaction domain (Sigma54_activat)

(142-307)

Bacterial regulatory protein, Fis family (HTH_8)

(421-461)


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

63.067

99.784

0.629
  pilR Acinetobacter baumannii strain A118

48.922

100

0.489