Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   ABFT86_RS05345 Genome accession   NZ_CP155990
Coordinates   1249060..1250454 (-) Length   464 a.a.
NCBI ID   WP_012437607.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain LMG 08005     
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 1240985..1255396 1249060..1250454 within 0


Gene organization within MGE regions


Location: 1240985..1255396
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFT86_RS05315 (ABFT86_05315) pilC 1240985..1242244 (-) 1260 WP_012437601.1 type II secretion system F family protein Machinery gene
  ABFT86_RS05320 (ABFT86_05320) comP 1242596..1243009 (+) 414 WP_012437602.1 pilin Machinery gene
  ABFT86_RS05325 (ABFT86_05325) - 1243228..1244739 (+) 1512 WP_256729490.1 phosphoethanolamine transferase -
  ABFT86_RS05330 (ABFT86_05330) - 1244750..1245379 (+) 630 WP_012437604.1 hypothetical protein -
  ABFT86_RS05335 (ABFT86_05335) - 1245349..1246875 (+) 1527 WP_016944997.1 membrane protein -
  ABFT86_RS05340 (ABFT86_05340) pilB 1246910..1248643 (+) 1734 WP_012437606.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFT86_RS05345 (ABFT86_05345) pilR 1249060..1250454 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFT86_RS05350 (ABFT86_05350) - 1250663..1252273 (-) 1611 WP_012437608.1 PAS domain-containing sensor histidine kinase -
  ABFT86_RS05355 (ABFT86_05355) sucC 1252507..1253676 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFT86_RS05360 (ABFT86_05360) sucD 1253701..1254576 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFT86_RS05365 (ABFT86_05365) - 1254680..1255090 (+) 411 WP_029217117.1 CopG family ribbon-helix-helix protein -
  ABFT86_RS05370 (ABFT86_05370) - 1255094..1255396 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 50253.62 Da        Isoelectric Point: 6.3587

>NTDB_id=1000829 ABFT86_RS05345 WP_012437607.1 1249060..1250454(-) (pilR) [Xanthomonas campestris pv. campestris strain LMG 08005]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALDTYGFPGNVRELENILERALALAEDDQISASDLRLPAHGGHRLAASPGTAA
VEPREAVVDIDPASSALPSYIEQLERAAIQKALEENRWNKTKTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=1000829 ABFT86_RS05345 WP_012437607.1 1249060..1250454(-) (pilR) [Xanthomonas campestris pv. campestris strain LMG 08005]
ATGAACGAAACGAAAAGTGCCCTGGTCGTCGATGACGAGCGTGACATCCGCGAATTGCTTGTTCTCACCCTGGGCCGCAT
GGGGCTGCGCATCAGCACCGCCGCCAACCTGGCCGAAGCACGCGAATTGCTGGCCAGCAACCCGTACGACCTGTGCCTGA
CCGACATGCGGTTGCCCGACGGCAACGGCATCGAGCTGGTGACCGAGATCGCGCGCCAATACCCGCAGACGCCGGTGGCC
ATGATCACCGCGTTCGGCAGCATGGACCTGGCGGTGGAAGCGCTGAAAGCCGGCGCGTTCGACTTCGTCAGCAAGCCGGT
GGACATCAGCGTGCTGCGCGGCCTGGTCAAGCACGCACTGGAATTGAACAACCGCGACCGGCCGGCGCCGCCACCGCCCC
CGCCGGAACAGGCCAGCCGCCTGCTCGGCGATTCGACCGCCATGGAAAGCCTGCGCTCCACCATCGGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTCGGCGAATCCGGCGTGGGCAAGGAACTGGTGGCCCGCACCATCCACGAGCAGGGCGC
GCGCGCGGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCGATCCCGGCCGAGCTGATGGAGAGCGAGTTCTTCGGCCATA
AGAAGGGCAGCTTTACCGGCGCGCATGCCGACAAGCCCGGCCTGTTTCAGGCCGCGCATGGCGGCACGCTGTTTCTGGAC
GAAGTGGCCGAGCTGCCGCTGCAGATGCAGGTCAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGCCCGGTCGGCGC
GTCGGGCGAGACGCTGGTGGACGTGCGCATTCTGTCGGCCACGCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGTCACGACCTGTATTACCGCATCAACGTGATCGAACTCCGTGTTCCACCGCTGCGCGAGCGCAGTGGCGATCTGCCG
CAACTGGCCGCCGCCATCATTGCGCGGCTGGCCCGCAGCCATGGCCGCCCGATTCCGCTGCTGACCCAGTCAGCCCTGGA
TGCATTGGATACTTACGGCTTTCCGGGCAACGTGCGCGAACTGGAAAACATCCTCGAACGCGCCCTGGCCCTGGCCGAAG
ACGACCAGATCAGCGCCAGCGATCTGCGCCTGCCCGCCCATGGCGGCCACCGCCTTGCCGCCAGCCCGGGCACCGCTGCG
GTTGAACCGCGCGAAGCGGTGGTCGACATCGACCCGGCTTCCTCCGCCCTGCCCTCCTACATCGAACAACTGGAACGCGC
CGCGATCCAGAAGGCGCTGGAAGAAAACCGCTGGAACAAGACCAAGACCGCCGCCCAGCTCGGCATCACGTTTCGTGCGT
TGCGCTACAAGCTGAAGAAACTGGGGATGGAGTAG

Domains

Predicted by InterproScan.

Response regulator receiver domain (Response_reg)

(8-115)

Bacterial regulatory protein, Fis family (HTH_8)

(421-461)

Sigma-54 interaction domain (Sigma54_activat)

(142-307)


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

49.138

100

0.491

Multiple sequence alignment