Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   ABFU29_RS16385 Genome accession   NZ_CP156001
Coordinates   3696448..3697842 (+) Length   464 a.a.
NCBI ID   WP_043921909.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6753     
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 3698034..3708481 3696448..3697842 flank 192


Gene organization within MGE regions


Location: 3696448..3708481
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU29_RS16385 (ABFU29_16360) pilR 3696448..3697842 (+) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU29_RS16390 (ABFU29_16365) - 3698034..3698396 (+) 363 WP_148263072.1 hypothetical protein -
  ABFU29_RS16395 (ABFU29_16370) - 3698341..3699132 (+) 792 WP_407462317.1 toxin -
  ABFU29_RS16400 (ABFU29_16375) pilB 3699315..3701048 (-) 1734 WP_323539949.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU29_RS16405 (ABFU29_16380) - 3701083..3702609 (-) 1527 WP_323541664.1 hypothetical protein -
  ABFU29_RS16410 (ABFU29_16385) - 3702579..3703208 (-) 630 WP_323548213.1 hypothetical protein -
  ABFU29_RS16415 (ABFU29_16390) - 3703219..3704730 (-) 1512 WP_407463088.1 phosphoethanolamine transferase -
  ABFU29_RS16420 (ABFU29_16395) comP 3704949..3705362 (-) 414 WP_323548210.1 pilin Machinery gene
  ABFU29_RS16425 (ABFU29_16400) pilC 3705715..3706974 (+) 1260 WP_323548209.1 type II secretion system F family protein Machinery gene
  ABFU29_RS16430 (ABFU29_16405) - 3706981..3707844 (+) 864 WP_323548208.1 A24 family peptidase -
  ABFU29_RS16435 (ABFU29_16410) coaE 3707858..3708481 (+) 624 WP_076038488.1 dephospho-CoA kinase -

Sequence

Protein


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

>NTDB_id=1001015 ABFU29_RS16385 WP_043921909.1 3696448..3697842(+) (pilR) [Xanthomonas campestris pv. raphani strain bglFP 6753]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALDTYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGHRLAASPGSAA
IEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTRTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=1001015 ABFU29_RS16385 WP_043921909.1 3696448..3697842(+) (pilR) [Xanthomonas campestris pv. raphani strain bglFP 6753]
ATGAACGAAACGAAAAGTGCCCTGGTCGTCGATGACGAGCGTGACATCCGCGAATTGCTTGTTCTCACCCTGGGCCGCAT
GGGGCTGCGCATCAGCACCGCCGCCAACCTGGCCGAAGCACGCGAACTGCTGGCCAGCAACCCGTACGACCTGTGCCTGA
CCGACATGCGGTTGCCCGACGGCAACGGCATCGAGCTGGTGACCGAGATCGCGCGCCAATACCCGCAGACGCCGGTGGCC
ATGATCACCGCGTTCGGCAGCATGGACCTGGCGGTGGAAGCGCTGAAAGCCGGCGCGTTCGACTTCGTCAGCAAGCCGGT
GGACATCAGCGTGCTGCGCGGCCTGGTCAAGCACGCGCTGGAATTGAACAACCGCGACCGGCCGGCGCCGCCACCGCCTC
CGCCGGAACAGGCCAGCCGCCTGCTCGGCGATTCGACCGCCATGGAGAGCCTGCGCTCCACCATCGGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTTGGCGAATCCGGTGTGGGCAAGGAATTGGTGGCCCGCACCATCCACGAGCAGGGCGC
ACGCGCGGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCGATCCCGGCCGAGCTGATGGAGAGCGAGTTCTTCGGCCATA
AGAAGGGCAGCTTTACCGGCGCGCATGCCGACAAGCCGGGCCTGTTTCAGGCCGCGCATGGCGGCACGCTGTTTCTGGAC
GAAGTGGCCGAGCTACCGCTGCAGATGCAGGTGAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGCCCGGTCGGCGC
CTCGGGCGAAACGCTGGTGGACGTGCGCATTCTGTCGGCCACGCACAAAGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGTCACGACCTGTACTACCGCATCAACGTGATCGAGCTCCGTGTGCCACCGCTGCGCGAGCGCAGTGGCGACCTGCCG
CAACTGGCCGCCGCCATCATTGCGCGGCTGGCACGCAGCCACGGCCGCCCGATTCCGCTGCTGACCCAGTCAGCCCTGGA
TGCATTGGATACTTACGGCTTTCCGGGCAACGTGCGCGAACTGGAAAACATTCTCGAACGCGCCCTGGCCCTGGCCGAAG
ACGACCAGATCAGCGCCACCGACCTGCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCAGCCCCGGCAGCGCCGCC
ATCGAACCGCGCGAAGCCGTGGTCGACATCGATCCCGCCTCGGCCGCCCTGCCCTCTTACATCGAGCAACTCGAGCGCGC
CGCGATCCAGAAAGCGCTGGAGGAGAATCGTTGGAACAAGACCAGAACTGCCGCGCAGCTCGGCATCACGTTTCGTGCGT
TGCGCTACAAGCTCAAGAAGTTGGGGATGGAGTGA

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

Multiple sequence alignment