Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   ABFU65_RS05085 Genome accession   NZ_CP155964
Coordinates   1206230..1207624 (-) Length   464 a.a.
NCBI ID   WP_043921909.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain BR25     
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 1193455..1212566 1206230..1207624 within 0
IScluster/Tn 1204816..1205614 1206230..1207624 flank 616


Gene organization within MGE regions


Location: 1193455..1212566
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU65_RS05025 (ABFU65_05025) coaE 1193455..1194078 (-) 624 WP_323549481.1 dephospho-CoA kinase -
  ABFU65_RS05030 (ABFU65_05030) - 1194092..1194955 (-) 864 WP_011038216.1 A24 family peptidase -
  ABFU65_RS05035 (ABFU65_05035) pilC 1194962..1196221 (-) 1260 WP_323549480.1 type II secretion system F family protein Machinery gene
  ABFU65_RS05040 (ABFU65_05040) pilA2 1196576..1196995 (+) 420 WP_323549479.1 pilin Machinery gene
  ABFU65_RS05045 (ABFU65_05045) - 1197077..1198978 (+) 1902 WP_323549478.1 hypothetical protein -
  ABFU65_RS05050 (ABFU65_05050) - 1198975..1199433 (+) 459 WP_323549477.1 GtrA family protein -
  ABFU65_RS05055 (ABFU65_05055) - 1199439..1200983 (+) 1545 WP_323552249.1 NAD(P)/FAD-dependent oxidoreductase -
  ABFU65_RS05060 (ABFU65_05060) galE 1201079..1202056 (+) 978 WP_323550507.1 UDP-glucose 4-epimerase GalE -
  ABFU65_RS05065 (ABFU65_05065) pilB 1202199..1203905 (+) 1707 WP_323550509.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU65_RS05070 (ABFU65_05070) - 1204088..1204717 (-) 630 WP_407472217.1 toxin -
  ABFU65_RS05075 (ABFU65_05075) - 1204816..1205614 (+) 799 WP_087941972.1 IS5 family transposase -
  ABFU65_RS05080 (ABFU65_05080) - 1205676..1206038 (-) 363 WP_148263072.1 hypothetical protein -
  ABFU65_RS05085 (ABFU65_05085) pilR 1206230..1207624 (-) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU65_RS05090 (ABFU65_05090) - 1207833..1209443 (-) 1611 WP_014508702.1 PAS domain-containing sensor histidine kinase -
  ABFU65_RS05095 (ABFU65_05095) sucC 1209677..1210846 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU65_RS05100 (ABFU65_05100) sucD 1210871..1211746 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU65_RS05105 (ABFU65_05105) - 1211850..1212260 (+) 411 WP_029628876.1 CopG family ribbon-helix-helix protein -
  ABFU65_RS05110 (ABFU65_05110) - 1212264..1212566 (+) 303 WP_323475834.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


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

>NTDB_id=1000372 ABFU65_RS05085 WP_043921909.1 1206230..1207624(-) (pilR) [Xanthomonas campestris pv. raphani strain BR25]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALDTYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGHRLAASPGSAA
IEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTRTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=1000372 ABFU65_RS05085 WP_043921909.1 1206230..1207624(-) (pilR) [Xanthomonas campestris pv. raphani strain BR25]
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