Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   XCCCN08v2_RS05235 Genome accession   NZ_CP101176
Coordinates   1242285..1243679 (-) Length   464 a.a.
NCBI ID   WP_162808570.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain CN08     
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 1224045..1248622 1242285..1243679 within 0


Gene organization within MGE regions


Location: 1224045..1248622
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XCCCN08v2_RS05140 - 1224045..1224461 (+) 417 WP_227971334.1 hypothetical protein -
  XCCCN08v2_RS05145 - 1224751..1224981 (-) 231 WP_157769280.1 hypothetical protein -
  XCCCN08v2_RS05150 - 1225045..1225200 (+) 156 WP_075285405.1 hypothetical protein -
  XCCCN08v2_RS05155 - 1225377..1225772 (+) 396 WP_016945003.1 hypothetical protein -
  XCCCN08v2_RS05160 - 1225863..1226255 (+) 393 WP_012437593.1 H-NS family nucleoid-associated regulatory protein -
  XCCCN08v2_RS05165 glgX 1226780..1228909 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  XCCCN08v2_RS05170 rimK 1229402..1230277 (+) 876 WP_016945000.1 30S ribosomal protein S6--L-glutamate ligase -
  XCCCN08v2_RS05175 - 1230927..1231604 (+) 678 WP_003490678.1 response regulator transcription factor -
  XCCCN08v2_RS05180 - 1231597..1232931 (+) 1335 WP_162808569.1 HAMP domain-containing sensor histidine kinase -
  XCCCN08v2_RS05185 - 1233074..1233565 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  XCCCN08v2_RS05190 - 1233562..1233852 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  XCCCN08v2_RS05195 - 1233927..1234328 (-) 402 WP_040940795.1 SymE family type I addiction module toxin -
  XCCCN08v2_RS05200 - 1234471..1235579 (+) 1109 WP_087942068.1 IS3 family transposase -
  XCCCN08v2_RS05205 coaE 1236064..1236687 (-) 624 WP_075285407.1 dephospho-CoA kinase -
  XCCCN08v2_RS05210 - 1236701..1237564 (-) 864 WP_075285408.1 A24 family peptidase -
  XCCCN08v2_RS05215 pilC 1237570..1238826 (-) 1257 WP_075285409.1 type II secretion system F family protein Machinery gene
  XCCCN08v2_RS05220 - 1239163..1239612 (+) 450 WP_075285410.1 pilin -
  XCCCN08v2_RS05225 - 1239728..1240102 (+) 375 WP_269467167.1 pilin -
  XCCCN08v2_RS05230 pilB 1240161..1241867 (+) 1707 WP_187305920.1 type IV-A pilus assembly ATPase PilB Machinery gene
  XCCCN08v2_RS05235 pilR 1242285..1243679 (-) 1395 WP_162808570.1 sigma-54 dependent transcriptional regulator Regulator
  XCCCN08v2_RS05240 - 1243889..1245499 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  XCCCN08v2_RS05245 sucC 1245733..1246902 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  XCCCN08v2_RS05250 sucD 1246927..1247802 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  XCCCN08v2_RS05255 - 1247906..1248316 (+) 411 WP_029628876.1 DNA-binding protein -
  XCCCN08v2_RS05260 - 1248320..1248622 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 50351.73 Da        Isoelectric Point: 6.5131

>NTDB_id=709146 XCCCN08v2_RS05235 WP_162808570.1 1242285..1243679(-) (pilR) [Xanthomonas campestris pv. campestris strain CN08]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASSETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALNQYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGHRLAASPGTAA
VEPREAVVDIDPASSALPSYIEQLERAAIQKALEENRWNKTRTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=709146 XCCCN08v2_RS05235 WP_162808570.1 1242285..1243679(-) (pilR) [Xanthomonas campestris pv. campestris strain CN08]
ATGAACGAAACGAAAAGTGCCCTGGTCGTCGATGACGAGCGTGACATCCGCGAATTGCTTGTTCTCACCCTGGGCCGCAT
GGGGCTGCGCATCAGCACCGCCGCCAACCTGGCCGAAGCACGCGAATTGCTGGCCAGCAACCCGTACGACCTGTGCCTGA
CCGACATGCGGTTGCCCGACGGCAACGGCATCGAGCTGGTGACCGAGATCGCGCGCCAATACCCGCAGACGCCGGTGGCG
ATGATCACCGCGTTCGGCAGCATGGACCTGGCGGTGGAAGCGCTGAAAGCCGGCGCGTTCGACTTCGTCAGCAAGCCGGT
GGACATCAGCGTGCTGCGCGGCCTGGTCAAGCACGCACTGGAATTGAACAACCGCGACCGGCCGGCGCCGCCACCGCCCC
CGCCGGAACAGGCCAGCCGCCTGCTCGGCGATTCGACCGCCATGGAAAGCCTGCGCTCCACCATCGGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTTGGCGAATCCGGCGTGGGCAAGGAACTGGTGGCCCGCACCATCCACGAGCAAGGCGC
ACGCGCGGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCGATCCCGGCCGAGCTGATGGAGAGCGAGTTCTTCGGTCACA
AGAAGGGCAGCTTTACCGGCGCGCATGCCGACAAACCGGGCCTGTTTCAGGCCGCGCATGGCGGCACGCTGTTTCTGGAC
GAAGTGGCCGAGCTACCGCTGCAGATGCAGGTCAAGCTGCTGCGCGCGATCCAGGAAAAATCGGTGCGCCCGGTCGGCGC
CTCGAGCGAGACGCTGGTAGACGTGCGCATTCTGTCGGCCACGCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGTCACGACCTGTACTACCGCATCAACGTGATCGAGCTGCGTGTGCCACCGCTGCGCGAGCGCAGTGGCGACCTGCCG
CAACTGGCCGCCGCCATCATTGCGCGGCTGGCCCGCAGCCATGGCCGCCCGATTCCCTTGCTTACCCAGTCCGCGCTCGA
TGCCCTGAACCAATACGGATTCCCGGGCAACGTGCGCGAGCTGGAAAACATCCTCGAACGTGCGCTTGCCCTGGCCGAAG
ACGACCAGATCAGCGCCACCGACCTGCGCCTGCCCGCCCATGGCGGCCACCGCCTTGCCGCCAGCCCGGGCACCGCTGCG
GTTGAACCGCGCGAAGCGGTGGTCGACATCGACCCTGCCTCCTCCGCCCTGCCCTCCTACATCGAACAACTGGAACGCGC
CGCGATCCAGAAGGCGCTGGAAGAAAACCGCTGGAACAAGACCAGAACCGCCGCGCAGTTGGGCATCACGTTTCGGGCGC
TACGCTACAAACTGAAGAAGTTGGGGATGGAGTAG

Domains

Predicted by InterproScan.

Sigma-54 interaction domain (Sigma54_activat)

(142-307)

Response regulator receiver domain (Response_reg)

(8-115)

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

49.138

100

0.491