Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   JH299_RS16190 Genome accession   NZ_CP066928
Coordinates   3652271..3653665 (+) Length   464 a.a.
NCBI ID   WP_043921909.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. incanae strain CFBP1371     
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 3647635..3690119 3652271..3653665 within 0


Gene organization within MGE regions


Location: 3647635..3690119
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH299_RS16170 (JH299_16130) - 3647635..3648045 (-) 411 WP_029628876.1 DNA-binding protein -
  JH299_RS16175 (JH299_16135) sucD 3648149..3649024 (-) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH299_RS16180 (JH299_16140) sucC 3649049..3650218 (-) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH299_RS16185 (JH299_16145) - 3650452..3652062 (+) 1611 WP_076037049.1 HAMP domain-containing sensor histidine kinase -
  JH299_RS16190 (JH299_16150) pilR 3652271..3653665 (+) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  JH299_RS16195 (JH299_16155) - 3653863..3654219 (+) 357 WP_139328384.1 hypothetical protein -
  JH299_RS16200 (JH299_16160) - 3654219..3654956 (+) 738 WP_070690009.1 zeta toxin family protein -
  JH299_RS16205 (JH299_16165) pilB 3655139..3656845 (-) 1707 WP_175611860.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH299_RS16210 (JH299_16170) pilA/pilAI 3657028..3657435 (-) 408 WP_076037052.1 pilin Machinery gene
  JH299_RS16215 (JH299_16175) pilC 3657780..3659036 (+) 1257 WP_076037882.1 type II secretion system F family protein Machinery gene
  JH299_RS16220 (JH299_16180) - 3659043..3659906 (+) 864 WP_040940797.1 A24 family peptidase -
  JH299_RS16225 (JH299_16185) coaE 3659920..3660543 (+) 624 WP_076037053.1 dephospho-CoA kinase -
  JH299_RS16230 (JH299_16190) - 3661072..3661473 (+) 402 WP_076037054.1 SymE family type I addiction module toxin -
  JH299_RS16235 (JH299_16195) - 3661549..3661839 (+) 291 WP_014508712.1 DUF1778 domain-containing protein -
  JH299_RS16240 (JH299_16200) - 3661836..3662327 (+) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  JH299_RS16245 (JH299_16205) - 3662470..3663804 (-) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  JH299_RS16250 (JH299_16210) - 3663797..3664474 (-) 678 WP_003490678.1 response regulator transcription factor -
  JH299_RS16255 (JH299_16215) rimK 3665124..3665999 (-) 876 WP_076037055.1 30S ribosomal protein S6--L-glutamate ligase -
  JH299_RS16260 (JH299_16220) glgX 3666492..3668621 (+) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  JH299_RS16265 (JH299_16225) - 3669152..3669544 (-) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JH299_RS16270 (JH299_16230) - 3669635..3670030 (-) 396 WP_011038225.1 hypothetical protein -
  JH299_RS16275 (JH299_16235) - 3670215..3670361 (-) 147 WP_076037056.1 hypothetical protein -
  JH299_RS16280 - 3670479..3670820 (-) 342 WP_228438057.1 hypothetical protein -
  JH299_RS16285 (JH299_16245) - 3670953..3671324 (-) 372 WP_076037057.1 hypothetical protein -
  JH299_RS16290 (JH299_16250) - 3672027..3672368 (+) 342 WP_070689991.1 hypothetical protein -
  JH299_RS16295 (JH299_16255) - 3672433..3672714 (+) 282 WP_076037058.1 DUF6516 family protein -
  JH299_RS16300 (JH299_16260) - 3672722..3673090 (+) 369 WP_065628137.1 transcriptional regulator -
  JH299_RS16305 (JH299_16265) - 3673162..3673953 (-) 792 WP_076037059.1 hypothetical protein -
  JH299_RS16310 (JH299_16270) - 3674069..3675171 (+) 1103 WP_100101058.1 IS3-like element IS1404 family transposase -
  JH299_RS16315 (JH299_16275) - 3675330..3675983 (-) 654 WP_147309026.1 hypothetical protein -
  JH299_RS16320 (JH299_16280) - 3676601..3676945 (+) 345 WP_228438129.1 hypothetical protein -
  JH299_RS16325 (JH299_16285) - 3676942..3677358 (+) 417 WP_076037060.1 hypothetical protein -
  JH299_RS16330 (JH299_16290) xopAE 3677568..3679199 (-) 1632 WP_076037061.1 type III secretion system effector XopAE -
  JH299_RS16335 (JH299_16295) - 3679782..3680060 (+) 279 WP_139328385.1 hypothetical protein -
  JH299_RS16340 (JH299_16300) - 3680494..3680718 (-) 225 WP_175611669.1 hypothetical protein -
  JH299_RS16345 (JH299_16305) - 3681263..3682663 (+) 1401 WP_076037063.1 site-specific integrase -
  JH299_RS16350 (JH299_16310) - 3682865..3683338 (+) 474 WP_139328386.1 hypothetical protein -
  JH299_RS16355 (JH299_16315) - 3683465..3684337 (+) 873 WP_139328387.1 hypothetical protein -
  JH299_RS16360 (JH299_16320) - 3684573..3684896 (-) 324 WP_175611861.1 helix-turn-helix transcriptional regulator -
  JH299_RS16370 (JH299_16330) - 3686939..3687737 (+) 799 WP_100097398.1 IS5 family transposase -
  JH299_RS16375 (JH299_16335) - 3688257..3688481 (+) 225 WP_139328388.1 hypothetical protein -

Sequence

Protein


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

>NTDB_id=523276 JH299_RS16190 WP_043921909.1 3652271..3653665(+) (pilR) [Xanthomonas campestris pv. incanae strain CFBP1371]
MNETKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEIARQYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPPPPPEQASRLLGDSTAMESLRSTIGKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAAHGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASGETLVDVRILSATHKDLGDLVSDGRFRHDLYYRINVIELRVPPLRERSGDLP
QLAAAIIARLARSHGRPIPLLTQSALDALDTYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGHRLAASPGSAA
IEPREAVVDIDPASAALPSYIEQLERAAIQKALEENRWNKTRTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=523276 JH299_RS16190 WP_043921909.1 3652271..3653665(+) (pilR) [Xanthomonas campestris pv. incanae strain CFBP1371]
ATGAACGAAACGAAAAGTGCCCTGGTCGTCGATGACGAGCGTGACATCCGCGAATTGCTTGTTCTCACCCTGGGCCGCAT
GGGGCTGCGCATCAGCACCGCCGCCAACCTGGCCGAAGCACGCGAATTGCTGGCCAGCAACCCGTACGACCTGTGCCTGA
CCGACATGCGGTTGCCCGACGGCAACGGCATCGAGCTGGTGACCGAGATCGCGCGCCAATACCCGCAGACGCCGGTGGCC
ATGATTACCGCGTTCGGCAGCATGGACCTGGCGGTGGAAGCACTGAAAGCCGGCGCGTTCGACTTCGTCAGCAAGCCGGT
GGACATCAGCGTGCTGCGCGGCCTGGTCAAGCACGCATTGGAATTGAACAACCGCGACCGGCCGGCGCCGCCACCGCCCC
CGCCGGAACAGGCCAGCCGCCTGCTCGGCGATTCGACCGCCATGGAGAGCCTGCGCTCCACCATCGGCAAGGTCGCGCGC
AGCCAGGCGCCGGTCTACATCGTCGGCGAATCCGGTGTGGGCAAGGAACTGGTGGCCCGCACCATCCACGAGCAGGGCGC
ACGCGCGGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCGATCCCCGCCGAGCTGATGGAGAGCGAGTTCTTCGGCCATA
AGAAGGGCAGCTTTACCGGCGCGCATGCCGACAAGCCGGGCCTGTTTCAGGCCGCGCATGGCGGCACGCTGTTTCTGGAC
GAAGTGGCCGAGCTGCCGCTGCAGATGCAGGTCAAGCTGCTGCGCGCCATCCAGGAAAAATCGGTGCGCCCGGTCGGCGC
GTCGGGCGAGACGCTGGTGGACGTGCGCATTCTGTCGGCCACGCACAAGGACCTGGGCGACCTGGTCTCCGACGGCCGCT
TTCGTCACGACCTGTATTACCGCATCAACGTGATCGAGCTGCGCGTGCCACCGCTGCGCGAGCGCAGTGGCGACCTGCCG
CAACTGGCCGCCGCCATCATTGCGCGGCTGGCCCGCAGCCATGGCCGCCCGATTCCGCTGCTGACCCAGTCAGCCCTGGA
TGCATTGGATACTTACGGCTTTCCGGGCAACGTGCGCGAACTGGAAAACATCCTCGAACGCGCCCTGGCCCTGGCCGAAG
ACGACCAGATCAGCGCCACCGACCTGCGCCTGCCCGCCCACGGCGGCCACCGCCTCGCCGCCAGCCCCGGCAGCGCCGCC
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