Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilR   Type   Regulator
Locus tag   K6980_RS04700 Genome accession   NZ_CP082217
Coordinates   1149631..1151022 (-) Length   463 a.a.
NCBI ID   WP_170066996.1    Uniprot ID   -
Organism   Xanthomonas cucurbitae strain KS_456     
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 1134245..1156066 1149631..1151022 within 0


Gene organization within MGE regions


Location: 1134245..1156066
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6980_RS04635 (K6980_04620) - 1134245..1135345 (-) 1101 WP_159406553.1 IS5 family transposase -
  K6980_RS04640 (K6980_04625) - 1135719..1136111 (+) 393 WP_104604311.1 hypothetical protein -
  K6980_RS04645 (K6980_04630) - 1136199..1136588 (+) 390 WP_104604301.1 H-NS family nucleoid-associated regulatory protein -
  K6980_RS04650 (K6980_04635) glgX 1136716..1138848 (-) 2133 WP_104604299.1 glycogen debranching protein GlgX -
  K6980_RS04655 (K6980_04640) rimK 1139320..1140225 (+) 906 WP_104604297.1 30S ribosomal protein S6--L-glutamate ligase -
  K6980_RS04660 (K6980_04645) - 1140497..1140853 (+) 357 WP_146090337.1 hypothetical protein -
  K6980_RS04665 (K6980_04650) - 1140916..1141593 (+) 678 WP_003490678.1 response regulator transcription factor -
  K6980_RS04670 (K6980_04655) - 1142049..1143383 (+) 1335 WP_104604293.1 HAMP domain-containing sensor histidine kinase -
  K6980_RS04675 (K6980_04660) coaE 1143598..1144203 (-) 606 WP_104604291.1 dephospho-CoA kinase -
  K6980_RS04680 (K6980_04665) - 1144217..1145080 (-) 864 WP_104604289.1 A24 family peptidase -
  K6980_RS04685 (K6980_04670) pilC 1145087..1146349 (-) 1263 WP_104604287.1 type II secretion system F family protein Machinery gene
  K6980_RS04690 (K6980_04675) pilA 1146695..1147123 (+) 429 WP_104604285.1 pilin Machinery gene
  K6980_RS04695 (K6980_04680) pilB 1147261..1148994 (+) 1734 WP_104604283.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K6980_RS04700 (K6980_04685) pilR 1149631..1151022 (-) 1392 WP_170066996.1 sigma-54 dependent transcriptional regulator Regulator
  K6980_RS04705 (K6980_04690) - 1151182..1152795 (-) 1614 WP_104604280.1 HAMP domain-containing sensor histidine kinase -
  K6980_RS04710 (K6980_04695) sucC 1153030..1154199 (+) 1170 WP_104604278.1 ADP-forming succinate--CoA ligase subunit beta -
  K6980_RS04715 (K6980_04700) sucD 1154224..1155099 (+) 876 WP_104604276.1 succinate--CoA ligase subunit alpha -
  K6980_RS04720 (K6980_04705) - 1155217..1155453 (-) 237 WP_158251453.1 hypothetical protein -
  K6980_RS04725 (K6980_04710) - 1155674..1156066 (+) 393 WP_167526931.1 endonuclease domain-containing protein -

Sequence

Protein


Download         Length: 463 a.a.        Molecular weight: 50088.56 Da        Isoelectric Point: 6.5127

>NTDB_id=600262 K6980_RS04700 WP_170066996.1 1149631..1151022(-) (pilR) [Xanthomonas cucurbitae strain KS_456]
MNEPKSALVVDDERDIRELLVLTLGRMGLRISTAANLAEARELLASNPYDLCLTDMRLPDGNGIELVTEISKHYPQTPVA
MITAFGSMDLAVEALKAGAFDFVSKPVDISVLRGLVKHALELNNRDRPAPPAPPPEQASRLLGASTAMESLRATIAKVAR
SQAPVYIVGESGVGKELVARTIHEQGARAAGPFIPVNCGAIPAELMESEFFGHKKGSFTGAHADKPGLFQAANGGTLFLD
EVAELPLQMQVKLLRAIQEKSVRPVGASSESLVDVRILSATHKDLGNLVSDGRFRHDLYYRINVIELRVPPLRERGGDLP
QLAAAIIARLAHSHGRPIPLLTPSALDALDQYGFPGNVRELENILERALALAEDDQISATDLRLPAHGGRLATGPGTAII
EPREAVVDIDPTSAALPSYIEQLERAAIQKALEENRWNKTRTAAQLGITFRALRYKLKKLGME

Nucleotide


Download         Length: 1392 bp        

>NTDB_id=600262 K6980_RS04700 WP_170066996.1 1149631..1151022(-) (pilR) [Xanthomonas cucurbitae strain KS_456]
ATGAACGAACCGAAAAGCGCCCTGGTCGTCGACGACGAACGCGACATCCGCGAACTGCTTGTTCTCACCCTGGGGCGGAT
GGGCCTGCGCATCAGCACCGCCGCCAATCTGGCCGAAGCGCGCGAACTGCTGGCCAGCAACCCCTACGACCTGTGCCTGA
CCGACATGCGCCTGCCCGACGGCAACGGCATCGAGCTGGTCACCGAGATCTCCAAGCATTACCCGCAGACACCGGTGGCG
ATGATTACCGCCTTCGGCAGCATGGACCTGGCGGTGGAAGCGCTCAAGGCCGGCGCCTTCGACTTCGTCAGCAAGCCCGT
GGACATCAGCGTGCTGCGCGGCCTGGTCAAGCACGCGCTGGAATTGAACAACCGCGACCGCCCCGCCCCCCCGGCGCCGC
CGCCGGAGCAGGCCAGCCGCCTGCTCGGCGCCTCCACCGCGATGGAGAGCCTGCGCGCCACCATCGCCAAGGTCGCACGC
AGCCAGGCGCCGGTCTACATCGTCGGCGAATCGGGCGTGGGCAAGGAACTGGTGGCGCGCACCATCCACGAACAGGGCGC
GCGCGCCGCCGGGCCGTTCATTCCGGTCAACTGCGGCGCCATTCCCGCCGAATTGATGGAAAGCGAATTCTTCGGCCACA
AGAAAGGCAGCTTCACCGGCGCACATGCCGACAAGCCCGGCCTGTTCCAGGCCGCAAATGGCGGCACCCTGTTCCTGGAC
GAAGTAGCCGAGCTGCCGTTGCAGATGCAGGTCAAGCTGCTGCGTGCCATCCAGGAAAAGTCGGTACGCCCGGTCGGCGC
CTCCAGCGAATCGCTGGTCGATGTGCGCATCCTTTCGGCCACGCACAAGGACCTGGGCAACCTGGTTTCCGACGGCCGCT
TCCGGCACGACCTGTACTACCGCATCAACGTGATCGAACTGCGCGTGCCGCCGCTGCGCGAACGCGGCGGCGACCTGCCG
CAACTGGCGGCCGCCATCATCGCGCGGCTCGCGCACAGCCACGGGCGGCCGATCCCGCTCTTGACGCCTTCGGCCCTGGA
CGCGCTGGACCAATACGGCTTCCCCGGCAACGTGCGCGAACTGGAAAACATCCTCGAACGCGCCCTGGCCCTGGCCGAAG
ACGACCAGATCAGCGCCACCGACCTGCGCCTGCCCGCTCACGGCGGCCGCCTGGCAACCGGCCCCGGCACGGCCATCATC
GAACCGCGCGAAGCGGTGGTCGACATCGACCCCACCTCGGCCGCCCTGCCCTCCTACATCGAACAGCTCGAACGCGCCGC
AATCCAGAAAGCGCTGGAAGAAAACCGCTGGAACAAGACCCGGACCGCCGCCCAACTGGGCATCACGTTTCGCGCGCTGC
GTTACAAGCTGAAGAAGTTGGGGATGGAGTAG

Domains

Predicted by InterproScan.

Sigma-54 interaction domain (Sigma54_activat)

(142-307)

Bacterial regulatory protein, Fis family (HTH_8)

(420-460)

Response regulator receiver domain (Response_reg)

(8-115)


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

63.181

99.136

0.626
  pilR Acinetobacter baumannii strain A118

49.134

99.784

0.49