Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   IXO685_RS17690 Genome accession   NZ_CP059590
Coordinates   3712574..3713833 (-) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae pv. oryzae strain IXO685     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

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 3712574..3727402 3712574..3713833 within 0


Gene organization within MGE regions


Location: 3712574..3727402
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IXO685_RS17690 (IXO685_0017685) pilC 3712574..3713833 (-) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  IXO685_RS17695 (IXO685_0017690) pilA2 3714188..3714613 (+) 426 WP_011408068.1 pilin Machinery gene
  IXO685_RS17700 (IXO685_0017695) - 3714748..3716337 (+) 1590 WP_075244420.1 phosphoethanolamine transferase -
  IXO685_RS17705 (IXO685_0017700) - 3716408..3716977 (+) 570 WP_229001934.1 hypothetical protein -
  IXO685_RS17710 (IXO685_0017705) - 3716947..3718473 (+) 1527 WP_041182621.1 membrane protein -
  IXO685_RS17715 (IXO685_0017710) pilB 3718508..3720241 (+) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IXO685_RS17720 (IXO685_0017715) - 3720250..3720597 (-) 348 WP_305954854.1 Fic family protein -
  IXO685_RS17725 - 3720598..3720759 (-) 162 WP_153296778.1 hypothetical protein -
  IXO685_RS17730 (IXO685_0017720) - 3720821..3721027 (-) 207 WP_027703281.1 YhfG family protein -
  IXO685_RS17735 (IXO685_0017725) pilR 3721100..3722551 (-) 1452 WP_011258365.1 sigma-54 dependent transcriptional regulator Regulator
  IXO685_RS17740 (IXO685_0017730) - 3722822..3724435 (-) 1614 WP_012444444.1 HAMP domain-containing sensor histidine kinase -
  IXO685_RS17745 (IXO685_0017735) sucC 3724669..3725838 (+) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  IXO685_RS17750 (IXO685_0017740) sucD 3725863..3726738 (+) 876 WP_012444445.1 succinate--CoA ligase subunit alpha -
  IXO685_RS17755 (IXO685_0017745) - 3726911..3727402 (+) 492 WP_027703282.1 hypothetical protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 46058.56 Da        Isoelectric Point: 10.2301

>NTDB_id=471140 IXO685_RS17690 WP_011408067.1 3712574..3713833(-) (pilC) [Xanthomonas oryzae pv. oryzae strain IXO685]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=471140 IXO685_RS17690 WP_011408067.1 3712574..3713833(-) (pilC) [Xanthomonas oryzae pv. oryzae strain IXO685]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGGTCGACCGGAACACCAGCATGCTGCAGACCTTCATTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGCAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATCGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGGGGCGGGGAAGAAAATTACCCCTAAAGAA
ATTGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCGTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGATATCGAGGGTGGATCCTCGCTCTACGAGT
CCATCAGCAAACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTCGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGAAACGGTCGCTACCTACAAAGAAAACATTGAAGCTCTGAAGGGCAAGATCAAAAAGGCACTGTTCTACCC
TGCCATGGTGGTTGCAGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAGGAAGTATTCA
AGAGCTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGATAGTGACAGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACCACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTTGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAAGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
CATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCACTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAGGAGGTCAATAATGCCGTGGATGCACTCAGCAGCCTGCTCGAGCCACTGATCATGGTCTTCATCGGCACGATCGTC
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(288-410)

Type II secretion system (T2SS), protein F (T2SSF)

(84-207)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A0K0GIM7

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
  pilC Legionella pneumophila strain ERS1305867

53.202

96.897

0.516
  pilC Pseudomonas stutzeri DSM 10701

53.283

94.511

0.504
  pilC Acinetobacter baylyi ADP1

50.37

96.659

0.487
  pilC Acinetobacter baumannii D1279779

50.37

96.659

0.487
  pilG Neisseria gonorrhoeae MS11

43.921

96.181

0.422
  pilG Neisseria meningitidis 44/76-A

43.424

96.181

0.418
  pilC Vibrio cholerae strain A1552

40.75

95.465

0.389
  pilC Vibrio campbellii strain DS40M4

39

95.465

0.372