Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ATY49_RS09555 Genome accession   NZ_CP013679
Coordinates   2016205..2017464 (+) Length   419 a.a.
NCBI ID   WP_069970182.1    Uniprot ID   -
Organism   Xanthomonas oryzae pv. oryzae strain PXO602     
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 2012210..2033954 2016205..2017464 within 0


Gene organization within MGE regions


Location: 2012210..2033954
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ATY49_RS09540 (ATY49_09240) - 2013061..2013690 (-) 630 WP_230455395.1 hypothetical protein -
  ATY49_RS09545 (ATY49_09245) - 2013701..2015290 (-) 1590 WP_069970118.1 phosphoethanolamine transferase -
  ATY49_RS09550 (ATY49_09250) pilA2 2015425..2015850 (-) 426 WP_011408068.1 pilin Machinery gene
  ATY49_RS09555 (ATY49_09255) pilC 2016205..2017464 (+) 1260 WP_069970182.1 type II secretion system F family protein Machinery gene
  ATY49_RS09560 (ATY49_09260) - 2017471..2018334 (+) 864 WP_069970119.1 A24 family peptidase -
  ATY49_RS09565 (ATY49_09265) coaE 2018348..2018956 (+) 609 WP_011258357.1 dephospho-CoA kinase -
  ATY49_RS09570 (ATY49_09270) - 2019027..2020346 (+) 1320 WP_155296483.1 IS701 family transposase -
  ATY49_RS24490 - 2020907..2021209 (-) 303 WP_158645227.1 hypothetical protein -
  ATY49_RS09575 (ATY49_09275) - 2021193..2022149 (-) 957 WP_041182041.1 IS30-like element IS1112a family transposase -
  ATY49_RS09580 (ATY49_09280) - 2022239..2022460 (-) 222 Protein_1835 IS4 family transposase -
  ATY49_RS26385 - 2022578..2022745 (-) 168 Protein_1836 IS701 family transposase -
  ATY49_RS09585 (ATY49_09285) - 2022841..2023809 (+) 969 WP_011257031.1 IS5-like element ISXo1 family transposase -
  ATY49_RS24500 - 2023979..2024347 (-) 369 WP_011408064.1 DUF6869 domain-containing protein -
  ATY49_RS09590 (ATY49_09290) - 2024353..2025786 (-) 1434 Protein_1839 RHS repeat-associated core domain-containing protein -
  ATY49_RS26390 - 2025863..2026192 (-) 330 WP_125168748.1 hypothetical protein -
  ATY49_RS26395 - 2026189..2026488 (-) 300 WP_125168747.1 hypothetical protein -
  ATY49_RS09595 (ATY49_09295) - 2026637..2027605 (-) 969 WP_011258803.1 IS5-like element ISXo1 family transposase -
  ATY49_RS26400 - 2027657..2028211 (-) 555 WP_155296484.1 DUF6714 family protein -
  ATY49_RS09600 (ATY49_09300) - 2028228..2029463 (+) 1236 WP_069959761.1 ISL3-like element ISXoo13 family transposase -
  ATY49_RS09605 (ATY49_09305) - 2029435..2033954 (-) 4520 Protein_1845 RHS repeat-associated core domain-containing protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 46088.59 Da        Isoelectric Point: 10.2301

>NTDB_id=163934 ATY49_RS09555 WP_069970182.1 2016205..2017464(+) (pilC) [Xanthomonas oryzae pv. oryzae strain PXO602]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GSMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=163934 ATY49_RS09555 WP_069970182.1 2016205..2017464(+) (pilC) [Xanthomonas oryzae pv. oryzae strain PXO602]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGGTCGACCGGAACACCAGCATGCTGCAGACCTTCATTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGCAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATCGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGGGGCGGGGAAGAAAATTACCCCTAAAGAA
ATTGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCGTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGATATCGAGGGTGGATCCTCGCTCTACGAGT
CCATCAGCAAACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTCGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGAAACGGTCGCTACCTACAAAGAAAACATTGAAGCTCTGAAGGGCAAGATCAAAAAGGCACTGTTCTACCC
TGCCATGGTGGTTGCAGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAGGAAGTATTCA
AGAGCTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGATAGTGACAGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACCACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTTGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAAGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
CATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCACTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAGGAGGTCAATAATGCCGTGGATGCACTCAGCAGCCTGCTCGAGCCACTGATCATGGTCTTCATCGGCACGATCGTC
GGCAGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

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

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

52.956

96.897

0.513
  pilC Pseudomonas stutzeri DSM 10701

53.03

94.511

0.501
  pilC Acinetobacter baylyi ADP1

50.123

96.659

0.484
  pilC Acinetobacter baumannii D1279779

50.123

96.659

0.484
  pilG Neisseria gonorrhoeae MS11

44.03

95.943

0.422
  pilG Neisseria meningitidis 44/76-A

43.424

96.181

0.418
  pilC Vibrio cholerae strain A1552

40.5

95.465

0.387
  pilC Vibrio campbellii strain DS40M4

38.75

95.465

0.37

Multiple sequence alignment