Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   IXO1088_RS17605 Genome accession   NZ_CP040687
Coordinates   3800408..3801667 (+) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae pv. oryzae strain IXO1088     
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 3786839..3811812 3800408..3801667 within 0


Gene organization within MGE regions


Location: 3786839..3811812
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IXO1088_RS17545 (IXO1088_018440) - 3786839..3787330 (-) 492 WP_027703282.1 hypothetical protein -
  IXO1088_RS17550 (IXO1088_018445) sucD 3787503..3788378 (-) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  IXO1088_RS17555 (IXO1088_018450) sucC 3788403..3789572 (-) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  IXO1088_RS17560 (IXO1088_018455) - 3789806..3791419 (+) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  IXO1088_RS17565 (IXO1088_018460) pilR 3791690..3793141 (+) 1452 WP_171970756.1 sigma-54 dependent transcriptional regulator Regulator
  IXO1088_RS17570 (IXO1088_018465) - 3793214..3793420 (+) 207 WP_027703281.1 YhfG family protein -
  IXO1088_RS24585 - 3793482..3793643 (+) 162 WP_153296778.1 hypothetical protein -
  IXO1088_RS24590 - 3793731..3793991 (+) 261 WP_011408073.1 Fic family protein -
  IXO1088_RS17580 (IXO1088_018475) pilB 3794000..3795733 (-) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IXO1088_RS17585 (IXO1088_018480) - 3795768..3797294 (-) 1527 WP_041182621.1 membrane protein -
  IXO1088_RS17590 (IXO1088_018485) - 3797264..3797893 (-) 630 WP_011408070.1 hypothetical protein -
  IXO1088_RS17595 (IXO1088_018490) - 3797904..3799493 (-) 1590 WP_075240477.1 phosphoethanolamine transferase -
  IXO1088_RS17600 (IXO1088_018495) pilA2 3799628..3800053 (-) 426 WP_011408068.1 pilin Machinery gene
  IXO1088_RS17605 (IXO1088_018500) pilC 3800408..3801667 (+) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  IXO1088_RS17610 (IXO1088_018505) - 3801674..3802537 (+) 864 WP_011258358.1 A24 family peptidase -
  IXO1088_RS17615 (IXO1088_018510) coaE 3802551..3803159 (+) 609 WP_011258357.1 dephospho-CoA kinase -
  IXO1088_RS17620 (IXO1088_018515) - 3803230..3804549 (+) 1320 WP_115862282.1 IS701-like element ISXo15 family transposase -
  IXO1088_RS17625 (IXO1088_018520) - 3804791..3805753 (+) 963 WP_041182297.1 IS1595-like element ISXo2 family transposase -
  IXO1088_RS17630 (IXO1088_018525) - 3806190..3806492 (-) 303 WP_158645227.1 hypothetical protein -
  IXO1088_RS17635 (IXO1088_018530) - 3806526..3807482 (-) 957 WP_041182719.1 IS30-like element IS1112b family transposase -
  IXO1088_RS17640 (IXO1088_018535) - 3807721..3809039 (-) 1319 Protein_3375 IS701 family transposase -
  IXO1088_RS17645 (IXO1088_018540) - 3809154..3809522 (-) 369 WP_011408064.1 DUF6869 domain-containing protein -
  IXO1088_RS17650 (IXO1088_018545) - 3809528..3811036 (-) 1509 WP_075240223.1 RHS repeat-associated core domain-containing protein -
  IXO1088_RS17655 (IXO1088_018550) - 3811038..3811367 (-) 330 WP_143685531.1 hypothetical protein -
  IXO1088_RS17660 (IXO1088_018555) - 3811364..3811663 (-) 300 WP_125168747.1 hypothetical protein -

Sequence

Protein


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

>NTDB_id=366528 IXO1088_RS17605 WP_011408067.1 3800408..3801667(+) (pilC) [Xanthomonas oryzae pv. oryzae strain IXO1088]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=366528 IXO1088_RS17605 WP_011408067.1 3800408..3801667(+) (pilC) [Xanthomonas oryzae pv. oryzae strain IXO1088]
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

Multiple sequence alignment