Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ATY45_RS15790 Genome accession   NZ_CP013675
Coordinates   3377037..3378296 (+) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae pv. oryzae strain PXO236     
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 3363465..3387346 3377037..3378296 within 0


Gene organization within MGE regions


Location: 3363465..3387346
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ATY45_RS15735 (ATY45_15275) - 3363465..3363959 (-) 495 WP_044756974.1 hypothetical protein -
  ATY45_RS15740 (ATY45_15280) sucD 3364132..3365007 (-) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  ATY45_RS15745 (ATY45_15285) sucC 3365032..3366201 (-) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  ATY45_RS15750 (ATY45_15290) - 3366435..3368048 (+) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  ATY45_RS15755 (ATY45_15295) pilR 3368319..3369770 (+) 1452 WP_171970756.1 sigma-54 dependent transcriptional regulator Regulator
  ATY45_RS24995 - 3369843..3370049 (+) 207 WP_027703281.1 YhfG family protein -
  ATY45_RS27580 - 3370111..3370272 (+) 162 WP_153296778.1 hypothetical protein -
  ATY45_RS27585 (ATY45_15300) - 3370396..3370620 (+) 225 WP_325167351.1 cell filamentation protein Fic -
  ATY45_RS15765 (ATY45_15305) pilB 3370629..3372362 (-) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ATY45_RS15770 (ATY45_15310) - 3372397..3373923 (-) 1527 WP_011258362.1 membrane protein -
  ATY45_RS15775 (ATY45_15315) - 3373893..3374522 (-) 630 WP_011408070.1 hypothetical protein -
  ATY45_RS15780 (ATY45_15320) - 3374533..3376122 (-) 1590 WP_011408069.1 phosphoethanolamine transferase -
  ATY45_RS15785 (ATY45_15325) pilA2 3376257..3376682 (-) 426 WP_011408068.1 pilin Machinery gene
  ATY45_RS15790 (ATY45_15330) pilC 3377037..3378296 (+) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  ATY45_RS15795 (ATY45_15335) - 3378303..3379166 (+) 864 WP_011258358.1 A24 family peptidase -
  ATY45_RS15800 (ATY45_15340) coaE 3379180..3379788 (+) 609 WP_011258357.1 dephospho-CoA kinase -
  ATY45_RS15805 (ATY45_15345) - 3379859..3381178 (+) 1320 WP_115862282.1 IS701-like element ISXo15 family transposase -
  ATY45_RS15810 (ATY45_15350) - 3382056..3383024 (-) 969 WP_011258802.1 IS5-like element ISXo1 family transposase -
  ATY45_RS26425 - 3383076..3383564 (-) 489 WP_128415435.1 DUF6714 family protein -

Sequence

Protein


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

>NTDB_id=163854 ATY45_RS15790 WP_011408067.1 3377037..3378296(+) (pilC) [Xanthomonas oryzae pv. oryzae strain PXO236]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=163854 ATY45_RS15790 WP_011408067.1 3377037..3378296(+) (pilC) [Xanthomonas oryzae pv. oryzae strain PXO236]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGGTCGACCGGAACACCAGCATGCTGCAGACCTTCATTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGCAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATCGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGGGGCGGGGAAGAAAATTACCCCTAAAGAA
ATTGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCGTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGATATCGAGGGTGGATCCTCGCTCTACGAGT
CCATCAGCAAACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTCGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGAAACGGTCGCTACCTACAAAGAAAACATTGAAGCTCTGAAGGGCAAGATCAAAAAGGCACTGTTCTACCC
TGCCATGGTGGTTGCAGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAGGAAGTATTCA
AGAGCTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGATAGTGACAGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACCACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTTGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAAGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
TATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCACTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
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