Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LL930_RS13880 Genome accession   NZ_CP086188
Coordinates   2894043..2895302 (-) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae strain PXO79     
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 2890507..2908874 2894043..2895302 within 0


Gene organization within MGE regions


Location: 2890507..2908874
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LL930_RS13860 (LL930_13840) - 2890573..2891094 (+) 522 WP_274393934.1 DUF6714 family protein -
  LL930_RS13865 (LL930_13845) - 2891161..2892480 (-) 1320 WP_115862282.1 IS701-like element ISXo15 family transposase -
  LL930_RS13870 (LL930_13850) coaE 2892551..2893159 (-) 609 WP_011258357.1 dephospho-CoA kinase -
  LL930_RS13875 (LL930_13855) - 2893173..2894036 (-) 864 WP_011258358.1 A24 family peptidase -
  LL930_RS13880 (LL930_13860) pilC 2894043..2895302 (-) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  LL930_RS13885 (LL930_13865) pilA2 2895657..2896082 (+) 426 WP_011408068.1 pilin Machinery gene
  LL930_RS13890 (LL930_13870) - 2896217..2897806 (+) 1590 WP_011408069.1 phosphoethanolamine transferase -
  LL930_RS13895 (LL930_13875) - 2897817..2898446 (+) 630 WP_011408070.1 hypothetical protein -
  LL930_RS13900 (LL930_13880) - 2898416..2899942 (+) 1527 WP_011258362.1 membrane protein -
  LL930_RS13905 (LL930_13885) pilB 2899977..2901710 (+) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LL930_RS13910 (LL930_13890) - 2901719..2901979 (-) 261 WP_011408073.1 Fic family protein -
  LL930_RS13915 (LL930_13895) - 2902067..2902228 (-) 162 WP_153296778.1 hypothetical protein -
  LL930_RS13920 (LL930_13900) - 2902290..2902496 (-) 207 WP_027703281.1 YhfG family protein -
  LL930_RS13925 (LL930_13905) pilR 2902569..2904020 (-) 1452 WP_171970756.1 sigma-54 dependent transcriptional regulator Regulator
  LL930_RS13930 (LL930_13910) - 2904291..2905904 (-) 1614 WP_044756976.1 PAS domain-containing sensor histidine kinase -
  LL930_RS13935 (LL930_13915) sucC 2906138..2907307 (+) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  LL930_RS13940 (LL930_13920) sucD 2907332..2908207 (+) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  LL930_RS13945 (LL930_13925) - 2908380..2908874 (+) 495 WP_044756974.1 hypothetical protein -

Sequence

Protein


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

>NTDB_id=623454 LL930_RS13880 WP_011408067.1 2894043..2895302(-) (pilC) [Xanthomonas oryzae strain PXO79]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=623454 LL930_RS13880 WP_011408067.1 2894043..2895302(-) (pilC) [Xanthomonas oryzae strain PXO79]
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