Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   QN060_RS17260 Genome accession   NZ_CP127225
Coordinates   3773449..3774708 (+) Length   419 a.a.
NCBI ID   WP_053502795.1    Uniprot ID   A0AAJ6GQW0
Organism   Xanthomonas oryzae pv. leersiae strain YNJC     
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)
ICE 3768196..3800978 3773449..3774708 within 0


Gene organization within MGE regions


Location: 3768196..3800978
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QN060_RS17235 (QN060_17230) - 3768202..3769218 (+) 1017 WP_082324130.1 IS30 family transposase -
  QN060_RS17240 (QN060_17235) - 3769227..3770333 (-) 1107 Protein_3278 hypothetical protein -
  QN060_RS17245 (QN060_17240) - 3770303..3770872 (-) 570 WP_285957520.1 hypothetical protein -
  QN060_RS17250 (QN060_17245) - 3770943..3772532 (-) 1590 WP_053502731.1 phosphoethanolamine transferase -
  QN060_RS17255 (QN060_17250) pilA2 3772668..3773093 (-) 426 WP_053502729.1 pilin Machinery gene
  QN060_RS17260 (QN060_17255) pilC 3773449..3774708 (+) 1260 WP_053502795.1 type II secretion system F family protein Machinery gene
  QN060_RS17265 (QN060_17260) - 3774715..3775578 (+) 864 WP_285956672.1 A24 family peptidase -
  QN060_RS17270 (QN060_17265) coaE 3775592..3776197 (+) 606 WP_053502725.1 dephospho-CoA kinase -
  QN060_RS17275 (QN060_17270) - 3776417..3777751 (-) 1335 WP_053502793.1 HAMP domain-containing sensor histidine kinase -
  QN060_RS17280 (QN060_17275) - 3777968..3778984 (-) 1017 WP_082324130.1 IS30 family transposase -
  QN060_RS17285 (QN060_17280) - 3779295..3779972 (-) 678 WP_003490678.1 response regulator transcription factor -
  QN060_RS17290 (QN060_17285) - 3780050..3780439 (-) 390 WP_053501486.1 hypothetical protein -
  QN060_RS17295 (QN060_17290) rimK 3780652..3781569 (-) 918 WP_207306598.1 30S ribosomal protein S6--L-glutamate ligase -
  QN060_RS17300 (QN060_17295) glgX 3782044..3784176 (+) 2133 WP_131085179.1 glycogen debranching protein GlgX -
  QN060_RS17305 (QN060_17300) - 3784675..3785067 (-) 393 WP_053501484.1 H-NS family nucleoid-associated regulatory protein -
  QN060_RS17310 (QN060_17305) - 3785158..3785550 (-) 393 WP_053501483.1 hypothetical protein -
  QN060_RS17315 (QN060_17310) - 3785661..3786231 (-) 571 Protein_3293 thermonuclease family protein -
  QN060_RS17320 (QN060_17315) - 3786311..3787413 (+) 1103 WP_285957521.1 IS3 family transposase -
  QN060_RS17325 (QN060_17320) - 3787550..3787813 (-) 264 WP_285956673.1 PAAR domain-containing protein -
  QN060_RS17330 (QN060_17325) - 3787810..3788508 (-) 699 Protein_3296 hypothetical protein -
  QN060_RS17335 (QN060_17330) - 3788517..3789533 (-) 1017 WP_082324130.1 IS30 family transposase -
  QN060_RS17340 (QN060_17335) - 3789585..3789890 (+) 306 Protein_3298 IS30 family transposase -
  QN060_RS17345 (QN060_17340) - 3790149..3791732 (+) 1584 WP_285956674.1 ATP-binding protein -
  QN060_RS17350 (QN060_17345) - 3791633..3792649 (+) 1017 WP_082324130.1 IS30 family transposase -
  QN060_RS17355 (QN060_17350) - 3792646..3793545 (+) 900 WP_285956675.1 ATP-dependent endonuclease -
  QN060_RS17360 (QN060_17355) - 3793542..3795395 (+) 1854 WP_285956676.1 UvrD-helicase domain-containing protein -
  QN060_RS17365 (QN060_17360) - 3795511..3795915 (-) 405 WP_324292676.1 helix-turn-helix transcriptional regulator -
  QN060_RS17370 (QN060_17365) - 3795958..3796719 (+) 762 WP_285956677.1 hypothetical protein -
  QN060_RS17375 (QN060_17370) - 3796774..3797088 (+) 315 WP_223646401.1 hypothetical protein -
  QN060_RS17380 (QN060_17375) - 3797085..3797465 (+) 381 WP_285956678.1 hypothetical protein -
  QN060_RS17385 (QN060_17380) - 3798395..3799381 (-) 987 WP_285956679.1 hypothetical protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 46090.62 Da        Isoelectric Point: 10.2301

>NTDB_id=842863 QN060_RS17260 WP_053502795.1 3773449..3774708(+) (pilC) [Xanthomonas oryzae pv. leersiae strain YNJC]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGAAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLMVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=842863 QN060_RS17260 WP_053502795.1 3773449..3774708(+) (pilC) [Xanthomonas oryzae pv. leersiae strain YNJC]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGGTCGACCGGAACACCAGCATGCTGCAGACCTTCATTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGCAACGCCAATATGTTGCGGGCAGAGCTGCGCCGTC
AGGGCATCGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGCGGCGGGGAAGAAAATTACCCCTAAAGAA
ATTGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATTGTCAGTTCGTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGATATCGAGGGCGGATCCTCGCTCTACGAGT
CCATCAGCAAACATCCCGTTCAGTTTGACGAGCTCTATCGCAACCTCGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGAAACGGTCGCTACCTACAAAGAAAACATTGAAGCCCTGAAGGGCAAGATCAAAAAGGCACTGTTCTACCC
TGCCATGGTGGTTGCGGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAGGAAGTATTCA
AGAGCTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGATGGTGACAGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACCACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTTGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAAGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
CATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCACTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAGGAGGTCAATAATGCCGTGGATGCACTCAGCAGCCTGCTCGAGCCACTGATCATGGTCTTCATCGGCACGATCGTC
GGCGGCATGGTCATCGGTATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

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

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

50.123

96.659

0.484
  pilG Neisseria gonorrhoeae MS11

43.358

95.227

0.413
  pilG Neisseria meningitidis 44/76-A

42.75

95.465

0.408
  pilC Vibrio cholerae strain A1552

40.5

95.465

0.387
  pilC Vibrio campbellii strain DS40M4

39

95.465

0.372