Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ATY46_RS07800 Genome accession   NZ_CP013676
Coordinates   1614580..1615839 (-) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae pv. oryzae strain PXO282     
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 1605407..1629359 1614580..1615839 within 0


Gene organization within MGE regions


Location: 1605407..1629359
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ATY46_RS26600 - 1605556..1605855 (+) 300 WP_125168747.1 hypothetical protein -
  ATY46_RS26605 - 1605852..1606181 (+) 330 WP_125168748.1 hypothetical protein -
  ATY46_RS07765 (ATY46_07495) - 1606258..1607691 (+) 1434 Protein_1479 RHS repeat-associated core domain-containing protein -
  ATY46_RS24580 - 1607697..1608065 (+) 369 WP_011408064.1 DUF6869 domain-containing protein -
  ATY46_RS07770 (ATY46_07500) - 1608235..1609203 (-) 969 WP_011409177.1 IS5-like element ISXo1 family transposase -
  ATY46_RS26610 - 1609299..1609466 (+) 168 Protein_1482 IS701 family transposase -
  ATY46_RS07775 (ATY46_07505) - 1609584..1609805 (+) 222 Protein_1483 IS4 family transposase -
  ATY46_RS07780 (ATY46_07510) - 1609895..1610851 (+) 957 WP_041182041.1 IS30-like element IS1112a family transposase -
  ATY46_RS24590 - 1610835..1611137 (+) 303 WP_158645227.1 hypothetical protein -
  ATY46_RS07785 (ATY46_07515) - 1611698..1613017 (-) 1320 WP_155296483.1 IS701 family transposase -
  ATY46_RS07790 (ATY46_07520) coaE 1613088..1613696 (-) 609 WP_011258357.1 dephospho-CoA kinase -
  ATY46_RS07795 (ATY46_07525) - 1613710..1614573 (-) 864 WP_011258358.1 A24 family peptidase -
  ATY46_RS07800 (ATY46_07530) pilC 1614580..1615839 (-) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  ATY46_RS07805 (ATY46_07535) pilA2 1616193..1616618 (+) 426 WP_011408068.1 pilin Machinery gene
  ATY46_RS07810 (ATY46_07540) - 1616753..1618342 (+) 1590 WP_069959793.1 phosphoethanolamine transferase -
  ATY46_RS07815 (ATY46_07545) - 1618413..1618982 (+) 570 WP_229001934.1 hypothetical protein -
  ATY46_RS07820 (ATY46_07550) - 1618952..1620478 (+) 1527 WP_042464666.1 membrane protein -
  ATY46_RS07825 (ATY46_07555) pilB 1620513..1622246 (+) 1734 WP_011408072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ATY46_RS27830 (ATY46_07560) - 1622255..1622515 (-) 261 WP_011408073.1 Fic family protein -
  ATY46_RS27835 - 1622603..1622764 (-) 162 WP_153296778.1 hypothetical protein -
  ATY46_RS07835 - 1622826..1623032 (-) 207 WP_027703281.1 YhfG family protein -
  ATY46_RS07840 (ATY46_07565) pilR 1623105..1624556 (-) 1452 WP_173340383.1 sigma-54 dependent transcriptional regulator Regulator
  ATY46_RS07845 (ATY46_07570) - 1624827..1626440 (-) 1614 WP_011258366.1 HAMP domain-containing sensor histidine kinase -
  ATY46_RS07850 (ATY46_07575) sucC 1626674..1627843 (+) 1170 WP_011258367.1 ADP-forming succinate--CoA ligase subunit beta -
  ATY46_RS07855 (ATY46_07580) sucD 1627868..1628743 (+) 876 WP_011258368.1 succinate--CoA ligase subunit alpha -
  ATY46_RS07860 (ATY46_07585) - 1629063..1629359 (+) 297 WP_011408075.1 hypothetical protein -

Sequence

Protein


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

>NTDB_id=163872 ATY46_RS07800 WP_011408067.1 1614580..1615839(-) (pilC) [Xanthomonas oryzae pv. oryzae strain PXO282]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=163872 ATY46_RS07800 WP_011408067.1 1614580..1615839(-) (pilC) [Xanthomonas oryzae pv. oryzae strain PXO282]
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