Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   XCCCN06v2_RS05480 Genome accession   NZ_CP101172
Coordinates   1298413..1299669 (-) Length   418 a.a.
NCBI ID   WP_075285409.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain CN06     
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 1285888..1299669 1298413..1299669 within 0


Gene organization within MGE regions


Location: 1285888..1299669
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XCCCN06v2_RS05415 - 1285888..1286043 (+) 156 WP_075285405.1 hypothetical protein -
  XCCCN06v2_RS05420 - 1286220..1286615 (+) 396 WP_016945003.1 hypothetical protein -
  XCCCN06v2_RS05425 - 1286706..1287098 (+) 393 WP_012437593.1 H-NS family nucleoid-associated regulatory protein -
  XCCCN06v2_RS05430 glgX 1287623..1289752 (-) 2130 WP_016945001.1 glycogen debranching protein GlgX -
  XCCCN06v2_RS05435 rimK 1290245..1291120 (+) 876 WP_016945000.1 30S ribosomal protein S6--L-glutamate ligase -
  XCCCN06v2_RS05440 - 1291770..1292447 (+) 678 WP_003490678.1 response regulator transcription factor -
  XCCCN06v2_RS05445 - 1292440..1293774 (+) 1335 WP_162808569.1 HAMP domain-containing sensor histidine kinase -
  XCCCN06v2_RS05450 - 1293917..1294408 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  XCCCN06v2_RS05455 - 1294405..1294695 (-) 291 WP_011038219.1 DUF1778 domain-containing protein -
  XCCCN06v2_RS05460 - 1294770..1295171 (-) 402 WP_040940795.1 SymE family type I addiction module toxin -
  XCCCN06v2_RS05465 - 1295314..1296422 (+) 1109 WP_087942068.1 IS3 family transposase -
  XCCCN06v2_RS05470 coaE 1296907..1297530 (-) 624 WP_075285407.1 dephospho-CoA kinase -
  XCCCN06v2_RS05475 - 1297544..1298407 (-) 864 WP_075285408.1 A24 family peptidase -
  XCCCN06v2_RS05480 pilC 1298413..1299669 (-) 1257 WP_075285409.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 418 a.a.        Molecular weight: 45523.96 Da        Isoelectric Point: 10.3308

>NTDB_id=709110 XCCCN06v2_RS05480 WP_075285409.1 1298413..1299669(-) (pilC) [Xanthomonas campestris pv. campestris strain CN06]
MAAVRGVVKTKPTLQLEQASPFVWQGTDKRGVKMKGEQTAKNANLLRAELRRQGITPTVVKVKPKPLFGAAGKKVSAKDI
SFFSRQMATMMKSGVPIVGALEIIGSGQKNPRMRNMVGQIRADIEGGSSLHEAVSRHPVQFDELYRNLVKAGEGAGVLET
VLDTIATYKENIEALKGKIKKALFYPAMVVAVALIVSAILLIFVVPQFEDVFKGFGAELPAFTQIIVNMSRFMVSWWWLI
LFVVVVAVIGFIFAYKRSPSMQHGMDRVILKVPIIGQIMHNSSIARFARTTAVTFKAGVPLVEALSIVAGATGNSVYETA
VLRMRDDVSVGYPVNMAMKQVNLFPHMVVQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLIEPLIMVFIGTIVG
GMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1257 bp        

>NTDB_id=709110 XCCCN06v2_RS05480 WP_075285409.1 1298413..1299669(-) (pilC) [Xanthomonas campestris pv. campestris strain CN06]
ATGGCAGCAGTACGTGGTGTGGTCAAGACGAAGCCGACCTTGCAATTAGAGCAGGCTAGTCCGTTTGTCTGGCAGGGAAC
GGACAAGCGCGGCGTGAAGATGAAGGGGGAGCAGACGGCAAAAAACGCCAATCTGCTACGTGCGGAACTCCGCAGGCAGG
GGATAACGCCTACTGTTGTAAAGGTAAAGCCGAAGCCGTTATTTGGCGCGGCTGGCAAGAAGGTTTCCGCTAAGGACATC
TCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCCGGAGTTCCGATCGTTGGGGCGCTTGAGATCATCGGCAGCGG
CCAGAAAAATCCGCGCATGCGGAACATGGTTGGGCAAATCCGCGCAGACATCGAAGGCGGTTCTTCACTGCATGAAGCAG
TCAGCAGGCACCCCGTGCAGTTTGACGAGCTCTACAGGAACCTCGTTAAAGCCGGCGAAGGTGCGGGCGTTTTGGAGACG
GTGCTGGACACCATTGCGACATACAAGGAGAACATCGAGGCGCTGAAGGGCAAGATCAAAAAAGCCTTGTTCTATCCGGC
AATGGTTGTCGCAGTAGCACTAATCGTCAGCGCGATTCTGCTCATCTTTGTGGTACCTCAATTTGAGGACGTGTTCAAGG
GCTTTGGCGCGGAACTGCCCGCCTTCACTCAGATCATTGTGAACATGTCGCGGTTCATGGTGTCGTGGTGGTGGCTGATT
CTTTTTGTTGTGGTCGTCGCCGTCATTGGCTTCATCTTCGCCTACAAACGCTCCCCCTCAATGCAACACGGCATGGACCG
GGTCATCCTCAAAGTGCCGATCATCGGCCAAATCATGCACAACAGTTCCATTGCACGTTTTGCACGGACGACTGCAGTGA
CATTCAAGGCAGGCGTACCATTGGTCGAAGCATTGAGCATCGTGGCTGGCGCAACCGGCAACTCGGTATACGAGACTGCC
GTACTACGGATGCGGGACGATGTGTCAGTGGGCTACCCTGTGAACATGGCAATGAAACAGGTCAATCTGTTCCCGCACAT
GGTGGTGCAGATGACTGCCATCGGCGAAGAAGCGGGCGCACTGGATGCCATGCTGTTCAAGGTAGCGGAGTACTTCGAGC
AAGAGGTCAACAATGCGGTCGACGCGCTGAGCAGCCTGATCGAACCCCTGATCATGGTGTTCATTGGAACCATCGTCGGC
GGCATGGTCATCGGCATGTACCTGCCCATCTTCAAGCTCGCCTCGGTGGTTGGATAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(83-206)

Type II secretion system (T2SS), protein F (T2SSF)

(287-409)


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 Pseudomonas stutzeri DSM 10701

52.513

95.215

0.5
  pilC Legionella pneumophila strain ERS1305867

51.478

97.129

0.5
  pilC Acinetobacter baylyi ADP1

50.882

94.976

0.483
  pilC Acinetobacter baumannii D1279779

50.378

94.976

0.478
  pilG Neisseria gonorrhoeae MS11

43.467

95.215

0.414
  pilG Neisseria meningitidis 44/76-A

42.965

95.215

0.409
  pilC Vibrio cholerae strain A1552

41.363

98.325

0.407
  pilC Vibrio campbellii strain DS40M4

40.399

95.933

0.388