Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH296_RS05605 Genome accession   NZ_CP066986
Coordinates   1325399..1326655 (-) Length   418 a.a.
NCBI ID   WP_129589289.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 15-1     
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 1308097..1326730 1325399..1326655 within 0


Gene organization within MGE regions


Location: 1308097..1326730
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH296_RS05530 (JH296_05520) - 1308097..1308447 (+) 351 WP_274316879.1 hypothetical protein -
  JH296_RS05535 (JH296_05525) - 1308737..1308967 (-) 231 WP_165349436.1 hypothetical protein -
  JH296_RS05540 (JH296_05530) - 1309031..1309186 (+) 156 WP_129588884.1 hypothetical protein -
  JH296_RS05545 (JH296_05535) - 1309363..1309758 (+) 396 WP_016945003.1 hypothetical protein -
  JH296_RS05550 (JH296_05540) - 1309849..1310241 (+) 393 WP_129588885.1 H-NS family nucleoid-associated regulatory protein -
  JH296_RS05555 (JH296_05545) glgX 1310776..1312905 (-) 2130 WP_129588886.1 glycogen debranching protein GlgX -
  JH296_RS05560 (JH296_05550) rimK 1313398..1314273 (+) 876 WP_011038222.1 30S ribosomal protein S6--L-glutamate ligase -
  JH296_RS05565 (JH296_05555) - 1314923..1315600 (+) 678 WP_003490678.1 response regulator transcription factor -
  JH296_RS05570 (JH296_05560) - 1315593..1316927 (+) 1335 WP_162808569.1 HAMP domain-containing sensor histidine kinase -
  JH296_RS05575 (JH296_05565) - 1317070..1317561 (-) 492 WP_011038220.1 GNAT family N-acetyltransferase -
  JH296_RS05580 (JH296_05570) - 1317558..1317848 (-) 291 WP_014508712.1 DUF1778 domain-containing protein -
  JH296_RS05585 (JH296_05575) - 1317924..1318351 (-) 428 Protein_1076 SymE family type I addiction module toxin -
  JH296_RS05590 (JH296_05580) - 1318990..1323750 (-) 4761 WP_274497101.1 RHS repeat-associated core domain-containing protein -
  JH296_RS05595 (JH296_05585) coaE 1323895..1324515 (-) 621 WP_129588888.1 dephospho-CoA kinase -
  JH296_RS05600 (JH296_05590) - 1324529..1325392 (-) 864 WP_129588889.1 A24 family peptidase -
  JH296_RS05605 (JH296_05595) pilC 1325399..1326655 (-) 1257 WP_129589289.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 418 a.a.        Molecular weight: 45407.68 Da        Isoelectric Point: 10.2682

>NTDB_id=523903 JH296_RS05605 WP_129589289.1 1325399..1326655(-) (pilC) [Xanthomonas campestris pv. campestris strain 15-1]
MAAVRGAVKSKPTSQVEQMSAFVWEGTDKRGVKMKGEQTSKNPNLLRAELRRQGITPTVVKAKPKPLFGAAGKKITAKDI
SFFSRQMATMMKSGVPIVGALEIIGSGQKNPRMRTMVGQIRTDIEGGSSLHEAVSKHPVQFDELYRNLVKAGEGAGVLET
VLDTIASYKENIEALKGKIKKALFYPAMVVAVALLVSAILLIFVVPQFEDVFRGFGAELPAFTQMIVNMSRFMVSWWWLI
LFVAIGAVVGFIFAYKRSPSMQHGMDRLILKVPIIGQVMHNSSIARFARTTAVTFKAGVPLVEALSIVAGATGNSVYEAA
VLRMRDDVSVGYPVNVAMKQVNLFPHMVVQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLIEPLIMVFIGTIVG
GMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1257 bp        

>NTDB_id=523903 JH296_RS05605 WP_129589289.1 1325399..1326655(-) (pilC) [Xanthomonas campestris pv. campestris strain 15-1]
ATGGCAGCAGTGCGTGGAGCAGTCAAGAGCAAGCCGACCTCGCAGGTCGAACAGATGAGCGCGTTTGTCTGGGAGGGGAC
CGACAAGCGTGGCGTGAAGATGAAGGGCGAACAGACTTCCAAGAACCCTAACTTGCTACGTGCGGAGCTACGACGCCAGG
GTATTACGCCGACAGTAGTGAAGGCGAAACCCAAGCCCTTGTTTGGCGCTGCTGGAAAGAAGATTACAGCGAAGGATATT
TCATTCTTCAGCAGGCAAATGGCAACCATGATGAAATCGGGCGTGCCTATCGTCGGCGCACTGGAGATCATTGGTAGCGG
CCAAAAGAATCCGCGCATGCGCACAATGGTCGGCCAGATCCGAACTGACATCGAGGGAGGCTCGTCGCTACACGAGGCGG
TAAGCAAGCATCCCGTCCAGTTCGACGAGTTGTACAGAAACTTGGTCAAGGCAGGCGAAGGCGCCGGTGTCCTTGAGACA
GTGCTCGACACCATTGCAAGCTACAAAGAAAACATCGAAGCGTTGAAAGGCAAAATCAAGAAGGCGCTGTTCTACCCGGC
GATGGTCGTCGCTGTAGCGCTACTGGTCAGCGCGATCTTGTTGATCTTTGTCGTGCCACAATTCGAAGACGTCTTCAGGG
GCTTCGGCGCGGAACTTCCGGCATTTACGCAGATGATCGTCAACATGTCGCGTTTCATGGTGTCGTGGTGGTGGTTGATC
CTATTTGTCGCCATCGGAGCCGTCGTGGGCTTCATCTTTGCCTACAAACGTTCACCTTCAATGCAGCACGGTATGGATCG
CTTGATCCTCAAGGTGCCGATCATCGGGCAGGTAATGCACAATAGCTCCATCGCCCGCTTCGCCCGTACCACCGCAGTGA
CGTTCAAGGCAGGCGTGCCGTTGGTGGAAGCCCTAAGTATCGTTGCTGGCGCTACAGGCAATTCTGTTTATGAAGCAGCA
GTATTGCGGATGCGCGACGACGTGTCCGTGGGCTACCCGGTCAACGTGGCGATGAAGCAGGTCAATCTGTTCCCGCACAT
GGTGGTGCAGATGACTGCCATCGGCGAAGAAGCGGGCGCACTGGATGCCATGCTGTTCAAGGTAGCGGAGTACTTCGAGC
AGGAGGTCAACAATGCGGTCGACGCGCTGAGCAGCCTGATCGAACCCCTCATCATGGTGTTCATTGGTACCATCGTCGGC
GGCATGGTCATCGGCATGTACCTGCCCATCTTCAAGCTCGCTTCGGTGGTTGGATAG

Domains

Predicted by InterproScan.

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

(287-409)

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

(83-206)


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

53.266

95.215

0.507
  pilC Legionella pneumophila strain ERS1305867

52.645

94.976

0.5
  pilC Acinetobacter baylyi ADP1

50.495

96.651

0.488
  pilC Acinetobacter baumannii D1279779

50.495

96.651

0.488
  pilG Neisseria gonorrhoeae MS11

44.389

95.933

0.426
  pilG Neisseria meningitidis 44/76-A

43.89

95.933

0.421
  pilC Vibrio cholerae strain A1552

40.494

96.89

0.392
  pilC Vibrio campbellii strain DS40M4

39.651

95.933

0.38
  pilC Thermus thermophilus HB27

37.717

96.411

0.364