Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH314_RS16000 Genome accession   NZ_CP066925
Coordinates   3602204..3603361 (+) Length   385 a.a.
NCBI ID   WP_274340306.1    Uniprot ID   -
Organism   Xanthomonas campestris strain CFBP5824     
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 3600767..3641930 3602204..3603361 within 0


Gene organization within MGE regions


Location: 3600767..3641930
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH314_RS15995 (JH314_15945) - 3601273..3601722 (-) 450 WP_274339073.1 pilin -
  JH314_RS16000 (JH314_15950) pilC 3602204..3603361 (+) 1158 WP_274340306.1 type II secretion system F family protein Machinery gene
  JH314_RS16005 (JH314_15955) - 3603368..3604231 (+) 864 WP_040940797.1 A24 family peptidase -
  JH314_RS16010 (JH314_15960) coaE 3604245..3604868 (+) 624 WP_076038488.1 dephospho-CoA kinase -
  JH314_RS16015 (JH314_15965) - 3605397..3605798 (+) 402 WP_274339074.1 SymE family type I addiction module toxin -
  JH314_RS16020 (JH314_15970) - 3605873..3606163 (+) 291 WP_011038219.1 DUF1778 domain-containing protein -
  JH314_RS16025 (JH314_15975) - 3606160..3606651 (+) 492 WP_223646366.1 GNAT family N-acetyltransferase -
  JH314_RS16030 (JH314_15980) - 3606794..3608128 (-) 1335 WP_274339075.1 HAMP domain-containing sensor histidine kinase -
  JH314_RS16035 (JH314_15985) - 3608121..3608798 (-) 678 WP_003490678.1 response regulator transcription factor -
  JH314_RS16040 (JH314_15990) rimK 3609448..3610323 (-) 876 WP_070689999.1 30S ribosomal protein S6--L-glutamate ligase -
  JH314_RS16045 (JH314_15995) glgX 3610817..3612946 (+) 2130 WP_274339076.1 glycogen debranching protein GlgX -
  JH314_RS16050 (JH314_16000) - 3613479..3613871 (-) 393 WP_076038484.1 H-NS family nucleoid-associated regulatory protein -
  JH314_RS16055 (JH314_16005) - 3613962..3614357 (-) 396 WP_274339077.1 hypothetical protein -
  JH314_RS16060 (JH314_16010) - 3614542..3614688 (-) 147 WP_081340618.1 hypothetical protein -
  JH314_RS16070 (JH314_16020) - 3617344..3617685 (+) 342 WP_274339078.1 hypothetical protein -
  JH314_RS16075 (JH314_16025) - 3617736..3619331 (-) 1596 WP_337999482.1 MobA/MobL family protein -
  JH314_RS16080 (JH314_16030) - 3619395..3620527 (+) 1133 WP_274338866.1 IS3-like element ISXca1 family transposase -
  JH314_RS16085 (JH314_16035) - 3620798..3621778 (+) 981 WP_064510573.1 IS5-like element IS1646 family transposase -
  JH314_RS16090 (JH314_16040) - 3621936..3622742 (+) 807 WP_274339079.1 caspase family protein -
  JH314_RS16095 (JH314_16045) - 3623247..3623897 (-) 651 WP_274340308.1 hypothetical protein -
  JH314_RS16100 (JH314_16050) - 3623938..3627972 (-) 4035 WP_274339080.1 hypothetical protein -
  JH314_RS16105 (JH314_16055) - 3628006..3628647 (-) 642 WP_274339081.1 DUF1629 domain-containing protein -
  JH314_RS16110 (JH314_16060) radC 3628741..3629304 (-) 564 WP_274340309.1 DNA repair protein RadC -
  JH314_RS16115 (JH314_16065) - 3629575..3630036 (+) 462 WP_274339082.1 GNAT family N-acetyltransferase -
  JH314_RS16120 (JH314_16070) - 3630134..3631261 (+) 1128 WP_274339083.1 hypothetical protein -
  JH314_RS16125 (JH314_16075) - 3631391..3631804 (+) 414 WP_274339084.1 hypothetical protein -
  JH314_RS16130 (JH314_16080) - 3632283..3633239 (+) 957 Protein_3119 integrase -
  JH314_RS16135 (JH314_16085) - 3633334..3634442 (+) 1109 WP_274339085.1 IS3 family transposase -
  JH314_RS16140 (JH314_16090) - 3634607..3635709 (-) 1103 Protein_3121 IS3-like element IS1404 family transposase -
  JH314_RS16145 (JH314_16095) - 3635777..3637204 (+) 1428 Protein_3122 conjugal transfer protein TraG N-terminal domain-containing protein -
  JH314_RS16150 (JH314_16100) - 3637216..3637575 (-) 360 WP_274339086.1 DUF3742 family protein -
  JH314_RS16155 (JH314_16105) - 3637802..3638560 (+) 759 WP_274339087.1 type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein -
  JH314_RS16160 (JH314_16110) - 3638553..3639479 (+) 927 WP_274339088.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  JH314_RS16165 (JH314_16115) - 3639636..3639926 (-) 291 WP_104552454.1 hypothetical protein -
  JH314_RS16170 (JH314_16120) - 3640030..3640680 (-) 651 WP_274339089.1 GGDEF domain-containing protein -
  JH314_RS16175 (JH314_16125) - 3640749..3641851 (+) 1103 WP_223645675.1 IS3-like element IS1404 family transposase -

Sequence

Protein


Download         Length: 385 a.a.        Molecular weight: 41804.55 Da        Isoelectric Point: 10.0240

>NTDB_id=523244 JH314_RS16000 WP_274340306.1 3602204..3603361(+) (pilC) [Xanthomonas campestris strain CFBP5824]
MKGEQVARNANLLRAELRRQGITPSLVKSKPKPLFGVAGKKITPKDISFFSRQMATMMKSGVPIVGALEIIGSGQKNPRM
RDMVGQIRTDIEGGSSLHEAISRHPVQFDELYRNLIKAGEGAGVLETVLDTIASYKENIEALKGKIKKALFYPAMVMAVA
LIVSSILLIWVVPQFEDVFKGFGAELPAFTQLIVNASRFMVAWWWLLLIVAGGAVVGFFFAYKRSPAMQHGMDKLILKVP
VIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNSVYEAAVLRMRDDVSVGYPVNVAMKQLNLFPHMVIQMTA
IGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPMIMVFIGTIVGGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1158 bp        

>NTDB_id=523244 JH314_RS16000 WP_274340306.1 3602204..3603361(+) (pilC) [Xanthomonas campestris strain CFBP5824]
ATGAAGGGCGAGCAAGTCGCCAGAAATGCCAATTTGCTTCGCGCCGAGTTGCGCAGGCAAGGCATTACACCGAGTCTTGT
GAAGTCAAAGCCCAAGCCCTTGTTTGGGGTAGCAGGCAAAAAGATCACGCCTAAGGACATCTCTTTCTTTAGCCGCCAGA
TGGCGACAATGATGAAATCGGGCGTACCTATCGTTGGCGCCCTTGAAATCATCGGTAGTGGACAGAAAAATCCGCGCATG
CGCGATATGGTTGGACAGATTCGTACGGATATTGAGGGTGGCTCATCGTTACACGAGGCAATTAGCAGACACCCGGTGCA
GTTCGACGAGCTATACCGCAATTTAATTAAGGCGGGTGAAGGCGCCGGCGTACTAGAGACCGTACTTGACACGATTGCCT
CTTATAAAGAGAACATCGAAGCCCTAAAGGGAAAAATTAAAAAAGCTCTTTTCTACCCAGCAATGGTGATGGCCGTCGCA
TTGATTGTTAGTTCGATTTTGCTTATCTGGGTAGTCCCACAATTTGAAGACGTTTTCAAAGGATTCGGCGCCGAGCTTCC
TGCCTTCACTCAGCTTATTGTAAATGCATCACGCTTTATGGTTGCGTGGTGGTGGCTGCTTTTGATTGTCGCTGGAGGCG
CAGTAGTTGGCTTCTTCTTCGCCTATAAACGATCACCAGCAATGCAGCATGGAATGGACAAACTGATCCTAAAGGTGCCG
GTCATTGGACAGATCATGCACAACAGCGCCATCGCTAGATTTGCCCGCACCACGGCGGTCACGTTTAAGGCCGGCGTGCC
TCTTGTAGAAGCACTTGGTATTGTTGCGGGCGCCACTGGCAATTCTGTCTACGAGGCTGCCGTGCTGCGGATGCGCGACG
ACGTTTCAGTCGGCTATCCCGTCAATGTCGCGATGAAACAGCTCAACCTCTTCCCGCACATGGTGATCCAGATGACTGCC
ATCGGTGAAGAAGCAGGTGCGCTTGATGCCATGCTTTTCAAGGTGGCTGAGTACTTCGAGCAAGAAGTCAACAACGCTGT
GGACGCCCTTAGCAGCTTGCTAGAGCCAATGATCATGGTGTTCATTGGTACCATCGTCGGCGGCATGGTCATCGGCATGT
ATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

Domains

Predicted by InterproScan.

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

(50-173)

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

(254-376)


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

53.906

99.74

0.538
  pilC Pseudomonas stutzeri DSM 10701

52.344

99.74

0.522
  pilC Acinetobacter baylyi ADP1

52.208

100

0.522
  pilC Acinetobacter baumannii D1279779

50.39

100

0.504
  pilG Neisseria gonorrhoeae MS11

44.416

100

0.444
  pilG Neisseria meningitidis 44/76-A

43.669

100

0.439
  pilC Vibrio cholerae strain A1552

40.731

99.481

0.405
  pilC Vibrio campbellii strain DS40M4

39.41

96.883

0.382
  pilC Thermus thermophilus HB27

41.765

88.312

0.369