Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH260_RS16060 Genome accession   NZ_CP066959
Coordinates   3656587..3657846 (+) Length   419 a.a.
NCBI ID   WP_274394336.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. incanae strain 4053     
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 3642677..3659353 3656587..3657846 within 0


Gene organization within MGE regions


Location: 3642677..3659353
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH260_RS16000 (JH260_15970) - 3642677..3643087 (-) 411 WP_323549302.1 CopG family ribbon-helix-helix protein -
  JH260_RS16005 (JH260_15975) sucD 3643191..3644066 (-) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH260_RS16010 (JH260_15980) sucC 3644091..3645260 (-) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH260_RS16015 (JH260_15985) - 3645494..3647104 (+) 1611 WP_116901781.1 PAS domain-containing sensor histidine kinase -
  JH260_RS16020 (JH260_15990) pilR 3647313..3648707 (+) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  JH260_RS16025 (JH260_15995) - 3648905..3649261 (+) 357 WP_139328384.1 hypothetical protein -
  JH260_RS16030 (JH260_16000) - 3649206..3649997 (+) 792 WP_274394332.1 zeta toxin family protein -
  JH260_RS16035 (JH260_16005) pilB 3650180..3651913 (-) 1734 WP_274394333.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH260_RS16040 (JH260_16010) - 3651948..3653474 (-) 1527 WP_338000692.1 hypothetical protein -
  JH260_RS16045 (JH260_16015) - 3653444..3654073 (-) 630 WP_274394335.1 hypothetical protein -
  JH260_RS16050 (JH260_16020) - 3654084..3655673 (-) 1590 WP_218554304.1 phosphoethanolamine transferase -
  JH260_RS16055 (JH260_16025) pilA2 3655809..3656234 (-) 426 WP_031423879.1 pilin Machinery gene
  JH260_RS16060 (JH260_16030) pilC 3656587..3657846 (+) 1260 WP_274394336.1 type II secretion system F family protein Machinery gene
  JH260_RS16065 (JH260_16035) - 3657853..3658716 (+) 864 WP_040940797.1 A24 family peptidase -
  JH260_RS16070 (JH260_16040) coaE 3658730..3659353 (+) 624 WP_228424129.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45991.49 Da        Isoelectric Point: 10.2301

>NTDB_id=523620 JH260_RS16060 WP_274394336.1 3656587..3657846(+) (pilC) [Xanthomonas campestris pv. incanae strain 4053]
MSIARSAIKKQPVDRSTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGAAGKKVTPKD
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESVSKHPVQFDELYRNLVRAGEGAGVLE
TVLDTVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLMVAVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=523620 JH260_RS16060 WP_274394336.1 3656587..3657846(+) (pilC) [Xanthomonas campestris pv. incanae strain 4053]
ATGTCAATCGCGCGTAGCGCCATCAAGAAACAACCGGTCGACCGGAGCACCAGCATGCTACAGACCTTCATTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGTAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATTGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGCGGCGGGGAAGAAAGTTACCCCCAAAGAC
ATCGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCTTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGACATTGAGGGGGGATCCTCGCTCTATGAGT
CCGTCAGCAAACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTTGTCCGCGCGGGCGAAGGTGCTGGCGTTCTGGAG
ACAGTCCTCGACACGGTTGCTACCTACAAAGAAAACATTGAAGCCCTAAAGGGCAAGATCAAAAAGGCATTGTTCTACCC
TGCCATGGTGGTTGCGGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAAGAAGTATTCA
AGAGCTTCGGTGCTGAACTACCGGCATTCACTCAGCTTCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGATGGTAGCAGTTGGATCTGTCGTCGGCTTCATCTTTGCCTACAAACGTTCTCCTCGGATGCAGCATGGACTCGA
TCGACTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACCACTGCAG
TGACATTCAAGGCAGGCGTTCCTTTAGTGGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAGGAA
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGCTACCCGGTCAACATGGCGATGAAACAGGTGAATCTATTTCCACA
CATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCGCTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTCG
AAGAGGAGGTCAACAACGCCGTGGACGCGCTCAGCAGCCTGCTTGAACCACTGATCATGGTGTTCATCGGCACCATCGTA
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

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

53.535

94.511

0.506
  pilC Acinetobacter baylyi ADP1

51.111

96.659

0.494
  pilC Acinetobacter baumannii D1279779

50.864

96.659

0.492
  pilG Neisseria gonorrhoeae MS11

43.609

95.227

0.415
  pilG Neisseria meningitidis 44/76-A

43.108

95.227

0.411
  pilC Vibrio cholerae strain A1552

40.75

95.465

0.389
  pilC Vibrio campbellii strain DS40M4

39.25

95.465

0.375