Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LTQ03_RS09655 Genome accession   NZ_CP089201
Coordinates   2085258..2086487 (-) Length   409 a.a.
NCBI ID   WP_243583226.1    Uniprot ID   -
Organism   Vibrio splendidus strain 1_C04a     
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 2080604..2098034 2085258..2086487 within 0


Gene organization within MGE regions


Location: 2080604..2098034
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LTQ03_RS09620 (LTQ03_09620) rimM 2080604..2081158 (+) 555 WP_004735510.1 ribosome maturation factor RimM -
  LTQ03_RS09625 (LTQ03_09625) trmD 2081185..2081925 (+) 741 WP_004735512.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  LTQ03_RS09630 (LTQ03_09630) rplS 2081985..2082338 (+) 354 WP_004735514.1 50S ribosomal protein L19 -
  LTQ03_RS09635 (LTQ03_09635) yacG 2082658..2082855 (-) 198 WP_004735515.1 DNA gyrase inhibitor YacG -
  LTQ03_RS09640 (LTQ03_09640) zapD 2082937..2083677 (-) 741 WP_017088714.1 cell division protein ZapD -
  LTQ03_RS09645 (LTQ03_09645) coaE 2083704..2084318 (-) 615 WP_243583225.1 dephospho-CoA kinase -
  LTQ03_RS09650 (LTQ03_09650) pilD 2084321..2085190 (-) 870 WP_017088712.1 A24 family peptidase Machinery gene
  LTQ03_RS09655 (LTQ03_09655) pilC 2085258..2086487 (-) 1230 WP_243583226.1 type II secretion system F family protein Machinery gene
  LTQ03_RS09660 (LTQ03_09660) pilB 2086502..2088187 (-) 1686 WP_243583227.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LTQ03_RS09665 (LTQ03_09665) pilA 2088190..2088648 (-) 459 WP_243583228.1 pilin Machinery gene
  LTQ03_RS09670 (LTQ03_09670) nadC 2088904..2089794 (-) 891 WP_017079961.1 carboxylating nicotinate-nucleotide diphosphorylase -
  LTQ03_RS09675 (LTQ03_09675) ampD 2089878..2090477 (+) 600 WP_243583229.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  LTQ03_RS09680 (LTQ03_09680) pdhR 2090958..2091719 (+) 762 WP_009847596.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  LTQ03_RS09685 (LTQ03_09685) aceE 2091782..2094445 (+) 2664 WP_243583230.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  LTQ03_RS09690 (LTQ03_09690) aceF 2094472..2096364 (+) 1893 WP_108123831.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -
  LTQ03_RS09695 (LTQ03_09695) lpdA 2096607..2098034 (+) 1428 WP_004735450.1 dihydrolipoyl dehydrogenase -

Sequence

Protein


Download         Length: 409 a.a.        Molecular weight: 45410.34 Da        Isoelectric Point: 10.2464

>NTDB_id=635668 LTQ03_RS09655 WP_243583226.1 2085258..2086487(-) (pilC) [Vibrio splendidus strain 1_C04a]
MSSKSKQSQLKNYHWKGINSSGKKVSGQSLALTELEVREKLKEQHIQIKKIKKKSISAITRLTHRVKAKDITILTRQLAT
MLATGVPIVQAIKLVSDNHRKAEMKSILSHICKGVEAGTPISKAMRTASRHFDDLYTDLVATGELSGNLAQVFERLATYR
EKSEQLKSKVIKALIYPAMVVAVALTVSYLMLTMVIPEFESMFSGFGADLPWFTQQVLYLSHWMQAYSFYSAIGIGLLIL
SFQQLRQRSYSIRLSTSRLGLRFPILGTVITKASIAKFSRTLSTSFSSGIPILTSLKTTAKTAGNLHYESAIIEVHRETA
AGMPMYIAMRNTNAFPEMVLQMVMIGEESGNLDDMLNRVASIYEFEVDNTVDNLGKILEPLIIVFLGTVVGGLVVAMYLP
IFNLMSVLG

Nucleotide


Download         Length: 1230 bp        

>NTDB_id=635668 LTQ03_RS09655 WP_243583226.1 2085258..2086487(-) (pilC) [Vibrio splendidus strain 1_C04a]
ATGAGTAGTAAAAGCAAACAATCACAACTAAAAAACTACCATTGGAAGGGAATCAATAGTTCTGGCAAGAAAGTGTCTGG
GCAGAGCTTAGCGCTCACCGAATTAGAAGTACGAGAGAAGCTCAAAGAGCAGCACATTCAGATTAAGAAAATCAAAAAGA
AAAGCATCTCAGCAATCACTCGTTTAACCCATCGAGTCAAAGCCAAAGACATCACTATTTTGACTCGCCAACTGGCTACC
ATGTTGGCGACTGGTGTGCCGATCGTGCAAGCCATCAAGCTGGTGTCAGACAATCACCGCAAAGCAGAAATGAAATCGAT
TTTATCGCACATCTGCAAAGGTGTAGAAGCTGGCACGCCAATCTCAAAAGCAATGCGAACTGCAAGCCGCCACTTTGATG
ACCTCTATACCGACTTGGTTGCGACAGGCGAACTCTCCGGCAACCTTGCACAAGTATTTGAACGCTTGGCGACCTATCGT
GAAAAGAGTGAGCAACTAAAATCCAAAGTTATAAAGGCGCTCATCTATCCTGCAATGGTTGTAGCGGTCGCCCTTACCGT
TTCCTATTTAATGCTGACCATGGTCATCCCGGAATTTGAATCGATGTTTTCTGGTTTCGGAGCAGACTTACCTTGGTTCA
CCCAGCAAGTGCTTTATCTTTCCCATTGGATGCAGGCTTATAGTTTCTATAGTGCCATCGGTATTGGTTTACTAATTCTG
TCTTTTCAGCAACTGCGTCAGCGATCCTACTCGATTCGACTTTCAACCAGTCGCCTTGGCTTACGTTTTCCGATATTGGG
TACTGTCATCACCAAAGCATCGATTGCAAAATTCAGCCGAACACTTTCAACCAGTTTTAGTTCAGGGATTCCTATTTTAA
CCAGCCTTAAAACAACGGCTAAAACGGCGGGTAATCTACATTATGAATCGGCCATCATTGAGGTTCACCGTGAGACTGCC
GCAGGCATGCCGATGTACATTGCAATGCGCAATACCAATGCCTTCCCGGAGATGGTTTTGCAGATGGTGATGATTGGTGA
AGAATCAGGAAATCTTGATGATATGCTCAATAGAGTCGCCTCCATTTACGAGTTCGAAGTAGACAACACCGTCGATAACC
TAGGTAAGATTCTAGAGCCACTGATCATCGTATTTTTAGGCACCGTAGTTGGCGGACTTGTTGTCGCGATGTACTTACCG
ATCTTTAATCTTATGAGTGTGTTAGGATAG

Domains

Predicted by InterproScan.

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

(278-400)

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

(75-197)


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 Vibrio cholerae strain A1552

80.75

97.8

0.79
  pilC Vibrio campbellii strain DS40M4

74.138

99.267

0.736
  pilC Acinetobacter baylyi ADP1

42.298

100

0.423
  pilC Acinetobacter baumannii D1279779

42.327

98.778

0.418
  pilG Neisseria gonorrhoeae MS11

41.294

98.289

0.406
  pilC Legionella pneumophila strain ERS1305867

41.604

97.555

0.406
  pilG Neisseria meningitidis 44/76-A

41.045

98.289

0.403
  pilC Pseudomonas stutzeri DSM 10701

40.099

98.778

0.396