Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   H9L11_RS03680 Genome accession   NZ_CP060589
Coordinates   802676..803899 (+) Length   407 a.a.
NCBI ID   WP_205390996.1    Uniprot ID   -
Organism   Vibrio sp. sp1     
Function   type IV pilus biogenesis and function (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 791213..808892 802676..803899 within 0


Gene organization within MGE regions


Location: 791213..808892
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H9L11_RS03640 (H9L11_03640) lpdA 791213..792640 (-) 1428 WP_005379993.1 dihydrolipoyl dehydrogenase -
  H9L11_RS03645 (H9L11_03645) aceF 792908..794800 (-) 1893 WP_033905589.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -
  H9L11_RS03650 (H9L11_03650) aceE 794820..797483 (-) 2664 WP_005386612.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  H9L11_RS03655 (H9L11_03655) pdhR 797532..798299 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  H9L11_RS03660 (H9L11_03660) ampD 798705..799256 (-) 552 WP_005386614.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  H9L11_RS03665 (H9L11_03665) nadC 799349..800236 (+) 888 WP_033905590.1 carboxylating nicotinate-nucleotide diphosphorylase -
  H9L11_RS03670 (H9L11_03670) pilA 800499..800963 (+) 465 WP_033905592.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  H9L11_RS03675 (H9L11_03675) pilB 800967..802652 (+) 1686 WP_033905593.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H9L11_RS03680 (H9L11_03680) pilC 802676..803899 (+) 1224 WP_205390996.1 type II secretion system F family protein Machinery gene
  H9L11_RS03685 (H9L11_03685) pilD 803964..804833 (+) 870 WP_017635919.1 A24 family peptidase Machinery gene
  H9L11_RS03690 (H9L11_03690) coaE 804834..805448 (+) 615 WP_017635920.1 dephospho-CoA kinase -
  H9L11_RS03695 (H9L11_03695) zapD 805476..806216 (+) 741 WP_005373086.1 cell division protein ZapD -
  H9L11_RS03700 (H9L11_03700) yacG 806375..806569 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  H9L11_RS03705 (H9L11_03705) rplS 806882..807235 (-) 354 WP_005379971.1 50S ribosomal protein L19 -
  H9L11_RS03710 (H9L11_03710) trmD 807277..808038 (-) 762 WP_033905595.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  H9L11_RS03715 (H9L11_03715) rimM 808066..808614 (-) 549 WP_005379964.1 ribosome maturation factor RimM -
  H9L11_RS03720 (H9L11_03720) rpsP 808644..808892 (-) 249 WP_005379962.1 30S ribosomal protein S16 -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 45265.38 Da        Isoelectric Point: 10.3992

>NTDB_id=476751 H9L11_RS03680 WP_205390996.1 802676..803899(+) (pilC) [Vibrio sp. sp1]
MKSTTPQLKNFRWKGINSSGKKTSGQTLAMTEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGRDITVFTRQISTML
ITGVPLVQALKLVSENHKKAEMKSILMSVTRAVEAGTPMSKAIRTASEHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVVLVALGVSFIMLTKVIPEFEKMFVGFGADLPWFTRQVLDLSAWTQNWSPFIALGSISLFISA
RILSKRSDSFRLTLNRSVLKFPVLGPVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNLHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=476751 H9L11_RS03680 WP_205390996.1 802676..803899(+) (pilC) [Vibrio sp. sp1]
ATGAAAAGCACTACACCACAACTTAAAAACTTCCGCTGGAAAGGCATCAACAGTTCTGGCAAAAAGACGTCTGGACAAAC
CCTCGCGATGACAGAAATTGAAGTACGCGAGCGTCTAGACGCACAGCACATCAAGATCAAGAAGTTAAAGAAAAGCAGTA
TCTCGTTTCTCACTAAACTCAGCCATCGCGTGAAAGGCAGAGACATCACGGTGTTTACCCGTCAGATTTCGACGATGTTG
ATAACCGGTGTGCCCTTGGTTCAGGCTTTAAAATTGGTCTCAGAAAATCATAAAAAAGCAGAGATGAAATCCATTTTGAT
GAGCGTGACACGCGCCGTTGAAGCGGGGACACCCATGTCAAAAGCCATACGCACTGCAAGTGAACACTTTGACCCACTCT
ATACCGATCTTATCGCCACAGGTGAGCAATCCGGTAACTTAGCAGAAGTATTCGAGCGCTTAGCCACCTACCGAGAAAAA
AATGAACAACTCCGTGCGAAAGTGATCAAAGCACTGATCTACCCAGCGATGGTAGTGCTAGTAGCGTTAGGCGTGTCGTT
TATCATGCTCACCAAAGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGTTTTGGTGCTGACTTACCGTGGTTTACCAGGC
AAGTGTTAGATCTTTCCGCATGGACACAAAATTGGAGCCCATTTATAGCACTAGGCTCCATTAGTTTATTCATCTCGGCG
AGAATCCTCTCTAAGCGTTCAGATTCTTTTCGCTTAACGCTCAATCGATCTGTGCTTAAATTTCCTGTCCTTGGGCCTGT
ATTATCAAAAGCAGCGATCGCCAAATTTAGTCGAACACTCGCCACAAGCTTTACAGCGGGCATTCCAATTCTAACCAGTT
TAAAAACTACATCAAAAACATCAGGAAACTTGCACTATCAACTCGCCATAGAAGAAGTTTACCGTGATACCGCCGCAGGT
ATGCCAATGTATGTAGCCATGCGCAACTGTAATGTGTTCCCTGAATTGGTGTTACAAATGGTTATGATCGGTGAAGAGTC
TGGTCGACTTGACGATATGCTCAATAAAGTTGCAACAATCTACGAGTTTGAAGTCGACAACACCGTCGACAACCTTAGTA
AAATTCTAGAGCCACTAATTATCGTTTTTTTAGGTATCGTTGTTGGCGGATTAGTGACAGCAATGTACTTGCCAATCTTT
AACTTAATGAGTGTATTGGGCTAG

Domains

Predicted by InterproScan.

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

(72-195)

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

(276-398)


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 campbellii strain DS40M4

86.978

100

0.87
  pilC Vibrio cholerae strain A1552

73.529

100

0.737
  pilC Acinetobacter baylyi ADP1

43

98.28

0.423
  pilC Acinetobacter baumannii D1279779

41.439

99.017

0.41
  pilC Legionella pneumophila strain ERS1305867

40.541

100

0.405
  pilG Neisseria gonorrhoeae MS11

40.494

99.509

0.403
  pilG Neisseria meningitidis 44/76-A

40.247

99.509

0.4
  pilC Pseudomonas stutzeri DSM 10701

40.909

97.297

0.398