Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   GSR97_RS12520 Genome accession   NZ_CP047990
Coordinates   2704115..2705338 (+) Length   407 a.a.
NCBI ID   WP_005462561.1    Uniprot ID   A0A9P2QS90
Organism   Vibrio parahaemolyticus strain 20140723005     
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 2692675..2710283 2704115..2705338 within 0


Gene organization within MGE regions


Location: 2692675..2710283
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GSR97_RS12480 (GSR97_13110) lpdA 2692675..2694102 (-) 1428 WP_005479684.1 dihydrolipoyl dehydrogenase -
  GSR97_RS12485 (GSR97_13115) aceF 2694371..2696257 (-) 1887 WP_021453621.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -
  GSR97_RS12490 (GSR97_13120) aceE 2696277..2698940 (-) 2664 WP_140391276.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  GSR97_RS12495 (GSR97_13125) pdhR 2698989..2699756 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  GSR97_RS12500 (GSR97_13130) ampD 2700162..2700713 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GSR97_RS12505 (GSR97_13135) nadC 2700806..2701693 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GSR97_RS12510 (GSR97_13140) pilA 2701956..2702393 (+) 438 WP_021453050.1 pilin Machinery gene
  GSR97_RS12515 (GSR97_13145) pilB 2702405..2704090 (+) 1686 WP_031845921.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GSR97_RS12520 (GSR97_13150) pilC 2704115..2705338 (+) 1224 WP_005462561.1 type II secretion system F family protein Machinery gene
  GSR97_RS12525 (GSR97_13155) pilD 2705403..2706272 (+) 870 WP_025524821.1 prepilin peptidase Machinery gene
  GSR97_RS12530 (GSR97_13160) coaE 2706273..2706887 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  GSR97_RS12535 (GSR97_13165) zapD 2706915..2707655 (+) 741 WP_023624252.1 cell division protein ZapD -
  GSR97_RS12540 (GSR97_13170) yacG 2707724..2707918 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GSR97_RS12545 (GSR97_13175) rplS 2708292..2708645 (-) 354 WP_005462554.1 50S ribosomal protein L19 -
  GSR97_RS12550 (GSR97_13180) trmD 2708687..2709430 (-) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  GSR97_RS12555 (GSR97_13185) rimM 2709458..2710006 (-) 549 WP_005462552.1 ribosome maturation factor RimM -
  GSR97_RS12560 (GSR97_13190) rpsP 2710035..2710283 (-) 249 WP_005379962.1 30S ribosomal protein S16 -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 45234.41 Da        Isoelectric Point: 10.4368

>NTDB_id=419094 GSR97_RS12520 WP_005462561.1 2704115..2705338(+) (pilC) [Vibrio parahaemolyticus strain 20140723005]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISLFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=419094 GSR97_RS12520 WP_005462561.1 2704115..2705338(+) (pilC) [Vibrio parahaemolyticus strain 20140723005]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACTAAACTTAGCCATCGCGTAAAAGGAAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTA
GTAACTGGTGTGCCGCTAGTGCAAGCATTGAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGTAACCATTTTGACCCGCTGT
ATACCGACTTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCCACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGTGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGTTCCATCAGTTTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGTTTAATGCTCAACCGATCTGTACTTAAGTTTCCAGTCCTTGGGGCGGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACACTCGCTACGAGCTTTACGGCGGGCATTCCGATTCTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGAGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTTCCTGAGTTGGTGCTGCAAATGGTTATGATCGGCGAAGAATC
CGGCCGACTTGACGATATGCTCAATAAAGTCGCCACAATTTACGAGTTTGAAGTGGACAACACCGTCGATAACCTCAGTA
AAATCTTAGAACCATTAATTATCGTTTTTTTAGGTATCGTTGTCGGTGGCTTGGTCACAGCAATGTACTTGCCAATCTTT
AACTTAATGAGTGTATTGGGCTAG

Domains

Predicted by InterproScan.

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

(276-398)

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

(72-195)


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

86.241

100

0.862
  pilC Vibrio cholerae strain A1552

74.321

99.509

0.74
  pilC Acinetobacter baylyi ADP1

42.75

98.28

0.42
  pilC Acinetobacter baumannii D1279779

41.439

99.017

0.41
  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
  pilC Legionella pneumophila strain ERS1305867

39.803

100

0.398

Multiple sequence alignment