Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   vpachn25_RS12780 Genome accession   NZ_CP010883
Coordinates   2812452..2813675 (+) Length   407 a.a.
NCBI ID   WP_023585959.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain CHN25     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2807452..2818675
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  vpachn25_RS12760 (VpaChn25_2455) ampD 2808484..2809035 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  vpachn25_RS12765 (VpaChn25_2456) nadC 2809128..2810015 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  vpachn25_RS12770 (VpaChn25_2457) - 2810279..2810743 (+) 465 WP_021450016.1 pilin -
  vpachn25_RS12775 (VpaChn25_2458) pilB 2810743..2812428 (+) 1686 WP_021450017.1 type IV-A pilus assembly ATPase PilB Machinery gene
  vpachn25_RS12780 (VpaChn25_2459) pilC 2812452..2813675 (+) 1224 WP_023585959.1 type II secretion system F family protein Machinery gene
  vpachn25_RS12785 (VpaChn25_2460) pilD 2813740..2814609 (+) 870 WP_065870908.1 prepilin peptidase Machinery gene
  vpachn25_RS12790 (VpaChn25_2461) coaE 2814610..2815224 (+) 615 WP_065870909.1 dephospho-CoA kinase -
  vpachn25_RS12795 (VpaChn25_2462) zapD 2815252..2815992 (+) 741 WP_023624252.1 cell division protein ZapD -
  vpachn25_RS12800 (VpaChn25_2463) yacG 2816061..2816255 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  vpachn25_RS12805 (VpaChn25_2464) rplS 2816623..2816976 (-) 354 WP_005462554.1 50S ribosomal protein L19 -
  vpachn25_RS12810 (VpaChn25_2465) trmD 2817018..2817761 (-) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  vpachn25_RS12815 (VpaChn25_2466) rimM 2817789..2818337 (-) 549 WP_005462552.1 ribosome maturation factor RimM -
  vpachn25_RS12820 (VpaChn25_2467) rpsP 2818366..2818614 (-) 249 WP_005379962.1 30S ribosomal protein S16 -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 45223.41 Da        Isoelectric Point: 10.3996

>NTDB_id=140570 vpachn25_RS12780 WP_023585959.1 2812452..2813675(+) (pilC) [Vibrio parahaemolyticus strain CHN25]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSMRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=140570 vpachn25_RS12780 WP_023585959.1 2812452..2813675(+) (pilC) [Vibrio parahaemolyticus strain CHN25]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGGAAAGACATCACGGTTTTCACTCGTCAAATATCAACGATGCTG
GTAACCGGTGTGCCGCTAGTACAAGCACTAAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGTAACCATTTTGACCCGCTGT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCCACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTATGCGTTCTGACTCTTTTCGCTTAATGCTCAACCGCTCTGTGCTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACCCTCGCTACGAGCTTTACGGCGGGCATTCCGATTTTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTCCCTGAGTTGGTGCTGCAAATGGTTATGATCGGCGAAGAATC
CGGCCGACTTGACGATATGCTCAATAAAGTCGCCACAATTTACGAGTTTGAAGTGGACAACACCGTCGATAACCTCAGTA
AAATCTTAGAGCCATTGATTATCGTTTTTTTAGGTATCGTTGTCGGTGGCTTGGTCACAGCAATGTACTTGCCAATCTTT
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

85.995

100

0.86
  pilC Vibrio cholerae strain A1552

74.074

99.509

0.737
  pilC Acinetobacter baylyi ADP1

42.5

98.28

0.418
  pilC Acinetobacter baumannii D1279779

41.191

99.017

0.408
  pilC Legionella pneumophila strain ERS1305867

40.342

100

0.405
  pilG Neisseria gonorrhoeae MS11

40.494

99.509

0.403
  pilC Pseudomonas stutzeri DSM 10701

40.909

97.297

0.398
  pilG Neisseria meningitidis 44/76-A

39.901

99.754

0.398

Multiple sequence alignment