Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   H5404_RS21145 Genome accession   NZ_CP060088
Coordinates   2857111..2858334 (+) Length   407 a.a.
NCBI ID   WP_140218813.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain TJA114     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2852111..2863334
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H5404_RS21125 (H5404_21125) ampD 2853121..2853672 (-) 552 WP_025508895.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  H5404_RS21130 (H5404_21130) nadC 2853765..2854652 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  H5404_RS21135 (H5404_21135) - 2854916..2855401 (+) 486 WP_069502799.1 pilin -
  H5404_RS21140 (H5404_21140) pilB 2855402..2857087 (+) 1686 WP_140218815.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H5404_RS21145 (H5404_21145) pilC 2857111..2858334 (+) 1224 WP_140218813.1 type II secretion system F family protein Machinery gene
  H5404_RS21150 (H5404_21150) pilD 2858399..2859268 (+) 870 WP_074545612.1 prepilin peptidase Machinery gene
  H5404_RS21155 (H5404_21155) coaE 2859269..2859883 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  H5404_RS21160 (H5404_21160) zapD 2859911..2860651 (+) 741 WP_023624252.1 cell division protein ZapD -
  H5404_RS21165 (H5404_21165) yacG 2860720..2860914 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  H5404_RS21170 (H5404_21170) rplS 2861299..2861652 (-) 354 WP_005462554.1 50S ribosomal protein L19 -
  H5404_RS21175 (H5404_21175) trmD 2861694..2862437 (-) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  H5404_RS21180 (H5404_21180) rimM 2862465..2863013 (-) 549 WP_005462552.1 ribosome maturation factor RimM -
  H5404_RS21185 (H5404_21185) rpsP 2863042..2863290 (-) 249 WP_005379962.1 30S ribosomal protein S16 -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 45221.33 Da        Isoelectric Point: 10.3446

>NTDB_id=473895 H5404_RS21145 WP_140218813.1 2857111..2858334(+) (pilC) [Vibrio parahaemolyticus strain TJA114]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGEDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=473895 H5404_RS21145 WP_140218813.1 2857111..2858334(+) (pilC) [Vibrio parahaemolyticus strain TJA114]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGGGAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTG
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAGGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGTAACCATTTTGACCCGCTGT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCCACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGCTTAATGCTAAACCGCTCTGTGCTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACCCTCGCTACGAGCTTTACGGCGGGCATTCCGATTTTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTCCCTGAGTTGGTGCTGCAAATGGTTATGATCGGCGAAGAATC
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

85.749

100

0.857
  pilC Vibrio cholerae strain A1552

74.074

99.509

0.737
  pilC Acinetobacter baylyi ADP1

43

98.28

0.423
  pilC Acinetobacter baumannii D1279779

41.439

99.017

0.41
  pilG Neisseria gonorrhoeae MS11

40.741

99.509

0.405
  pilG Neisseria meningitidis 44/76-A

40.494

99.509

0.403
  pilC Pseudomonas stutzeri DSM 10701

40.909

97.297

0.398
  pilC Legionella pneumophila strain ERS1305867

39.803

100

0.398