Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   VPUCM_RS13040 Genome accession   NZ_CP007004
Coordinates   2828117..2829340 (+) Length   407 a.a.
NCBI ID   WP_025442240.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus UCM-V493     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2823117..2834340
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VPUCM_RS13020 (VPUCM_2607) ampD 2824187..2824738 (-) 552 WP_025442236.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VPUCM_RS13025 (VPUCM_2608) nadC 2824831..2825718 (+) 888 WP_025442237.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VPUCM_RS13030 (VPUCM_2609) pilA 2825983..2826402 (+) 420 WP_025442238.1 pilin Machinery gene
  VPUCM_RS13035 (VPUCM_2610) pilB 2826408..2828093 (+) 1686 WP_025442239.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VPUCM_RS13040 (VPUCM_2611) pilC 2828117..2829340 (+) 1224 WP_025442240.1 type II secretion system F family protein Machinery gene
  VPUCM_RS13045 (VPUCM_2612) pilD 2829405..2830274 (+) 870 WP_025442241.1 A24 family peptidase Machinery gene
  VPUCM_RS13050 (VPUCM_2613) coaE 2830275..2830889 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  VPUCM_RS13055 (VPUCM_2614) zapD 2830917..2831657 (+) 741 WP_023624252.1 cell division protein ZapD -
  VPUCM_RS13060 (VPUCM_2615) yacG 2831726..2831920 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  VPUCM_RS13065 (VPUCM_2616) rplS 2832300..2832653 (-) 354 WP_005462554.1 50S ribosomal protein L19 -
  VPUCM_RS13070 (VPUCM_2617) trmD 2832695..2833438 (-) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  VPUCM_RS13075 (VPUCM_2618) rimM 2833466..2834014 (-) 549 WP_005462552.1 ribosome maturation factor RimM -
  VPUCM_RS13080 (VPUCM_2619) rpsP 2834043..2834291 (-) 249 WP_005379962.1 30S ribosomal protein S16 -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 45289.50 Da        Isoelectric Point: 10.4871

>NTDB_id=115459 VPUCM_RS13040 WP_025442240.1 2828117..2829340(+) (pilC) [Vibrio parahaemolyticus UCM-V493]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLRHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=115459 VPUCM_RS13040 WP_025442240.1 2828117..2829340(+) (pilC) [Vibrio parahaemolyticus UCM-V493]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGAAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGACATCGCGTAAAAGGAAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTA
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGCAACCATTTTGACCCGCTAT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCTACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGCTTAATGCTCAACCGCTCTGTGCTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACCCTCGCTACGAGCTTTACGGCGGGCATTCCGATTTTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACTGCAGCAGGA
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

74.321

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