Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   GPY45_RS08250 Genome accession   NZ_CP046785
Coordinates   1608526..1609749 (-) Length   407 a.a.
NCBI ID   WP_005479682.1    Uniprot ID   Q87LT6
Organism   Vibrio parahaemolyticus strain 2013V-1136     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1603526..1614749
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY45_RS08210 rpsP 1603609..1603857 (+) 249 WP_005379962.1 30S ribosomal protein S16 -
  GPY45_RS08215 rimM 1603886..1604434 (+) 549 WP_005462552.1 ribosome maturation factor RimM -
  GPY45_RS08220 trmD 1604462..1605205 (+) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  GPY45_RS08225 rplS 1605247..1605600 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  GPY45_RS08230 yacG 1605946..1606140 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY45_RS08235 zapD 1606209..1606949 (-) 741 WP_023624252.1 cell division protein ZapD -
  GPY45_RS08240 coaE 1606977..1607591 (-) 615 WP_069494409.1 dephospho-CoA kinase -
  GPY45_RS08245 pilD 1607592..1608461 (-) 870 WP_089203077.1 A24 family peptidase Machinery gene
  GPY45_RS08250 pilC 1608526..1609749 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  GPY45_RS08255 pilB 1609775..1611460 (-) 1686 WP_089203076.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY45_RS08260 pilA 1611466..1611939 (-) 474 WP_005462544.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  GPY45_RS08265 nadC 1612202..1613089 (-) 888 WP_005479699.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY45_RS08270 ampD 1613182..1613733 (+) 552 WP_025570907.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 45220.39 Da        Isoelectric Point: 10.4368

>NTDB_id=407744 GPY45_RS08250 WP_005479682.1 1608526..1609749(-) (pilC) [Vibrio parahaemolyticus strain 2013V-1136]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=407744 GPY45_RS08250 WP_005479682.1 1608526..1609749(-) (pilC) [Vibrio parahaemolyticus strain 2013V-1136]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGGAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTG
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAGGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACACCGATGTCTAAAGCGATGCGTACCGCCAGCAACCATTTTGACCCGCTAT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCTACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGTTTAATGCTCAACCGATCTGTACTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACACTCGCTACGAGCTTTACGGCGGGCATTCCGATTCTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTCCCTGAGTTGGTGCTGCAAATGGTTATGATAGGCGAAGAATC
CGGCCGACTTGACGATATGCTCAATAAAGTTGCCACAATTTACGAGTTTGAAGTGGACAACACCGTCGATAACCTCAGTA
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
  AlphaFold DB Q87LT6

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

74.321

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