Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   BSG32_RS16255 Genome accession   NZ_CP022552
Coordinates   3222060..3223283 (+) Length   407 a.a.
NCBI ID   WP_005479682.1    Uniprot ID   Q87LT6
Organism   Vibrio parahaemolyticus strain MAVP-R     
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 3210602..3228248 3222060..3223283 within 0


Gene organization within MGE regions


Location: 3210602..3228248
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BSG32_RS16215 (BSG32_16225) lpdA 3210602..3212029 (-) 1428 WP_005479684.1 dihydrolipoyl dehydrogenase -
  BSG32_RS16220 (BSG32_16230) aceF 3212298..3214187 (-) 1890 WP_089190213.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -
  BSG32_RS16225 (BSG32_16235) aceE 3214207..3216870 (-) 2664 WP_021450014.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  BSG32_RS16230 (BSG32_16240) pdhR 3216919..3217686 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  BSG32_RS16235 (BSG32_16245) ampD 3218092..3218643 (-) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  BSG32_RS16240 (BSG32_16250) nadC 3218736..3219623 (+) 888 WP_021450015.1 carboxylating nicotinate-nucleotide diphosphorylase -
  BSG32_RS16245 (BSG32_16255) - 3219887..3220351 (+) 465 WP_021450016.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  BSG32_RS16250 (BSG32_16260) pilB 3220351..3222036 (+) 1686 WP_021450017.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BSG32_RS16255 (BSG32_16265) pilC 3222060..3223283 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  BSG32_RS16260 (BSG32_16270) pilD 3223348..3224217 (+) 870 WP_021450018.1 A24 family peptidase Machinery gene
  BSG32_RS16265 (BSG32_16275) coaE 3224218..3224832 (+) 615 WP_021450019.1 dephospho-CoA kinase -
  BSG32_RS16270 (BSG32_16280) zapD 3224860..3225600 (+) 741 WP_021450020.1 cell division protein ZapD -
  BSG32_RS16275 (BSG32_16285) yacG 3225669..3225863 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  BSG32_RS16280 (BSG32_16290) rplS 3226257..3226610 (-) 354 WP_005462554.1 50S ribosomal protein L19 -
  BSG32_RS16285 (BSG32_16295) trmD 3226652..3227395 (-) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  BSG32_RS16290 (BSG32_16300) rimM 3227423..3227971 (-) 549 WP_005462552.1 ribosome maturation factor RimM -
  BSG32_RS16295 (BSG32_16305) rpsP 3228000..3228248 (-) 249 WP_005379962.1 30S ribosomal protein S16 -

Sequence

Protein


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

>NTDB_id=240672 BSG32_RS16255 WP_005479682.1 3222060..3223283(+) (pilC) [Vibrio parahaemolyticus strain MAVP-R]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=240672 BSG32_RS16255 WP_005479682.1 3222060..3223283(+) (pilC) [Vibrio parahaemolyticus strain MAVP-R]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGAAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTA
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGCAACCATTTTGACCCGCTAT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCTACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGTTTAATGCTCAACCGATCTGTACTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACCCTCGCTACGAGCTTTACGGCGGGCATTCCGATTCTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTCCCTGAGTTGGTGCTGCAAATGGTTATGATAGGCGAAGAATC
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
  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