Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   H9K44_RS03135 Genome accession   NZ_CP064035
Coordinates   644447..645670 (-) Length   407 a.a.
NCBI ID   WP_005479682.1    Uniprot ID   Q87LT6
Organism   Vibrio parahaemolyticus strain DLM1799     
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 639553..657115 644447..645670 within 0


Gene organization within MGE regions


Location: 639553..657115
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H9K44_RS03095 (H9K44_03100) rpsP 639553..639801 (+) 249 WP_005379962.1 30S ribosomal protein S16 -
  H9K44_RS03100 (H9K44_03105) rimM 639830..640378 (+) 549 WP_005462552.1 ribosome maturation factor RimM -
  H9K44_RS03105 (H9K44_03110) trmD 640406..641149 (+) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  H9K44_RS03110 (H9K44_03115) rplS 641191..641544 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  H9K44_RS03115 (H9K44_03120) yacG 641867..642061 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  H9K44_RS03120 (H9K44_03125) zapD 642130..642870 (-) 741 WP_023624252.1 cell division protein ZapD -
  H9K44_RS03125 (H9K44_03130) coaE 642898..643512 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  H9K44_RS03130 (H9K44_03135) pilD 643513..644382 (-) 870 WP_169608825.1 A24 family peptidase Machinery gene
  H9K44_RS03135 (H9K44_03140) pilC 644447..645670 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  H9K44_RS03140 (H9K44_03145) pilB 645694..647379 (-) 1686 WP_169608822.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H9K44_RS03145 (H9K44_03150) - 647376..647834 (-) 459 WP_169608820.1 pilin -
  H9K44_RS03150 (H9K44_03155) nadC 648097..648984 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  H9K44_RS03155 (H9K44_03160) ampD 649077..649628 (+) 552 WP_020841256.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  H9K44_RS03160 (H9K44_03165) pdhR 650034..650801 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  H9K44_RS03165 (H9K44_03170) aceE 650850..653513 (+) 2664 WP_005462566.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  H9K44_RS03170 (H9K44_03175) aceF 653533..655419 (+) 1887 WP_031830968.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -
  H9K44_RS03175 (H9K44_03180) lpdA 655688..657115 (+) 1428 WP_005479684.1 dihydrolipoyl dehydrogenase -

Sequence

Protein


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

>NTDB_id=498601 H9K44_RS03135 WP_005479682.1 644447..645670(-) (pilC) [Vibrio parahaemolyticus strain DLM1799]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=498601 H9K44_RS03135 WP_005479682.1 644447..645670(-) (pilC) [Vibrio parahaemolyticus strain DLM1799]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGAAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTA
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGCAACCATTTTGACCCGCTAT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCTACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGCTTAATGCTCAACCGCTCTGTGCTTAAGTTTCCAGTCCTTGGGGCAGT
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
  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