Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   R1T29_RS03140 Genome accession   NZ_CP136903
Coordinates   637967..639190 (-) Length   407 a.a.
NCBI ID   WP_005479682.1    Uniprot ID   Q87LT6
Organism   Vibrio parahaemolyticus strain X1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 632967..644190
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R1T29_RS03100 (R1T29_03100) rpsP 633050..633298 (+) 249 WP_005379962.1 30S ribosomal protein S16 -
  R1T29_RS03105 (R1T29_03105) rimM 633327..633875 (+) 549 WP_005462552.1 ribosome maturation factor RimM -
  R1T29_RS03110 (R1T29_03110) trmD 633903..634646 (+) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  R1T29_RS03115 (R1T29_03115) rplS 634688..635041 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  R1T29_RS03120 (R1T29_03120) yacG 635387..635581 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  R1T29_RS03125 (R1T29_03125) zapD 635650..636390 (-) 741 WP_023624252.1 cell division protein ZapD -
  R1T29_RS03130 (R1T29_03130) coaE 636418..637032 (-) 615 WP_203503821.1 dephospho-CoA kinase -
  R1T29_RS03135 (R1T29_03135) pilD 637033..637902 (-) 870 WP_025552578.1 A24 family peptidase Machinery gene
  R1T29_RS03140 (R1T29_03140) pilC 637967..639190 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  R1T29_RS03145 (R1T29_03145) pilB 639214..640899 (-) 1686 WP_203503823.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R1T29_RS03150 (R1T29_03150) pilA 640900..641313 (-) 414 WP_029831396.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  R1T29_RS03155 (R1T29_03155) nadC 641576..642463 (-) 888 WP_029798874.1 carboxylating nicotinate-nucleotide diphosphorylase -
  R1T29_RS03160 (R1T29_03160) ampD 642556..643107 (+) 552 WP_203503996.1 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=893291 R1T29_RS03140 WP_005479682.1 637967..639190(-) (pilC) [Vibrio parahaemolyticus strain X1]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=893291 R1T29_RS03140 WP_005479682.1 637967..639190(-) (pilC) [Vibrio parahaemolyticus strain X1]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGAAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTA
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGCAACCATTTTGACCCGCTAT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCTACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGCTTAATGCTCAACCGCTCTGTGCTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACCCTCGCTACGAGCTTTACGGCGGGCATTCCGATTTTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTCCCTGAGTTGGTGCTGCAAATGGTTATGATCGGCGAAGAATC
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