Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   VP_RS12245 Genome accession   NC_004603
Coordinates   2665373..2666596 (+) Length   407 a.a.
NCBI ID   WP_005479682.1    Uniprot ID   Q87LT6
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2660373..2671596
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS12225 (VP2521) ampD 2661441..2661992 (-) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VP_RS12230 (VP2522) nadC 2662085..2662972 (+) 888 WP_005479699.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VP_RS12235 (VP2523) pilA 2663235..2663654 (+) 420 WP_005479693.1 pilin Machinery gene
  VP_RS12240 (VP2524) pilB 2663664..2665349 (+) 1686 WP_005479695.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VP_RS12245 (VP2525) pilC 2665373..2666596 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  VP_RS12250 (VP2526) pilD 2666661..2667530 (+) 870 WP_005490359.1 A24 family peptidase Machinery gene
  VP_RS12255 (VP2527) coaE 2667531..2668145 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  VP_RS12260 (VP2528) zapD 2668173..2668913 (+) 741 WP_005480890.1 cell division protein ZapD -
  VP_RS12265 (VP2529) yacG 2668982..2669176 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  VP_RS12270 (VP2530) rplS 2669585..2669938 (-) 354 WP_005462554.1 50S ribosomal protein L19 -
  VP_RS12275 (VP2531) trmD 2669980..2670723 (-) 744 WP_005462562.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  VP_RS12280 (VP2532) rimM 2670751..2671299 (-) 549 WP_005462552.1 ribosome maturation factor RimM -
  VP_RS12285 (VP2533) rpsP 2671328..2671576 (-) 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=22752 VP_RS12245 WP_005479682.1 2665373..2666596(+) (pilC) [Vibrio parahaemolyticus RIMD 2210633]
MKTTTPQLKNFRWKGVNSSGKKTSGQTLAMSEIEVRERLDAQHIKIKKLKKSSISFLTKLSHRVKGKDITVFTRQISTML
VTGVPLVQALKLVSDNHKKAEMKSILMSVTRAVEAGTPMSKAMRTASNHFDPLYTDLIATGEQSGNLAEVFERLATYREK
NEQLRAKVIKALIYPAMVILVALGVSFIMLTKVIPEFEKMFVGFGAELPWFTRQVLDLSAWTQNWSPFIALGSISVFISA
RVLSKRSDSFRLMLNRSVLKFPVLGAVLSKAAIAKFSRTLATSFTAGIPILTSLKTTSKTSGNMHYQLAIEEVYRDTAAG
MPMYVAMRNCNVFPELVLQMVMIGEESGRLDDMLNKVATIYEFEVDNTVDNLSKILEPLIIVFLGIVVGGLVTAMYLPIF
NLMSVLG

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=22752 VP_RS12245 WP_005479682.1 2665373..2666596(+) (pilC) [Vibrio parahaemolyticus RIMD 2210633]
ATGAAAACTACGACACCACAATTAAAGAACTTCCGTTGGAAAGGCGTCAACAGCTCAGGGAAAAAGACCTCTGGTCAAAC
TCTGGCAATGAGCGAAATCGAAGTACGAGAGCGCTTAGATGCCCAGCACATCAAAATCAAAAAGCTAAAGAAAAGCAGCA
TCTCTTTTTTGACCAAACTTAGCCATCGCGTAAAAGGAAAAGACATCACGGTTTTCACTCGTCAAATCTCAACGATGCTA
GTAACCGGTGTGCCGCTAGTACAAGCATTGAAATTGGTCTCTGATAACCACAAAAAAGCGGAAATGAAATCCATTTTGAT
GAGTGTAACTCGGGCTGTTGAAGCGGGTACGCCGATGTCCAAAGCGATGCGTACCGCCAGCAACCATTTTGACCCGCTAT
ATACCGACCTGATTGCGACAGGAGAACAATCGGGCAACTTAGCCGAAGTGTTCGAACGCTTAGCTACCTACAGGGAAAAA
AATGAGCAGCTTAGAGCCAAAGTGATCAAGGCTCTAATATATCCAGCCATGGTTATTCTAGTTGCACTGGGAGTATCGTT
TATCATGCTAACCAAGGTCATTCCCGAGTTTGAAAAAATGTTTGTTGGCTTTGGCGCTGAATTGCCATGGTTTACAAGGC
AAGTCTTAGATCTTTCCGCTTGGACACAAAACTGGAGCCCATTTATCGCACTTGGCTCCATCAGTGTATTTATCTCCGCG
AGAGTACTCTCTAAGCGTTCAGATTCTTTTCGCTTAATGCTCAACCGCTCTGTGCTTAAGTTTCCAGTCCTTGGGGCAGT
TTTATCGAAAGCCGCTATCGCAAAATTTAGTCGAACCCTCGCTACGAGCTTTACGGCGGGCATTCCGATTTTAACCAGTT
TAAAAACCACCTCGAAAACGTCCGGAAATATGCATTATCAATTGGCTATCGAAGAGGTTTATCGCGATACCGCAGCAGGA
ATGCCGATGTATGTTGCAATGCGCAATTGCAACGTGTTCCCTGAGTTGGTGCTGCAAATGGTTATGATCGGCGAAGAATC
CGGCCGACTTGACGATATGCTCAATAAAGTCGCCACAATTTACGAGTTTGAAGTGGACAACACCGTCGATAACCTCAGTA
AAATCTTAGAACCATTAATTATCGTTTTTTTAGGTATCGTTGTCGGTGGCCTGGTCACAGCAATGTACTTGCCAATCTTT
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