Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LTQ54_RS11445 Genome accession   NZ_CP089203
Coordinates   2460628..2461857 (-) Length   409 a.a.
NCBI ID   WP_243578787.1    Uniprot ID   -
Organism   Vibrio splendidus strain 2_C04b     
Function   assembly of type IV pilus (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 2455939..2473350 2460628..2461857 within 0


Gene organization within MGE regions


Location: 2455939..2473350
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LTQ54_RS11410 (LTQ54_11410) rimM 2455939..2456493 (+) 555 WP_004735510.1 ribosome maturation factor RimM -
  LTQ54_RS11415 (LTQ54_11415) trmD 2456520..2457260 (+) 741 WP_004735512.1 tRNA (guanosine(37)-N1)-methyltransferase TrmD -
  LTQ54_RS11420 (LTQ54_11420) rplS 2457320..2457673 (+) 354 WP_004735514.1 50S ribosomal protein L19 -
  LTQ54_RS11425 (LTQ54_11425) yacG 2458028..2458225 (-) 198 WP_004735515.1 DNA gyrase inhibitor YacG -
  LTQ54_RS11430 (LTQ54_11430) zapD 2458307..2459047 (-) 741 WP_017087400.1 cell division protein ZapD -
  LTQ54_RS11435 (LTQ54_11435) coaE 2459074..2459688 (-) 615 WP_017088713.1 dephospho-CoA kinase -
  LTQ54_RS11440 (LTQ54_11440) pilD 2459691..2460560 (-) 870 WP_004735439.1 A24 family peptidase Machinery gene
  LTQ54_RS11445 (LTQ54_11445) pilC 2460628..2461857 (-) 1230 WP_243578787.1 type II secretion system F family protein Machinery gene
  LTQ54_RS11450 (LTQ54_11450) pilB 2461872..2463557 (-) 1686 WP_243578788.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LTQ54_RS11455 (LTQ54_11455) pilA 2463557..2463985 (-) 429 WP_243578789.1 pilin Machinery gene
  LTQ54_RS11460 (LTQ54_11460) nadC 2464241..2465131 (-) 891 WP_017079961.1 carboxylating nicotinate-nucleotide diphosphorylase -
  LTQ54_RS11465 (LTQ54_11465) ampD 2465215..2465814 (+) 600 WP_054541864.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  LTQ54_RS11470 (LTQ54_11470) pdhR 2466295..2467056 (+) 762 WP_004735446.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  LTQ54_RS11475 (LTQ54_11475) aceE 2467119..2469782 (+) 2664 WP_004735447.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  LTQ54_RS11480 (LTQ54_11480) aceF 2469809..2471680 (+) 1872 WP_243578790.1 pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase -
  LTQ54_RS11485 (LTQ54_11485) lpdA 2471923..2473350 (+) 1428 WP_004735450.1 dihydrolipoyl dehydrogenase -

Sequence

Protein


Download         Length: 409 a.a.        Molecular weight: 45352.30 Da        Isoelectric Point: 10.2353

>NTDB_id=635715 LTQ54_RS11445 WP_243578787.1 2460628..2461857(-) (pilC) [Vibrio splendidus strain 2_C04b]
MSSKSKQSQLKNYHWKGINSSGKKVSGQSLALTELEVREKLKEQHIQIKKIKKKSISAITRLTHRVKAKDITILTRQLAT
MLATGVPIVQAIKLVSDNHRKAEMKSILSHICKGVEAGTPISKAMRTASRHFDDLYTDLVATGELSGNLAQVFERLATYR
EKSEQLKSKVIKALIYPAMVVAVALTVSYLMLTMVIPEFESMFSGFGADLPWFTQQVLYLSHWMQAYSFYSAIGIGLLIL
SFQQLRQRSYSIRLSTSRLGLRFPILGAVLTKASIAKFSRTLSTSFSSGIPILTSLKTTAKTAGNLHYESAIIEVHRETA
AGMPMYIAMRNTNAFPEMVLQMVMIGEESGNLDDMLNKVASIYEFEVDNTVDNLGKILEPLIIVFLGTVVGGLVVAMYLP
IFNLMSVLG

Nucleotide


Download         Length: 1230 bp        

>NTDB_id=635715 LTQ54_RS11445 WP_243578787.1 2460628..2461857(-) (pilC) [Vibrio splendidus strain 2_C04b]
ATGAGTAGTAAAAGCAAACAATCACAACTAAAAAACTACCATTGGAAGGGAATTAATAGTTCTGGCAAGAAAGTATCAGG
GCAGAGCTTAGCGCTCACCGAATTAGAAGTGCGGGAGAAGCTCAAAGAACAACACATTCAGATTAAGAAAATCAAAAAGA
AAAGCATCTCAGCAATCACTCGTTTAACCCATCGAGTCAAAGCCAAAGACATCACTATTTTGACTCGCCAACTGGCTACC
ATGTTGGCGACTGGTGTGCCGATCGTGCAAGCCATCAAGCTGGTGTCAGACAATCACCGCAAAGCAGAAATGAAATCGAT
TTTATCGCACATCTGCAAAGGTGTAGAAGCCGGCACGCCAATCTCAAAAGCGATGCGAACCGCAAGCCGCCACTTTGATG
ACCTCTATACCGACTTGGTCGCGACAGGCGAACTCTCCGGCAACCTTGCACAAGTATTTGAACGCTTGGCGACCTATCGT
GAAAAGAGTGAGCAACTAAAATCCAAGGTTATAAAAGCTCTCATCTACCCAGCAATGGTTGTAGCGGTCGCCCTTACCGT
TTCCTACTTAATGCTGACCATGGTCATTCCTGAATTTGAATCGATGTTTTCTGGTTTCGGAGCAGACTTACCTTGGTTCA
CCCAGCAAGTGCTTTATCTTTCCCATTGGATGCAGGCTTATAGTTTCTATAGTGCCATCGGTATTGGTTTATTAATTCTG
TCTTTTCAGCAACTGCGTCAGCGATCCTACTCGATTCGACTTTCAACCAGTCGTCTTGGCTTACGCTTTCCTATCTTGGG
TGCTGTTCTCACCAAGGCATCGATTGCAAAGTTCAGCCGAACACTTTCAACCAGTTTCAGTTCTGGGATTCCCATCTTAA
CCAGCCTTAAAACAACGGCTAAAACCGCAGGCAACCTGCATTATGAATCGGCCATCATCGAGGTTCACCGTGAAACTGCC
GCAGGCATGCCGATGTACATTGCAATGCGCAATACCAATGCCTTCCCGGAGATGGTTTTGCAGATGGTGATGATAGGTGA
AGAGTCAGGAAATCTTGATGATATGCTCAATAAAGTCGCTTCCATTTACGAGTTCGAAGTAGACAACACCGTCGATAACC
TAGGTAAGATTCTAGAGCCACTGATCATCGTATTTTTAGGCACCGTAGTTGGTGGACTTGTTGTCGCGATGTACTTACCG
ATCTTTAATCTTATGAGTGTGTTAGGATAG

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(75-197)

Type II secretion system (T2SS), protein F (T2SSF)

(278-400)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

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 cholerae strain A1552

81.25

97.8

0.795
  pilC Vibrio campbellii strain DS40M4

74.631

99.267

0.741
  pilC Acinetobacter baylyi ADP1

42.543

100

0.425
  pilC Acinetobacter baumannii D1279779

42.574

98.778

0.421
  pilC Legionella pneumophila strain ERS1305867

42.105

97.555

0.411
  pilG Neisseria gonorrhoeae MS11

41.542

98.289

0.408
  pilG Neisseria meningitidis 44/76-A

41.294

98.289

0.406
  pilC Pseudomonas stutzeri DSM 10701

40.594

98.778

0.401