Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFU29_RS16425 Genome accession   NZ_CP156001
Coordinates   3705715..3706974 (+) Length   419 a.a.
NCBI ID   WP_323548209.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain bglFP 6753     
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 3698034..3708481 3705715..3706974 within 0


Gene organization within MGE regions


Location: 3698034..3708481
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU29_RS16390 (ABFU29_16365) - 3698034..3698396 (+) 363 WP_148263072.1 hypothetical protein -
  ABFU29_RS16395 (ABFU29_16370) - 3698341..3699132 (+) 792 WP_407462317.1 toxin -
  ABFU29_RS16400 (ABFU29_16375) pilB 3699315..3701048 (-) 1734 WP_323539949.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU29_RS16405 (ABFU29_16380) - 3701083..3702609 (-) 1527 WP_323541664.1 hypothetical protein -
  ABFU29_RS16410 (ABFU29_16385) - 3702579..3703208 (-) 630 WP_323548213.1 hypothetical protein -
  ABFU29_RS16415 (ABFU29_16390) - 3703219..3704730 (-) 1512 WP_407463088.1 phosphoethanolamine transferase -
  ABFU29_RS16420 (ABFU29_16395) comP 3704949..3705362 (-) 414 WP_323548210.1 pilin Machinery gene
  ABFU29_RS16425 (ABFU29_16400) pilC 3705715..3706974 (+) 1260 WP_323548209.1 type II secretion system F family protein Machinery gene
  ABFU29_RS16430 (ABFU29_16405) - 3706981..3707844 (+) 864 WP_323548208.1 A24 family peptidase -
  ABFU29_RS16435 (ABFU29_16410) coaE 3707858..3708481 (+) 624 WP_076038488.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45958.40 Da        Isoelectric Point: 10.2301

>NTDB_id=1001018 ABFU29_RS16425 WP_323548209.1 3705715..3706974(+) (pilC) [Xanthomonas campestris pv. raphani strain bglFP 6753]
MSVARSAIKKQPVDRNTSMLQTFVWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGAAGKKVTPKD
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESVSKHPVQFDELYRNLVRAGEGAGVLE
TVLDTVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLVVAVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=1001018 ABFU29_RS16425 WP_323548209.1 3705715..3706974(+) (pilC) [Xanthomonas campestris pv. raphani strain bglFP 6753]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGGTCGACCGGAACACCAGCATGCTGCAGACCTTCGTTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGGGAGCAGACAGCCCGCAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATTGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGCGGCGGGGAAGAAAGTTACCCCCAAAGAC
ATCGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCGTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGACATTGAGGGGGGATCCTCGCTCTATGAGT
CCGTCAGCAAACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTTGTCCGCGCGGGCGAAGGTGCTGGCGTTCTGGAG
ACAGTCCTCGACACGGTTGCTACCTACAAAGAAAACATTGAAGCCCTAAAGGGCAAGATCAAAAAGGCATTGTTCTACCC
TGCCATGGTGGTTGCGGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAAGAAGTATTCA
AGAGCTTCGGTGCTGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGGTAGTCGCGGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACAACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTGGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAGGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
TATGGTTATTCAAATGACTGCGATTGGCGAAGAGGCCGGCGCGCTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAAGAGGTCAATAATGCCGTGGACGCACTCAGCAGTCTACTTGAACCACTGATCATGGTGTTCATCGGCACCATCGTC
GGTGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(288-410)

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

(84-207)


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 Legionella pneumophila strain ERS1305867

53.448

96.897

0.518
  pilC Pseudomonas stutzeri DSM 10701

53.535

94.511

0.506
  pilC Acinetobacter baylyi ADP1

51.111

96.659

0.494
  pilC Acinetobacter baumannii D1279779

50.864

96.659

0.492
  pilG Neisseria gonorrhoeae MS11

43.358

95.227

0.413
  pilG Neisseria meningitidis 44/76-A

42.857

95.227

0.408
  pilC Vibrio cholerae strain A1552

40.75

95.465

0.389
  pilC Vibrio campbellii strain DS40M4

39.25

95.465

0.375

Multiple sequence alignment