Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilE   Type   Machinery gene
Locus tag   LRK54_RS03880 Genome accession   NZ_CP088922
Coordinates   816877..817317 (+) Length   146 a.a.
NCBI ID   WP_027490743.1    Uniprot ID   -
Organism   Rhodanobacter denitrificans strain FW104-10B01     
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 817384..834893 816877..817317 flank 67


Gene organization within MGE regions


Location: 816877..834893
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRK54_RS03880 (LRK54_03880) pilE 816877..817317 (+) 441 WP_027490743.1 pilin Machinery gene
  LRK54_RS03885 (LRK54_03885) - 817384..819396 (+) 2013 WP_027490744.1 hypothetical protein -
  LRK54_RS03890 (LRK54_03890) - 819396..821360 (+) 1965 WP_027490745.1 hypothetical protein -
  LRK54_RS03895 (LRK54_03895) - 821760..823007 (+) 1248 WP_027490746.1 lipopolysaccharide biosynthesis protein -
  LRK54_RS03900 (LRK54_03900) - 823504..824361 (+) 858 WP_196802027.1 class I SAM-dependent methyltransferase -
  LRK54_RS03905 (LRK54_03905) - 824358..825365 (+) 1008 WP_196802028.1 glycosyltransferase -
  LRK54_RS03910 (LRK54_03910) - 825425..826324 (-) 900 WP_196802029.1 glycosyltransferase -
  LRK54_RS03915 (LRK54_03915) - 826308..827258 (-) 951 WP_027490747.1 glycosyltransferase family 2 protein -
  LRK54_RS03920 (LRK54_03920) - 827255..827551 (-) 297 WP_027490748.1 hypothetical protein -
  LRK54_RS03925 (LRK54_03925) - 827548..828801 (-) 1254 WP_027490749.1 glycosyltransferase family 4 protein -
  LRK54_RS03930 (LRK54_03930) - 828794..829648 (-) 855 WP_027490750.1 glycosyltransferase family 2 protein -
  LRK54_RS03935 (LRK54_03935) - 829940..830335 (-) 396 WP_007513922.1 type II toxin-antitoxin system VapC family toxin -
  LRK54_RS03940 (LRK54_03940) - 830332..830574 (-) 243 WP_007513924.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  LRK54_RS03945 (LRK54_03945) pilB 831208..832932 (+) 1725 WP_027490751.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LRK54_RS03950 (LRK54_03950) pilC 833075..834346 (+) 1272 WP_027490752.1 type II secretion system F family protein Machinery gene
  LRK54_RS03955 (LRK54_03955) - 834495..834893 (+) 399 WP_008438584.1 endonuclease domain-containing protein -

Sequence

Protein


Download         Length: 146 a.a.        Molecular weight: 15347.84 Da        Isoelectric Point: 10.0547

>NTDB_id=633983 LRK54_RS03880 WP_027490743.1 816877..817317(+) (pilE) [Rhodanobacter denitrificans strain FW104-10B01]
MKKMQKGFTLIELMIVVAIIAILAAIAIPAYQDYLIRTQVSEGAVLTDGAKTAVAEFYSNRGALTNAKNASIGLAQSQSI
NGQYVSKVEVVGGVITASFGGPKANVTALPSSKTFVLSPITQSGSIKWTCTGSTVDQKYLPTSCRK

Nucleotide


Download         Length: 441 bp        

>NTDB_id=633983 LRK54_RS03880 WP_027490743.1 816877..817317(+) (pilE) [Rhodanobacter denitrificans strain FW104-10B01]
ATGAAGAAGATGCAGAAGGGCTTCACCCTGATCGAACTGATGATCGTGGTCGCGATCATCGCGATCCTCGCCGCGATCGC
CATCCCTGCCTACCAGGATTACCTGATCCGTACGCAGGTGTCCGAGGGCGCGGTGCTGACCGACGGCGCCAAGACGGCCG
TTGCCGAGTTCTACTCGAACCGCGGCGCCCTGACCAATGCCAAGAACGCCAGTATCGGTTTGGCGCAATCCCAAAGTATC
AACGGACAGTACGTCAGCAAAGTTGAGGTTGTGGGTGGCGTCATCACTGCCTCGTTCGGTGGCCCGAAGGCGAACGTGAC
AGCCCTGCCCAGCTCCAAGACTTTCGTGCTCTCCCCCATCACCCAGTCCGGGTCGATCAAGTGGACCTGCACTGGGTCGA
CGGTCGATCAGAAGTACCTGCCAACTTCGTGCCGCAAGTAA

Domains

Predicted by InterproScan.

Pilin (bacterial filament) (Pilin)

(37-145)

Prokaryotic N-terminal methylation motif (N_methyl)

(3-27)


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
  pilE Neisseria gonorrhoeae strain FA1090

45.342

100

0.5
  pilE Neisseria gonorrhoeae MS11

43.21

100

0.479
  pilA2 Legionella pneumophila strain ERS1305867

47.917

98.63

0.473
  pilA2 Legionella pneumophila str. Paris

48.252

97.945

0.473
  pilA Ralstonia pseudosolanacearum GMI1000

40.828

100

0.473
  pilE Neisseria elongata subsp. glycolytica ATCC 29315

34.737

100

0.452
  pilA/pilA1 Eikenella corrodens VA1

40.506

100

0.438
  comP Acinetobacter baylyi ADP1

43.537

100

0.438
  pilA/pilAI Pseudomonas stutzeri DSM 10701

38.255

100

0.39
  pilA Acinetobacter baumannii strain A118

37.931

99.315

0.377
  pilA Pseudomonas aeruginosa PAK

34.615

100

0.37