Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilE   Type   Machinery gene
Locus tag   LRK55_RS03635 Genome accession   NZ_CP088925
Coordinates   767355..767795 (+) Length   146 a.a.
NCBI ID   WP_008438605.1    Uniprot ID   -
Organism   Rhodanobacter denitrificans strain FW104-MT042     
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 764350..788977 767355..767795 within 0


Gene organization within MGE regions


Location: 764350..788977
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRK55_RS03625 (LRK55_03625) - 764350..766356 (+) 2007 WP_008438608.1 acyltransferase family protein -
  LRK55_RS03630 (LRK55_03630) - 766569..767012 (+) 444 WP_008438606.1 pilin -
  LRK55_RS03635 (LRK55_03635) pilE 767355..767795 (+) 441 WP_008438605.1 pilin Machinery gene
  LRK55_RS03640 (LRK55_03640) - 767860..769872 (+) 2013 WP_039954252.1 hypothetical protein -
  LRK55_RS03645 (LRK55_03645) - 769869..771863 (+) 1995 WP_008438601.1 hypothetical protein -
  LRK55_RS03650 (LRK55_03650) gmd 771942..773051 (+) 1110 WP_008438600.1 GDP-mannose 4,6-dehydratase -
  LRK55_RS03655 (LRK55_03655) - 773048..774010 (+) 963 WP_008438599.1 GDP-L-fucose synthase -
  LRK55_RS03660 (LRK55_03660) - 774007..774918 (+) 912 WP_008438598.1 hypothetical protein -
  LRK55_RS03665 (LRK55_03665) - 774918..776282 (+) 1365 WP_008438597.1 polysaccharide biosynthesis protein -
  LRK55_RS03670 (LRK55_03670) - 776306..777316 (-) 1011 WP_008438596.1 GDP-mannose 4,6-dehydratase -
  LRK55_RS03675 (LRK55_03675) - 777316..778578 (-) 1263 WP_008438595.1 class I SAM-dependent methyltransferase -
  LRK55_RS03680 (LRK55_03680) - 778575..779603 (-) 1029 WP_008438594.1 glycosyltransferase family 2 protein -
  LRK55_RS03685 (LRK55_03685) - 779851..780882 (+) 1032 WP_008438593.1 glycosyltransferase -
  LRK55_RS03690 (LRK55_03690) - 780902..781636 (-) 735 WP_008438592.1 class I SAM-dependent methyltransferase -
  LRK55_RS03695 (LRK55_03695) - 781633..782886 (-) 1254 WP_008438590.1 glycosyltransferase family 4 protein -
  LRK55_RS03700 (LRK55_03700) - 782879..783733 (-) 855 WP_008438588.1 glycosyltransferase family 2 protein -
  LRK55_RS03705 (LRK55_03705) - 784024..784419 (-) 396 WP_007513922.1 type II toxin-antitoxin system VapC family toxin -
  LRK55_RS03710 (LRK55_03710) - 784416..784658 (-) 243 WP_007513924.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  LRK55_RS03715 (LRK55_03715) pilB 785292..787016 (+) 1725 WP_007513926.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LRK55_RS03720 (LRK55_03720) pilC 787159..788430 (+) 1272 WP_008438585.1 type II secretion system F family protein Machinery gene
  LRK55_RS03725 (LRK55_03725) - 788579..788977 (+) 399 WP_008438584.1 endonuclease domain-containing protein -

Sequence

Protein


Download         Length: 146 a.a.        Molecular weight: 15302.80 Da        Isoelectric Point: 10.0541

>NTDB_id=634027 LRK55_RS03635 WP_008438605.1 767355..767795(+) (pilE) [Rhodanobacter denitrificans strain FW104-MT042]
MKKMQKGFTLIELMIVVAIIAILAAIAIPAYQDYLIRTQVSEGAVLTDGAKTAVAEFYSNRGDLTNAKNASIGLAQAASI
KGQYVSQVDVAGGIITASFAGPKANKAISTGPKTFVLSPVTSAGSISWVCTRSTVDQKYLPTSCRK

Nucleotide


Download         Length: 441 bp        

>NTDB_id=634027 LRK55_RS03635 WP_008438605.1 767355..767795(+) (pilE) [Rhodanobacter denitrificans strain FW104-MT042]
ATGAAGAAGATGCAGAAGGGCTTCACCCTGATCGAACTGATGATCGTGGTTGCGATCATCGCGATCCTCGCCGCCATCGC
CATCCCGGCCTACCAGGACTATCTGATCCGCACGCAGGTGTCCGAGGGCGCTGTGCTGACCGACGGCGCCAAGACCGCTG
TTGCCGAGTTCTACTCGAACCGCGGCGACCTAACCAATGCCAAGAATGCCAGCATCGGTTTAGCGCAGGCCGCCAGCATC
AAGGGACAGTACGTCAGCCAAGTTGACGTTGCAGGCGGCATCATTACCGCTAGTTTCGCCGGTCCGAAGGCGAACAAGGC
GATCTCTACCGGTCCCAAGACTTTCGTACTTTCGCCTGTTACTTCCGCCGGCTCGATCAGTTGGGTCTGCACTAGGTCAA
CAGTCGATCAGAAGTATCTGCCCACTTCGTGCCGTAAGTAA

Domains

Predicted by InterproScan.

Prokaryotic N-terminal methylation motif (N_methyl)

(3-27)

Pilin (bacterial filament) (Pilin)

(37-145)


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

45.963

100

0.507
  pilE Neisseria gonorrhoeae MS11

43.21

100

0.479
  pilE Neisseria elongata subsp. glycolytica ATCC 29315

35.45

100

0.459
  pilA Ralstonia pseudosolanacearum GMI1000

39.412

100

0.459
  pilA2 Legionella pneumophila str. Paris

46.853

97.945

0.459
  pilA2 Legionella pneumophila strain ERS1305867

45.775

97.26

0.445
  pilA Pseudomonas aeruginosa PAK

39.623

100

0.432
  pilA/pilA1 Eikenella corrodens VA1

40.127

100

0.432
  comP Acinetobacter baylyi ADP1

41.497

100

0.418
  pilA/pilAI Pseudomonas stutzeri DSM 10701

38.816

100

0.404
  pilA Acinetobacter baumannii strain A118

38.356

100

0.384