Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   PKO50_RS25935 Genome accession   NZ_CP116775
Coordinates   5687304..5688521 (+) Length   405 a.a.
NCBI ID   WP_275627640.1    Uniprot ID   -
Organism   Pseudomonas sp. 273     
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 5672882..5687300 5687304..5688521 flank 4


Gene organization within MGE regions


Location: 5672882..5688521
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PKO50_RS25850 - 5672882..5673557 (+) 676 Protein_5116 HipA domain-containing protein -
  PKO50_RS25855 - 5673551..5673766 (+) 216 Protein_5117 nicotinate-nucleotide diphosphorylase (carboxylating) -
  PKO50_RS25860 - 5673779..5674111 (-) 333 WP_109931574.1 DUF5615 family PIN-like protein -
  PKO50_RS25865 - 5674108..5674335 (-) 228 WP_109931572.1 DUF433 domain-containing protein -
  PKO50_RS25870 - 5674490..5674780 (-) 291 Protein_5120 type II toxin-antitoxin system HicB family antitoxin -
  PKO50_RS25875 - 5674777..5675850 (-) 1074 WP_275627630.1 diguanylate cyclase -
  PKO50_RS25885 - 5676270..5677574 (+) 1305 WP_089390525.1 nucleotide sugar dehydrogenase -
  PKO50_RS25890 - 5677585..5678277 (+) 693 WP_275627631.1 class I SAM-dependent methyltransferase -
  PKO50_RS25895 - 5678274..5678591 (+) 318 WP_275627632.1 hypothetical protein -
  PKO50_RS25900 - 5678615..5679283 (+) 669 WP_275627633.1 hypothetical protein -
  PKO50_RS25905 - 5680224..5681048 (-) 825 WP_275627634.1 hypothetical protein -
  PKO50_RS25910 - 5681045..5682133 (-) 1089 WP_275627635.1 UDP-N-acetylglucosamine 2-epimerase -
  PKO50_RS25915 - 5682135..5683010 (-) 876 WP_275627636.1 glycosyltransferase family 2 protein -
  PKO50_RS25920 - 5683011..5684909 (-) 1899 WP_275627637.1 hypothetical protein -
  PKO50_RS25925 pilA/pilAI 5684969..5685370 (-) 402 WP_275627638.1 pilin Machinery gene
  PKO50_RS25930 pilB 5685597..5687300 (+) 1704 WP_275627639.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PKO50_RS25935 pilC 5687304..5688521 (+) 1218 WP_275627640.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 405 a.a.        Molecular weight: 44171.88 Da        Isoelectric Point: 9.8311

>NTDB_id=780226 PKO50_RS25935 WP_275627640.1 5687304..5688521(+) (pilC) [Pseudomonas sp. 273]
MAEKAVKISVFTWEGTDRKGGKVKGELSGTNTALVKAQLRKQGINPTKVRKKGISLLSKGKSIKPMDIALFTRQMATMMG
SGVPLLQSFDIIAEGFDNPNMRKLVEDIKQEVAAGNSLANSLRKKPQYFDNLYCNLVDAGEQSGALETLLDRVATYKEKT
ESLKAKIKKAMTYPIAVIIVAIIVSSILLIKVVPQFQSVFQGFGAELPAFTLFVIHISEALQSWWFVVIIAIFCIGLSFR
EAYRRSEKFRDSVDRLLLKTPVIGMILYKSAVARYARTLATTFAAGVPLVEALDSVAGATGNVVFRNAVTKIKQDVSSGT
QLNFSMRTTGIFPSMAIQMAAIGEESGSLDSMLDKVATFYEEEVDNAVDNLTTLMEPLIMAVLGVLVGGLIIAMYLPIFQ
LGSVV

Nucleotide


Download         Length: 1218 bp        

>NTDB_id=780226 PKO50_RS25935 WP_275627640.1 5687304..5688521(+) (pilC) [Pseudomonas sp. 273]
ATGGCGGAAAAAGCAGTGAAGATAAGCGTCTTTACCTGGGAGGGTACGGACCGCAAGGGTGGGAAAGTAAAAGGGGAGCT
TTCCGGTACCAATACCGCGCTGGTCAAGGCGCAACTGCGCAAGCAGGGTATCAACCCGACCAAGGTACGCAAAAAAGGCA
TTTCGCTGCTGAGCAAGGGCAAAAGCATCAAGCCCATGGACATAGCTCTCTTCACTCGGCAGATGGCTACCATGATGGGT
TCCGGTGTCCCACTGCTGCAGTCCTTTGATATTATCGCCGAAGGCTTCGACAATCCCAATATGAGAAAACTGGTCGAAGA
TATCAAGCAGGAAGTGGCGGCCGGTAACAGCCTTGCCAACTCGCTGCGCAAGAAACCGCAATACTTCGACAATCTCTACT
GTAACTTAGTCGATGCTGGCGAACAGTCCGGCGCATTAGAAACTCTGTTGGACCGCGTCGCCACCTATAAAGAAAAAACC
GAGTCATTGAAAGCCAAGATCAAGAAAGCTATGACTTACCCGATCGCAGTTATTATTGTTGCGATCATCGTTTCATCCAT
TCTGCTGATCAAGGTAGTCCCACAATTCCAATCTGTATTCCAAGGCTTTGGAGCTGAACTTCCGGCATTCACTCTCTTCG
TTATTCATATCTCAGAAGCCCTACAGTCTTGGTGGTTTGTAGTTATAATTGCTATTTTTTGTATCGGTTTGTCATTTCGT
GAGGCGTATAGGCGCTCCGAGAAATTCAGGGACTCCGTAGATCGTTTGCTATTAAAAACCCCTGTGATCGGCATGATTCT
TTACAAATCCGCCGTTGCGCGTTATGCCCGTACACTGGCCACAACCTTTGCTGCCGGGGTGCCTCTTGTAGAGGCTTTAG
ACTCGGTTGCTGGCGCCACAGGTAATGTGGTGTTTCGAAATGCCGTCACGAAGATCAAACAGGACGTGTCATCGGGTACT
CAATTGAACTTCTCCATGCGAACTACGGGAATATTCCCCAGTATGGCCATACAAATGGCTGCAATTGGTGAAGAGTCGGG
TTCCCTAGACTCCATGCTGGATAAAGTAGCGACTTTTTACGAAGAAGAAGTCGACAATGCTGTAGACAACCTCACAACGT
TGATGGAACCACTGATCATGGCTGTCCTCGGCGTACTGGTCGGCGGCCTGATCATCGCCATGTACCTCCCCATCTTCCAA
CTGGGCTCCGTCGTCTAA

Domains

Predicted by InterproScan.

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

(71-194)

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

(276-397)


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 Pseudomonas stutzeri DSM 10701

79.753

100

0.798
  pilC Acinetobacter baumannii D1279779

61.481

100

0.615
  pilC Acinetobacter baylyi ADP1

60.099

100

0.602
  pilC Legionella pneumophila strain ERS1305867

55.303

97.778

0.541
  pilG Neisseria meningitidis 44/76-A

45.707

97.778

0.447
  pilG Neisseria gonorrhoeae MS11

45.455

97.778

0.444
  pilC Vibrio cholerae strain A1552

42.26

100

0.425
  pilC Vibrio campbellii strain DS40M4

39.901

100

0.4
  pilC Thermus thermophilus HB27

37.469

99.506

0.373