Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   H5409_RS24960 Genome accession   NZ_CP060086
Coordinates   5407134..5408837 (+) Length   567 a.a.
NCBI ID   WP_003116249.1    Uniprot ID   -
Organism   Pseudomonas aeruginosa strain JNQH-PA57     
Function   power the 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 5386356..5410058 5407134..5408837 within 0


Gene organization within MGE regions


Location: 5386356..5410058
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H5409_RS24840 (H5409_24840) - 5386356..5387570 (+) 1215 WP_034069051.1 site-specific integrase -
  H5409_RS24845 (H5409_24845) - 5387572..5388114 (-) 543 WP_123809552.1 hypothetical protein -
  H5409_RS24850 (H5409_24850) - 5388258..5388458 (+) 201 WP_023082007.1 helix-turn-helix domain-containing protein -
  H5409_RS24855 (H5409_24855) - 5388455..5388871 (+) 417 WP_034054964.1 hypothetical protein -
  H5409_RS24860 (H5409_24860) - 5388864..5389097 (+) 234 WP_031653969.1 hypothetical protein -
  H5409_RS24865 (H5409_24865) - 5389094..5389342 (+) 249 WP_031653970.1 hypothetical protein -
  H5409_RS24870 (H5409_24870) - 5389339..5389644 (+) 306 WP_023109345.1 hypothetical protein -
  H5409_RS31475 - 5389647..5390084 (+) 438 WP_308416434.1 hypothetical protein -
  H5409_RS24880 (H5409_24880) - 5390123..5390590 (+) 468 WP_031629313.1 hypothetical protein -
  H5409_RS24885 (H5409_24885) - 5390597..5391550 (+) 954 WP_308416433.1 DUF3631 domain-containing protein -
  H5409_RS24890 (H5409_24890) - 5391550..5391843 (+) 294 WP_023082016.1 hypothetical protein -
  H5409_RS24895 (H5409_24895) - 5391899..5392795 (+) 897 WP_034069047.1 hypothetical protein -
  H5409_RS24900 (H5409_24900) - 5393501..5394676 (+) 1176 WP_223822176.1 DUF262 domain-containing protein -
  H5409_RS24905 (H5409_24905) - 5394687..5395514 (+) 828 WP_124157035.1 MAE_28990/MAE_18760 family HEPN-like nuclease -
  H5409_RS24910 (H5409_24910) - 5396828..5397334 (-) 507 WP_034064628.1 GNAT family N-acetyltransferase -
  H5409_RS24915 (H5409_24915) - 5398107..5398376 (+) 270 WP_225007575.1 hypothetical protein -
  H5409_RS24920 (H5409_24920) - 5398376..5398612 (+) 237 WP_003096116.1 hypothetical protein -
  H5409_RS24925 (H5409_24925) - 5398751..5398987 (-) 237 WP_071536299.1 hypothetical protein -
  H5409_RS24930 (H5409_24930) - 5399015..5401777 (-) 2763 WP_185296766.1 RHS repeat domain-containing protein -
  H5409_RS24935 (H5409_24935) - 5401792..5402940 (-) 1149 WP_172773772.1 DUF6531 domain-containing protein -
  H5409_RS24940 (H5409_24940) - 5405119..5405361 (+) 243 WP_023109353.1 hypothetical protein -
  H5409_RS24950 (H5409_24950) - 5405604..5406302 (-) 699 WP_023120877.1 hypothetical protein -
  H5409_RS24955 (H5409_24955) - 5406366..5406905 (-) 540 WP_003116248.1 pilin -
  H5409_RS24960 (H5409_24960) pilB 5407134..5408837 (+) 1704 WP_003116249.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H5409_RS24965 (H5409_24965) pilC 5408841..5410058 (+) 1218 WP_016254080.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62610.54 Da        Isoelectric Point: 5.5603

>NTDB_id=473856 H5409_RS24960 WP_003116249.1 5407134..5408837(+) (pilB) [Pseudomonas aeruginosa strain JNQH-PA57]
MNDTIQLSGLARQLVLHELLDEKAAQQAQSQAQRNKLSLVTYLVQSKLVKGQALIELAADQFGIAYCDLNSLERDSLPKD
LISEKLVRQHRVVPLWRRGNKLFVGISDPANHQAINDVQFSTGLTTEAILVEDDKLGIIIEKLFENATDSLAGLDDVDLE
GLDVGSGAGASQDDDSSAETDDAPVVRFVNKMLLDAIRGGSSDLHFEPYEKIYRVRFRTDGMLHEVAKPPIQLASRISAR
LKVMAGLDISERRKPQDGRIKMRVSKTKSIDFRVNTLPTLWGEKIVMRILDSSSAQMGIDALGYEEDQKELYLAALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTTDINISTAEDPVEINLEGINQVNVNPRQGMDFSQALRAFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLLNMGVPAFNLATSVNLIIAQRLARKLCSHCKKEHEVPKETLLHEGFP
EDRIGTFKLYSPVGCDHCKNGYKGRVGIYEVVKNTPALQRIIMEEGNSIEIAEQARKEGFNDLRTSGLLKAMQGITSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=473856 H5409_RS24960 WP_003116249.1 5407134..5408837(+) (pilB) [Pseudomonas aeruginosa strain JNQH-PA57]
ATGAACGACACAATTCAACTCAGCGGCTTGGCTCGCCAGCTCGTCCTGCATGAACTTCTCGATGAAAAGGCCGCCCAACA
GGCCCAATCGCAGGCCCAGCGCAACAAGTTGTCGCTGGTAACCTATCTGGTACAGAGCAAGCTAGTGAAAGGGCAGGCCT
TGATCGAACTGGCTGCGGATCAATTCGGTATCGCCTACTGCGACCTGAACAGCCTTGAGCGGGACAGTCTGCCCAAGGAT
CTGATCAGCGAGAAGCTGGTGCGCCAGCATCGAGTAGTTCCGTTGTGGCGACGCGGCAACAAGCTGTTCGTCGGCATCTC
CGATCCAGCCAACCACCAGGCGATTAACGATGTGCAGTTCAGCACAGGCCTGACTACTGAAGCCATCCTGGTCGAGGATG
ACAAGCTCGGCATCATCATCGAGAAACTATTCGAAAATGCCACTGACAGCCTTGCAGGACTGGACGACGTGGATCTGGAA
GGCCTGGATGTCGGTTCCGGTGCGGGCGCAAGCCAGGATGATGATTCCAGTGCAGAGACAGACGACGCCCCGGTGGTGCG
TTTCGTCAACAAAATGTTGTTGGATGCGATCAGAGGCGGCTCCTCCGACCTGCATTTCGAGCCCTATGAAAAGATTTACC
GCGTACGTTTCCGCACCGATGGCATGCTCCATGAAGTAGCCAAGCCGCCGATCCAGTTGGCCAGCCGTATTTCCGCGCGA
CTCAAGGTGATGGCCGGCCTGGATATCTCCGAACGGCGCAAGCCGCAGGACGGGCGGATCAAGATGCGCGTGTCGAAGAC
CAAGTCCATCGACTTCCGCGTCAACACCCTGCCGACCCTGTGGGGCGAGAAGATCGTGATGCGTATCCTCGATTCCTCCA
GCGCGCAGATGGGCATCGACGCCCTCGGCTACGAGGAAGACCAGAAGGAACTCTACCTGGCTGCGCTCAAGCAGCCGCAG
GGCATGATCCTGGTCACCGGGCCCACCGGCTCGGGCAAGACGGTCTCCCTGTACACCGGCCTGAACATCCTCAACACCAC
CGACATCAACATCTCCACTGCCGAAGACCCGGTGGAGATCAACTTGGAAGGCATCAACCAGGTCAACGTCAATCCGCGCC
AGGGCATGGACTTCTCCCAGGCGCTGCGCGCCTTCCTGCGCCAGGACCCGGACGTGATCATGGTCGGCGAGATTCGCGAC
CTGGAGACGGCCGAGATCGCCATCAAGGCGGCGCAGACCGGGCATATGGTGATGTCCACCCTGCACACCAACAGCGCCGC
CGAGACCCTGACCCGCCTGCTGAACATGGGCGTGCCAGCGTTCAACCTGGCGACCTCGGTGAACCTGATCATCGCCCAGC
GACTTGCGCGAAAACTCTGCTCGCACTGCAAGAAAGAGCATGAGGTACCGAAGGAAACACTCCTCCATGAAGGCTTCCCC
GAGGATCGGATCGGCACCTTCAAGCTGTATTCACCAGTAGGCTGCGACCATTGCAAGAACGGTTACAAGGGCCGTGTCGG
TATTTATGAAGTGGTTAAAAACACCCCGGCCCTGCAGCGGATTATCATGGAGGAAGGCAACTCCATCGAGATCGCCGAGC
AAGCCCGCAAAGAAGGCTTCAACGATCTGCGCACCTCAGGCCTGCTGAAAGCCATGCAGGGGATCACCAGCCTGGAGGAA
GTCAACCGCGTGACCAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(43-146)


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
  pilB Acinetobacter baumannii D1279779

57.895

100

0.582
  pilB Acinetobacter baylyi ADP1

57.27

99.471

0.57
  pilB Legionella pneumophila strain ERS1305867

55.106

100

0.552
  pilF Neisseria gonorrhoeae MS11

50.444

99.295

0.501
  pilB Vibrio parahaemolyticus RIMD 2210633

51.948

95.062

0.494
  pilB Vibrio cholerae strain A1552

50.182

97.002

0.487
  pilB Vibrio campbellii strain DS40M4

50.832

95.414

0.485
  pilF Thermus thermophilus HB27

38.584

99.647

0.384
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.189

93.474

0.376