Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACKUFS_RS27210 Genome accession   NZ_CP178532
Coordinates   6043504..6045198 (-) Length   564 a.a.
NCBI ID   WP_007251660.1    Uniprot ID   A0A8T8BWX7
Organism   Pseudomonas cannabina strain YM7930     
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 6034456..6048744 6043504..6045198 within 0


Gene organization within MGE regions


Location: 6034456..6048744
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACKUFS_RS27180 (ACKUFS_27180) tnpB 6038123..6038482 (+) 360 WP_007247726.1 IS66 family insertion sequence element accessory protein TnpB -
  ACKUFS_RS27185 (ACKUFS_27185) tnpC 6038499..6040031 (+) 1533 WP_007247725.1 IS66 family transposase -
  ACKUFS_RS27190 (ACKUFS_27190) yacG 6040584..6040793 (-) 210 WP_007251656.1 DNA gyrase inhibitor YacG -
  ACKUFS_RS27195 (ACKUFS_27195) coaE 6040790..6041413 (-) 624 WP_007251657.1 dephospho-CoA kinase -
  ACKUFS_RS27200 (ACKUFS_27200) pilD 6041410..6042282 (-) 873 WP_007251658.1 prepilin peptidase Machinery gene
  ACKUFS_RS27205 (ACKUFS_27205) pilC 6042284..6043501 (-) 1218 WP_007251659.1 type II secretion system F family protein Machinery gene
  ACKUFS_RS27210 (ACKUFS_27210) pilB 6043504..6045198 (-) 1695 WP_007251660.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACKUFS_RS27215 (ACKUFS_27215) - 6045424..6045813 (+) 390 WP_007251661.1 pilin -
  ACKUFS_RS27220 (ACKUFS_27220) - 6045978..6047285 (+) 1308 WP_080393985.1 O-antigen ligase family protein -
  ACKUFS_RS27225 (ACKUFS_27225) - 6047458..6048744 (+) 1287 WP_042913808.1 polysaccharide biosynthesis C-terminal domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62538.93 Da        Isoelectric Point: 6.3321

>NTDB_id=1089917 ACKUFS_RS27210 WP_007251660.1 6043504..6045198(-) (pilB) [Pseudomonas cannabina strain YM7930]
MTDVVLTGLAKQLVLAELLTETVAQQAYQQARRDKISLVSYLVLNKLVKSLTLAEMASDQFGVPFMDLACLDRESQPKGL
VSEKLVRQHHALPLWRRGNKLFIAISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTTAIDRFFDSDSGLGNLEDVDLGLD
IEPSSDKETSLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKLPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPHETLIKEGFPEAK
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTAELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=1089917 ACKUFS_RS27210 WP_007251660.1 6043504..6045198(-) (pilB) [Pseudomonas cannabina strain YM7930]
ATGACTGATGTTGTCCTCACTGGTTTGGCAAAACAACTGGTTCTGGCCGAGCTACTTACTGAAACTGTGGCGCAGCAAGC
GTATCAACAGGCGCGCCGTGACAAGATTTCGTTGGTTAGCTATCTGGTTCTGAACAAACTGGTCAAAAGCCTGACGCTGG
CAGAAATGGCTTCTGACCAATTTGGTGTGCCGTTCATGGACCTTGCCTGCCTGGACAGGGAGAGTCAGCCAAAGGGACTG
GTAAGTGAAAAGCTGGTCAGACAGCACCATGCCCTCCCCCTGTGGCGACGTGGCAATAAACTATTCATCGCGATTTCGGA
CCCTACCAACCACCAGGCCGTGACTGATATTCAATTCAGCACGGGCCTGAATACTGAAGCGATTCTCGTCGAAGACGACA
AGCTGACCACAGCAATTGATCGCTTTTTTGACAGTGATAGCGGTCTTGGCAATCTGGAAGATGTCGATCTGGGCCTTGAC
ATCGAGCCCTCCAGTGACAAGGAAACCTCGCTTGCTACACAAAATGATGCCGATGACGCCCCAGTGGTGCGATTCGTCAA
CAAAATGCTGATGGACGCAATCCGGTTAGGATCATCCGATCTGCACTTCGAGCCCTATGAGAAAATTTTTCGCGTGCGCT
TGCGTACAGACGGCATCCTGCATGAAGTCGCCAGACCGCCCATTCATCTGGCAAACCGTATAGCTGCGCGCTTGAAAGTC
ATGGCCAGCCTCGATATATCGGAACGGCGCAAACCGCAGGACGGTCGGGTCAAGCTGCGGGTGTCCAAAACAAAAGCCAT
CGACTTCCGTATGAACACCTTGCCCACGTTATGGGGCGAGAAGATCGTGATGCGGATCCTCGACCCGACCAGCGCCCAAA
TGGGCATTGATGCTCTGGGCTACGAGCCAGAACAAAAGGCACTGTACCTGGAAGCGCTGAAACTGCCGCAAGGCATGATT
CTTGTAACTGGCCCTACAGGTTCCGGCAAGACCGTTTCCTTATATACCGGCCTGAATATCCTCAACACCGTGGACATCAA
CATTTCCACAGCTGAAGACCCGGTGGAGATCAACCTGGAAGGCATCAATCAAGTCAACGTCAACCCGCGCCAGGGATTGG
ACTTTTCTCAGGCACTACGCGCATTTCTGCGTCAAGATCCCGACGTAATCATGGTCGGTGAGATTCGAGACCTGGAAACC
GCTGAAATTGCCATCAAGGCATCTCAGACGGGTCATATGGTGCTATCAACCCTGCACACCAACAGCGCTGCGGAAACATT
GACGCGCCTGCACCACATGGGCGTCGCAGCATTCAATATTGCAACTGCGATCAACCTGATTATTGCGCAGCGACTCGCAC
GCAAATTATGCAGCCACTGCAAGAAGGAACTCGATATCCCTCATGAGACACTGATCAAAGAAGGCTTTCCGGAGGCTAAA
ATCGGTACATTCAAGATCTATGGCCCCGTAGGCTGCGAGCATTGCAATGGCGGCTACAGAGGCCGGGTCGGCATCTACGA
GGTGGTCAAGAAAACAGCAGAACTGGAGCGCATCATCATGGAAGAGGGCAACTCGCTGGAAATATCCAGGCAGATGCGTA
AGGACGGCTTCAATGACCTGCGCACCTCAGGCTTGTCAAAAGCCATGCAGGGCATAACCAGCCTTGAAGAAGTCAATCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(43-147)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

58.082

99.823

0.58
  pilB Acinetobacter baylyi ADP1

56.762

99.645

0.566
  pilB Legionella pneumophila strain ERS1305867

55.752

100

0.559
  pilB Vibrio cholerae strain A1552

51.246

99.645

0.511
  pilB Vibrio campbellii strain DS40M4

49.291

100

0.493
  pilB Vibrio parahaemolyticus RIMD 2210633

50.455

97.34

0.491
  pilF Neisseria gonorrhoeae MS11

48.663

99.468

0.484
  pilF Thermus thermophilus HB27

38.693

100

0.388

Multiple sequence alignment