Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   B5U27_RS04575 Genome accession   NZ_CP020351
Coordinates   965465..967159 (-) Length   564 a.a.
NCBI ID   WP_005745482.1    Uniprot ID   A0AAD0PUM4
Organism   Pseudomonas amygdali pv. lachrymans strain NM002     
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)
IScluster/Tn 968117..970651 965465..967159 flank 958


Gene organization within MGE regions


Location: 965465..970651
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  B5U27_RS04575 (B5U27_04575) pilB 965465..967159 (-) 1695 WP_005745482.1 type IV-A pilus assembly ATPase PilB Machinery gene
  B5U27_RS04580 (B5U27_04580) - 967385..967771 (+) 387 WP_005745483.1 pilin -
  B5U27_RS04585 (B5U27_04585) - 968117..969094 (+) 978 WP_007247761.1 IS5 family transposase -
  B5U27_RS04590 (B5U27_04590) - 969638..970630 (-) 993 WP_328588872.1 IS30 family transposase -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62507.73 Da        Isoelectric Point: 6.2105

>NTDB_id=221583 B5U27_RS04575 WP_005745482.1 965465..967159(-) (pilB) [Pseudomonas amygdali pv. lachrymans strain NM002]
MTDAVLTGLAKQLVHAELLTESVAQQAYQQARRDKISLVSYLVQSKLVKSLTLAEMASDQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTIAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETSLATQSDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIQEGFPEEK
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=221583 B5U27_RS04575 WP_005745482.1 965465..967159(-) (pilB) [Pseudomonas amygdali pv. lachrymans strain NM002]
ATGACTGATGCTGTCCTCACTGGTTTGGCCAAACAGTTGGTCCACGCCGAGCTACTTACCGAATCTGTTGCGCAGCAAGC
GTATCAGCAGGCGCGCCGTGACAAGATTTCGTTGGTGAGCTATCTGGTCCAGAGCAAATTGGTCAAAAGCCTGACGCTGG
CAGAAATGGCTTCCGACCAGTTTGGCGTGCCATTCATGGACCTTGCCAGCCTGGACAAAGAAAGCCAGCCTAAAGGCCTG
GTGAGTGAAAAGCTGGTTCGACAACATCACGCACTGCCGCTGTGGCGGCGCGGCAATAAACTGTTTATCGGGATTTCGGA
CCCGACCAATCATCAGGCGGTGACTGATATTCAGTTCAGCACGGGCCTGAACACCGAAGCTATTCTGGTCGAAGATGACA
AGCTGACTATTGCTATAGATCGCTTTTTTGACAGTGATAGCGGTCTGGGCAATCTGGAAGATGTAGATCTGGGTCTGGAC
ATCGAACCGGCTGACGGCAAGGAAACCTCCCTTGCTACTCAGAGTGACGCTGACGACGCCCCGGTAGTACGCTTCGTCAA
CAAGATGCTGATGGATGCTATCCGATTAGGGTCATCCGACTTGCACTTCGAACCCTACGAAAAGATCTTCCGCGTGCGGT
TGCGTACTGACGGCATCTTGCATGAAGTCGCCAGACCGCCGATTCATCTGGCAAACCGTATTGCCGCGCGCTTGAAAGTC
ATGGCTAGCCTAGATATCTCGGAACGGCGTAAACCACAGGACGGACGTGTCAAGTTACGTGTGTCCAAAACCAAAGCCAT
CGATTTTCGTATGAATACCTTACCCACGCTATGGGGAGAGAAGATCGTGATGCGGATCCTCGATCCGACCAGTGCGCAGA
TGGGCATTGACGCTCTGGGCTACGAGCCAGAACAAAAAGCGCTTTATCTTGAAGCGCTGAAGCAACCACAAGGCATGATT
CTTGTGACCGGCCCCACTGGCTCGGGTAAAACCGTTTCCCTATACACTGGCCTGAACATTCTCAACACTGTGGACATCAA
CATTTCCACAGCTGAAGACCCGGTAGAGATCAACCTGGAAGGCATCAATCAGGTCAACGTCAACCCGCGTCAGGGACTGG
ACTTTTCTCAGGCATTGCGCGCATTCCTGCGTCAAGATCCCGACGTAATCATGGTCGGCGAGATACGAGACCTGGAAACT
GCCGAAATCGCCATTAAAGCATCACAGACCGGCCACATGGTGTTATCTACTCTGCATACTAACAGTGCCGCAGAAACCCT
CACTCGCTTGCATCATATGGGCGTCGCAGCGTTCAACATCGCTACGGCGATTAACCTCATCATTGCCCAGCGGCTGGCGC
GCAAGCTATGCAGCCATTGCAAGAAAGAGCTCGACATACCCCGGGAAACGCTCATCCAGGAGGGGTTTCCAGAGGAGAAG
ATCGGTACGTTTAAAATCTATGGCCCAGTAGGTTGTGAGCATTGCAACGGCGGCTACAGGGGCAGGGTCGGCATTTACGA
AGTAGTCAAGAAAACACCAGAACTGGAACGCATCATCATGGAAGAAGGCAATTCGCTGGAGATTTCCAGGCAGATGCGCA
AGGACGGCTTCAATGATTTGAGGACCTCCGGACTGTCGAAGGCCATGCAAGGTATTACCAGCCTTGAAGAAGTCAACCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-147)


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

57.848

100

0.582
  pilB Acinetobacter baylyi ADP1

56.714

100

0.569
  pilB Legionella pneumophila strain ERS1305867

55.221

100

0.553
  pilB Vibrio cholerae strain A1552

51.068

99.645

0.509
  pilB Vibrio parahaemolyticus RIMD 2210633

50.088

100

0.507
  pilB Vibrio campbellii strain DS40M4

49.468

100

0.495
  pilF Neisseria gonorrhoeae MS11

48.221

99.645

0.481
  pilF Thermus thermophilus HB27

39.029

98.582

0.385
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.469

93.44

0.369

Multiple sequence alignment