Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OKW98_RS25730 Genome accession   NZ_CP110644
Coordinates   5799979..5801673 (+) Length   564 a.a.
NCBI ID   WP_265387219.1    Uniprot ID   -
Organism   Pseudomonas sp. KU26590     
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 5795053..5805275 5799979..5801673 within 0


Gene organization within MGE regions


Location: 5795053..5805275
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OKW98_RS25705 (OKW98_25710) - 5795053..5796483 (+) 1431 WP_265387215.1 IS1182 family transposase -
  OKW98_RS25710 (OKW98_25715) - 5797494..5797745 (+) 252 WP_265387216.1 hypothetical protein -
  OKW98_RS25715 (OKW98_25720) - 5797989..5798432 (-) 444 WP_265387217.1 hypothetical protein -
  OKW98_RS25725 (OKW98_25730) - 5799320..5799754 (-) 435 WP_265387218.1 pilin -
  OKW98_RS25730 (OKW98_25735) pilB 5799979..5801673 (+) 1695 WP_265387219.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OKW98_RS25735 (OKW98_25740) pilC 5801676..5802893 (+) 1218 WP_265387220.1 type II secretion system F family protein Machinery gene
  OKW98_RS25740 (OKW98_25745) pilD 5802896..5803768 (+) 873 WP_265387221.1 prepilin peptidase Machinery gene
  OKW98_RS25745 (OKW98_25750) coaE 5803765..5804385 (+) 621 WP_265387222.1 dephospho-CoA kinase -
  OKW98_RS25750 (OKW98_25755) yacG 5804385..5804588 (+) 204 WP_062378727.1 DNA gyrase inhibitor YacG -
  OKW98_RS25755 (OKW98_25760) - 5804799..5805275 (+) 477 WP_265387223.1 RidA family protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62243.63 Da        Isoelectric Point: 5.9777

>NTDB_id=755602 OKW98_RS25730 WP_265387219.1 5799979..5801673(+) (pilB) [Pseudomonas sp. KU26590]
MTDVVLTGLAKQLVVAELLTEKTAQKAYEQARRDKVSLVHHLVETKLLKSITLAEVASDQFGIPFLDLGTLDKETQPKGL
VSEKLIRQHCALPLWRRGNKLFVGISDPTNHQAITDIQFSTGLTTEAILVEDDKLTIAIDKFFDGNAGMGDLADVDLGLE
IQAVDESKETAIGGQDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVAKPPIHLAGRIAARLKV
MASLDISERRKPQDGRIKLRISKNRAIDFRVNTLPTLWGEKIVMRILDPTTAQMGIDALGYEPEQKALYLEALRQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGMDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCPQCKKEAEIPRETLIAEGFPESQ
IGSFQLYSPVGCEHCNGGYKGRVGIYEVVKSTPALERIIMEEGNSIQISEQMRRDGFNDLRTSGLMKAMQGVTSLEEINR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=755602 OKW98_RS25730 WP_265387219.1 5799979..5801673(+) (pilB) [Pseudomonas sp. KU26590]
ATGACTGACGTCGTCCTAACCGGCTTGGCTAAACAACTTGTTGTGGCTGAGCTGCTCACAGAAAAAACGGCCCAAAAAGC
CTACGAACAAGCGCGACGTGACAAGGTTTCGCTTGTGCACCACCTCGTCGAGACGAAGCTGCTCAAGAGCATTACGCTGG
CCGAGGTCGCATCAGATCAATTCGGTATTCCTTTTCTCGATCTCGGCACCCTAGACAAGGAGACCCAACCGAAAGGGCTC
GTCAGTGAAAAGCTCATTCGCCAGCACTGCGCGCTTCCGCTCTGGCGTAGGGGTAACAAGTTATTTGTGGGCATATCCGA
CCCCACCAATCATCAAGCTATTACTGACATCCAGTTCAGCACCGGCCTGACCACCGAAGCCATTTTGGTCGAGGACGACA
AACTGACCATCGCCATCGATAAGTTTTTCGACGGCAATGCTGGTATGGGCGACTTGGCGGACGTCGATCTGGGCCTCGAA
ATCCAGGCGGTCGATGAGAGCAAAGAAACTGCGATCGGTGGTCAAGACGCCGATGACGCGCCGGTTGTCCGCTTCGTTAA
CAAGATGCTGATGGACGCGATCCGCCTAGGTTCGTCTGACCTGCATTTCGAACCCTACGAAAAGATCTTCCGGGTAAGGC
TCCGCACCGACGGCATTCTTCATGAAGTGGCAAAGCCGCCCATTCACCTTGCAGGGCGGATTGCTGCACGTCTGAAGGTC
ATGGCGAGCCTCGATATTTCGGAGCGTCGCAAACCCCAAGACGGCCGCATCAAACTAAGAATCTCAAAAAACCGCGCTAT
CGATTTCCGGGTCAACACGCTGCCCACTCTGTGGGGCGAAAAAATTGTGATGCGGATTCTGGACCCGACTACCGCGCAAA
TGGGCATTGACGCTTTGGGTTATGAGCCAGAACAAAAAGCTCTTTACCTTGAAGCTCTTCGCCAACCCCAGGGCATGATC
CTTGTGACCGGCCCTACCGGCTCGGGTAAAACGGTATCGCTTTATACCGGATTGAATATTCTCAACACCGTTGATATCAA
CATCTCGACAGCAGAAGACCCGGTAGAGATCAACCTTGAAGGCATCAACCAGGTCAACGTCAATCCGCGTCAGGGAATGG
ACTTCTCTCAGGCACTGCGGGCGTTTCTGCGTCAGGATCCTGACGTGATCATGGTGGGCGAAATCCGGGACTTGGAAACA
GCCGAAATCGCGATCAAGGCCTCGCAAACCGGTCACATGGTTTTATCTACTTTGCACACCAACAGCGCGGCAGAGACACT
TACCAGGCTTCATCACATGGGCGTGGCAGCATTCAATATCGCCACGGCGATCAACCTGATCATCGCGCAACGTCTTGCGC
GAAAGTTGTGCCCGCAATGCAAAAAAGAAGCTGAGATCCCACGTGAGACTTTGATTGCGGAAGGTTTCCCCGAGTCGCAA
ATCGGCTCGTTCCAGCTTTACTCTCCAGTAGGCTGCGAACACTGCAACGGCGGATACAAAGGCCGAGTAGGTATCTACGA
AGTGGTGAAGAGCACGCCAGCGCTGGAGCGCATCATCATGGAGGAAGGCAACTCGATCCAGATTTCCGAACAGATGCGCA
GAGACGGTTTTAATGATTTGCGCACCTCGGGGCTGATGAAGGCGATGCAGGGCGTGACAAGTCTGGAAGAAATAAACAGG
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(42-145)

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

57.801

100

0.578
  pilB Acinetobacter baylyi ADP1

56.94

99.645

0.567
  pilB Legionella pneumophila strain ERS1305867

54.594

100

0.548
  pilB Vibrio cholerae strain A1552

51.064

100

0.511
  pilB Vibrio campbellii strain DS40M4

49.037

100

0.496
  pilF Neisseria gonorrhoeae MS11

48.932

99.645

0.488
  pilB Vibrio parahaemolyticus RIMD 2210633

49.909

97.34

0.486
  pilF Thermus thermophilus HB27

37.456

100

0.376
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.544

93.262

0.369