Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GMX02_RS19685 Genome accession   NZ_CP046378
Coordinates   4464547..4466253 (+) Length   568 a.a.
NCBI ID   WP_156020398.1    Uniprot ID   -
Organism   Shewanella algae strain RQs-106     
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 4464124..4478081 4464547..4466253 within 0


Gene organization within MGE regions


Location: 4464124..4478081
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GMX02_RS19680 (GMX02_19680) - 4464124..4464537 (+) 414 WP_054744933.1 pilin -
  GMX02_RS19685 (GMX02_19685) pilB 4464547..4466253 (+) 1707 WP_156020398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GMX02_RS19690 (GMX02_19690) pilC 4466406..4467671 (+) 1266 WP_054744931.1 type II secretion system F family protein Machinery gene
  GMX02_RS19695 (GMX02_19695) pilD 4467747..4468661 (+) 915 WP_156020400.1 prepilin peptidase Machinery gene
  GMX02_RS19700 (GMX02_19700) coaE 4468662..4469273 (+) 612 WP_144133415.1 dephospho-CoA kinase -
  GMX02_RS19705 (GMX02_19705) zapD 4469270..4470010 (+) 741 WP_156020401.1 cell division protein ZapD -
  GMX02_RS19710 (GMX02_19710) yacG 4470055..4470267 (+) 213 WP_025886789.1 DNA gyrase inhibitor YacG -
  GMX02_RS19715 (GMX02_19715) mutT 4470267..4470665 (+) 399 WP_044733562.1 8-oxo-dGTP diphosphatase MutT -
  GMX02_RS19740 (GMX02_19740) - 4477243..4477461 (+) 219 WP_051472875.1 helix-turn-helix domain-containing protein -
  GMX02_RS19745 (GMX02_19745) - 4477563..4478081 (+) 519 WP_037437727.1 IS630 family transposase -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 63149.28 Da        Isoelectric Point: 5.3439

>NTDB_id=403650 GMX02_RS19685 WP_156020398.1 4464547..4466253(+) (pilB) [Shewanella algae strain RQs-106]
MPTSGLHLGLSTLFIRKGLLTENQLTETIRHSQKNKQTLVTTLVASNLLSARTIAELCYEEYGTPLLDLTEFDLNSIPEE
FLNKKLIDKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEEDKLNKALEKVLEEDLSSLDLDGLDEES
LAGIEVTDTDKRQQEDSESKDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLSGRISAR
LKVMSKLDIAERRVPQDGRIKMRLSRNKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKQAYLEMLARPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINPKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSSAETLTRLLNMGVPGYNIASSVNLIIAQRLARRLCPECRQPEDIPEHELLQLGFT
QQQIDAGFTPYKPCGCDLCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAATAKQQGMRDLRLSGLLKVIQGVTSIA
EINRVTSY

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=403650 GMX02_RS19685 WP_156020398.1 4464547..4466253(+) (pilB) [Shewanella algae strain RQs-106]
ATGCCAACATCCGGCTTACACCTAGGTCTGTCGACTCTTTTTATCCGTAAAGGTCTACTGACGGAAAATCAGTTAACCGA
AACGATAAGACATTCCCAGAAAAATAAACAAACACTGGTCACCACTCTGGTGGCCAGTAATCTTTTATCCGCTCGCACCA
TCGCCGAACTCTGCTATGAAGAATACGGCACCCCGCTGCTGGATCTCACTGAGTTTGATTTAAACAGTATCCCGGAAGAA
TTTCTCAATAAAAAGCTGATCGACAAGCACAGATGCCTGCCGTTATTTAAGCGTGGCAACCGCCTCTATATCGCCACCTC
AGACCCCACCAATATAGCCGCCCTGGAAGACTTCCAATTTAGCGCTGGCCTGCATGCCGAAGCAATACTGGTAGAGGAAG
ATAAGCTCAATAAAGCACTGGAAAAGGTGCTCGAAGAAGACCTGAGTTCACTGGACCTGGATGGCCTCGATGAGGAATCC
CTCGCAGGTATCGAGGTCACAGATACCGACAAACGTCAACAGGAAGATAGTGAAAGTAAAGATGACGCCCCCATCGTCAT
CTATATCAATAAGATTTTGACCGATGCCATCCGCAAGGGCGCATCGGATCTGCATTTCGAGCCTTACGAAAAACGCTACC
GCATCCGTTTTCGTATCGACGGTATTCTCCACGAGGTGTCCGAGCCACCCATTTCTCTCTCGGGCCGTATCTCAGCCCGC
TTGAAGGTGATGTCCAAACTGGATATCGCCGAGCGCCGGGTCCCTCAGGATGGCCGCATCAAAATGAGGCTGTCGCGCAA
CAAGAGTATCGATTTTCGGGTCAGTACCCTGCCCACCCTCTGGGGTGAAAAGATAGTGATGCGGATCCTCGACTCCTCTT
CCGCACAATTAGGCATCGAAAAACTCGGCTATGAGGAAGACCAAAAACAAGCCTATCTGGAAATGCTGGCAAGGCCCCAG
GGGATGATTCTGGTGACAGGCCCTACCGGCTCTGGTAAAACCGTTTCCCTTTATACTGGCCTCAATATCCTCAATACCGA
AGAACGCAATATCAGCACAGCCGAAGACCCGGTGGAGATCAACCTGGAAGGGGTTAACCAGGTGCATATCAACCCCAAGG
CCGGACTGACCTTCGCCTCGGCGCTGCGCTCCTTTTTGCGTCAGGACCCGGATGTGGTGATGGTGGGGGAAATTCGCGAC
CTGGAAACCGCCGAAATCGCCATCAAGGCGGCACAAACCGGCCACTTGGTACTCTCGACCCTGCACACCAACTCATCGGC
TGAGACTCTCACCCGCCTGCTTAACATGGGGGTTCCCGGTTATAACATTGCCAGTTCGGTCAACCTGATTATTGCCCAGC
GCCTGGCCCGCCGCCTATGCCCCGAATGCCGCCAACCGGAAGATATTCCCGAGCATGAACTGCTGCAACTGGGCTTCACT
CAGCAGCAGATAGACGCAGGCTTTACCCCATACAAGCCCTGCGGCTGCGACCTCTGTTCCGGTGGTTATAAGGGAAGGGT
CGGTATCTATGAGGTGATGAAGATGTCCGATGAAATCGCCAGAACCATTATGGAGGGCGGTAATTCGCTGCAGATTGCCG
CCACGGCCAAACAACAAGGGATGCGCGACCTGCGCCTTTCAGGCCTTTTAAAAGTGATTCAAGGCGTCACCAGTATCGCC
GAGATAAATCGGGTCACCAGCTACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(43-145)


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 baylyi ADP1

59.537

98.768

0.588
  pilB Acinetobacter baumannii D1279779

60.223

94.718

0.57
  pilB Legionella pneumophila strain ERS1305867

55.477

99.648

0.553
  pilB Vibrio parahaemolyticus RIMD 2210633

52.734

99.824

0.526
  pilB Vibrio cholerae strain A1552

53.455

96.831

0.518
  pilB Vibrio campbellii strain DS40M4

51.155

99.12

0.507
  pilF Neisseria gonorrhoeae MS11

47.965

99.472

0.477
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.517

97.359

0.375
  pilF Thermus thermophilus HB27

37.411

99.296

0.371

Multiple sequence alignment