Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACGEDC_RS10635 Genome accession   NZ_CP171406
Coordinates   2378388..2380097 (-) Length   569 a.a.
NCBI ID   WP_372036587.1    Uniprot ID   -
Organism   Shewanella sp. WPAGA9     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2373388..2385097
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACGEDC_RS10605 mutT 2374072..2374467 (-) 396 WP_119967846.1 8-oxo-dGTP diphosphatase MutT -
  ACGEDC_RS10610 yacG 2374484..2374693 (-) 210 WP_055022953.1 DNA gyrase inhibitor YacG -
  ACGEDC_RS10615 zapD 2374734..2375471 (-) 738 WP_372036595.1 cell division protein ZapD -
  ACGEDC_RS10620 coaE 2375481..2376086 (-) 606 WP_372036593.1 dephospho-CoA kinase -
  ACGEDC_RS10625 pilD 2376099..2377028 (-) 930 WP_394498122.1 prepilin peptidase Machinery gene
  ACGEDC_RS10630 - 2377055..2378326 (-) 1272 Protein_2047 type II secretion system F family protein -
  ACGEDC_RS10635 pilB 2378388..2380097 (-) 1710 WP_372036587.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACGEDC_RS10640 - 2380728..2381690 (+) 963 WP_394498124.1 O-antigen ligase family protein -
  ACGEDC_RS10645 - 2381902..2382267 (-) 366 WP_372036583.1 type IV pilin protein -
  ACGEDC_RS10650 nadC 2383406..2384284 (-) 879 WP_282166432.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACGEDC_RS10655 ampD 2384522..2385082 (+) 561 WP_394498127.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62956.28 Da        Isoelectric Point: 5.1736

>NTDB_id=1061207 ACGEDC_RS10635 WP_372036587.1 2378388..2380097(-) (pilB) [Shewanella sp. WPAGA9]
MPSTSLHLGLSGLFLNKGLLTEELLSTAISKSRKDKSSLVTTLVAEKFLSAREIAELCYEEYGTPLLDLAGFDIQSIPEE
ILNKKLINKHKCLPLFKRSNRLYIATSDPTNIVALEDFQFSLGLHAEAILVEDDKLQIILEKIAEDDISGLDLAGADEEA
LANMEIADTERNESSENEASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSSRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRLLYEEMLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKTPEDVPVEELQRLGFT
QDIIDTGFTVYKPVGCEHCSGGYKGRVGIYEVMKMTDEISKTIMEGGNSLQIARQAKISGMRDLRLSGLLKVTHGITSIA
EVNRVTSFN

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=1061207 ACGEDC_RS10635 WP_372036587.1 2378388..2380097(-) (pilB) [Shewanella sp. WPAGA9]
ATGCCTTCAACTTCTCTACACTTAGGGTTGTCTGGTCTTTTTTTGAACAAAGGCTTATTAACTGAAGAGTTGTTGTCAAC
TGCGATATCAAAATCACGAAAAGATAAATCCTCATTAGTCACTACACTTGTGGCTGAAAAGTTTTTATCAGCTCGAGAAA
TTGCAGAGTTATGCTATGAAGAATATGGAACTCCACTTCTGGATTTAGCCGGATTCGACATCCAAAGTATTCCTGAAGAA
ATATTAAATAAGAAATTAATAAATAAACACAAATGCTTACCTTTATTCAAGCGCAGTAACAGGCTTTATATAGCAACGTC
AGATCCCACAAATATTGTAGCTTTAGAGGATTTTCAATTCAGTCTAGGGTTACATGCTGAAGCTATATTAGTGGAAGATG
ACAAGCTTCAAATAATATTAGAGAAAATTGCAGAAGATGATATATCAGGTTTAGATCTTGCTGGTGCAGACGAAGAAGCA
TTAGCGAATATGGAAATAGCTGATACCGAACGTAATGAAAGTTCTGAAAATGAAGCAAGTGACGACGCGCCTATTGTCAT
CTATATAAATAAGATTCTTACTGATGCAATTCGCAAAGGTGCTTCAGATTTACATTTCGAGCCTTATGAAAAACGTTACC
GTATTCGTTTTAGAATCGATGGTATCTTACATGAAGTTTCTGAGCCCCCAGTCAATCTTTCAAGCCGAATTTCTGCTCGC
TTAAAAGTCATGTCGAAATTAGATATTGCTGAGCGTCGTGTTCCACAGGATGGCCGAATTAAGATGAAACTGTCACGTAC
GAAATCAATCGATTTTCGTGTCAGCACCCTGCCCACTATTTGGGGCGAAAAGATTGTAATGCGTATTTTAGACTCTTCTT
CTGCGCAATTAGGTATTGAAAAACTCGGCTATGAAGATGATCAGCGCCTTCTATACGAAGAAATGCTCGCCAAACCACAA
GGGATGATATTAGTAACAGGACCTACTGGTTCTGGTAAAACAGTCTCGTTATATACTGGTTTAAATATTCTTAATACAGA
AGAACGAAACATTTCAACAGCTGAAGATCCAGTTGAAATTAACCTTGAAGGCGTTAACCAAGTTCACATCAATTTGAAAG
CTGGGTTAACCTTTGCTTCAGCACTCAGATCATTTTTACGCCAAGATCCTGACGTTGTGATGGTCGGTGAGATTCGAGAT
TTAGAAACAGCAGAAATTGCTATTAAAGCAGCCCAAACCGGTCACTTGGTATTATCGACACTACATACAAACTCTGCAGC
AGAGACGCTAACTCGCTTAATCAATATGGGCGTACCAGGTTATAACATTGCTAGCTCTGTGAATTTAATTATTGCTCAAC
GCCTTGCAAGACGTTTATGCCCTGAGTGCAAAACACCAGAAGATGTTCCAGTTGAAGAACTGCAACGACTTGGCTTTACT
CAAGATATTATTGATACAGGCTTTACTGTTTATAAACCAGTCGGATGTGAGCACTGCTCTGGTGGTTATAAGGGCCGAGT
CGGTATTTATGAAGTGATGAAAATGACAGATGAGATATCTAAGACGATTATGGAAGGTGGCAATTCCTTACAAATTGCTA
GACAAGCTAAAATTAGTGGCATGAGAGACTTACGCTTATCAGGCTTGTTAAAAGTGACTCACGGTATTACCAGTATCGCT
GAAGTTAATCGCGTTACCAGTTTTAATTAA

Domains

Predicted by InterproScan.

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

(43-143)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

58.007

98.77

0.573
  pilB Acinetobacter baumannii D1279779

59.45

95.782

0.569
  pilB Legionella pneumophila strain ERS1305867

58.287

94.376

0.55
  pilB Vibrio cholerae strain A1552

53.358

96.837

0.517
  pilB Vibrio parahaemolyticus RIMD 2210633

51.675

99.649

0.515
  pilB Vibrio campbellii strain DS40M4

50.973

99.297

0.506
  pilF Neisseria gonorrhoeae MS11

46.726

99.297

0.464
  pilF Thermus thermophilus HB27

37.631

100

0.38
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.571

98.418

0.38

Multiple sequence alignment