Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JYB87_RS01795 Genome accession   NZ_CP071503
Coordinates   401015..402721 (-) Length   568 a.a.
NCBI ID   WP_207355215.1    Uniprot ID   -
Organism   Shewanella avicenniae strain FJAT-51800     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 396015..407721
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JYB87_RS01765 (JYB87_01765) mutT 396633..397043 (-) 411 WP_207355209.1 8-oxo-dGTP diphosphatase MutT -
  JYB87_RS01770 (JYB87_01770) yacG 397070..397279 (-) 210 WP_207355210.1 DNA gyrase inhibitor YacG -
  JYB87_RS01775 (JYB87_01775) zapD 397329..398045 (-) 717 WP_207355211.1 cell division protein ZapD -
  JYB87_RS01780 (JYB87_01780) coaE 398038..398658 (-) 621 WP_207355212.1 dephospho-CoA kinase -
  JYB87_RS01785 (JYB87_01785) pilD 398658..399572 (-) 915 WP_207355213.1 A24 family peptidase Machinery gene
  JYB87_RS01790 (JYB87_01790) pilC 399620..400891 (-) 1272 WP_207355214.1 type II secretion system F family protein Machinery gene
  JYB87_RS01795 (JYB87_01795) pilB 401015..402721 (-) 1707 WP_207355215.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JYB87_RS18805 (JYB87_01800) - 402789..403160 (-) 372 WP_207355216.1 type IV pilin protein -
  JYB87_RS01805 (JYB87_01805) nadC 403969..404829 (-) 861 WP_207355217.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JYB87_RS01810 (JYB87_01810) ampD 405103..405696 (+) 594 WP_207355218.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JYB87_RS01815 (JYB87_01815) ampE 405725..406570 (+) 846 WP_207355219.1 beta-lactamase regulator AmpE -
  JYB87_RS01820 (JYB87_01820) pdhR 406832..407584 (+) 753 WP_207355220.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62964.28 Da        Isoelectric Point: 5.8731

>NTDB_id=545738 JYB87_RS01795 WP_207355215.1 401015..402721(-) (pilB) [Shewanella avicenniae strain FJAT-51800]
MPTTSLHLGLSTLFIRKGLLDESKLSEAVALARKNKTALVTSLVLNHYLSARTIAELCYEEYGTPLLDLAEFDISSIPEE
FLNRKLIEKHRCLPLFKRGNRLYIATSDPTNISALEEFQFSAGLHAEAILVEEDKLAKALEKVLEEDISALDLSGIDESA
LAGIEVTDTDKRQEDANEGADDAPIVIYINKILTDAIRRGASDLHFEPYEKRYRVRFRIDGILHEVAEPPVNLASRLSAR
LKVMSKLDIAERRVPQDGRIKMKLSRSKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKQAYLDMLARPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINVKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSSSETLTRLLNMGVPGYNIASSVNLIIAQRLARRLCVNCREPEEIPEHELLRLGFT
QSQISEGFTVYKPKGCEHCSGGYKGRVGIYEVMKMSDEIARVIMEGGNSLQIAKMAKQQGMRDLRDSGLLKVIQGVTSIA
EVNRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=545738 JYB87_RS01795 WP_207355215.1 401015..402721(-) (pilB) [Shewanella avicenniae strain FJAT-51800]
TTGCCAACCACAAGTTTACACCTAGGACTATCAACACTATTTATCCGCAAAGGGTTGCTTGATGAAAGTAAGTTATCCGA
GGCGGTAGCGTTAGCTCGTAAAAATAAAACGGCATTAGTAACATCTCTAGTTTTAAACCACTACCTATCGGCAAGAACAA
TTGCAGAACTCTGCTATGAAGAGTACGGCACACCGTTACTGGATTTAGCTGAATTCGATATCAGCAGCATCCCAGAAGAA
TTCCTAAATCGAAAACTGATTGAAAAGCATCGTTGTTTACCGCTGTTTAAGCGCGGTAATCGACTCTATATCGCTACCTC
TGATCCCACCAATATATCAGCCCTCGAAGAGTTTCAATTCAGCGCTGGACTCCACGCTGAAGCGATTTTGGTGGAAGAAG
ACAAGCTTGCCAAGGCATTAGAAAAAGTCCTCGAAGAGGATATCTCTGCACTTGACCTCAGCGGCATTGATGAATCTGCA
CTTGCTGGTATTGAAGTTACCGACACAGATAAGCGACAAGAAGATGCTAATGAAGGTGCAGATGACGCGCCTATTGTCAT
TTACATCAATAAGATTTTGACCGATGCCATTCGCCGTGGCGCCTCGGACTTACATTTTGAACCTTATGAAAAACGTTACC
GGGTGCGCTTTCGTATCGATGGCATACTGCATGAAGTGGCCGAACCACCGGTAAACCTCGCCTCTCGTCTTTCTGCGCGT
TTGAAGGTGATGTCCAAGTTGGACATCGCCGAGCGCCGCGTGCCGCAAGACGGACGCATTAAAATGAAACTCAGCCGCAG
TAAGAGCATCGATTTTCGTGTTTCTACCCTACCGACGCTGTGGGGCGAAAAGATTGTTATGCGGATTTTGGATTCTTCTT
CCGCGCAACTCGGCATTGAAAAACTCGGTTATGAAGAAGACCAAAAGCAAGCTTATTTAGATATGCTGGCACGCCCTCAA
GGGATGATCCTGGTTACCGGCCCGACTGGCTCGGGTAAAACGGTTTCCCTATACACTGGGCTCAATATCCTCAATACCGA
AGAACGTAATATTTCCACAGCGGAAGACCCAGTGGAAATTAACTTGGAAGGGGTAAACCAAGTTCATATCAACGTCAAAG
CAGGGTTAACCTTTGCCTCTGCACTGCGTTCGTTCCTTCGTCAAGACCCCGATGTGGTGATGGTGGGGGAAATCCGAGAT
CTCGAAACTGCTGAAATTGCTATTAAAGCGGCGCAAACCGGCCACTTGGTGTTATCTACCCTACATACCAACTCGTCATC
GGAAACCCTGACCCGTTTGCTCAATATGGGCGTACCTGGCTATAACATCGCCAGCTCGGTGAACTTAATTATCGCCCAGC
GACTAGCACGGCGTTTATGCGTTAACTGCCGCGAGCCAGAAGAGATCCCCGAACATGAGTTGCTCCGCCTTGGGTTTACC
CAATCCCAAATTAGCGAAGGCTTTACCGTCTACAAACCCAAAGGTTGTGAACATTGCTCCGGCGGCTACAAAGGCCGCGT
CGGTATCTATGAAGTAATGAAGATGTCGGACGAGATCGCTCGAGTGATTATGGAAGGTGGCAACTCCTTGCAAATTGCCA
AAATGGCTAAACAACAAGGGATGCGGGATCTCCGCGATTCTGGATTATTAAAAGTGATTCAAGGAGTCACAAGTATTGCA
GAAGTTAATCGGGTCACCAGCTTCTAG

Domains

Predicted by InterproScan.

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

(43-144)

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 baumannii D1279779

59.431

98.944

0.588
  pilB Acinetobacter baylyi ADP1

59.18

98.768

0.585
  pilB Legionella pneumophila strain ERS1305867

56.36

99.648

0.562
  pilB Vibrio parahaemolyticus RIMD 2210633

51.146

99.824

0.511
  pilB Vibrio cholerae strain A1552

55.192

91.549

0.505
  pilB Vibrio campbellii strain DS40M4

50.624

98.768

0.5
  pilF Neisseria gonorrhoeae MS11

50.383

91.901

0.463
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.662

93.662

0.371
  pilF Thermus thermophilus HB27

36.991

99.472

0.368