Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JYB88_RS16395 Genome accession   NZ_CP071504
Coordinates   3695463..3697172 (+) Length   569 a.a.
NCBI ID   WP_207324809.1    Uniprot ID   -
Organism   Shewanella cyperi strain FJAT-53726     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3690463..3702172
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JYB88_RS16370 (JYB88_16370) pdhR 3690603..3691355 (-) 753 WP_207321093.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  JYB88_RS16375 (JYB88_16375) ampE 3691536..3692411 (-) 876 WP_207324805.1 beta-lactamase regulator AmpE -
  JYB88_RS16380 (JYB88_16380) ampD 3692446..3693000 (-) 555 WP_207324806.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JYB88_RS16385 (JYB88_16385) nadC 3693224..3694081 (+) 858 WP_207324807.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JYB88_RS16390 (JYB88_16390) - 3694986..3695393 (+) 408 WP_207324808.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  JYB88_RS16395 (JYB88_16395) pilB 3695463..3697172 (+) 1710 WP_207324809.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JYB88_RS16400 (JYB88_16400) pilC 3697211..3698479 (+) 1269 WP_207324810.1 type II secretion system F family protein Machinery gene
  JYB88_RS16405 (JYB88_16405) pilD 3698503..3699417 (+) 915 WP_207324811.1 prepilin peptidase Machinery gene
  JYB88_RS16410 (JYB88_16410) coaE 3699426..3700031 (+) 606 WP_207324812.1 dephospho-CoA kinase -
  JYB88_RS16415 (JYB88_16415) zapD 3700038..3700772 (+) 735 WP_207324813.1 cell division protein ZapD -
  JYB88_RS16420 (JYB88_16420) yacG 3700819..3701028 (+) 210 WP_207321103.1 DNA gyrase inhibitor YacG -
  JYB88_RS16425 (JYB88_16425) mutT 3701035..3701430 (+) 396 WP_207324814.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62984.26 Da        Isoelectric Point: 5.2599

>NTDB_id=545774 JYB88_RS16395 WP_207324809.1 3695463..3697172(+) (pilB) [Shewanella cyperi strain FJAT-53726]
MPTTGLHLGLSTLFIRKGLLNEAEMAATIHKSRLAKQSLVTTLTTDKLISAREIAELCYEEYGTPLLDLTEFDLPSIPEE
YLNKKLIEKHRCLPLFRRGNRLYIATSDPTNISALEDFQFSAGLHAEAILVEDDKLGKALEKILEEDISALDLGGLDEES
LAGIEVTDTDRRQEDQQGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPINLAGRISA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKAAYMEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKEPEEIPEHELLRLGF
SQEQINQGITLYKPCGCDLCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASMAKSQGMRDLRQSGLLKATQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=545774 JYB88_RS16395 WP_207324809.1 3695463..3697172(+) (pilB) [Shewanella cyperi strain FJAT-53726]
ATGCCAACGACAGGGCTTCATCTCGGTTTATCAACCCTTTTCATACGTAAAGGGTTATTAAATGAAGCAGAGATGGCTGC
AACTATTCATAAGTCACGGCTTGCCAAGCAGTCTCTTGTAACTACCCTTACTACAGACAAATTAATTTCTGCTAGAGAAA
TTGCCGAACTTTGTTATGAAGAGTACGGCACTCCATTGCTCGATTTAACCGAATTTGATCTTCCCAGTATTCCCGAAGAA
TACCTCAACAAAAAACTGATTGAAAAACACCGTTGCCTGCCGCTGTTCCGCCGCGGTAATCGTCTTTATATTGCCACCTC
GGACCCCACCAATATCTCCGCTCTGGAAGACTTCCAATTTTCGGCCGGCTTACATGCCGAAGCAATCCTGGTAGAAGATG
ACAAGTTGGGCAAGGCACTGGAGAAAATCCTCGAAGAAGATATCAGCGCCCTGGATCTGGGTGGCCTGGATGAGGAGTCT
CTTGCCGGCATTGAAGTTACCGATACAGATAGGCGTCAGGAAGATCAACAGGGTGACAGCAGCGATGACGCGCCAATCGT
TATCTATATCAATAAAATTCTGACCGATGCCATCCGCAAGGGCGCGTCGGATCTGCACTTTGAGCCCTACGAAAAACGTT
ACCGCATCCGTTTTCGTATTGATGGCATATTGCACGAAGTCTCCGAACCGCCAATTAATCTTGCCGGCCGTATTTCTGCC
CGTCTTAAGGTGATGTCCAAACTGGATATTGCCGAGCGCCGGGTGCCACAGGACGGCCGCATTAAAATGAAACTGTCACG
CACCAAGTCGATAGACTTTCGTGTCAGTACCCTGCCGACCCTGTGGGGCGAAAAAATTGTAATGCGTATTCTGGACTCTT
CCTCAGCCCAGCTTGGCATTGAAAAGCTCGGTTACGAAGAAGACCAAAAAGCGGCCTATATGGAAATGCTGGCCAAACCC
CAGGGAATGATTTTGGTGACGGGCCCTACAGGTTCGGGTAAGACGGTATCGCTTTATACTGGCCTCAACATCCTTAACAC
CGAAGAGCGCAATATCAGCACCGCCGAAGATCCGGTGGAAATCAATCTGGAAGGGGTCAACCAGGTTCACATCAACCTCA
AGGCAGGATTGACCTTTGCCTCGGCGCTGCGTTCCTTCCTGCGTCAGGACCCCGACGTGGTCATGGTGGGTGAAATTCGT
GACCTGGAAACCGCCGAAATCGCCATTAAGGCCGCACAAACAGGTCACTTGGTATTATCTACCCTGCACACCAACTCTGC
CGCCGAAACTCTCACCCGCTTGATTAACATGGGTGTTCCCGGCTACAACATCGCCAGTTCGGTCAATCTGATTATTGCAC
AGCGCCTGGCCAGAAGACTTTGTCCTGAATGCAAGGAGCCCGAAGAGATACCCGAGCATGAGTTATTAAGGCTGGGGTTC
TCACAGGAGCAAATAAATCAAGGTATCACCTTATATAAGCCCTGTGGATGCGATCTCTGCTCCGGCGGCTATAAAGGCCG
TGTGGGTATCTATGAAGTGATGAAGATGTCAGACGAGATAGCCCGAACTATTATGGAAGGAGGTAACTCGCTGCAAATCG
CATCCATGGCCAAAAGTCAGGGAATGCGCGATCTTCGCCAGTCAGGCCTGCTTAAAGCCACCCAAGGTGTGACCAGTATA
GCCGAGGTCAACCGGGTGACCAGTTTTTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(43-144)


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

59.715

98.594

0.589
  pilB Acinetobacter baumannii D1279779

57.932

98.594

0.571
  pilB Legionella pneumophila strain ERS1305867

55.908

99.649

0.557
  pilB Vibrio parahaemolyticus RIMD 2210633

52.197

100

0.522
  pilB Vibrio cholerae strain A1552

52.143

98.418

0.513
  pilB Vibrio campbellii strain DS40M4

50.799

98.946

0.503
  pilF Neisseria gonorrhoeae MS11

48.057

99.473

0.478
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.785

98.067

0.39
  pilF Thermus thermophilus HB27

38.179

100

0.383