Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JW975_RS17035 Genome accession   NZ_CP070865
Coordinates   3837693..3839402 (+) Length   569 a.a.
NCBI ID   WP_061783195.1    Uniprot ID   -
Organism   Shewanella putrefaciens strain XY07     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3832693..3844402
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JW975_RS17015 (JW975_17015) ampE 3833552..3834403 (-) 852 WP_025008135.1 beta-lactamase regulator AmpE -
  JW975_RS17020 (JW975_17020) ampD 3834516..3835055 (-) 540 WP_025008134.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JW975_RS17025 (JW975_17025) nadC 3835374..3836261 (+) 888 WP_011787905.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JW975_RS17030 (JW975_17030) - 3837145..3837618 (+) 474 WP_025008133.1 type IV pilin protein -
  JW975_RS17035 (JW975_17035) pilB 3837693..3839402 (+) 1710 WP_061783195.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JW975_RS17040 (JW975_17040) pilC 3839784..3841049 (+) 1266 WP_011787902.1 type II secretion system F family protein Machinery gene
  JW975_RS17045 (JW975_17045) pilD 3841215..3842141 (+) 927 WP_025008132.1 prepilin peptidase Machinery gene
  JW975_RS17050 (JW975_17050) coaE 3842484..3843101 (+) 618 WP_128090233.1 dephospho-CoA kinase -
  JW975_RS17055 (JW975_17055) zapD 3843094..3843828 (+) 735 WP_011787899.1 cell division protein ZapD -
  JW975_RS17060 (JW975_17060) yacG 3843986..3844195 (+) 210 WP_011920039.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62634.17 Da        Isoelectric Point: 6.3652

>NTDB_id=541124 JW975_RS17035 WP_061783195.1 3837693..3839402(+) (pilB) [Shewanella putrefaciens strain XY07]
MPTTGLHLGLSTLFIRKGLLNEEQMAGAIAKSRQNKQGLVATLVQGKLVSSRTIAELCYEEYGTPLLDLAEFDIRAIPED
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKILEEDITSLDLGGMDEAA
LAGIEITDTDRRNEEPTGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQAEVIPEHELLRLGF
SPAQITQGFTTFKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASQAKAQGMRDLRQSGLLKVLQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=541124 JW975_RS17035 WP_061783195.1 3837693..3839402(+) (pilB) [Shewanella putrefaciens strain XY07]
ATGCCAACTACAGGCCTTCATCTAGGTTTATCTACCCTATTTATCCGTAAAGGTCTGCTAAATGAAGAGCAGATGGCAGG
GGCTATTGCAAAATCCCGCCAAAATAAACAAGGATTAGTGGCCACTTTAGTACAAGGTAAGTTAGTCTCATCCCGCACTA
TTGCCGAGCTTTGCTATGAAGAATATGGCACACCGCTACTGGATTTAGCGGAATTTGATATACGAGCCATTCCCGAAGAT
TTTTTAAATAAAAAACTGATTGAAAAACACCGCTGTTTACCGCTATTTAAGCGCGGAAATCGCCTCTATATCGCCACCTC
CGATCCCACCAATATTGCCGCCCTTGAAGATTTTCAATTTAGCGCAGGCCTGCATGCCGAAGCGATTTTGGTTGAAGAAG
ATAAACTCGCTAAAGCCCTTGAAAAAATCCTTGAAGAAGATATTACCAGCCTCGATTTAGGCGGCATGGATGAAGCGGCG
CTGGCGGGGATAGAAATTACCGATACCGATAGACGCAATGAAGAACCAACAGGTGACAGCAGTGACGATGCGCCCATTGT
TATTTATATCAATAAAATTTTAACCGATGCGATTCGTAAGGGTGCCTCCGACTTACACTTTGAACCCTACGAAAAACGCT
ATCGCATTCGTTTTCGGATTGACGGTATTTTGCATGAGGTATCAGAGCCGCCTATTAGCCTTGCGGGCCGTTTATCCGCC
CGTTTAAAGGTGATGTCAAAACTGGATATTGCCGAGCGGCGCGTACCACAGGATGGCCGAATTAAAATGAAGCTCTCCCG
CACTAAGTCTATCGATTTTCGGGTTAGCACCTTGCCTACCCTGTGGGGCGAAAAAATTGTCATGCGGATCTTGGACTCCT
CCTCCGCACAACTAGGTATCGAAAAACTCGGCTACGAGCCCGATCAAGAAAAGTTATACCTTGAAATGCTCGCTAAACCC
CAAGGGATGATTTTAGTCACAGGACCAACGGGCTCGGGTAAAACCGTTTCCCTCTACACGGGGTTAAATATCCTCAATAC
CGCCGAGCGCAATATTTCGACCGCTGAAGATCCGGTAGAAATTAACCTTGAGGGGGTCAACCAAGTTCATATTAACCTAA
AAGCCGGGCTGACATTTGCCTCAGCGCTACGCTCTTTTTTGCGCCAAGACCCCGACGTGGTGATGGTGGGTGAGATACGC
GATCTTGAAACCGCCGAAATTGCTATTAAAGCCGCACAAACGGGACATTTAGTGTTATCGACCCTACACACTAACTCGGC
CGCCGAAACCTTAACCCGTTTAATCAATATGGGCGTACCTGGATACAATATCGCCAGCTCGGTTAACCTTATTATTGCCC
AGCGCCTTGCCCGCAGACTTTGCCCAGAATGCAAACAAGCAGAGGTGATCCCCGAGCATGAACTCTTACGTTTAGGTTTT
TCTCCTGCACAAATTACCCAAGGGTTTACTACCTTTAAACCAGTGGGGTGTGAACATTGCTCTGGTGGTTATAAGGGGCG
AGTGGGGATTTATGAGGTGATGAAAATGTCCGATGAAATTGCCCGTACCATTATGGAAGGCGGCAACTCGTTGCAAATTG
CTTCCCAAGCGAAAGCACAAGGTATGCGCGATTTACGTCAATCGGGTTTGTTAAAAGTATTACAGGGCGTCACCAGTATT
GCCGAAGTTAATCGGGTGACGAGTTTTTAA

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

59.893

98.594

0.591
  pilB Acinetobacter baumannii D1279779

59.633

95.782

0.571
  pilB Legionella pneumophila strain ERS1305867

55.83

99.473

0.555
  pilB Vibrio parahaemolyticus RIMD 2210633

51.579

100

0.517
  pilB Vibrio cholerae strain A1552

56.371

91.037

0.513
  pilB Vibrio campbellii strain DS40M4

51.06

99.473

0.508
  pilF Neisseria gonorrhoeae MS11

48.41

99.473

0.482
  pilF Thermus thermophilus HB27

39.576

99.473

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.64

98.243

0.38