Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   G4Y78_RS08445 Genome accession   NZ_CP048878
Coordinates   1773242..1774936 (-) Length   564 a.a.
NCBI ID   WP_163832605.1    Uniprot ID   -
Organism   Spartinivicinus ruber strain S2-4-1H     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1768242..1779936
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  G4Y78_RS08420 - 1769023..1769988 (+) 966 WP_163832601.1 Nudix family hydrolase -
  G4Y78_RS08425 yacG 1770018..1770224 (-) 207 WP_222937666.1 DNA gyrase inhibitor YacG -
  G4Y78_RS08430 coaE 1770217..1770822 (-) 606 WP_163832602.1 dephospho-CoA kinase -
  G4Y78_RS08435 pilD 1770812..1771693 (-) 882 WP_163832603.1 A24 family peptidase Machinery gene
  G4Y78_RS08440 pilC 1771779..1772996 (-) 1218 WP_163832604.1 type II secretion system F family protein Machinery gene
  G4Y78_RS08445 pilB 1773242..1774936 (-) 1695 WP_163832605.1 type IV-A pilus assembly ATPase PilB Machinery gene
  G4Y78_RS31520 pilA2 1775206..1775709 (+) 504 WP_329604954.1 pilin Machinery gene
  G4Y78_RS08455 - 1776602..1776978 (-) 377 Protein_1674 integrase core domain-containing protein -
  G4Y78_RS08460 - 1777160..1777392 (-) 233 Protein_1675 transposase -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62383.27 Da        Isoelectric Point: 5.0885

>NTDB_id=423708 G4Y78_RS08445 WP_163832605.1 1773242..1774936(-) (pilB) [Spartinivicinus ruber strain S2-4-1H]
MILTGLAKRLVDDNLLSHDQASQAFQEASKQKIPFVTHLVQADLVQSKDIARLAAEEFGSPLMDIDCFDFEQAPKELVNE
KLIRKHHTLPLLKRGNRLFVAVSDPTNLNALDEIRFNTGLNIDAVLVQEDKLSAAIERFLESADDALSDLSDEDLDALEI
SAGDEEQETAGGDEADDAPVVRFVNKMLLSAIKGGSSDLHFEPYEKSYRVRFRTDGVLHETARPPITLAPRISSRLKIMS
AMDISERRKPQDGRIKMKLSKTKAIDFRVNTCPTLWGEKIVLRILDPTSAQMGIDSLGYEEEQKDMYMEALHQPQGMILV
TGPTGSGKTVSLYTGLNILNTVERNISTAEDPVEINLEGINQVNVNPKQGMDFAQALRAFLRQDPDIIMVGEIRDLETAS
IAIKAAQTGHMVMSTLHTNSAAETLTRLLNMGVPAFNLATTVNLIIAQRLARRLCSNCKVKMDIPKTALLHEGFTEEQAQ
TAQLYGPKPKGCEKCNNGYKGRLGIYEVVRITQGLSKIIMEEGNSIEIAEQAQKEGFNNLRTSGLLKALQGLTSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=423708 G4Y78_RS08445 WP_163832605.1 1773242..1774936(-) (pilB) [Spartinivicinus ruber strain S2-4-1H]
ATGATTCTAACGGGACTAGCTAAACGTTTAGTTGATGATAACCTGCTCAGTCATGATCAGGCGAGCCAGGCATTTCAAGA
AGCTTCTAAACAAAAAATTCCTTTTGTTACCCATTTGGTTCAGGCTGATCTTGTTCAGTCAAAGGATATTGCCCGGCTTG
CTGCGGAAGAGTTTGGCTCCCCTTTAATGGATATAGATTGCTTTGATTTTGAGCAAGCCCCTAAAGAGCTCGTCAATGAA
AAACTGATTAGAAAACACCATACCCTCCCCTTGTTGAAACGGGGCAATCGCCTATTTGTTGCTGTTTCTGACCCAACTAA
CCTCAATGCATTAGATGAAATCCGTTTTAATACAGGGTTAAATATTGATGCAGTATTAGTTCAAGAGGACAAGCTCTCAG
CTGCAATTGAGCGTTTTTTAGAAAGCGCTGATGACGCTTTAAGTGATTTATCCGATGAAGATTTAGATGCACTAGAAATA
TCAGCTGGTGACGAAGAACAAGAGACCGCGGGCGGTGATGAAGCTGATGATGCACCTGTTGTCCGATTTGTTAATAAGAT
GCTGTTAAGCGCCATTAAAGGTGGCTCTTCAGACCTACACTTTGAGCCCTATGAAAAAAGCTATCGCGTTCGCTTTAGGA
CAGATGGTGTACTACATGAAACCGCGAGACCCCCCATTACTTTAGCCCCTCGTATTTCTTCCCGCTTAAAAATTATGTCT
GCTATGGATATCTCTGAGCGGCGTAAGCCACAGGACGGCCGGATTAAAATGAAATTATCTAAAACAAAAGCTATCGACTT
TCGGGTGAATACCTGTCCTACCTTATGGGGTGAAAAGATTGTATTACGAATTCTTGACCCAACCAGTGCCCAAATGGGGA
TTGATAGCCTAGGTTATGAAGAAGAACAAAAAGACATGTATATGGAAGCTTTACATCAACCCCAAGGCATGATTTTAGTT
ACCGGACCAACAGGAAGTGGTAAAACCGTTTCGCTTTATACTGGGCTTAATATTCTAAATACTGTCGAACGCAATATTTC
TACTGCTGAAGACCCTGTCGAAATAAACTTGGAAGGCATCAACCAAGTTAACGTTAACCCCAAGCAAGGAATGGATTTTG
CCCAAGCACTGCGAGCATTCTTAAGACAGGACCCTGATATTATCATGGTAGGTGAGATTCGAGACTTAGAGACCGCTAGT
ATTGCCATCAAAGCAGCTCAAACGGGTCACATGGTAATGTCCACTCTACATACCAATAGTGCTGCTGAAACCCTAACACG
CTTATTAAACATGGGAGTACCAGCTTTTAACCTAGCTACTACCGTCAATTTAATTATTGCCCAGCGTTTAGCACGACGAC
TATGTAGTAACTGCAAGGTTAAAATGGACATTCCTAAAACAGCTCTACTTCATGAAGGCTTCACGGAAGAACAGGCACAA
ACAGCTCAATTATATGGCCCCAAGCCAAAAGGTTGTGAAAAGTGCAATAATGGCTATAAAGGGAGGTTGGGTATTTATGA
AGTAGTGAGAATTACACAAGGACTTTCAAAAATTATTATGGAAGAAGGCAATTCCATTGAAATAGCTGAACAGGCACAAA
AGGAAGGCTTCAATAACTTACGTACATCCGGATTGCTAAAGGCATTACAAGGGTTAACTAGCCTGGAAGAAGTGAATCGA
GTGACCAAAGATTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(186-453)

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

(39-143)


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

60.317

100

0.606
  pilB Acinetobacter baylyi ADP1

58.792

99.823

0.587
  pilB Legionella pneumophila strain ERS1305867

54.85

100

0.551
  pilB Vibrio cholerae strain A1552

49.468

100

0.495
  pilB Vibrio parahaemolyticus RIMD 2210633

49.466

99.645

0.493
  pilF Neisseria gonorrhoeae MS11

48.33

100

0.488
  pilB Vibrio campbellii strain DS40M4

48.582

100

0.486
  pilF Thermus thermophilus HB27

38.283

99.113

0.379
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.146

99.468

0.379
  pilB/pilB1 Synechocystis sp. PCC 6803

38.727

97.518

0.378