Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   Q4437_RS00615 Genome accession   NZ_CP130651
Coordinates   138004..139506 (+) Length   500 a.a.
NCBI ID   WP_005478662.1    Uniprot ID   Q87TD6
Organism   Vibrio parahaemolyticus strain HZ     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 133004..144506
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Q4437_RS00595 (Q4437_00595) hslO 133468..134343 (-) 876 WP_005465326.1 Hsp33 family molecular chaperone HslO -
  Q4437_RS00600 (Q4437_00600) hslR 134375..134761 (-) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  Q4437_RS00605 (Q4437_00605) gspC 135017..135940 (+) 924 WP_005465330.1 type II secretion system protein GspC -
  Q4437_RS00610 (Q4437_00610) gspD 135977..138004 (+) 2028 WP_005478663.1 type II secretion system secretin GspD -
  Q4437_RS00615 (Q4437_00615) pilB/pilB1 138004..139506 (+) 1503 WP_005478662.1 type II secretion system ATPase GspE Machinery gene
  Q4437_RS00620 (Q4437_00620) gspF 139506..140723 (+) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  Q4437_RS00625 (Q4437_00625) gspG 140785..141228 (+) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  Q4437_RS00630 (Q4437_00630) gspH 141259..141855 (+) 597 WP_005478669.1 type II secretion system minor pseudopilin GspH -
  Q4437_RS00635 (Q4437_00635) gspI 141842..142231 (+) 390 WP_005478722.1 type II secretion system minor pseudopilin GspI -
  Q4437_RS00640 (Q4437_00640) gspJ 142218..142901 (+) 684 WP_005465187.1 type II secretion system minor pseudopilin GspJ -
  Q4437_RS00645 (Q4437_00645) gspK 142894..143904 (+) 1011 WP_005478666.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 55690.83 Da        Isoelectric Point: 5.7890

>NTDB_id=786343 Q4437_RS00615 WP_005478662.1 138004..139506(+) (pilB/pilB1) [Vibrio parahaemolyticus strain HZ]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRCGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=786343 Q4437_RS00615 WP_005478662.1 138004..139506(+) (pilB/pilB1) [Vibrio parahaemolyticus strain HZ]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGTG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCCATCGACAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAACTGATGGAAGATATCGGTGCCGACAGTGACGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGACGAGGATTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCGAGTCGTAAGCTTGCGCCGTTGCTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCGCTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCATAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCACACGGTATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACTCAAGTTAACCCGAAAGTCGACATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTGGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACCTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGCGCGATCACGCGTCTGCGTGATATGGGTATAGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTCTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCATGGCAGAAAGTGAATCGCTCATTCTACATCGTGCGAAAGGCTG
TGAAGCGTGTAACCAAAAAGGTTATCGCGGACGTACCGGCATTCATGAATTAGTGCTTGTCGATGAAACGGTTCAAGAGC
TGATTCACCGCGAAGCGGGTGAGCAAGAAGTGGAAAAAGCCGTTCGTAATCATACGCCAAGTATTCGCAGTGATGGTCTA
AGCAAAGTACGTTGTGGTATTACGTCACTTGAAGAAGTGATGCGAGTGACGAAGGAAGCGTAA

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(126-392)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q87TD6

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/pilB1 Synechocystis sp. PCC 6803

42.939

100

0.45
  pilB Legionella pneumophila strain ERS1305867

43.967

97.8

0.43
  pilF Thermus thermophilus HB27

44.161

94.2

0.416
  pilB Acinetobacter baumannii D1279779

42.62

96.2

0.41
  pilB Vibrio parahaemolyticus RIMD 2210633

46.455

81.8

0.38
  pilB Vibrio campbellii strain DS40M4

46.455

81.8

0.38
  pilB Vibrio cholerae strain A1552

47.475

79.2

0.376
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

47.692

78

0.372
  pilF Neisseria gonorrhoeae MS11

46.193

78.8

0.364
  pilB Acinetobacter baylyi ADP1

46.53

77.8

0.362