Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   GPY17_RS09910 Genome accession   NZ_CP046782
Coordinates   252440..253942 (+) Length   500 a.a.
NCBI ID   WP_005496716.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2013V-1244     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 247440..258942
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY17_RS09890 hslO 247904..248779 (-) 876 WP_042772204.1 Hsp33 family molecular chaperone HslO -
  GPY17_RS09895 hslR 248811..249197 (-) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  GPY17_RS09900 gspC 249453..250376 (+) 924 WP_025573997.1 type II secretion system protein GspC -
  GPY17_RS09905 gspD 250413..252440 (+) 2028 WP_005478663.1 type II secretion system secretin GspD -
  GPY17_RS09910 pilB/pilB1 252440..253942 (+) 1503 WP_005496716.1 type II secretion system ATPase GspE Machinery gene
  GPY17_RS09915 gspF 253942..255159 (+) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  GPY17_RS09920 gspG 255221..255664 (+) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  GPY17_RS09925 - 255695..256291 (+) 597 WP_042772227.1 GspH/FimT family pseudopilin -
  GPY17_RS09930 gspI 256278..256667 (+) 390 WP_025622193.1 type II secretion system minor pseudopilin GspI -
  GPY17_RS09935 gspJ 256654..257337 (+) 684 WP_020904375.1 type II secretion system minor pseudopilin GspJ -
  GPY17_RS09940 gspK 257330..258340 (+) 1011 WP_005478666.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 55743.88 Da        Isoelectric Point: 5.9227

>NTDB_id=355516 GPY17_RS09910 WP_005496716.1 252440..253942(+) (pilB/pilB1) [Vibrio parahaemolyticus strain 2013V-1244]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=355516 GPY17_RS09910 WP_005496716.1 252440..253942(+) (pilB/pilB1) [Vibrio parahaemolyticus strain 2013V-1244]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACAGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCAGCGGCTCTGGTTGAAGTACGTCGCG
TGCTTAAGCGCAGTTTCGTGCCTCAAGCCATCGATAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGACGATTTTTTCTCGTTGGCAGAAGAGCTACCGCA
TGACGAGGATTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGCGAA
GTCTTGACGCCAAGTCGTAAGCTTGCGCCGTTATTGGTGTCTCGTGTGAAAGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCACTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCACAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCACACGGTATCATCTTGGTGACCGGCCCTACGGGCTCTGGTAA
ATCGACTACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACTCAAGTTAACCCGAAAGTCGATATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTAGTGATGGTTGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGTATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTTTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGTATGGCAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
TGAAGCGTGTAACCAAAAAGGTTATCGCGGACGTACCGGCATTCATGAATTAGTGCTTGTCGATGAAACGGTTCAAGAGC
TGATTCACCGCGAAGCGGGTGAGCAAGAAGTGGAAAAAGCCGTTCGTAATCATACGCCAAGTATTCGTAGTGATGGTCTA
AGCAAAGTACGTCGTGGTATTACGTCACTTGAAGAAGTGATGCGAGTGACGAAGGAAGCGTAA

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

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