Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   D0871_RS16615 Genome accession   NZ_CP033141
Coordinates   3302636..3304138 (-) Length   500 a.a.
NCBI ID   WP_005496716.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 160807     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3297636..3309138
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0871_RS16585 (D0871_16585) gspK 3298238..3299248 (-) 1011 WP_025500558.1 type II secretion system minor pseudopilin GspK -
  D0871_RS16590 (D0871_16590) gspJ 3299241..3299924 (-) 684 WP_025500559.1 type II secretion system minor pseudopilin GspJ -
  D0871_RS16595 (D0871_16595) gspI 3299911..3300300 (-) 390 WP_025500561.1 type II secretion system minor pseudopilin GspI -
  D0871_RS16600 (D0871_16600) gspH 3300287..3300883 (-) 597 WP_023624183.1 type II secretion system minor pseudopilin GspH -
  D0871_RS16605 (D0871_16605) gspG 3300914..3301357 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  D0871_RS16610 (D0871_16610) gspF 3301419..3302636 (-) 1218 WP_017449057.1 type II secretion system inner membrane protein GspF -
  D0871_RS16615 (D0871_16615) pilB/pilB1 3302636..3304138 (-) 1503 WP_005496716.1 type II secretion system ATPase GspE Machinery gene
  D0871_RS16620 (D0871_16620) gspD 3304138..3306162 (-) 2025 WP_005496714.1 type II secretion system secretin GspD -
  D0871_RS16625 (D0871_16625) gspC 3306199..3307122 (-) 924 WP_025500562.1 type II secretion system protein GspC -
  D0871_RS16630 (D0871_16630) hslR 3307378..3307764 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  D0871_RS16635 (D0871_16635) hslO 3307796..3308671 (+) 876 WP_122016057.1 Hsp33 family molecular chaperone HslO -

Sequence

Protein


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

>NTDB_id=282404 D0871_RS16615 WP_005496716.1 3302636..3304138(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 160807]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=282404 D0871_RS16615 WP_005496716.1 3302636..3304138(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 160807]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCAGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCAGCGGCTCTGGTTGAAGTGCGTCGCG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCTATCGACAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGACGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGACGAGGATTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGCGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGCGAA
GTCTTGACGCCAAGTCGTAAGCTTGCGCCGTTATTGGTGTCTCGTGTGAAAGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCACTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCACAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCACACGGTATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACTCAAGTTAACCCGAAAGTCGACATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTGGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACCTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGTATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTCTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCATGGCAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
TGAAGCGTGTAACCAAAAAGGTTATCGCGGACGTACCGGCATTCATGAATTAGTGCTTGTCGATGAAACGGTTCAAGAGC
TGATTCACCGCGAAGCAGGTGAGCAAGAAGTGGAAAAAGCCGTTCGTAATCATACGCCAAGTATTCGTAGTGATGGTCTA
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

Multiple sequence alignment