Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   GNY17_RS10630 Genome accession   NZ_CP046411
Coordinates   2068436..2069938 (-) Length   500 a.a.
NCBI ID   WP_005496716.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 19-021-D1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2063436..2074938
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GNY17_RS10600 (GNY17_10595) gspK 2064038..2065048 (-) 1011 WP_005478666.1 type II secretion system minor pseudopilin GspK -
  GNY17_RS10605 (GNY17_10600) gspJ 2065041..2065724 (-) 684 WP_156216649.1 type II secretion system minor pseudopilin GspJ -
  GNY17_RS10610 (GNY17_10605) gspI 2065711..2066100 (-) 390 WP_005478722.1 type II secretion system minor pseudopilin GspI -
  GNY17_RS10615 (GNY17_10610) gspH 2066087..2066683 (-) 597 WP_023624183.1 type II secretion system minor pseudopilin GspH -
  GNY17_RS10620 (GNY17_10615) gspG 2066714..2067157 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  GNY17_RS10625 (GNY17_10620) gspF 2067219..2068436 (-) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  GNY17_RS10630 (GNY17_10625) pilB/pilB1 2068436..2069938 (-) 1503 WP_005496716.1 type II secretion system ATPase GspE Machinery gene
  GNY17_RS10635 (GNY17_10630) gspD 2069938..2071962 (-) 2025 WP_005496714.1 type II secretion system secretin GspD -
  GNY17_RS10640 (GNY17_10635) gspC 2071999..2072922 (-) 924 WP_005465330.1 type II secretion system protein GspC -
  GNY17_RS10645 (GNY17_10640) hslR 2073178..2073564 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  GNY17_RS10650 (GNY17_10645) hslO 2073596..2074471 (+) 876 WP_005465326.1 Hsp33 family molecular chaperone HslO -

Sequence

Protein


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

>NTDB_id=352174 GNY17_RS10630 WP_005496716.1 2068436..2069938(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 19-021-D1]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=352174 GNY17_RS10630 WP_005496716.1 2068436..2069938(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 19-021-D1]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGTG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCCATCGATAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGATGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGATGAGGACTTGTTAGAGTCGGAAGATGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAGGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCGAGTCGTAAGCTTGCGCCGTTGTTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCGCTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGCGTGGTAATGCGTCTGTTGGATAAAAACGCAACGCGCCTTGACCTGCACAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCACACGGTATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACTACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACCCAAGTTAACCCGAAAGTCGATATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTTGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGCATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTTTGTTCTGACTGTAAAGAACCT
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