Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   GPY45_RS04305 Genome accession   NZ_CP046785
Coordinates   847703..849205 (-) Length   500 a.a.
NCBI ID   WP_005496716.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2013V-1136     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 842703..854205
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY45_RS04275 gspK 843305..844315 (-) 1011 WP_005478666.1 type II secretion system minor pseudopilin GspK -
  GPY45_RS04280 gspJ 844308..844991 (-) 684 WP_020904375.1 type II secretion system minor pseudopilin GspJ -
  GPY45_RS04285 gspI 844978..845367 (-) 390 WP_005478722.1 type II secretion system minor pseudopilin GspI -
  GPY45_RS04290 gspH 845354..845950 (-) 597 WP_031777519.1 type II secretion system minor pseudopilin GspH -
  GPY45_RS04295 gspG 845981..846424 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  GPY45_RS04300 gspF 846486..847703 (-) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  GPY45_RS04305 pilB/pilB1 847703..849205 (-) 1503 WP_005496716.1 type II secretion system ATPase GspE Machinery gene
  GPY45_RS04310 gspD 849205..851229 (-) 2025 WP_020839932.1 type II secretion system secretin GspD -
  GPY45_RS04315 gspC 851266..852189 (-) 924 WP_005465330.1 type II secretion system protein GspC -
  GPY45_RS04320 hslR 852445..852831 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  GPY45_RS04325 hslO 852863..853738 (+) 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=355700 GPY45_RS04305 WP_005496716.1 847703..849205(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 2013V-1136]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=355700 GPY45_RS04305 WP_005496716.1 847703..849205(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 2013V-1136]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCAGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGTG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCCATCGACAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGACGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGACGAGGATTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCTATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCGAGTCGTAAGCTTGCGCCGTTGTTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCTCTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACTATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCATAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCACACGGTATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACCCAAGTTAACCCGAAAGTCGACATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTTGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTCATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGCATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTTTGTTCTGACTGTAAAGAACCT
TATGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCATGGCAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
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