Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   GPY34_RS16145 Genome accession   NZ_CP046778
Coordinates   1532546..1534048 (-) Length   500 a.a.
NCBI ID   WP_005496716.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2014V-1125     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1527546..1539048
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY34_RS16115 gspK 1528148..1529158 (-) 1011 WP_005496726.1 type II secretion system minor pseudopilin GspK -
  GPY34_RS16120 gspJ 1529151..1529834 (-) 684 WP_005496724.1 type II secretion system minor pseudopilin GspJ -
  GPY34_RS16125 gspI 1529821..1530210 (-) 390 WP_005496722.1 type II secretion system minor pseudopilin GspI -
  GPY34_RS16130 gspH 1530197..1530793 (-) 597 WP_023624183.1 type II secretion system minor pseudopilin GspH -
  GPY34_RS16135 gspG 1530824..1531267 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  GPY34_RS16140 gspF 1531329..1532546 (-) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  GPY34_RS16145 pilB/pilB1 1532546..1534048 (-) 1503 WP_005496716.1 type II secretion system ATPase GspE Machinery gene
  GPY34_RS16150 gspD 1534048..1536072 (-) 2025 WP_005496714.1 type II secretion system secretin GspD -
  GPY34_RS16155 gspC 1536109..1537032 (-) 924 WP_005465330.1 type II secretion system protein GspC -
  GPY34_RS16160 hslR 1537288..1537674 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  GPY34_RS16165 hslO 1537706..1538581 (+) 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=355368 GPY34_RS16145 WP_005496716.1 1532546..1534048(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 2014V-1125]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=355368 GPY34_RS16145 WP_005496716.1 1532546..1534048(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 2014V-1125]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGTG
TGCTTAAGCGCAGCTTCGTTCCTCAAGCCATCGATAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGATGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGATGAGGACTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGCGAA
GTCTTGACGCCAAGTCGTAAGCTTGCGCCGTTATTGGTGTCTCGTGTGAAAGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCACTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCACAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCACACGGTATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACTCAAGTTAACCCGAAAGTCGACATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTGGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGTATTGAAC
CATTTTTGATCTCATCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTTTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCATGGCAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
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