Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   QMY43_RS13565 Genome accession   NZ_CP125856
Coordinates   2880960..2882462 (-) Length   500 a.a.
NCBI ID   WP_025632841.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain G855     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2875960..2887462
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QMY43_RS13535 (QMY43_13535) gspK 2876562..2877572 (-) 1011 WP_005478666.1 type II secretion system minor pseudopilin GspK -
  QMY43_RS13540 (QMY43_13540) gspJ 2877565..2878248 (-) 684 WP_020904375.1 type II secretion system minor pseudopilin GspJ -
  QMY43_RS13545 (QMY43_13545) gspI 2878235..2878624 (-) 390 WP_005478722.1 type II secretion system minor pseudopilin GspI -
  QMY43_RS13550 (QMY43_13550) gspH 2878611..2879207 (-) 597 WP_023624183.1 type II secretion system minor pseudopilin GspH -
  QMY43_RS13555 (QMY43_13555) gspG 2879238..2879681 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  QMY43_RS13560 (QMY43_13560) gspF 2879743..2880960 (-) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  QMY43_RS13565 (QMY43_13565) pilB/pilB1 2880960..2882462 (-) 1503 WP_025632841.1 type II secretion system ATPase GspE Machinery gene
  QMY43_RS13570 (QMY43_13570) gspD 2882462..2884486 (-) 2025 WP_005496714.1 type II secretion system secretin GspD -
  QMY43_RS13575 (QMY43_13575) gspC 2884523..2885446 (-) 924 WP_025816867.1 type II secretion system protein GspC -
  QMY43_RS13580 (QMY43_13580) hslR 2885702..2886088 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  QMY43_RS13585 (QMY43_13585) hslO 2886120..2886995 (+) 876 WP_005465326.1 Hsp33 family molecular chaperone HslO -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 55773.90 Da        Isoelectric Point: 5.9227

>NTDB_id=764298 QMY43_RS13565 WP_025632841.1 2880960..2882462(-) (pilB/pilB1) [Vibrio parahaemolyticus strain G855]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMTESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=764298 QMY43_RS13565 WP_025632841.1 2880960..2882462(-) (pilB/pilB1) [Vibrio parahaemolyticus strain G855]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTATGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGTG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCTATCGACAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGACGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGATGAGGACTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCAAGTCGTAAGCTTGCGCCGTTATTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCGCTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGCGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCACAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCGCACGGAATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAATAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACCCAAGTTAACCCGAAAGTCGACATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTTGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGCATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTCTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCATGACAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
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

46.21

81.8

0.378
  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

46.447

78.8

0.366