Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   PY372_RS00620 Genome accession   NZ_CP119301
Coordinates   137809..139311 (+) Length   500 a.a.
NCBI ID   WP_062851604.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LC     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 132809..144311
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PY372_RS00600 (PY372_00600) hslO 133276..134151 (-) 876 WP_005465326.1 Hsp33 family molecular chaperone HslO -
  PY372_RS00605 (PY372_00605) hslR 134183..134569 (-) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  PY372_RS00610 (PY372_00610) gspC 134825..135748 (+) 924 WP_005465330.1 type II secretion system protein GspC -
  PY372_RS00615 (PY372_00615) gspD 135785..137809 (+) 2025 WP_193239042.1 type II secretion system secretin GspD -
  PY372_RS00620 (PY372_00620) pilB/pilB1 137809..139311 (+) 1503 WP_062851604.1 type II secretion system ATPase GspE Machinery gene
  PY372_RS00625 (PY372_00625) gspF 139311..140528 (+) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  PY372_RS00630 (PY372_00630) gspG 140590..141033 (+) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  PY372_RS00635 (PY372_00635) gspH 141064..141660 (+) 597 WP_044139892.1 type II secretion system minor pseudopilin GspH -
  PY372_RS00640 (PY372_00640) gspI 141647..142036 (+) 390 WP_005478722.1 type II secretion system minor pseudopilin GspI -
  PY372_RS00645 (PY372_00645) gspJ 142023..142706 (+) 684 WP_020839934.1 type II secretion system minor pseudopilin GspJ -
  PY372_RS00650 (PY372_00650) gspK 142699..143709 (+) 1011 WP_025789352.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 55777.90 Da        Isoelectric Point: 5.9227

>NTDB_id=725660 PY372_RS00620 WP_062851604.1 137809..139311(+) (pilB/pilB1) [Vibrio parahaemolyticus strain LC]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGFTSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=725660 PY372_RS00620 WP_062851604.1 137809..139311(+) (pilB/pilB1) [Vibrio parahaemolyticus strain LC]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGCG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCCATCGACAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGACGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGATGAGGACTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATTAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCGAGTCGTAAGCTTGCGCCGTTATTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCGCTACGTATTGGTGGCCGAGCGGTCGACGTACGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCATAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGCCACCTCATTGGTCGCCCGCACGGAATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACCCAAGTTAACCCGAAAGTCGATATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTTGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGTATTGAAC
CATTTTTGATCTCATCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTTTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCATGGCAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
TGAAGCGTGTAACCAAAAAGGTTATCGCGGACGTACCGGCATTCATGAATTAGTGCTTGTCGATGAAACGGTTCAAGAGC
TGATTCACCGCGAAGCAGGTGAGCAAGAAGTGGAAAAAGCCGTCCGTAATCATACGCCAAGTATTCGCAGTGATGGTCTA
AGCAAAGTACGTCGTGGTTTTACGTCACTTGAAGAAGTGATGCGAGTGACGAAGGAAGCGTAA

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

43.763

97.8

0.428
  pilF Thermus thermophilus HB27

43.949

94.2

0.414
  pilB Acinetobacter baumannii D1279779

42.62

96.2

0.41
  pilB Vibrio parahaemolyticus RIMD 2210633

46.21

81.8

0.378
  pilB Vibrio campbellii strain DS40M4

46.21

81.8

0.378
  pilB Vibrio cholerae strain A1552

47.222

79.2

0.374
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

47.692

78

0.372
  pilB Acinetobacter baylyi ADP1

46.53

77.8

0.362
  pilF Neisseria gonorrhoeae MS11

45.939

78.8

0.362