Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   M5598_RS15055 Genome accession   NZ_CP097355
Coordinates   3185561..3187063 (-) Length   500 a.a.
NCBI ID   WP_005496716.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 16-VB00198     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3180561..3192063
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M5598_RS15025 (M5598_15010) gspK 3181163..3182173 (-) 1011 WP_029821920.1 type II secretion system minor pseudopilin GspK -
  M5598_RS15030 (M5598_15015) gspJ 3182166..3182849 (-) 684 WP_020904375.1 type II secretion system minor pseudopilin GspJ -
  M5598_RS15035 (M5598_15020) gspI 3182836..3183225 (-) 390 WP_140054876.1 type II secretion system minor pseudopilin GspI -
  M5598_RS15040 (M5598_15025) gspH 3183212..3183808 (-) 597 WP_023624183.1 type II secretion system minor pseudopilin GspH -
  M5598_RS15045 (M5598_15030) gspG 3183839..3184282 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  M5598_RS15050 (M5598_15035) gspF 3184344..3185561 (-) 1218 WP_228086616.1 type II secretion system inner membrane protein GspF -
  M5598_RS15055 (M5598_15040) pilB/pilB1 3185561..3187063 (-) 1503 WP_005496716.1 type II secretion system ATPase GspE Machinery gene
  M5598_RS15060 (M5598_15045) gspD 3187063..3189087 (-) 2025 WP_020839932.1 type II secretion system secretin GspD -
  M5598_RS15065 (M5598_15050) gspC 3189124..3190047 (-) 924 WP_005465330.1 type II secretion system protein GspC -
  M5598_RS15070 (M5598_15055) hslR 3190303..3190689 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  M5598_RS15075 (M5598_15060) hslO 3190721..3191596 (+) 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=594414 M5598_RS15055 WP_005496716.1 3185561..3187063(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 16-VB00198]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGMAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=594414 M5598_RS15055 WP_005496716.1 3185561..3187063(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 16-VB00198]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCTGCTCTGGTTGAAGTACGTCGCG
TGCTTAAGCGCAGCTTCGTGCCTCAAGCCATCGACAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGACGATTTCTTTTCGTTGGCAGAAGAGCTACCGCA
TGACGAGGATTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCGAGTCGTAAGCTTGCGCCGTTGTTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCGCTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGAGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCATAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGCCACCTCATTGGTCGCCCGCACGGAATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAACAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACCCAAGTTAACCCGAAAGTCGATATGACATTTGCGCGTGGTCTACGTGCGATTTTA
CGTCAGGACCCGGATGTGGTGATGGTTGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACTTGGTCATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGTATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTCTGTTCTGACTGTAAAGAACCT
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