Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   IF561_RS12490 Genome accession   NZ_CP062150
Coordinates   2650186..2651688 (-) Length   500 a.a.
NCBI ID   WP_264400839.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 19-VB00998     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2645186..2656688
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IF561_RS12460 (IF561_12450) gspK 2645788..2646798 (-) 1011 WP_025789352.1 type II secretion system minor pseudopilin GspK -
  IF561_RS12465 (IF561_12455) gspJ 2646791..2647474 (-) 684 WP_020839934.1 type II secretion system minor pseudopilin GspJ -
  IF561_RS12470 (IF561_12460) gspI 2647461..2647850 (-) 390 WP_005478722.1 type II secretion system minor pseudopilin GspI -
  IF561_RS12475 (IF561_12465) gspH 2647837..2648433 (-) 597 WP_023624183.1 type II secretion system minor pseudopilin GspH -
  IF561_RS12480 (IF561_12470) gspG 2648464..2648907 (-) 444 WP_005465191.1 type II secretion system major pseudopilin GspG -
  IF561_RS12485 (IF561_12475) gspF 2648969..2650186 (-) 1218 WP_005465194.1 type II secretion system inner membrane protein GspF -
  IF561_RS12490 (IF561_12480) pilB/pilB1 2650186..2651688 (-) 1503 WP_264400839.1 type II secretion system ATPase GspE Machinery gene
  IF561_RS12495 (IF561_12485) gspD 2651688..2653712 (-) 2025 WP_005496714.1 type II secretion system secretin GspD -
  IF561_RS12500 (IF561_12490) gspC 2653749..2654672 (-) 924 WP_005465330.1 type II secretion system protein GspC -
  IF561_RS12505 (IF561_12495) hslR 2654928..2655314 (+) 387 WP_005465328.1 ribosome-associated heat shock protein Hsp15 -
  IF561_RS12510 (IF561_12500) hslO 2655346..2656221 (+) 876 WP_005465326.1 Hsp33 family molecular chaperone HslO -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 55713.79 Da        Isoelectric Point: 5.9227

>NTDB_id=423708 IF561_RS12490 WP_264400839.1 2650186..2651688(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 19-VB00998]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKRSFVPQAIDKESFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADSEQKKLFGTAESESLILHRAKGCEACNQKGYRGRTGIHELVLVDETVQELIHREAGEQEVEKAVRNHTPSIRSDGL
SKVRRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=423708 IF561_RS12490 WP_264400839.1 2650186..2651688(-) (pilB/pilB1) [Vibrio parahaemolyticus strain 19-VB00998]
ATGGTAGATATGTTAGACACTGCGCCAAGTATGCGTCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACTGAGCATCCTGAGCGTCCTCCAATTCTTTACTACGTGGAGCCGCTAAATCCTGCGGCTCTGGTTGAAGTACGTCGTG
TGCTTAAGCGCAGCTTCGTTCCTCAAGCCATCGATAAAGAATCCTTCGATAAAAAGCTGACTGAAGCGTATCAACGTGAT
TCATCAGAAGCTCGTCAATTGATGGAAGATATCGGTGCCGACAGTGATGATTTCTTCTCGTTGGCAGAAGAGCTACCGCA
TGATGAGGACTTGTTAGAGTCGGAAGACGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGTGCGTCCGATATCCATATCGAAACGTTTGAAAAGACGCTTTCTATCCGCTTCCGTGTCGACGGCGTTCTGCGTGAA
GTCTTGACGCCAAGTCGTAAGCTTGCGCCGTTATTGGTGTCGCGTGTGAAGGTTATGGCGAAGCTCGATATTGCTGAAAA
GCGTGTGCCTCAAGATGGTCGTATCTCGCTACGTATTGGTGGCCGAGCGGTCGACGTGCGTGTTTCTACCATGCCATCCT
CTCACGGTGAACGCGTGGTAATGCGTCTGTTAGATAAAAACGCAACGCGCCTTGACCTGCACAGTTTGGGCATGACTCCT
TCGGTACACGACAACTTCCGTCACCTCATTGGTCGCCCGCACGGAATCATCTTGGTGACCGGCCCTACGGGTTCTGGTAA
ATCGACCACTTTGTACGCCGGCTTGCAAGAAATCAATAGCAACGAGCGCAACATTCTGACGGTGGAAGACCCAATCGAAT
TTGATATCGATGGCATTGGCCAGACCCAAGTTAACCCGAAAGTCGACATGACATTTGCGCGTGGTCTACGTGCGATCTTA
CGTCAGGACCCGGATGTGGTGATGGTGGGTGAGATCCGTGACTTAGAAACCGCGCAAATTGCGGTGCAAGCGTCTTTGAC
TGGTCACCTGGTAATGTCGACGCTGCATACCAACACCGCTGTTGGTGCGATCACGCGTCTGCGTGATATGGGTATTGAAC
CATTTTTGATCTCCTCTTCACTGCTTGGTGTGCTAGCGCAGCGTCTGGTTCGTACGCTCTGTTCTGACTGTAAAGAACCT
TACGAAGCGGACAGCGAACAGAAAAAATTGTTTGGCACGGCAGAAAGTGAATCGCTCATTCTACATCGCGCGAAAGGCTG
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

42.412

96.2

0.408
  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

46.447

78.8

0.366
  pilB Acinetobacter baylyi ADP1

46.53

77.8

0.362