Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HAPS_RS09760 Genome accession   NC_011852
Coordinates   1972588..1973973 (-) Length   461 a.a.
NCBI ID   WP_015940026.1    Uniprot ID   B8F827
Organism   Glaesserella parasuis SH0165     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1967588..1978973
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HAPS_RS09735 (HAPS_2006) clpP 1967605..1968186 (+) 582 WP_010787003.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP -
  HAPS_RS09740 (HAPS_2007) clpX 1968193..1969443 (+) 1251 WP_005711769.1 ATP-dependent protease ATP-binding subunit ClpX -
  HAPS_RS09745 (HAPS_2008) dapE 1969517..1970650 (-) 1134 WP_010787004.1 succinyl-diaminopimelate desuccinylase -
  HAPS_RS09750 (HAPS_2009) - 1970734..1971402 (-) 669 WP_015940025.1 prepilin peptidase -
  HAPS_RS09755 (HAPS_2010) pilC 1971399..1972595 (-) 1197 WP_005711777.1 type II secretion system F family protein Machinery gene
  HAPS_RS09760 (HAPS_2011) pilB 1972588..1973973 (-) 1386 WP_015940026.1 GspE/PulE family protein Machinery gene
  HAPS_RS09765 (HAPS_2012) - 1974326..1974691 (-) 366 WP_015940027.1 endonuclease domain-containing protein -
  HAPS_RS09770 (HAPS_2013) pilA 1974964..1975416 (-) 453 WP_010787008.1 pilin Machinery gene
  HAPS_RS09775 (HAPS_2014) radA 1975604..1976980 (+) 1377 WP_010787009.1 DNA repair protein RadA -
  HAPS_RS09780 (HAPS_2015) gmk 1977033..1977659 (-) 627 WP_010787010.1 guanylate kinase -
  HAPS_RS09785 (HAPS_2016) - 1977728..1978699 (-) 972 WP_012621529.1 IS110 family transposase -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 52794.58 Da        Isoelectric Point: 5.2525

>NTDB_id=32583 HAPS_RS09760 WP_015940026.1 1972588..1973973(-) (pilB) [Glaesserella parasuis SH0165]
MSQYTICEQQTERIFDISPSRWQKNCEEKQLLLRYLAVPVQETEHKLWLAVDDENNLTACEIFAFMTHKQIEPVVIASDE
LKYLLNALSPEQQPIYEESELAFVEQEQEQLNLNDPIIQLLDNLFKFCLAQNASDIHIEPRKQKLIIRLRIDGVLHLYKS
LSIQLASRLISRIKLLAKLDISELRQPQDGQFSFTTALADTLDFRVSSLPTIYGEKLVLRLQKNKPTSFDFLQLGFNPQQ
QTTLLNALKQPQGLILVTGPTGSGKSITLYSALNYLNQMDKHILTAEDPVEIEIDGLIQTQVNRSIQLDFSQLLRTFLRQ
DPDIIMLGEIRDEESAQMALRASQTGHLVLSTLHTNDALSAVERLLQLGIQEYEIQNSLLLVIAQRLVRKLCKKCRGVGC
DECYQGYRGRIGVYQCLSRTAKKFDKQTAYLDFSSLRESAKQKVEQQLTNETEVDRVLGYE

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=32583 HAPS_RS09760 WP_015940026.1 1972588..1973973(-) (pilB) [Glaesserella parasuis SH0165]
ATGTCCCAATACACTATCTGCGAACAACAAACCGAACGCATTTTTGATATATCGCCTAGCCGTTGGCAAAAAAATTGCGA
GGAGAAACAGCTTTTATTGCGTTACCTTGCCGTTCCTGTGCAAGAAACTGAGCATAAATTATGGCTTGCCGTTGATGATG
AAAACAATCTCACCGCTTGCGAAATCTTTGCTTTTATGACCCATAAGCAGATTGAGCCAGTGGTGATTGCTTCTGATGAA
CTGAAATACTTGCTTAACGCTCTCTCGCCTGAACAACAGCCCATTTATGAAGAGAGCGAGCTGGCTTTTGTTGAACAGGA
GCAAGAACAGCTCAACCTAAACGATCCGATTATTCAACTGCTAGATAATCTCTTTAAATTTTGTCTAGCTCAGAATGCGT
CCGACATTCATATTGAGCCACGCAAGCAAAAATTGATTATCCGCTTACGCATTGACGGCGTTTTGCACCTGTATAAAAGC
CTATCTATTCAGCTGGCAAGCCGACTAATTTCACGGATAAAACTACTGGCAAAGCTAGATATTAGCGAATTACGCCAGCC
ACAAGACGGGCAATTTAGTTTTACCACCGCCCTTGCGGATACCCTTGATTTTCGGGTATCTAGCCTGCCGACGATCTACG
GTGAAAAACTGGTATTACGCTTACAAAAAAACAAGCCGACCAGTTTTGATTTTCTACAACTTGGCTTTAATCCACAACAG
CAAACCACACTGCTCAACGCCCTGAAACAACCACAGGGGCTGATTTTAGTGACCGGACCAACGGGCAGTGGCAAAAGCAT
CACCCTGTACAGTGCCTTAAACTATCTTAACCAAATGGATAAACATATTCTCACCGCCGAAGATCCGGTGGAAATCGAGA
TTGACGGCTTAATTCAAACCCAAGTTAATCGCAGTATTCAACTGGATTTTAGCCAGCTATTACGCACCTTTCTACGCCAA
GATCCTGACATCATTATGTTAGGCGAAATTCGAGATGAAGAGAGTGCCCAAATGGCGTTACGAGCAAGCCAGACGGGGCA
TTTAGTCCTTTCGACCCTGCATACCAACGACGCACTCTCTGCGGTCGAACGCTTGTTGCAACTGGGTATTCAAGAGTATG
AAATCCAAAATTCACTACTGTTAGTGATTGCACAACGCCTTGTGCGTAAGCTCTGTAAAAAGTGTCGTGGAGTAGGCTGT
GACGAGTGCTATCAAGGCTATAGAGGGCGGATCGGGGTTTACCAATGTTTAAGCAGAACGGCAAAAAAATTCGATAAACA
GACCGCTTACTTGGATTTTTCCAGCCTACGAGAGAGTGCCAAACAGAAAGTTGAACAACAACTCACCAATGAAACCGAAG
TGGATAGGGTATTAGGCTATGAATAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(30-92)

Type II/IV secretion system protein (T2SSE)

(129-390)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB B8F827

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 Glaesserella parasuis strain SC1401

99.566

100

0.996
  pilB Haemophilus influenzae Rd KW20

58.315

97.831

0.571
  pilB Haemophilus influenzae 86-028NP

57.675

98.915

0.57
  pilB Vibrio cholerae strain A1552

38.2

100

0.414
  pilB Legionella pneumophila strain ERS1305867

38.415

100

0.41
  pilB Vibrio parahaemolyticus RIMD 2210633

39.13

100

0.41
  pilB Vibrio campbellii strain DS40M4

38.923

100

0.408
  pilB Acinetobacter baumannii D1279779

36.381

100

0.406
  pilB Acinetobacter baylyi ADP1

36.832

100

0.403
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.034

100

0.386
  pilF Neisseria gonorrhoeae MS11

36.211

100

0.373
  ctsE Campylobacter jejuni subsp. jejuni 81-176

38.568

93.926

0.362
  pilF Thermus thermophilus HB27

34.801

100

0.36

Multiple sequence alignment