Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WAE38_RS08040 Genome accession   NZ_CP147984
Coordinates   1623755..1625140 (+) Length   461 a.a.
NCBI ID   WP_203399225.1    Uniprot ID   A0AAX1M383
Organism   Glaesserella parasuis strain H16SD2BY4     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1618755..1630140
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WAE38_RS08020 (WAE38_08020) gpt 1620273..1620752 (+) 480 WP_005714020.1 xanthine phosphoribosyltransferase -
  WAE38_RS08025 (WAE38_08025) gmk 1621006..1621632 (+) 627 WP_261473486.1 guanylate kinase -
  WAE38_RS08030 (WAE38_08030) radA 1621685..1623061 (-) 1377 WP_005711784.1 DNA repair protein RadA -
  WAE38_RS08035 (WAE38_08035) pilA 1623249..1623707 (+) 459 WP_075605061.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  WAE38_RS08040 (WAE38_08040) pilB 1623755..1625140 (+) 1386 WP_203399225.1 GspE/PulE family protein Machinery gene
  WAE38_RS08045 (WAE38_08045) pilC 1625133..1626329 (+) 1197 WP_203399224.1 type II secretion system F family protein Machinery gene
  WAE38_RS08050 (WAE38_08050) - 1626326..1626994 (+) 669 WP_035491631.1 prepilin peptidase -
  WAE38_RS08055 (WAE38_08055) dapE 1627078..1628211 (+) 1134 WP_021113185.1 succinyl-diaminopimelate desuccinylase -
  WAE38_RS08060 (WAE38_08060) clpX 1628285..1629535 (-) 1251 WP_338823461.1 ATP-dependent protease ATP-binding subunit ClpX -
  WAE38_RS08065 (WAE38_08065) clpP 1629542..1630123 (-) 582 WP_010787003.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 52666.35 Da        Isoelectric Point: 4.9784

>NTDB_id=949839 WAE38_RS08040 WP_203399225.1 1623755..1625140(+) (pilB) [Glaesserella parasuis strain H16SD2BY4]
MSQYTVCEQQTERIFDISPSRWQQNCEEKELLLRYLAVPVQETEHKLWLAVDDENNLTACEIFAFMTHKQIEPVVIASDE
LKYLLNALSPEQQPLYEESELAFAEQEQEQLNLSDPIIQLLDNLFKFCLTQNASDIHIEPRKQKLIIRLRIDGVLHLYKS
LSIQLASRLISRIKLLAKLDISELRQPQDGQFSFTTALADTLDFRVSSLPTIYGEKLVLRLQKNKPTSFDFLQLGFNPQQ
QTTLLNALKQPQGLILVTGPTGSGKSITLYSALNYLNQMDKHILTAEDPVEIEIDGLIQTQVNQSINLDFSQLLRTFLRQ
DPDIIMLGEIRDEDSAKMALRASQTGHLVLSTLHTNDALSAVERLLQLGIQEYEIQNSLLLVIAQRLVRKLCKKCRGTGC
DECYQGYKGRIGIYQCLSRTAKKFDKQTAYLDFSSLRESAKQKIEQQLTNEIEVDRVLGDE

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=949839 WAE38_RS08040 WP_203399225.1 1623755..1625140(+) (pilB) [Glaesserella parasuis strain H16SD2BY4]
ATGTCCCAATACACCGTCTGCGAACAACAAACCGAACGCATTTTTGATATATCGCCTAGCCGTTGGCAACAAAATTGCGA
AGAAAAAGAGCTGTTATTGCGTTATCTTGCCGTTCCTGTGCAAGAAACTGAGCATAAATTATGGCTTGCCGTTGATGATG
AAAACAATCTCACCGCTTGCGAAATCTTTGCTTTTATGACCCATAAGCAGATTGAACCTGTGGTAATTGCTTCTGATGAG
CTTAAATACCTGCTTAACGCACTCTCGCCTGAGCAACAACCCCTTTATGAAGAGAGCGAACTGGCTTTCGCAGAACAAGA
GCAAGAACAGCTCAACTTAAGCGATCCGATTATTCAACTGCTCGATAATCTTTTTAAATTCTGTTTAACCCAAAATGCGT
CTGATATTCATATTGAACCACGCAAGCAAAAATTGATTATCCGCTTACGCATTGACGGTGTTTTGCACCTGTATAAAAGC
CTGTCTATTCAACTGGCAAGCCGACTTATTTCACGGATAAAACTGCTGGCGAAGCTAGATATTAGTGAATTACGCCAGCC
ACAAGATGGGCAATTTAGCTTTACTACCGCCTTGGCGGACACCCTTGATTTTCGGGTATCTAGCCTGCCGACGATCTACG
GCGAAAAACTGGTATTGCGCCTACAAAAAAACAAACCAACCAGTTTTGATTTTCTGCAACTTGGCTTTAATCCACAACAG
CAGACCACACTACTCAACGCCTTGAAACAACCGCAAGGGCTGATTTTAGTGACAGGACCAACGGGCAGTGGCAAAAGTAT
CACCTTGTATAGTGCCTTAAACTACCTCAACCAAATGGATAAACATATTCTCACCGCCGAAGATCCCGTGGAAATTGAGA
TTGACGGCTTAATTCAAACCCAAGTCAATCAAAGTATTAACCTTGATTTTAGCCAGCTATTACGCACCTTTCTACGCCAA
GATCCCGACATCATTATGCTAGGTGAAATTCGAGATGAAGATAGTGCAAAAATGGCATTAAGAGCAAGCCAGACGGGGCA
TTTAGTCCTTTCAACCCTGCATACCAATGACGCACTATCAGCGGTCGAACGTTTGTTACAACTGGGTATTCAAGAGTATG
AAATCCAAAATTCACTACTGTTAGTCATTGCACAACGCCTTGTGCGTAAGCTCTGCAAAAAGTGTCGTGGCACAGGCTGT
GATGAGTGCTATCAAGGCTATAAAGGGCGGATCGGGATTTACCAATGTTTAAGTAGAACTGCAAAAAAATTCGATAAACA
GACCGCTTACTTAGATTTTTCCAGCTTACGAGAGAGTGCTAAACAAAAAATTGAACAACAACTAACCAACGAAATCGAAG
TGGATAGGGTATTAGGCGATGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(129-390)

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

(24-92)


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 Glaesserella parasuis strain SC1401

96.746

100

0.967
  pilB Haemophilus influenzae Rd KW20

57.363

98.698

0.566
  pilB Haemophilus influenzae 86-028NP

56.739

99.783

0.566
  pilB Vibrio cholerae strain A1552

38.554

100

0.416
  pilB Vibrio parahaemolyticus RIMD 2210633

39.709

100

0.414
  pilB Vibrio campbellii strain DS40M4

39.709

100

0.414
  pilB Acinetobacter baylyi ADP1

36.436

100

0.399
  pilB Acinetobacter baumannii D1279779

35.798

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.085

100

0.388
  pilB Legionella pneumophila strain ERS1305867

40.455

95.445

0.386
  pilF Neisseria gonorrhoeae MS11

36.632

100

0.377