Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   CRH16_RS09675 Genome accession   NZ_CP024412
Coordinates   1898512..1899897 (-) Length   461 a.a.
NCBI ID   WP_015940026.1    Uniprot ID   B8F827
Organism   Glaesserella parasuis strain SH0104     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1893512..1904897
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CRH16_RS09650 clpP 1893529..1894110 (+) 582 WP_010787003.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP -
  CRH16_RS09655 clpX 1894117..1895367 (+) 1251 WP_112063124.1 ATP-dependent protease ATP-binding subunit ClpX -
  CRH16_RS09660 dapE 1895441..1896574 (-) 1134 WP_005711772.1 succinyl-diaminopimelate desuccinylase -
  CRH16_RS09665 - 1896658..1897326 (-) 669 WP_015940025.1 prepilin peptidase -
  CRH16_RS09670 pilC 1897323..1898519 (-) 1197 WP_005711777.1 type II secretion system F family protein Machinery gene
  CRH16_RS09675 pilB 1898512..1899897 (-) 1386 WP_015940026.1 GspE/PulE family protein Machinery gene
  CRH16_RS09680 - 1900250..1900615 (-) 366 WP_015940027.1 endonuclease domain-containing protein -
  CRH16_RS09685 pilA 1900888..1901340 (-) 453 WP_010787008.1 pilin Machinery gene
  CRH16_RS09690 radA 1901528..1902904 (+) 1377 WP_021114521.1 DNA repair protein RadA -
  CRH16_RS09695 gmk 1902957..1903583 (-) 627 WP_021113158.1 guanylate kinase -
  CRH16_RS09700 gpt 1903709..1904188 (-) 480 WP_112063125.1 xanthine phosphoribosyltransferase -

Sequence

Protein


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

>NTDB_id=253423 CRH16_RS09675 WP_015940026.1 1898512..1899897(-) (pilB) [Glaesserella parasuis strain SH0104]
MSQYTICEQQTERIFDISPSRWQKNCEEKQLLLRYLAVPVQETEHKLWLAVDDENNLTACEIFAFMTHKQIEPVVIASDE
LKYLLNALSPEQQPIYEESELAFVEQEQEQLNLNDPIIQLLDNLFKFCLAQNASDIHIEPRKQKLIIRLRIDGVLHLYKS
LSIQLASRLISRIKLLAKLDISELRQPQDGQFSFTTALADTLDFRVSSLPTIYGEKLVLRLQKNKPTSFDFLQLGFNPQQ
QTTLLNALKQPQGLILVTGPTGSGKSITLYSALNYLNQMDKHILTAEDPVEIEIDGLIQTQVNRSIQLDFSQLLRTFLRQ
DPDIIMLGEIRDEESAQMALRASQTGHLVLSTLHTNDALSAVERLLQLGIQEYEIQNSLLLVIAQRLVRKLCKKCRGVGC
DECYQGYRGRIGVYQCLSRTAKKFDKQTAYLDFSSLRESAKQKVEQQLTNETEVDRVLGYE

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=253423 CRH16_RS09675 WP_015940026.1 1898512..1899897(-) (pilB) [Glaesserella parasuis strain SH0104]
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