Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HQ939_RS09025 Genome accession   NZ_CP054198
Coordinates   1792867..1794252 (-) Length   461 a.a.
NCBI ID   WP_075606469.1    Uniprot ID   A0A6M8T215
Organism   Glaesserella parasuis strain YHP170504     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1787867..1799252
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HQ939_RS09000 (HQ939_09010) clpP 1787884..1788465 (+) 582 WP_075606472.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP -
  HQ939_RS09005 (HQ939_09015) clpX 1788472..1789722 (+) 1251 WP_042906659.1 ATP-dependent protease ATP-binding subunit ClpX -
  HQ939_RS09010 (HQ939_09020) dapE 1789796..1790929 (-) 1134 WP_021117768.1 succinyl-diaminopimelate desuccinylase -
  HQ939_RS09015 (HQ939_09025) - 1791013..1791681 (-) 669 WP_075606471.1 prepilin peptidase -
  HQ939_RS09020 (HQ939_09030) pilC 1791678..1792874 (-) 1197 WP_075606470.1 type II secretion system F family protein Machinery gene
  HQ939_RS09025 (HQ939_09035) pilB 1792867..1794252 (-) 1386 WP_075606469.1 GspE/PulE family protein Machinery gene
  HQ939_RS09030 (HQ939_09040) pilA 1794493..1794948 (-) 456 WP_021117772.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  HQ939_RS09035 (HQ939_09045) radA 1795136..1796512 (+) 1377 WP_075606468.1 DNA repair protein RadA -
  HQ939_RS09040 (HQ939_09050) gmk 1796564..1797190 (-) 627 WP_075606467.1 guanylate kinase -
  HQ939_RS09045 (HQ939_09055) gpt 1797444..1797923 (-) 480 WP_005714020.1 xanthine phosphoribosyltransferase -

Sequence

Protein


Download         Length: 461 a.a.        Molecular weight: 52657.38 Da        Isoelectric Point: 4.9792

>NTDB_id=451409 HQ939_RS09025 WP_075606469.1 1792867..1794252(-) (pilB) [Glaesserella parasuis strain YHP170504]
MSQYTVCEQQTERIFDISPSRWQQNCEEKELLLRYLAVPVQETEHKLWLAVDDENNLTACEIFAFMTHKQIEPVVIASDE
LKYLLNALSPEQQPLYEESELAFAEQEQEQLNLSDPIIQLLDNLFKFCLAQNASDIHIEPRKQKLIIRLRIDGVLHLYKS
LSIQLASRLISRIKLLAKLDISELRQPQDGQFSFTTALADTLDFRVSSLPTIYGEKLVLRLQKNKPTSFDFLQLGFNPQQ
QTTLLNALKQPQGLILVTGPTGSGKSITLYSALNYLNQMDKHILTAEDPVEIEIDGLIQTQVNQSINLDFSQLLHTFLRQ
DPDIIMLGEIRDEESAKMALRASQTGHLVLSTLHTNDALLAVERLLQLGIQEYEIQNSLLLVIAQRLVRKLCKKCRGTGC
DECYQGYKGRIGIYQCLSRTAKKFDKQTAYLDFSSLRESAKQKIEQQLTNEIEVDRVLGDE

Nucleotide


Download         Length: 1386 bp        

>NTDB_id=451409 HQ939_RS09025 WP_075606469.1 1792867..1794252(-) (pilB) [Glaesserella parasuis strain YHP170504]
ATGTCCCAATACACCGTCTGCGAACAACAAACCGAACGCATTTTTGATATATCGCCTAGCCGTTGGCAACAAAATTGCGA
AGAAAAAGAGCTGTTATTGCGTTATCTTGCCGTTCCTGTGCAAGAAACTGAGCATAAATTATGGCTTGCCGTTGATGATG
AAAACAATCTCACCGCTTGCGAAATCTTTGCTTTTATGACCCATAAGCAGATTGAGCCTGTGGTGATTGCTTCTGATGAG
CTGAAATACCTGCTTAACGCTCTCTCGCCTGAACAACAACCCCTTTATGAAGAGAGCGAACTGGCTTTCGCAGAACAAGA
GCAAGAACAGCTCAACTTAAGCGATCCGATTATTCAACTGCTCGATAATCTTTTTAAATTCTGTTTAGCCCAAAATGCGT
CTGATATTCATATTGAACCACGCAAGCAAAAATTGATTATCCGCTTACGCATTGACGGTGTTTTGCACCTGTATAAAAGC
CTGTCTATTCAACTGGCAAGCCGACTTATTTCACGGATAAAACTGCTGGCGAAGCTAGATATTAGTGAATTACGCCAGCC
ACAAGATGGGCAATTTAGCTTTACTACCGCCTTGGCGGACACCCTTGATTTTCGGGTATCTAGCCTGCCGACGATCTACG
GCGAAAAACTGGTATTGCGCCTACAAAAAAACAAACCAACCAGTTTTGATTTTCTGCAACTTGGCTTTAATCCACAACAG
CAGACCACACTACTCAACGCCTTGAAACAACCGCAAGGGCTGATTTTAGTGACAGGACCAACGGGCAGTGGCAAAAGTAT
CACCTTGTATAGTGCCTTAAACTACCTCAACCAAATGGATAAACATATTCTCACCGCCGAAGATCCTGTGGAAATTGAGA
TTGACGGCTTAATTCAAACCCAAGTCAATCAAAGTATTAACCTTGATTTTAGCCAGCTATTACACACCTTTCTACGCCAA
GATCCCGACATCATTATGCTAGGTGAAATTCGAGATGAAGAGAGTGCAAAAATGGCATTAAGAGCAAGCCAGACGGGGCA
TTTAGTCCTTTCAACCCTGCATACCAATGACGCACTATTAGCAGTCGAACGTTTGTTACAACTGGGTATTCAAGAGTATG
AAATCCAAAATTCACTACTGTTAGTCATTGCACAACGCCTTGTGCGTAAGCTCTGCAAAAAGTGTCGTGGCACAGGCTGT
GATGAGTGCTATCAAGGCTATAAAGGGCGGATCGGGATTTACCAATGTTTAAGTAGAACTGCAAAAAAATTCGATAAACA
GACCGCTTACTTGGACTTTTCCAGCTTAAGAGAGAGTGCTAAACAAAAAATTGAACAACAACTAACCAACGAAATCGAAG
TGGATAGGGTATTAGGCGATGAATAA

Domains

Predicted by InterproScan.

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

(24-92)

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 A0A6M8T215

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 86-028NP

56.522

99.783

0.564
  pilB Haemophilus influenzae Rd KW20

57.143

98.698

0.564
  pilB Vibrio cholerae strain A1552

38.554

100

0.416
  pilB Vibrio campbellii strain DS40M4

39.293

100

0.41
  pilB Vibrio parahaemolyticus RIMD 2210633

39.293

100

0.41
  pilB Acinetobacter baumannii D1279779

35.992

100

0.401
  pilB Acinetobacter baylyi ADP1

36.436

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

36.842

100

0.38