Detailed information    

experimental Experimentally validated

Overview

Name   pilQ   Type   Machinery gene
Locus tag   GTF74_RS01320 Genome accession   NZ_CP047303
Coordinates   279506..281221 (+) Length   571 a.a.
NCBI ID   WP_000788426.1    Uniprot ID   A0A0K9UP29
Organism   Vibrio cholerae O1 biovar El Tor strain E7946     
Function   assembly of type IV pilus   
DNA binding and uptake

Function

We use a functional tagged allele of VcPilQ purified from native V. cholerae cells to determine the cryoEM structure of the VcPilQ secretin in amphipol to ~2.7 Å.


Genomic Context

Location: 274506..286221
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GTF74_RS01300 (GTF74_01300) pilM 276799..277815 (+) 1017 WP_000520444.1 type IV pilus assembly protein PilM Machinery gene
  GTF74_RS01305 (GTF74_01305) pilN 277805..278389 (+) 585 WP_000902745.1 PilN domain-containing protein Machinery gene
  GTF74_RS01310 (GTF74_01310) pilO 278382..278972 (+) 591 WP_000157690.1 type 4a pilus biogenesis protein PilO Machinery gene
  GTF74_RS01315 (GTF74_01315) pilP 278962..279480 (+) 519 WP_000792032.1 pilus assembly protein PilP Machinery gene
  GTF74_RS01320 (GTF74_01320) pilQ 279506..281221 (+) 1716 WP_000788426.1 type IV pilus secretin PilQ family protein Machinery gene
  GTF74_RS01325 (GTF74_01325) aroK 281408..281932 (+) 525 WP_000818616.1 shikimate kinase AroK -
  GTF74_RS01330 (GTF74_01330) aroB 281960..283045 (+) 1086 WP_000439805.1 3-dehydroquinate synthase -
  GTF74_RS01335 (GTF74_01335) - 283100..284575 (+) 1476 WP_000050195.1 ExeA family protein -
  GTF74_RS01340 (GTF74_01340) - 284645..285478 (+) 834 WP_000744680.1 Dam family site-specific DNA-(adenine-N6)-methyltransferase -

Sequence

Protein


Download         Length: 571 a.a.        Molecular weight: 62340.49 Da        Isoelectric Point: 4.6119

>NTDB_id=1186 GTF74_RS01320 WP_000788426.1 279506..281221(+) (pilQ) [Vibrio cholerae O1 biovar El Tor strain E7946]
MKNGLKTYVAQTWLTLWVGLALCASSMVFSAESATANQLENIDFRVNKEKAAVLIVELASPSAVVDVQKVQEGLSIELLK
TDVADDKLYLLDVKDFSTPVESVEVFRKEPSTQLVVTVDGEFQHDYTLKGKYLEVVISKLKADEKPKPKSVLEKEGKLIS
INFQDIPVRNVLQLIADYNGFNLVVSDSVVGNLTLRLDGVPWQQVLDIILQVKGLDKRVDGNVILIAPKEELDLREKQAL
EKARLAEELGDLKSEIIKINFAKASDIAAMIGGEGNVNMLSERGSISIDERTNSLLIRELPDNIAVIREIIESLDIPVKQ
VQIEARIVTVKEGNLEELGVRWGVMSTNGSHSVGGSIESNLWQKGLLADDEFPVDEFLNVNLASTSANASSIAFQVAKLG
SGTLLDLELSALQNESKAEIISSPRLITTNKQPAYIEQGTEIPYLESSSSGASTVAFKKAVLSLKVTPQITPDNRLVLDL
SVTQDRRGETVKTGTGEAVSIDTQRIGTQVLVNNGETVVLGGIFQHSINNSVDKVPLLGDLPVLGALFRRTYEQMGKSEL
LIFVTPKVVIQ

Nucleotide


Download         Length: 1716 bp        

>NTDB_id=1186 GTF74_RS01320 WP_000788426.1 279506..281221(+) (pilQ) [Vibrio cholerae O1 biovar El Tor strain E7946]
ATGAAAAATGGATTGAAAACTTATGTCGCACAGACTTGGCTGACCTTGTGGGTTGGTTTGGCACTTTGTGCTTCTTCCAT
GGTGTTTAGTGCTGAATCCGCTACCGCCAACCAGTTGGAAAACATCGACTTTCGGGTCAACAAAGAGAAGGCGGCGGTCT
TAATTGTCGAATTGGCTTCGCCATCGGCGGTCGTGGATGTGCAAAAAGTCCAAGAAGGGTTGAGCATTGAACTCCTGAAA
ACCGATGTGGCGGATGACAAGCTGTATCTGCTTGATGTGAAAGATTTTTCGACCCCTGTTGAGAGCGTGGAAGTATTCCG
TAAAGAGCCAAGCACACAACTGGTTGTGACTGTCGATGGGGAGTTTCAGCACGATTATACCTTAAAAGGAAAATACCTTG
AGGTCGTGATCAGTAAACTCAAAGCCGATGAAAAGCCTAAGCCCAAGAGTGTCTTGGAAAAAGAAGGCAAGCTGATTTCA
ATTAACTTCCAAGATATTCCGGTGCGTAACGTACTGCAGCTGATTGCCGATTATAACGGTTTCAACTTAGTGGTTTCCGA
TTCGGTGGTGGGTAACCTGACTTTACGCTTGGATGGCGTGCCTTGGCAGCAAGTGTTGGACATTATTCTGCAAGTCAAAG
GGCTCGATAAACGGGTCGATGGTAATGTGATTTTGATTGCGCCGAAAGAGGAACTCGACTTGCGCGAGAAACAAGCGCTC
GAAAAAGCCCGTTTAGCAGAAGAGTTGGGCGATTTAAAATCAGAAATCATCAAGATTAACTTTGCCAAAGCGTCTGACAT
TGCGGCGATGATCGGCGGTGAAGGCAACGTTAACATGTTGTCTGAACGAGGTTCGATCAGCATCGACGAACGAACTAACT
CGCTATTGATCCGAGAGCTGCCCGATAATATTGCTGTGATCCGCGAGATCATTGAATCGCTGGATATTCCGGTCAAACAA
GTTCAAATCGAAGCGCGGATTGTCACCGTCAAAGAAGGTAACTTGGAGGAGCTGGGGGTACGCTGGGGCGTGATGTCGAC
CAATGGTAGCCACTCGGTCGGAGGAAGCATAGAGAGTAACTTATGGCAAAAAGGGTTATTGGCGGATGATGAATTTCCGG
TGGATGAATTCTTAAATGTGAATTTGGCTTCCACCTCTGCCAATGCGTCTTCGATTGCTTTCCAAGTCGCTAAATTGGGC
TCAGGTACGTTGTTGGATTTGGAGCTTTCAGCATTACAAAATGAATCGAAGGCCGAAATCATCTCTAGCCCTCGTTTGAT
TACCACTAATAAACAGCCTGCCTATATTGAGCAAGGTACTGAGATCCCTTATCTGGAATCGTCTTCCAGTGGTGCCTCTA
CGGTCGCGTTTAAAAAAGCGGTATTAAGCTTGAAGGTGACACCACAAATCACCCCAGATAACCGCTTGGTGCTCGACTTG
AGTGTGACCCAAGACCGACGCGGTGAAACGGTGAAAACCGGTACGGGTGAAGCGGTATCGATCGATACTCAGCGTATTGG
CACTCAAGTGTTGGTGAATAACGGAGAAACTGTGGTGTTGGGTGGCATTTTCCAACACAGCATCAATAATTCGGTAGATA
AGGTGCCACTGCTGGGGGACTTGCCTGTTTTGGGGGCGTTATTCAGACGAACCTATGAGCAAATGGGCAAAAGTGAACTG
CTGATTTTTGTCACGCCGAAAGTGGTCATTCAATAA

Domains

Predicted by InterproScan.

Bacterial type II and III secretion system protein (Secretin)

(411-569)

Bacterial type II/III secretion system short domain (Secretin_N)

(255-320)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0K9UP29

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
  pilQ Vibrio cholerae strain A1552

100

100

1
  pilQ Vibrio campbellii strain DS40M4

78.545

96.322

0.757
  comE Haemophilus influenzae 86-028NP

40.625

100

0.409
  pilQ Legionella pneumophila strain Lp02

42.778

94.571

0.405
  pilQ Legionella pneumophila strain ERS1305867

42.778

94.571

0.405
  comQ Acinetobacter baylyi ADP1

39.336

100

0.394
  pilQ Acinetobacter baumannii D1279779

37.819

100

0.389
  pilQ Acinetobacter baumannii strain A118

37.819

100

0.389
  comE Haemophilus influenzae Rd KW20

41.748

92.584

0.387
  pilQ Pseudomonas aeruginosa PAK

39.344

96.147

0.378
  comE Glaesserella parasuis strain SC1401

37.923

98.571

0.374

Multiple sequence alignment    



References

[1] Sara J Weaver et al. (2020) CryoEM structure of the type IVa pilus secretin required for natural competence in Vibrio cholerae. Nature Communications 11(1):5080. [PMID: 33033258]