Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   QQA12_RS12295 Genome accession   NZ_CP128405
Coordinates   2721969..2723228 (+) Length   419 a.a.
NCBI ID   WP_226049459.1    Uniprot ID   -
Organism   Stenotrophomonas sp. 17(2023)     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 2706889..2727401 2721969..2723228 within 0


Gene organization within MGE regions


Location: 2706889..2727401
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QQA12_RS12220 - 2706889..2708022 (+) 1134 WP_226049446.1 glycosyltransferase family 4 protein -
  QQA12_RS12225 - 2708183..2709259 (-) 1077 WP_233324880.1 glycosyltransferase family 4 protein -
  QQA12_RS12230 - 2709256..2710254 (-) 999 WP_226049448.1 hypothetical protein -
  QQA12_RS12235 - 2710251..2711372 (-) 1122 WP_226049449.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  QQA12_RS12240 - 2711374..2712357 (-) 984 WP_226049450.1 NAD-dependent epimerase/dehydratase family protein -
  QQA12_RS12245 - 2712354..2713046 (-) 693 WP_226049451.1 methyltransferase domain-containing protein -
  QQA12_RS12250 - 2713052..2713858 (-) 807 WP_226049452.1 methyltransferase, TIGR04325 family -
  QQA12_RS12255 - 2713877..2714599 (-) 723 WP_226049453.1 hypothetical protein -
  QQA12_RS12260 - 2714596..2715264 (-) 669 WP_226049454.1 class I SAM-dependent methyltransferase -
  QQA12_RS12265 - 2715261..2716622 (-) 1362 WP_226049455.1 flippase -
  QQA12_RS12270 - 2716582..2717511 (-) 930 WP_226049456.1 NAD-dependent epimerase/dehydratase family protein -
  QQA12_RS12275 gmd 2717517..2718635 (-) 1119 WP_226049457.1 GDP-mannose 4,6-dehydratase -
  QQA12_RS12280 - 2718640..2720565 (-) 1926 WP_226049458.1 hypothetical protein -
  QQA12_RS12285 - 2720676..2721002 (-) 327 WP_289211189.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  QQA12_RS12290 - 2721464..2721556 (-) 93 Protein_2390 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  QQA12_RS12295 pilC 2721969..2723228 (+) 1260 WP_226049459.1 type II secretion system F family protein Machinery gene
  QQA12_RS12300 pilD 2723236..2724099 (+) 864 WP_054667255.1 A24 family peptidase Machinery gene
  QQA12_RS12305 coaE 2724146..2724769 (+) 624 WP_182212757.1 dephospho-CoA kinase -
  QQA12_RS12310 - 2724800..2726137 (-) 1338 WP_226049460.1 HAMP domain-containing sensor histidine kinase -
  QQA12_RS12315 - 2726130..2726807 (-) 678 WP_054667261.1 response regulator transcription factor -
  QQA12_RS12320 - 2726937..2727401 (-) 465 WP_226049461.1 hypothetical protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45818.12 Da        Isoelectric Point: 10.0503

>NTDB_id=847282 QQA12_RS12295 WP_226049459.1 2721969..2723228(+) (pilC) [Stenotrophomonas sp. 17(2023)]
MSVTRSAVNKEPVARNTSQMQPFVWEGTDKRGVKMKGEQDARNANLLRAELRKQGIMPTVVKPKPKPLFGAAGKPIKSKD
IAFFSRQMATMMKSGVPIVSSLEIIGSGHKNPRMAKLVGQVRADLEGGSSLYEAIGKHPVQFDELYRNLVRAGEGAGVLE
TVLETIANYQENLETLKGKIKKALFYPAMVITVALLVSAVLLVWVVPQFEDIFKSFGTDLPVFTQMIVAASRFMVGWWWL
ILLVAIVGIGGSIFAYKRSPKMQYAMDRVILKVPVIGQIMHNSSIARFARTTAVTFKAGVPLVEALGIVAGATGNKTYED
AVLHMRDDVAVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDTMLFKVAEYFEQEVNNAVDALSSLIEPMIMVFIGIVV
GSMVVGMYLPIFKLASTVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=847282 QQA12_RS12295 WP_226049459.1 2721969..2723228(+) (pilC) [Stenotrophomonas sp. 17(2023)]
ATGTCCGTTACCCGTAGCGCAGTGAACAAAGAGCCCGTTGCACGCAACACCAGCCAGATGCAGCCGTTTGTCTGGGAGGG
GACCGACAAGCGTGGCGTGAAGATGAAGGGCGAACAGGATGCCCGCAATGCCAACCTGCTGCGCGCCGAACTCCGCAAGC
AGGGCATCATGCCTACGGTGGTCAAACCCAAGCCCAAGCCGCTGTTCGGTGCCGCCGGCAAGCCCATCAAATCCAAGGAT
ATCGCCTTCTTCAGCCGGCAGATGGCGACGATGATGAAGTCCGGCGTGCCCATCGTGAGCTCGCTGGAGATCATCGGCAG
CGGCCACAAGAATCCGCGCATGGCGAAGCTGGTCGGGCAGGTCCGCGCCGATCTGGAGGGAGGCTCCTCGCTCTATGAGG
CCATCGGCAAGCACCCGGTGCAGTTCGATGAGCTGTACCGCAACCTGGTTCGGGCCGGCGAAGGTGCCGGCGTACTCGAG
ACCGTGCTTGAGACCATAGCCAATTACCAGGAAAACCTGGAAACACTGAAAGGCAAGATCAAGAAGGCCCTGTTCTACCC
GGCCATGGTCATCACCGTGGCCCTGCTGGTCAGCGCGGTGCTGCTGGTCTGGGTCGTGCCGCAGTTCGAGGACATCTTCA
AGAGTTTCGGCACCGATCTGCCCGTGTTCACCCAGATGATCGTGGCGGCGTCGCGCTTCATGGTCGGCTGGTGGTGGCTG
ATACTGCTGGTCGCGATCGTGGGCATCGGCGGCTCCATCTTCGCCTACAAGCGCTCTCCCAAGATGCAGTACGCGATGGA
CAGGGTGATCCTGAAGGTGCCGGTGATCGGCCAGATCATGCACAACAGCTCCATCGCCCGTTTCGCACGCACGACGGCAG
TGACGTTCAAGGCAGGCGTGCCGCTGGTGGAGGCGCTGGGCATCGTGGCCGGCGCCACCGGCAACAAGACCTATGAAGAT
GCCGTCCTGCACATGCGCGACGACGTGGCGGTGGGCTATCCGGTGAACATGGCGATGAAACAGGTGAACCTGTTCCCGCA
CATGGTGATCCAGATGACCGCCATCGGCGAGGAAGCCGGCGCATTGGACACCATGCTGTTCAAGGTGGCGGAGTACTTCG
AGCAGGAAGTGAACAATGCCGTGGATGCCTTGAGCAGCCTGATCGAACCCATGATCATGGTCTTCATCGGCATCGTGGTC
GGCAGCATGGTTGTCGGCATGTACCTGCCCATCTTCAAGCTCGCCTCCACCGTTGGATAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(288-410)

Type II secretion system (T2SS), protein F (T2SSF)

(84-207)


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
  pilC Legionella pneumophila strain ERS1305867

50

97.375

0.487
  pilC Pseudomonas stutzeri DSM 10701

50.25

95.465

0.48
  pilC Acinetobacter baylyi ADP1

48.768

96.897

0.473
  pilC Acinetobacter baumannii D1279779

48.039

97.375

0.468
  pilG Neisseria gonorrhoeae MS11

41.25

95.465

0.394
  pilG Neisseria meningitidis 44/76-A

40.247

96.659

0.389
  pilC Vibrio cholerae strain A1552

39.655

96.897

0.384
  pilC Vibrio campbellii strain DS40M4

39.552

95.943

0.379