Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   QYF67_RS22545 Genome accession   NZ_CP129532
Coordinates   4849257..4850465 (+) Length   402 a.a.
NCBI ID   WP_100782489.1    Uniprot ID   -
Organism   Pseudomonas donghuensis strain SVBP6     
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 4828221..4848320 4849257..4850465 flank 937


Gene organization within MGE regions


Location: 4828221..4850465
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QYF67_RS22455 (QYF67_22455) - 4828221..4829030 (+) 810 WP_036996880.1 NYN domain-containing protein -
  QYF67_RS22460 (QYF67_22460) - 4829097..4829996 (-) 900 WP_100782502.1 LysR family transcriptional regulator -
  QYF67_RS22465 (QYF67_22465) - 4830089..4831099 (+) 1011 WP_026001168.1 aldo/keto reductase -
  QYF67_RS22470 (QYF67_22470) - 4831387..4832181 (-) 795 WP_036996882.1 substrate-binding domain-containing protein -
  QYF67_RS22475 (QYF67_22475) - 4832395..4832757 (-) 363 WP_010220626.1 hypothetical protein -
  QYF67_RS22480 (QYF67_22480) - 4834271..4837126 (+) 2856 WP_100782501.1 ATP-binding protein -
  QYF67_RS22485 (QYF67_22485) - 4837160..4837654 (+) 495 WP_100782500.1 superinfection exclusion B family protein -
  QYF67_RS22490 (QYF67_22490) - 4837763..4839199 (+) 1437 WP_100782499.1 SEFIR domain-containing protein -
  QYF67_RS22495 (QYF67_22495) - 4839846..4840724 (-) 879 WP_100782497.1 hypothetical protein -
  QYF67_RS22500 (QYF67_22500) - 4840813..4843719 (-) 2907 WP_100782496.1 DUF927 domain-containing protein -
  QYF67_RS22505 (QYF67_22505) - 4843716..4844000 (-) 285 WP_100782495.1 DUF3077 domain-containing protein -
  QYF67_RS22510 (QYF67_22510) - 4843997..4844281 (-) 285 WP_100782494.1 hypothetical protein -
  QYF67_RS22515 (QYF67_22515) - 4844830..4845423 (-) 594 WP_100782493.1 hypothetical protein -
  QYF67_RS22520 (QYF67_22520) - 4845420..4845683 (-) 264 WP_100782492.1 AlpA family transcriptional regulator -
  QYF67_RS22525 (QYF67_22525) - 4845755..4846678 (-) 924 WP_100782491.1 hypothetical protein -
  QYF67_RS22530 (QYF67_22530) - 4847004..4848320 (-) 1317 WP_100782490.1 integrase arm-type DNA-binding domain-containing protein -
  QYF67_RS22540 (QYF67_22540) - 4848628..4849038 (-) 411 WP_010220625.1 pilin -
  QYF67_RS22545 (QYF67_22545) pilC 4849257..4850465 (+) 1209 WP_100782489.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 402 a.a.        Molecular weight: 43247.79 Da        Isoelectric Point: 10.4634

>NTDB_id=854165 QYF67_RS22545 WP_100782489.1 4849257..4850465(+) (pilC) [Pseudomonas donghuensis strain SVBP6]
MTDSNQMYNWQGTNAQGALISGQSAARSPALIRAQLRQRGIRPGRIASVRPPLWQWRRPLDSKALSQFSRQLATLVKAGV
ALLQALDVVAQSSANPAMARLLGAIKADIAAGSSLATALRRHPHYFDRLYCNLVDAGEQSGSLEVVLAQVAALQEQRQAL
RARLKKAMTYPLLVLLVGFGVSALLLLEVVPRFQSLFGGFGAELPAFTQQVIGLSQWLGAHFWWLLITFGSACAAGVWGY
RHKPALRLWLVRLALRLPVLGSLLRHAALARFARTLSTSFGAGVPLVEALGPVAGACGNPLYEQALHKVREDLASGLALN
VALRASGLFPALVVQMCAIGETAGTLDDMLARIASHYEQAIDHLLDTLTALIEPLIVLILGLLVGSLVIAMYLPIFQLGN
VI

Nucleotide


Download         Length: 1209 bp        

>NTDB_id=854165 QYF67_RS22545 WP_100782489.1 4849257..4850465(+) (pilC) [Pseudomonas donghuensis strain SVBP6]
ATGACCGACAGCAACCAGATGTACAACTGGCAAGGCACCAACGCCCAGGGCGCCTTGATCAGCGGCCAGAGCGCCGCACG
CAGCCCGGCGTTGATCAGGGCGCAATTGCGCCAGCGCGGGATTCGCCCGGGGCGTATCGCCAGTGTGCGCCCGCCGCTGT
GGCAATGGCGCCGGCCACTGGATAGCAAGGCGCTGAGCCAGTTCAGCCGCCAGCTGGCCACCCTGGTCAAGGCGGGGGTG
GCGCTGCTGCAAGCGCTGGATGTGGTCGCCCAAAGCAGCGCCAACCCGGCGATGGCCCGCCTGCTGGGGGCGATCAAGGC
CGATATCGCCGCTGGCAGCAGCCTGGCCACTGCGCTGCGCCGGCACCCGCACTATTTCGATCGGCTGTACTGCAACCTGG
TGGACGCCGGTGAGCAGTCCGGAAGCCTGGAGGTCGTGCTGGCCCAGGTGGCGGCGCTGCAGGAGCAACGCCAGGCCCTG
CGCGCACGGCTGAAAAAAGCCATGACCTATCCACTGCTGGTGCTGCTGGTGGGCTTTGGGGTGTCGGCGCTGTTGCTGCT
GGAGGTGGTGCCGCGTTTTCAGTCGCTGTTCGGCGGCTTTGGTGCCGAGCTGCCGGCCTTTACCCAACAGGTGATCGGCT
TGTCGCAGTGGTTGGGGGCGCACTTCTGGTGGCTGTTGATAACTTTTGGCAGCGCTTGTGCCGCGGGGGTTTGGGGTTAT
CGACACAAGCCTGCGTTGCGTTTGTGGCTGGTGCGCCTGGCCCTGCGTTTGCCGGTGCTTGGCAGCCTGCTCCGGCATGC
CGCCCTCGCCCGCTTTGCCCGCACCTTGTCGACTTCGTTCGGCGCCGGGGTGCCGTTGGTGGAGGCGCTGGGGCCGGTTG
CCGGGGCGTGTGGCAATCCGTTGTATGAGCAGGCGCTGCACAAGGTGCGCGAGGACCTGGCCAGTGGTCTAGCCTTGAAC
GTGGCATTGCGCGCCAGCGGCTTGTTCCCGGCGCTGGTGGTGCAGATGTGCGCCATTGGCGAGACAGCCGGGACACTGGA
CGATATGCTCGCCAGGATCGCCAGCCACTATGAACAGGCCATCGACCACCTGCTCGACACCCTCACGGCCCTGATTGAGC
CGTTGATCGTGCTGATCCTGGGGTTGCTGGTGGGCAGCCTGGTGATCGCCATGTACCTGCCAATCTTCCAGCTGGGCAAT
GTGATCTGA

Domains

Predicted by InterproScan.

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

(68-191)

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

(272-394)


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 Pseudomonas stutzeri DSM 10701

49.127

99.751

0.49
  pilC Acinetobacter baylyi ADP1

44.888

99.751

0.448
  pilC Legionella pneumophila strain ERS1305867

44.444

98.507

0.438
  pilC Acinetobacter baumannii D1279779

43.829

98.756

0.433
  pilC Vibrio cholerae strain A1552

40.554

98.756

0.4
  pilG Neisseria gonorrhoeae MS11

40.204

97.761

0.393
  pilG Neisseria meningitidis 44/76-A

40.204

97.761

0.393
  pilC Vibrio campbellii strain DS40M4

38.75

99.502

0.386
  pilC Thermus thermophilus HB27

37.656

99.751

0.376