Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   PspR32_RS21905 Genome accession   NZ_CP019396
Coordinates   4756184..4757392 (+) Length   402 a.a.
NCBI ID   WP_159389165.1    Uniprot ID   -
Organism   Pseudomonas sp. R32     
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 4742274..4755247 4756184..4757392 flank 937


Gene organization within MGE regions


Location: 4742274..4757392
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PspR32_RS21845 (PspR32_21845) - 4742274..4743083 (+) 810 WP_036996880.1 NYN domain-containing protein -
  PspR32_RS21850 (PspR32_21850) - 4743150..4744049 (-) 900 WP_159389158.1 LysR family transcriptional regulator -
  PspR32_RS21855 (PspR32_21855) - 4744142..4745152 (+) 1011 WP_159389409.1 aldo/keto reductase -
  PspR32_RS21860 (PspR32_21860) - 4745437..4746231 (-) 795 WP_036996882.1 substrate-binding domain-containing protein -
  PspR32_RS21865 (PspR32_21865) - 4747740..4748498 (+) 759 WP_151925806.1 serine/threonine-protein kinase -
  PspR32_RS21870 (PspR32_21870) - 4748495..4749262 (+) 768 WP_159389159.1 protein phosphatase 2C domain-containing protein -
  PspR32_RS21875 (PspR32_21875) - 4749973..4751496 (+) 1524 WP_159389160.1 hypothetical protein -
  PspR32_RS21880 (PspR32_21880) - 4751765..4752052 (-) 288 WP_159389161.1 hypothetical protein -
  PspR32_RS21885 (PspR32_21885) - 4752049..4753029 (-) 981 WP_159389162.1 integrase domain-containing protein -
  PspR32_RS21890 (PspR32_21895) - 4753925..4755247 (-) 1323 WP_159389163.1 integrase arm-type DNA-binding domain-containing protein -
  PspR32_RS21900 (PspR32_21905) - 4755555..4755965 (-) 411 WP_159389164.1 pilin -
  PspR32_RS21905 (PspR32_21910) pilC 4756184..4757392 (+) 1209 WP_159389165.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 402 a.a.        Molecular weight: 43281.81 Da        Isoelectric Point: 10.4634

>NTDB_id=215143 PspR32_RS21905 WP_159389165.1 4756184..4757392(+) (pilC) [Pseudomonas sp. R32]
MTDSNQMYNWQGTNAQGALISGQSAARSPALIRAQLRQRGIRPGRIASVRPPLWQWRRPLDGKALSQFSRQLATLVKAGV
ALLQALDVVAQSSANPAMARLLGAIKADIAAGSSLATALRRHPHYFDRLYCNLVDAGEQSGSLEVVLAQVATLQEQRQAL
RARLKKAMTYPLLVLLVGFGVSALLLLEVVPRFQSLFGGFGAELPAFTQQVIGLSQWLGAHFWWLLITFGSACAAGVWGY
RHKPAFRLWLVRLALRLPVLGSLLRHAALARFARTLSTSFGAGVPLVEALGPVAGACGNPLYEQALHKVREDLASGLALN
VALRASGLFPALVVQMCAIGETAGTLDDMLARIASHYEQAIDHLLDTLTALIEPLIVLILGLLVGSLVIAMYLPIFQLGN
VI

Nucleotide


Download         Length: 1209 bp        

>NTDB_id=215143 PspR32_RS21905 WP_159389165.1 4756184..4757392(+) (pilC) [Pseudomonas sp. R32]
ATGACCGACAGCAACCAGATGTACAACTGGCAAGGCACCAACGCCCAGGGCGCCTTGATCAGCGGCCAGAGCGCCGCACG
CAGCCCGGCGTTGATCAGGGCGCAGTTGCGCCAGCGCGGGATTCGCCCGGGGCGTATCGCCAGTGTGCGCCCGCCGCTGT
GGCAATGGCGCCGGCCACTGGATGGCAAGGCGCTGAGCCAGTTCAGCCGCCAGCTGGCCACCCTGGTCAAGGCGGGGGTG
GCGCTGCTGCAAGCGCTGGATGTGGTCGCCCAAAGCAGCGCCAACCCGGCGATGGCCCGCCTGCTGGGGGCGATCAAGGC
CGATATCGCCGCTGGCAGCAGCCTGGCCACTGCGCTGCGCCGGCACCCGCACTATTTCGATCGGCTGTACTGCAACCTGG
TGGACGCCGGTGAGCAGTCCGGCAGCCTGGAGGTCGTGCTGGCCCAGGTGGCGACGCTGCAGGAGCAACGCCAGGCCCTG
CGCGCACGGCTGAAAAAAGCCATGACCTATCCACTGCTGGTGCTGCTGGTGGGCTTTGGGGTGTCGGCGCTGTTGCTGCT
GGAGGTGGTGCCGCGTTTTCAGTCGCTGTTCGGCGGCTTTGGTGCCGAGCTGCCGGCCTTTACCCAACAGGTGATCGGCC
TGTCGCAGTGGTTGGGGGCGCACTTCTGGTGGCTGTTGATAACTTTTGGCAGCGCTTGTGCCGCGGGGGTTTGGGGTTAT
CGACACAAGCCTGCGTTTCGTTTGTGGCTGGTGCGCCTGGCCCTGCGTTTGCCGGTGCTTGGCAGCCTGCTCCGGCATGC
CGCCCTCGCCCGCTTTGCCCGCACCTTGTCGACGTCGTTCGGCGCCGGGGTGCCGTTGGTGGAGGCGCTGGGGCCGGTTG
CCGGGGCGTGTGGCAATCCGTTGTATGAGCAGGCGCTACACAAGGTGCGCGAGGACCTGGCCAGTGGTCTAGCCTTGAAC
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

49.626

99.751

0.495
  pilC Acinetobacter baylyi ADP1

45.137

99.751

0.45
  pilC Legionella pneumophila strain ERS1305867

44.697

98.507

0.44
  pilC Acinetobacter baumannii D1279779

44.081

98.756

0.435
  pilC Vibrio cholerae strain A1552

40.955

99.005

0.405
  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

39.5

99.502

0.393
  pilC Thermus thermophilus HB27

37.406

99.751

0.373

Multiple sequence alignment