Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LL923_RS20540 Genome accession   NZ_CP086196
Coordinates   4361847..4363106 (-) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae strain KS6-6     
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 4352678..4366250 4361847..4363106 within 0


Gene organization within MGE regions


Location: 4352678..4366250
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LL923_RS20485 (LL923_20460) - 4352827..4353126 (+) 300 WP_125168747.1 hypothetical protein -
  LL923_RS20490 (LL923_20465) - 4353123..4353452 (+) 330 WP_125168748.1 hypothetical protein -
  LL923_RS20495 (LL923_20470) - 4353529..4354962 (+) 1434 Protein_3918 RHS repeat-associated core domain-containing protein -
  LL923_RS20500 (LL923_20475) - 4354968..4355336 (+) 369 WP_011408064.1 DUF6869 domain-containing protein -
  LL923_RS20505 (LL923_20480) - 4355506..4356472 (-) 967 Protein_3920 IS5-like element ISXo1 family transposase -
  LL923_RS20510 (LL923_20485) - 4356568..4356735 (+) 168 Protein_3921 IS701 family transposase -
  LL923_RS20515 (LL923_20490) - 4356853..4357074 (+) 222 Protein_3922 IS4 family transposase -
  LL923_RS20520 (LL923_20495) - 4357164..4358120 (+) 957 WP_041182041.1 IS30-like element IS1112a family transposase -
  LL923_RS20525 (LL923_20500) - 4358967..4360284 (-) 1318 Protein_3924 IS701 family transposase -
  LL923_RS20530 (LL923_20505) coaE 4360355..4360963 (-) 609 WP_011258357.1 dephospho-CoA kinase -
  LL923_RS20535 (LL923_20510) - 4360977..4361840 (-) 864 WP_011258358.1 A24 family peptidase -
  LL923_RS20540 (LL923_20515) pilC 4361847..4363106 (-) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  LL923_RS20545 (LL923_20520) pilA2 4363461..4363886 (+) 426 WP_011408068.1 pilin Machinery gene
  LL923_RS20550 (LL923_20525) - 4364021..4365610 (+) 1590 WP_011408069.1 phosphoethanolamine transferase -
  LL923_RS20555 (LL923_20530) - 4365621..4366250 (+) 630 WP_011408070.1 hypothetical protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 46058.56 Da        Isoelectric Point: 10.2301

>NTDB_id=623551 LL923_RS20540 WP_011408067.1 4361847..4363106(-) (pilC) [Xanthomonas oryzae strain KS6-6]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=623551 LL923_RS20540 WP_011408067.1 4361847..4363106(-) (pilC) [Xanthomonas oryzae strain KS6-6]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGGTCGACCGGAACACCAGCATGCTGCAGACCTTCATTTGGGAAGG
GGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGCAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATCGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGGGGCGGGGAAGAAAATTACCCCTAAAGAA
ATTGCGTTCTTTAGCCGCCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCGTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGATATCGAGGGTGGATCCTCGCTCTACGAGT
CCATCAGCAAACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTCGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGAAACGGTCGCTACCTACAAAGAAAACATTGAAGCTCTGAAGGGCAAGATCAAAAAGGCACTGTTCTACCC
TGCCATGGTGGTTGCAGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAGGAAGTATTCA
AGAGCTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGATAGTGACAGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACCACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTTGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAAGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTGGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
CATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCACTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAGGAGGTCAATAATGCCGTGGATGCACTCAGCAGCCTGCTCGAGCCACTGATCATGGTCTTCATCGGCACGATCGTC
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

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
  AlphaFold DB A0A0K0GIM7

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

53.202

96.897

0.516
  pilC Pseudomonas stutzeri DSM 10701

53.283

94.511

0.504
  pilC Acinetobacter baylyi ADP1

50.37

96.659

0.487
  pilC Acinetobacter baumannii D1279779

50.37

96.659

0.487
  pilG Neisseria gonorrhoeae MS11

43.921

96.181

0.422
  pilG Neisseria meningitidis 44/76-A

43.424

96.181

0.418
  pilC Vibrio cholerae strain A1552

40.75

95.465

0.389
  pilC Vibrio campbellii strain DS40M4

39

95.465

0.372