Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LL918_RS20515 Genome accession   NZ_CP086193
Coordinates   4333168..4334427 (-) Length   419 a.a.
NCBI ID   WP_011408067.1    Uniprot ID   A0A0K0GIM7
Organism   Xanthomonas oryzae strain GDV     
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 4323996..4337571 4333168..4334427 within 0


Gene organization within MGE regions


Location: 4323996..4337571
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LL918_RS20455 (LL918_20420) - 4324145..4324444 (+) 300 WP_125168747.1 hypothetical protein -
  LL918_RS20460 (LL918_20425) - 4324441..4324770 (+) 330 WP_125168748.1 hypothetical protein -
  LL918_RS20465 (LL918_20430) - 4324847..4326280 (+) 1434 Protein_3913 RHS repeat-associated core domain-containing protein -
  LL918_RS20470 (LL918_20435) - 4326286..4326654 (+) 369 WP_011408064.1 DUF6869 domain-containing protein -
  LL918_RS20480 (LL918_20445) - 4327887..4328054 (+) 168 Protein_3916 IS701 family transposase -
  LL918_RS20485 (LL918_20450) - 4328172..4328393 (+) 222 Protein_3917 IS4 family transposase -
  LL918_RS20490 (LL918_20455) - 4328483..4329439 (+) 957 WP_274392183.1 IS30-like element IS1112a family transposase -
  LL918_RS20495 (LL918_20460) - 4329423..4329725 (+) 303 WP_158645227.1 hypothetical protein -
  LL918_RS20500 (LL918_20465) - 4330286..4331605 (-) 1320 WP_155296483.1 IS701 family transposase -
  LL918_RS20505 (LL918_20470) coaE 4331676..4332284 (-) 609 WP_011258357.1 dephospho-CoA kinase -
  LL918_RS20510 (LL918_20475) - 4332298..4333161 (-) 864 WP_011258358.1 A24 family peptidase -
  LL918_RS20515 (LL918_20480) pilC 4333168..4334427 (-) 1260 WP_011408067.1 type II secretion system F family protein Machinery gene
  LL918_RS20520 (LL918_20485) pilA2 4334782..4335207 (+) 426 WP_011408068.1 pilin Machinery gene
  LL918_RS20525 (LL918_20490) - 4335342..4336931 (+) 1590 WP_069959793.1 phosphoethanolamine transferase -
  LL918_RS20530 (LL918_20495) - 4336942..4337571 (+) 630 WP_011408070.1 hypothetical protein -

Sequence

Protein


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

>NTDB_id=623494 LL918_RS20515 WP_011408067.1 4333168..4334427(-) (pilC) [Xanthomonas oryzae strain GDV]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGGAGKKITPKE
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVVAVAIIVSAILLIFVVPQFEEVFKSFGAELPAFTQLLVNASRFMVSYWWL
MLIVTVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=623494 LL918_RS20515 WP_011408067.1 4333168..4334427(-) (pilC) [Xanthomonas oryzae strain GDV]
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