Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH280_RS16350 Genome accession   NZ_CP066922
Coordinates   3757911..3759113 (+) Length   400 a.a.
NCBI ID   WP_274349048.1    Uniprot ID   -
Organism   Xanthomonas campestris strain 5053     
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 3752045..3770021 3757911..3759113 within 0


Gene organization within MGE regions


Location: 3752045..3770021
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH280_RS16320 (JH280_16260) - 3752045..3752683 (-) 639 WP_076054160.1 methionine biosynthesis protein MetW -
  JH280_RS16325 (JH280_16265) - 3752676..3753722 (-) 1047 WP_081390738.1 glycosyltransferase family 2 protein -
  JH280_RS16330 (JH280_16270) - 3753719..3754513 (-) 795 WP_076057322.1 glycosyltransferase family A protein -
  JH280_RS16335 (JH280_16275) - 3754518..3754898 (-) 381 WP_228431841.1 SMR family transporter -
  JH280_RS16340 (JH280_16280) comP 3755239..3755655 (+) 417 WP_274347446.1 pilin Machinery gene
  JH280_RS16345 (JH280_16285) - 3755740..3757722 (+) 1983 WP_274347447.1 hypothetical protein -
  JH280_RS16350 (JH280_16290) pilC 3757911..3759113 (+) 1203 WP_274349048.1 type II secretion system F family protein Machinery gene
  JH280_RS16355 (JH280_16295) - 3759120..3759983 (+) 864 WP_012437600.1 A24 family peptidase -
  JH280_RS16360 (JH280_16300) coaE 3759997..3760620 (+) 624 WP_274347448.1 dephospho-CoA kinase -
  JH280_RS21805 - 3760852..3761069 (+) 218 Protein_3144 SymE family type I addiction module toxin -
  JH280_RS16365 (JH280_16305) - 3761169..3762503 (-) 1335 WP_227971331.1 HAMP domain-containing sensor histidine kinase -
  JH280_RS16370 (JH280_16310) - 3762496..3763173 (-) 678 WP_003490678.1 response regulator transcription factor -
  JH280_RS16375 (JH280_16315) rimK 3763823..3764698 (-) 876 WP_076054142.1 30S ribosomal protein S6--L-glutamate ligase -
  JH280_RS16380 (JH280_16320) glgX 3765192..3767321 (+) 2130 WP_274347449.1 glycogen debranching protein GlgX -
  JH280_RS16385 (JH280_16325) - 3767851..3768243 (-) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JH280_RS16390 (JH280_16330) - 3768334..3768729 (-) 396 WP_011038225.1 hypothetical protein -
  JH280_RS16395 (JH280_16335) - 3768913..3769059 (-) 147 WP_076054137.1 hypothetical protein -

Sequence

Protein


Download         Length: 400 a.a.        Molecular weight: 43769.01 Da        Isoelectric Point: 10.0591

>NTDB_id=523209 JH280_RS16350 WP_274349048.1 3757911..3759113(+) (pilC) [Xanthomonas campestris strain 5053]
MTTFVWEGTDKRGVKMKGDELARNANMLRAELRRRGITPTVVKTKPKPLFGGAGKPIKPKDIAFFSRQMATMMKSGVPIV
GSLEIIGEGAKNPRMRKMVGEIRTDIEGGLSLNEAISKHPVQFDELYRNLVRAGESAGVLDTVLDTVATYKENIEALKGK
IKKALFYPAMVMAVALIVSSILLIWVVPQFETVFSSFGAELPAFTQMIVNCSRFMVSWWLPMLLVAIGSVVGLVMGYKRS
PKMQHLFDRLILKVPVIGKIMHDSAIARFARTTAVTFKAGVPLVEALSIVAGATGNKVYEEAVLRMRDDVSVGYPVNLSM
KQTNLFPHMVIQMTAIGEEAGALDTMLFKVADYFEQDVSNAVDALSSLLEPMIMIFIGVVVGGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1203 bp        

>NTDB_id=523209 JH280_RS16350 WP_274349048.1 3757911..3759113(+) (pilC) [Xanthomonas campestris strain 5053]
ATGACAACCTTTGTCTGGGAAGGGACAGACAAGCGCGGCGTCAAGATGAAGGGGGACGAGCTCGCCCGCAATGCCAACAT
GCTGCGCGCCGAGCTCCGGCGGCGCGGCATCACGCCGACCGTGGTCAAGACCAAGCCCAAGCCTTTGTTCGGTGGGGCGG
GCAAGCCGATCAAGCCCAAGGACATTGCGTTCTTCAGCCGCCAGATGGCGACCATGATGAAATCGGGCGTGCCGATTGTA
GGGTCGCTCGAAATCATCGGCGAGGGGGCAAAAAATCCCCGCATGAGGAAGATGGTCGGCGAAATCCGTACTGATATCGA
GGGTGGCCTGTCGCTCAACGAAGCCATCAGCAAGCACCCTGTGCAGTTCGACGAGCTGTATCGCAACTTGGTCAGAGCCG
GCGAGAGCGCTGGTGTTCTCGATACCGTACTAGATACTGTTGCGACCTATAAGGAAAACATCGAAGCCCTGAAGGGCAAG
ATCAAGAAAGCGCTGTTCTATCCGGCGATGGTGATGGCCGTTGCGCTTATCGTCAGTTCCATCCTGCTCATCTGGGTGGT
ACCGCAATTCGAAACCGTGTTCTCCAGCTTTGGCGCGGAGCTGCCAGCATTTACGCAGATGATCGTGAATTGTTCACGCT
TCATGGTGTCATGGTGGCTGCCGATGCTGCTGGTCGCAATCGGCTCGGTCGTCGGGCTGGTGATGGGCTACAAGCGCTCG
CCGAAAATGCAGCATCTGTTCGACCGGCTGATCTTGAAGGTGCCGGTTATCGGCAAGATCATGCACGACAGTGCTATTGC
CCGGTTCGCGCGTACCACGGCGGTGACCTTCAAGGCTGGTGTTCCGCTGGTGGAGGCGCTGAGCATCGTGGCCGGCGCCA
CCGGCAACAAGGTCTACGAAGAGGCGGTGTTGCGCATGCGCGACGACGTATCGGTCGGCTACCCAGTTAACCTGTCGATG
AAGCAGACCAACCTGTTTCCGCACATGGTGATCCAGATGACCGCCATCGGCGAAGAGGCCGGCGCATTGGATACCATGCT
CTTCAAGGTTGCCGATTATTTCGAGCAGGACGTGAGTAACGCCGTGGATGCCTTGAGCAGCCTGCTGGAGCCGATGATCA
TGATTTTCATCGGTGTCGTCGTCGGCGGTATGGTGATCGGCATGTACCTGCCCATCTTCAAGTTGGGCGCAGTCGTTGGA
TAA

Domains

Predicted by InterproScan.

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

(65-188)

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

(269-391)


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

53.518

99.5

0.533
  pilC Legionella pneumophila strain ERS1305867

51.88

99.75

0.518
  pilC Acinetobacter baylyi ADP1

49.75

100

0.498
  pilC Acinetobacter baumannii D1279779

49

100

0.49
  pilG Neisseria gonorrhoeae MS11

43.176

100

0.435
  pilG Neisseria meningitidis 44/76-A

43.176

100

0.435
  pilC Vibrio campbellii strain DS40M4

39.552

100

0.397
  pilC Thermus thermophilus HB27

39.401

100

0.395
  pilC Vibrio cholerae strain A1552

39.25

100

0.393