Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH310_RS05265 Genome accession   NZ_CP066936
Coordinates   1237570..1238826 (-) Length   418 a.a.
NCBI ID   WP_011038215.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 10090     
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 1237570..1248660 1237570..1238826 within 0


Gene organization within MGE regions


Location: 1237570..1248660
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH310_RS05265 (JH310_05245) pilC 1237570..1238826 (-) 1257 WP_011038215.1 type II secretion system F family protein Machinery gene
  JH310_RS05270 (JH310_05250) pilE 1239153..1239593 (+) 441 WP_011038214.1 pilin Machinery gene
  JH310_RS05275 (JH310_05255) - 1239673..1240107 (+) 435 WP_011038213.1 pilin -
  JH310_RS05280 (JH310_05260) pilB 1240172..1241905 (+) 1734 WP_011038212.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH310_RS05290 (JH310_05270) pilR 1242324..1243718 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  JH310_RS05295 (JH310_05275) - 1243927..1245537 (-) 1611 WP_012437608.1 HAMP domain-containing sensor histidine kinase -
  JH310_RS05300 (JH310_05280) sucC 1245771..1246940 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  JH310_RS05305 (JH310_05285) sucD 1246965..1247840 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH310_RS05310 (JH310_05290) - 1247944..1248354 (+) 411 WP_029628876.1 DNA-binding protein -
  JH310_RS05315 (JH310_05295) - 1248358..1248660 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 418 a.a.        Molecular weight: 45907.37 Da        Isoelectric Point: 10.3359

>NTDB_id=523389 JH310_RS05265 WP_011038215.1 1237570..1238826(-) (pilC) [Xanthomonas campestris pv. campestris strain 10090]
MSIARSSMKKQPIDRNVNEMVPFVWEGTDKRGIKMKGEQPARNANMLRAELRRQGITPLVVKTKPKPLFGAAGKKISSKD
IAFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLHEAISRHPVQFDDLYRNLVRAGEGAGVLE
TVLDTVANYKENIEALKGKIKKALFYPAMVMAVAIIVSGILLVFVVPQFEDVFKGFGAELPAFTQMIVAASRFMVSYWWL
MLLGSIAAIAGFIFAYKRSPRMRHGMDRLVLKVPVIGQIMHNSSIARFARTTAVTFKAGVPLVEALSIVAGATGNKVYEE
AVLRMRDDVSVGYPVNMAMKQVNLFPHMVVQMTSIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGSVV

Nucleotide


Download         Length: 1257 bp        

>NTDB_id=523389 JH310_RS05265 WP_011038215.1 1237570..1238826(-) (pilC) [Xanthomonas campestris pv. campestris strain 10090]
ATGTCAATCGCTCGTAGCAGCATGAAGAAGCAGCCGATAGACCGGAACGTAAACGAGATGGTCCCATTTGTCTGGGAGGG
TACGGACAAGCGCGGCATCAAGATGAAGGGGGAACAACCTGCTCGCAACGCGAACATGCTCCGCGCTGAGCTTCGGCGGC
AGGGCATCACACCTTTAGTTGTAAAGACGAAGCCTAAGCCGCTTTTCGGCGCCGCTGGCAAGAAAATTTCTTCAAAAGAT
ATCGCATTTTTCAGTCGCCAGATGGCAACAATGATGAAGTCGGGCGTACCTATTGTTGGATCGCTTGAAATCATCGGAGA
GGGGCACAAAAATCCCCGCATGAAAAAAATGGTTGGTCAAATTAGGACCGACATTGAAGGAGGGTCTTCACTCCATGAAG
CAATTTCTAGGCATCCAGTCCAATTCGACGACCTCTATCGAAATTTGGTACGAGCAGGCGAAGGTGCCGGCGTTCTAGAA
ACCGTTTTAGACACAGTTGCAAATTACAAAGAAAACATTGAAGCACTGAAGGGAAAAATAAAGAAAGCTTTATTTTATCC
TGCAATGGTAATGGCCGTTGCAATTATTGTGAGCGGAATATTACTTGTATTTGTTGTCCCGCAATTTGAAGACGTATTCA
AAGGATTCGGAGCAGAACTACCAGCTTTCACTCAGATGATCGTCGCGGCGTCGCGTTTCATGGTGTCTTATTGGTGGCTT
ATGCTACTTGGTAGCATCGCAGCAATTGCAGGATTCATTTTTGCTTACAAGCGCTCGCCTCGCATGCGACATGGAATGGA
TAGATTGGTCTTGAAGGTCCCAGTCATTGGCCAGATCATGCATAATAGCTCTATCGCCCGATTTGCGCGAACCACTGCCG
TTACGTTCAAAGCTGGCGTTCCTTTAGTTGAAGCCTTGAGCATTGTGGCTGGCGCCACCGGTAATAAAGTTTATGAGGAA
GCTGTGCTTCGTATGCGCGATGATGTCTCGGTAGGCTACCCTGTCAACATGGCGATGAAGCAGGTCAATCTTTTCCCACA
CATGGTGGTTCAGATGACCTCGATCGGCGAAGAAGCTGGCGCCCTGGATGCCATGTTGTTCAAAGTGGCTGAATATTTCG
AGCAAGAAGTTAATAACGCCGTGGATGCATTGAGCAGCTTACTGGAACCATTGATCATGGTTTTTATTGGCACAATTGTG
GGCGGCATGGTCATTGGCATGTATCTTCCCATCTTCAAACTTGGCTCAGTGGTCTAA

Domains

Predicted by InterproScan.

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

(84-207)

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

(288-410)


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

53.788

94.737

0.51
  pilC Acinetobacter baylyi ADP1

53.401

94.976

0.507
  pilC Acinetobacter baumannii D1279779

51.741

96.172

0.498
  pilC Legionella pneumophila strain ERS1305867

50.493

97.129

0.49
  pilG Neisseria gonorrhoeae MS11

44.836

94.976

0.426
  pilG Neisseria meningitidis 44/76-A

44.332

94.976

0.421
  pilC Vibrio cholerae strain A1552

42.172

94.737

0.4
  pilC Vibrio campbellii strain DS40M4

39.141

94.737

0.371