Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   XCCCN15_RS05385 Genome accession   NZ_CP017323
Coordinates   1242689..1243951 (-) Length   420 a.a.
NCBI ID   WP_040940798.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris str. CN15     
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 1244303..1262546 1242689..1243951 flank 352


Gene organization within MGE regions


Location: 1242689..1262546
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  XCCCN15_RS05385 pilC 1242689..1243951 (-) 1263 WP_040940798.1 type II secretion system F family protein Machinery gene
  XCCCN15_RS05390 pilA/pilAI 1244303..1244701 (+) 399 WP_040940799.1 pilin Machinery gene
  XCCCN15_RS05395 - 1244806..1245228 (+) 423 WP_040940800.1 pilin -
  XCCCN15_RS05400 - 1245287..1247107 (+) 1821 WP_162866362.1 hypothetical protein -
  XCCCN15_RS05405 - 1247231..1247989 (+) 759 WP_080640038.1 class I SAM-dependent methyltransferase -
  XCCCN15_RS05410 - 1248411..1249172 (+) 762 WP_162866363.1 glycosyltransferase family 9 protein -
  XCCCN15_RS23230 - 1249175..1250017 (-) 843 WP_162866364.1 glycosyltransferase -
  XCCCN15_RS05420 - 1250011..1251183 (-) 1173 WP_162866365.1 glycosyltransferase -
  XCCCN15_RS05425 - 1251168..1252031 (-) 864 WP_080640041.1 glycosyltransferase -
  XCCCN15_RS05430 - 1252081..1252932 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  XCCCN15_RS05435 pilB 1253088..1254824 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  XCCCN15_RS05440 pilR 1256209..1257603 (-) 1395 WP_040940803.1 sigma-54 dependent transcriptional regulator Regulator
  XCCCN15_RS05445 - 1257813..1259423 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  XCCCN15_RS05450 sucC 1259657..1260826 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  XCCCN15_RS05455 sucD 1260851..1261726 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  XCCCN15_RS05460 - 1261830..1262240 (+) 411 WP_029217117.1 DNA-binding protein -
  XCCCN15_RS05465 - 1262244..1262546 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 420 a.a.        Molecular weight: 45811.20 Da        Isoelectric Point: 10.2311

>NTDB_id=197708 XCCCN15_RS05385 WP_040940798.1 1242689..1243951(-) (pilC) [Xanthomonas campestris pv. campestris str. CN15]
MSAVRSTIKNKPASISAEQQMSPFVWEGTDKRGVKMKGEQVARNANMLRAELRRQGITPSVVKAKPKPLFGAAGKKITPK
EIAFFSRQMATMMKSGVPIVGSLEIIGNGHKNPRMKQMVGQIRTDIEGGSSLHEAVSKHPVQFDELYRNLIKAGEGAGVL
ETVLDTIASYKENLEALKGKIKKALFYPAMVVAVALLVSSILLIWVVPQFEDVFKGFGAELPAFTQLIVNASRFMVSYWW
LMLLVIVGSIVGFIFAYKRSLAMQHGMDRLVLKVPIIGQIMHNSSIARFARTTAVTFKAGVPLVEALGIVAGATGNSVYE
KAVLRMREDVSVGYPVNVSMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYYEQEVNNAVDALSSLIEPLIMVFIGTV
VGGMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1263 bp        

>NTDB_id=197708 XCCCN15_RS05385 WP_040940798.1 1242689..1243951(-) (pilC) [Xanthomonas campestris pv. campestris str. CN15]
ATGTCGGCAGTCCGCAGCACCATCAAAAACAAACCGGCGAGCATCAGCGCCGAACAGCAGATGAGTCCGTTCGTCTGGGA
GGGAACAGACAAGCGCGGCGTGAAGATGAAAGGCGAACAGGTCGCCCGCAACGCCAATATGTTGCGTGCGGAACTCCGCC
GGCAGGGCATTACGCCCAGCGTTGTGAAGGCAAAGCCTAAGCCACTGTTCGGGGCGGCAGGCAAGAAGATCACGCCGAAG
GAAATTGCGTTCTTCAGCCGTCAGATGGCCACCATGATGAAGTCGGGCGTGCCAATTGTCGGGTCGCTGGAGATCATCGG
CAATGGTCACAAGAACCCGCGCATGAAGCAGATGGTCGGGCAGATCCGTACCGACATCGAAGGCGGATCTTCGCTGCACG
AAGCGGTAAGCAAGCATCCGGTGCAGTTCGACGAGCTGTATCGCAACCTGATCAAGGCCGGCGAAGGCGCTGGTGTGCTG
GAAACCGTCCTGGATACCATTGCCTCGTACAAGGAGAACCTGGAAGCCCTGAAGGGCAAGATCAAGAAGGCCTTGTTCTA
CCCCGCGATGGTCGTGGCAGTGGCTTTGTTGGTGAGCTCGATACTCTTGATCTGGGTCGTTCCGCAGTTCGAGGACGTGT
TCAAGGGGTTTGGCGCGGAACTGCCGGCGTTTACCCAATTGATCGTCAATGCGTCCCGATTCATGGTCTCGTATTGGTGG
CTGATGCTGCTTGTGATCGTCGGCTCGATCGTGGGCTTCATCTTTGCCTACAAGCGATCGCTTGCAATGCAGCATGGCAT
GGATCGGTTGGTGCTCAAGGTACCGATCATCGGCCAGATCATGCACAACAGCTCGATTGCGCGTTTTGCGCGCACTACTG
CGGTGACCTTCAAGGCAGGCGTGCCGTTGGTCGAAGCACTGGGCATCGTCGCCGGCGCCACTGGTAACTCGGTGTACGAG
AAAGCCGTGTTGCGCATGCGCGAGGATGTCTCGGTGGGCTATCCGGTCAACGTGTCGATGAAACAGGTCAACCTGTTTCC
GCATATGGTGATCCAGATGACGGCGATCGGCGAGGAAGCGGGCGCATTGGACGCCATGCTGTTCAAGGTGGCCGAGTACT
ACGAGCAAGAAGTGAACAATGCGGTGGACGCATTGAGCAGCCTCATCGAACCCCTGATCATGGTGTTCATTGGTACAGTA
GTCGGCGGCATGGTCATCGGCATGTACCTGCCCATCTTCAAGCTCGCTTCGGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(85-208)

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

(289-411)


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 Acinetobacter baylyi ADP1

52.736

95.714

0.505
  pilC Legionella pneumophila strain ERS1305867

51.095

97.857

0.5
  pilC Pseudomonas stutzeri DSM 10701

52.513

94.762

0.498
  pilC Acinetobacter baumannii D1279779

50.614

96.905

0.49
  pilG Neisseria gonorrhoeae MS11

43.099

98.333

0.424
  pilG Neisseria meningitidis 44/76-A

42.512

98.571

0.419
  pilC Vibrio cholerae strain A1552

41.814

94.524

0.395
  pilC Vibrio campbellii strain DS40M4

39.651

95.476

0.379

Multiple sequence alignment