Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH272_RS05825 Genome accession   NZ_CP066929
Coordinates   1373069..1374331 (-) Length   420 a.a.
NCBI ID   WP_104570928.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain CFBP12825     
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 1371562..1394152 1373069..1374331 within 0


Gene organization within MGE regions


Location: 1371562..1394152
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH272_RS05815 (JH272_05790) coaE 1371562..1372185 (-) 624 WP_274316878.1 dephospho-CoA kinase -
  JH272_RS05820 (JH272_05795) - 1372199..1373062 (-) 864 WP_040940797.1 A24 family peptidase -
  JH272_RS05825 (JH272_05800) pilC 1373069..1374331 (-) 1263 WP_104570928.1 type II secretion system F family protein Machinery gene
  JH272_RS05830 (JH272_05805) pilA/pilAI 1374682..1375080 (+) 399 WP_104570927.1 pilin Machinery gene
  JH272_RS05835 (JH272_05810) - 1375181..1375603 (+) 423 WP_104570926.1 pilin -
  JH272_RS05840 (JH272_05815) - 1375662..1377482 (+) 1821 WP_274361049.1 hypothetical protein -
  JH272_RS05845 (JH272_05820) - 1377606..1378364 (+) 759 WP_274361050.1 class I SAM-dependent methyltransferase -
  JH272_RS05850 (JH272_05825) - 1378300..1379547 (+) 1248 WP_274361051.1 glycosyltransferase family 9 protein -
  JH272_RS05855 (JH272_05830) - 1379550..1380392 (-) 843 WP_147308817.1 glycosyltransferase -
  JH272_RS05860 (JH272_05835) - 1380386..1381558 (-) 1173 WP_228442823.1 glycosyltransferase -
  JH272_RS05865 (JH272_05840) - 1381543..1382406 (-) 864 WP_274361052.1 glycosyltransferase -
  JH272_RS05870 (JH272_05845) - 1382456..1383307 (-) 852 WP_108133901.1 glycosyltransferase family 2 protein -
  JH272_RS05875 (JH272_05850) pilB 1383463..1385199 (+) 1737 WP_040940802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH272_RS05885 (JH272_05860) pilR 1387814..1389208 (-) 1395 WP_274361054.1 sigma-54 dependent transcriptional regulator Regulator
  JH272_RS05890 (JH272_05865) - 1389419..1391029 (-) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  JH272_RS05895 (JH272_05870) sucC 1391263..1392432 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH272_RS05900 (JH272_05875) sucD 1392457..1393332 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH272_RS05905 (JH272_05880) - 1393436..1393846 (+) 411 WP_029628876.1 DNA-binding protein -
  JH272_RS05910 (JH272_05885) - 1393850..1394152 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 420 a.a.        Molecular weight: 45799.15 Da        Isoelectric Point: 10.2311

>NTDB_id=523282 JH272_RS05825 WP_104570928.1 1373069..1374331(-) (pilC) [Xanthomonas campestris pv. campestris strain CFBP12825]
MSAVRSTTKNKPASISAEQQMSPFVWEGTDKRGVKMKGEQVARNANMLRAELRRQGITPSVVKAKPKPLFGAAGKKITPK
EIAFFSRQMATMMKSGVPIVGSLEIIGNGHKNPRMKQMVGQIRTDIEGGSSLHEAVSKHPVQFDELYRNLIKAGEGAGVL
ETVLDTIASYKENLEALKGKIKKALFYPAMVVAVALLVSSILLIWVVPQFEDVFKGFGAELPAFTQLIVNASRFMVSYWW
LMLLVIVGSLVGFIFAYKRSLAMQHGMDRLVLKVPIIGQIMHNSSIARFARTTAVTFKAGVPLVEALGIVAGATGNSVYE
KAVLRMREDVSVGYPVNVSMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYYEQEVNNAVDALSSLIEPLIMVFIGTV
VGGMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1263 bp        

>NTDB_id=523282 JH272_RS05825 WP_104570928.1 1373069..1374331(-) (pilC) [Xanthomonas campestris pv. campestris strain CFBP12825]
ATGTCGGCAGTCCGCAGCACCACCAAAAACAAACCGGCGAGCATCAGCGCCGAACAGCAGATGAGTCCGTTCGTCTGGGA
GGGAACAGACAAGCGCGGTGTGAAGATGAAAGGTGAACAGGTCGCCCGCAACGCCAATATGTTGCGTGCGGAACTCCGCC
GGCAGGGCATTACGCCCAGCGTTGTTAAGGCAAAGCCTAAGCCACTGTTCGGGGCGGCAGGCAAGAAGATCACGCCGAAG
GAAATTGCGTTCTTCAGCCGTCAGATGGCCACTATGATGAAGTCGGGCGTCCCGATTGTCGGGTCGCTGGAGATCATCGG
CAATGGTCACAAAAACCCGCGCATGAAGCAGATGGTCGGGCAGATCCGTACCGACATCGAGGGCGGCTCTTCGCTGCACG
AAGCGGTAAGCAAGCATCCGGTGCAGTTCGACGAGCTGTACCGCAACCTGATCAAGGCGGGCGAAGGCGCTGGTGTGCTG
GAAACCGTCCTGGATACCATCGCGTCGTACAAGGAGAACCTGGAAGCCCTGAAGGGCAAGATCAAGAAGGCCCTGTTCTA
CCCCGCGATGGTCGTGGCAGTGGCCTTGTTGGTGAGCTCGATACTCTTGATTTGGGTCGTTCCGCAGTTCGAGGACGTGT
TCAAGGGGTTTGGCGCGGAACTGCCTGCATTTACCCAACTGATCGTTAATGCGTCCCGATTCATGGTCTCGTATTGGTGG
CTGATGCTGCTTGTGATCGTCGGCTCGCTTGTGGGCTTCATCTTTGCCTACAAGCGATCACTTGCAATGCAGCATGGCAT
GGATCGGTTGGTACTCAAGGTACCCATCATCGGCCAGATCATGCACAACAGCTCGATTGCGCGTTTTGCGCGCACTACCG
CGGTGACCTTCAAGGCAGGCGTGCCGCTGGTCGAAGCACTGGGCATCGTCGCTGGCGCCACCGGCAACTCGGTGTACGAG
AAAGCAGTATTGCGCATGCGCGAGGATGTGTCGGTGGGCTATCCGGTCAACGTGTCGATGAAACAGGTCAACCTGTTTCC
GCATATGGTGATCCAGATGACGGCGATCGGCGAGGAGGCGGGCGCATTGGACGCCATGCTGTTCAAGGTGGCCGAGTACT
ACGAGCAGGAAGTGAACAATGCGGTGGACGCATTGAGCAGCCTCATCGAACCCCTGATCATGGTGTTCATTGGTACAGTA
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

52.488

95.714

0.502
  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

50.369

96.905

0.488
  pilG Neisseria gonorrhoeae MS11

42.857

98.333

0.421
  pilG Neisseria meningitidis 44/76-A

42.271

98.571

0.417
  pilC Vibrio cholerae strain A1552

41.562

94.524

0.393
  pilC Vibrio campbellii strain DS40M4

39.9

95.476

0.381