Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH261_RS05560 Genome accession   NZ_CP066926
Coordinates   1348581..1349843 (-) Length   420 a.a.
NCBI ID   WP_274318282.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. incanae strain CFBP6690     
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 1348581..1365248 1348581..1349843 within 0


Gene organization within MGE regions


Location: 1348581..1365248
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH261_RS05560 (JH261_05545) pilC 1348581..1349843 (-) 1263 WP_274318282.1 type II secretion system F family protein Machinery gene
  JH261_RS05565 (JH261_05550) - 1349953..1351920 (-) 1968 WP_274318283.1 hypothetical protein -
  JH261_RS05570 (JH261_05555) - 1351976..1352392 (-) 417 WP_047124751.1 pilin -
  JH261_RS05575 (JH261_05560) - 1352617..1353117 (+) 501 WP_274318284.1 EamA family transporter -
  JH261_RS05580 (JH261_05565) - 1353122..1353916 (+) 795 WP_274318285.1 glycosyltransferase family 2 protein -
  JH261_RS05585 (JH261_05570) - 1353913..1354944 (+) 1032 WP_274318286.1 glycosyltransferase family 2 protein -
  JH261_RS05590 (JH261_05575) - 1354955..1355554 (+) 600 WP_274318287.1 methionine biosynthesis protein MetW -
  JH261_RS05595 (JH261_05580) pilB 1355705..1357438 (+) 1734 WP_228441061.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH261_RS05600 (JH261_05585) - 1357621..1358358 (-) 738 WP_274318288.1 zeta toxin family protein -
  JH261_RS05605 (JH261_05590) - 1358358..1358714 (-) 357 WP_139328384.1 hypothetical protein -
  JH261_RS05610 (JH261_05595) pilR 1358912..1360306 (-) 1395 WP_274318289.1 sigma-54 dependent transcriptional regulator Regulator
  JH261_RS05615 (JH261_05600) - 1360515..1362125 (-) 1611 WP_274318290.1 HAMP domain-containing sensor histidine kinase -
  JH261_RS05620 (JH261_05605) sucC 1362359..1363528 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH261_RS05625 (JH261_05610) sucD 1363553..1364428 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH261_RS05630 (JH261_05615) - 1364532..1364942 (+) 411 WP_323475224.1 DNA-binding protein -
  JH261_RS05635 (JH261_05620) - 1364946..1365248 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 420 a.a.        Molecular weight: 45928.65 Da        Isoelectric Point: 10.3627

>NTDB_id=523247 JH261_RS05560 WP_274318282.1 1348581..1349843(-) (pilC) [Xanthomonas campestris pv. incanae strain CFBP6690]
MSAVSRTVKKGTKPVSRANAMTMFVWEGTDKRGIKMKGDELARNANMLRAELRRRGIIPTVVKTKPKPLFGAAGKPIKAK
EIAFFSRQMATMMKSGVPIVGSLEIIGEGAKNPRMRKMVGEIRTDIEGGLSLNEAVSKHPVQFDELYRNLVRAGESAGVL
DTVLDTVATYKENIEALKGKIKKALFYPAMVMAVALIVSSILLIWVVPQFETVFSSFGAELPAFTQMIVNLSRFMVSWWF
PMLLVAVGSAVGLVMAYKRSPKMQHLFDRLILKVPVIGKIMHDSAIARFARTTAVTFKAGVPLVEALSIVAGATGNKVYE
EAVLRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVADYYEQDVNNAVDALSSLLEPMIMIFIGTI
VGGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1263 bp        

>NTDB_id=523247 JH261_RS05560 WP_274318282.1 1348581..1349843(-) (pilC) [Xanthomonas campestris pv. incanae strain CFBP6690]
ATGTCCGCAGTTAGCAGAACGGTGAAAAAGGGGACCAAGCCGGTCAGCCGCGCCAACGCGATGACCATGTTCGTGTGGGA
GGGGACAGACAAACGCGGCATCAAGATGAAGGGAGATGAGCTCGCTCGCAATGCCAACATGTTGCGTGCAGAGCTACGGC
GGCGCGGGATCATACCAACTGTCGTCAAGACCAAGCCCAAGCCACTATTCGGTGCGGCAGGCAAACCCATCAAAGCCAAG
GAGATCGCGTTCTTCAGTCGACAGATGGCCACAATGATGAAGTCTGGAGTGCCCATCGTGGGCTCCCTCGAAATCATCGG
CGAGGGTGCCAAGAACCCTCGCATGAGAAAAATGGTTGGCGAAATCCGCACCGACATTGAGGGAGGCTTATCCCTCAATG
AGGCTGTCAGCAAGCATCCAGTACAGTTTGACGAGCTCTACCGCAATTTGGTGAGGGCGGGCGAGAGCGCAGGTGTGCTT
GATACTGTCTTAGACACCGTGGCGACCTATAAGGAGAACATTGAGGCGCTCAAAGGGAAGATCAAGAAGGCGCTGTTCTA
TCCTGCAATGGTGATGGCCGTAGCTTTGATAGTCAGTTCTATCTTGCTGATTTGGGTGGTCCCGCAGTTCGAAACCGTGT
TCTCTAGCTTCGGTGCGGAACTACCGGCGTTTACCCAAATGATCGTTAACCTGTCGCGATTCATGGTCTCCTGGTGGTTC
CCGATGCTGCTGGTTGCCGTCGGATCGGCCGTTGGCTTGGTCATGGCTTACAAGCGTTCGCCGAAGATGCAGCATCTATT
TGACCGGTTGATCCTGAAAGTGCCAGTCATTGGCAAGATCATGCATGACAGTGCCATCGCAAGATTCGCACGCACTACTG
CGGTGACCTTCAAGGCCGGTGTTCCATTGGTGGAAGCGTTGAGCATCGTCGCCGGAGCCACAGGCAATAAGGTGTATGAA
GAGGCTGTGCTGCGCATGCGCGATGACGTGTCTGTCGGTTATCCCGTTAACATGGCAATGAAACAGGTCAATCTCTTTCC
ACACATGGTGATCCAGATGACCGCAATCGGCGAAGAGGCTGGCGCACTCGACGCCATGTTGTTCAAGGTGGCTGATTATT
ACGAGCAAGATGTGAACAATGCAGTGGATGCCTTGAGTAGCTTGCTCGAGCCGATGATCATGATCTTCATCGGCACCATC
GTAGGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(289-411)

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

(85-208)


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

94.762

0.507
  pilC Legionella pneumophila strain ERS1305867

52.273

94.286

0.493
  pilC Acinetobacter baylyi ADP1

49.752

96.19

0.479
  pilC Acinetobacter baumannii D1279779

48.522

96.667

0.469
  pilG Neisseria gonorrhoeae MS11

43.035

95.714

0.412
  pilG Neisseria meningitidis 44/76-A

43.035

95.714

0.412
  pilC Vibrio campbellii strain DS40M4

39.702

95.952

0.381
  pilC Vibrio cholerae strain A1552

39.547

94.524

0.374
  pilC Thermus thermophilus HB27

38.903

95.476

0.371