Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH285_RS16560 Genome accession   NZ_CP066992
Coordinates   3769705..3770907 (+) Length   400 a.a.
NCBI ID   WP_227971345.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 66-2     
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 3759836..3773285 3769705..3770907 within 0


Gene organization within MGE regions


Location: 3759836..3773285
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH285_RS16515 (JH285_16475) - 3759836..3760138 (-) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -
  JH285_RS16520 (JH285_16480) - 3760142..3760552 (-) 411 WP_029217117.1 DNA-binding protein -
  JH285_RS16525 (JH285_16485) sucD 3760656..3761531 (-) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH285_RS16530 (JH285_16490) sucC 3761556..3762725 (-) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH285_RS16535 (JH285_16495) - 3762959..3764569 (+) 1611 WP_040940804.1 HAMP domain-containing sensor histidine kinase -
  JH285_RS16540 (JH285_16500) pilR 3764779..3766173 (+) 1395 WP_274497633.1 sigma-54 dependent transcriptional regulator Regulator
  JH285_RS16545 (JH285_16505) pilB 3766591..3768324 (-) 1734 WP_274497634.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH285_RS16550 (JH285_16510) - 3768364..3768774 (-) 411 WP_274316877.1 pilin -
  JH285_RS16555 (JH285_16515) - 3768863..3769279 (-) 417 WP_227971328.1 pilin -
  JH285_RS16560 (JH285_16520) pilC 3769705..3770907 (+) 1203 WP_227971345.1 type II secretion system F family protein Machinery gene
  JH285_RS16565 (JH285_16525) - 3770914..3771777 (+) 864 WP_129588889.1 A24 family peptidase -
  JH285_RS16570 (JH285_16530) coaE 3771791..3772414 (+) 624 WP_040940796.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 400 a.a.        Molecular weight: 43582.64 Da        Isoelectric Point: 10.1730

>NTDB_id=523986 JH285_RS16560 WP_227971345.1 3769705..3770907(+) (pilC) [Xanthomonas campestris pv. campestris strain 66-2]
MSPFVWEGTDKRGVKMKGEQTARNANLLRAELRRQGITPIVVKPKPKPLFGAAGKKVTPKDIAFFSRQMATMMKSGVPIV
GALEIIGSGQKNPRMRNMVGQVRTDIEGGSSLHEAISRHPVQFDELYRNLVKAGEGAGVLETVLDTIASYKENIEALKGK
IKKALFYPAMVMAVALLVSSILLIWVVPQFEDVFKGFGAELPAFTQLIVNASRFMVVWWWALLVVLIGAIVGFIFAYKRS
PAMQHGMDRLILKVPIIGQIMHNSSIARFARTTAVTFKAGVPLVEALSIVAGATGNSVYEAAVLRMRDDVSVGYPVNVAM
KQVNLFPHMVVQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLIEPLIMVFIGTIVGGMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1203 bp        

>NTDB_id=523986 JH285_RS16560 WP_227971345.1 3769705..3770907(+) (pilC) [Xanthomonas campestris pv. campestris strain 66-2]
ATGAGTCCGTTTGTCTGGGAAGGGACCGACAAGCGTGGCGTGAAGATGAAAGGGGAGCAGACTGCTCGAAATGCAAACTT
GCTGCGGGCCGAGTTGCGCCGCCAAGGCATCACCCCGATAGTGGTGAAGCCTAAGCCGAAACCGCTCTTCGGCGCAGCAG
GCAAGAAGGTCACCCCCAAGGACATCGCTTTTTTCAGCAGACAGATGGCGACGATGATGAAGTCTGGCGTGCCCATCGTT
GGAGCGCTGGAAATCATTGGCAGCGGCCAGAAAAATCCGCGTATGCGGAACATGGTCGGTCAAGTTCGCACCGACATCGA
GGGCGGCTCTTCGCTGCACGAGGCTATTAGCAGGCACCCTGTCCAGTTCGATGAGCTTTATCGAAATCTTGTCAAGGCGG
GCGAAGGCGCTGGCGTCTTGGAAACGGTGCTCGATACCATTGCTTCTTACAAAGAAAACATCGAAGCACTGAAAGGCAAG
ATCAAGAAGGCATTGTTTTATCCCGCCATGGTGATGGCAGTCGCCTTACTTGTCAGCTCCATCCTTTTGATTTGGGTAGT
CCCACAGTTTGAGGACGTCTTCAAAGGATTCGGGGCAGAACTTCCTGCCTTCACTCAGCTGATCGTGAATGCATCACGTT
TTATGGTGGTGTGGTGGTGGGCCCTTTTGGTTGTCCTGATTGGAGCAATCGTAGGTTTTATTTTTGCTTACAAACGCTCT
CCGGCAATGCAGCACGGGATGGACAGACTGATTCTTAAAGTGCCGATCATTGGTCAGATCATGCACAACAGCTCCATTGC
CCGCTTTGCTAGAACCACCGCTGTAACATTTAAGGCTGGTGTACCGCTTGTTGAAGCACTCAGCATCGTTGCCGGCGCAA
CAGGCAACTCGGTCTACGAGGCTGCAGTCCTGCGCATGCGCGACGACGTGTCCGTGGGCTACCCGGTCAACGTGGCGATG
AAGCAGGTCAACCTGTTCCCGCACATGGTGGTACAGATGACCGCCATCGGCGAAGAGGCCGGCGCCTTGGATGCAATGCT
GTTCAAAGTTGCCGAGTACTTCGAGCAAGAGGTCAACAATGCGGTTGATGCGCTGAGCAGCCTGATCGAACCCCTCATCA
TGGTGTTCATTGGTACCATCGTCGGCGGCATGGTCATCGGCATGTACCTGCCCATCTTCAAGCTCGCTTCGGTGGTTGGA
TAG

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 Acinetobacter baylyi ADP1

52.5

100

0.525
  pilC Pseudomonas stutzeri DSM 10701

52.513

99.5

0.523
  pilC Legionella pneumophila strain ERS1305867

51.768

99

0.513
  pilC Acinetobacter baumannii D1279779

50.5

100

0.505
  pilG Neisseria gonorrhoeae MS11

43.216

99.5

0.43
  pilG Neisseria meningitidis 44/76-A

42.714

99.5

0.425
  pilC Vibrio cholerae strain A1552

41

100

0.41
  pilC Vibrio campbellii strain DS40M4

39.295

99.25

0.39