Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFT86_RS05315 Genome accession   NZ_CP155990
Coordinates   1240985..1242244 (-) Length   419 a.a.
NCBI ID   WP_012437601.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain LMG 08005     
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 1240985..1255396 1240985..1242244 within 0


Gene organization within MGE regions


Location: 1240985..1255396
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFT86_RS05315 (ABFT86_05315) pilC 1240985..1242244 (-) 1260 WP_012437601.1 type II secretion system F family protein Machinery gene
  ABFT86_RS05320 (ABFT86_05320) comP 1242596..1243009 (+) 414 WP_012437602.1 pilin Machinery gene
  ABFT86_RS05325 (ABFT86_05325) - 1243228..1244739 (+) 1512 WP_256729490.1 phosphoethanolamine transferase -
  ABFT86_RS05330 (ABFT86_05330) - 1244750..1245379 (+) 630 WP_012437604.1 hypothetical protein -
  ABFT86_RS05335 (ABFT86_05335) - 1245349..1246875 (+) 1527 WP_016944997.1 membrane protein -
  ABFT86_RS05340 (ABFT86_05340) pilB 1246910..1248643 (+) 1734 WP_012437606.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFT86_RS05345 (ABFT86_05345) pilR 1249060..1250454 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFT86_RS05350 (ABFT86_05350) - 1250663..1252273 (-) 1611 WP_012437608.1 PAS domain-containing sensor histidine kinase -
  ABFT86_RS05355 (ABFT86_05355) sucC 1252507..1253676 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFT86_RS05360 (ABFT86_05360) sucD 1253701..1254576 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFT86_RS05365 (ABFT86_05365) - 1254680..1255090 (+) 411 WP_029217117.1 CopG family ribbon-helix-helix protein -
  ABFT86_RS05370 (ABFT86_05370) - 1255094..1255396 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45885.30 Da        Isoelectric Point: 10.1819

>NTDB_id=1000826 ABFT86_RS05315 WP_012437601.1 1240985..1242244(-) (pilC) [Xanthomonas campestris pv. campestris strain LMG 08005]
MSVARSAIKKQPVDRNTSMLQTFIWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSVVKQKPKPLFGAAGKKITPKD
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQIRTDIEGGSSLYESISAHPVQFDELYRNLVRAGEGAGVLE
TVLDTVASYKENIEALKGKIKKAMFYPAMVVAVAIIVSAILLIFVVPQFEEVFKGFGAELPAFTQLLVNASRFMVSYWWL
MLVVAVGSVVGFIFAYKRSPRMQHGLDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKLYEE
AVFRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEEEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=1000826 ABFT86_RS05315 WP_012437601.1 1240985..1242244(-) (pilC) [Xanthomonas campestris pv. campestris strain LMG 08005]
ATGTCAGTCGCGCGCAGCGCCATCAAGAAGCAACCAGTAGACCGGAACACCAGCATGCTGCAGACCTTCATCTGGGAAGG
GGCTGACAAGCGTGGTGTGAAGATGAAGGGAGAGCAGACAGCCCGTAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATTGTGCCCAGCGTGGTGAAGCAAAAGCCGAAGCCTCTGTTCGGAGCGGCGGGGAAGAAAATCACCCCCAAAGAC
ATTGCGTTCTTTAGCCGTCAGATGGCGACGATGATGAAGTCGGGCGTGCCCATCGTCAGTTCTTTGGAGATCATTGGCGA
GGGACACAAGAACCCACGCATGAAAAAAATGGTCGGCCAGATCAGGACAGACATCGAGGGGGGATCCTCGCTCTACGAGT
CCATCAGCGCACATCCCGTTCAGTTTGACGAGCTCTACCGCAACCTTGTCCGCGCGGGCGAAGGCGCTGGCGTACTGGAG
ACAGTCCTCGACACGGTCGCTTCCTACAAAGAGAACATTGAAGCCCTAAAGGGCAAGATCAAAAAGGCAATGTTCTACCC
TGCCATGGTGGTTGCGGTGGCAATCATCGTGAGTGCGATTTTGCTCATCTTCGTGGTGCCTCAGTTCGAAGAGGTCTTCA
AGGGTTTCGGTGCCGAACTACCGGCATTCACTCAGCTCCTCGTCAACGCATCGCGCTTCATGGTCAGCTATTGGTGGTTG
ATGCTGGTAGTAGCGGTTGGATCTGTCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGGACTTGA
TCGATTGATCCTCAAGGTGCCCGTAATCGGGCAGATCATGCACAACAGTGCGATTGCACGCTTTGCACGGACAACTGCAG
TGACATTCAAGGCAGGCGTTCCTCTAGTGGAGGCACTTGGGATCGTAGCTGGCGCTACTGGCAATAAGCTTTATGAGGAG
GCTGTTTTCAGGATGCGGGACGATGTGTCTGTAGGTTACCCGGTCAACATGGCGATGAAACAGGTGAACCTATTTCCACA
TATGGTTATTCAAATGACTGCGATTGGCGAAGAAGCCGGCGCGCTTGATGCAATGCTCTTCAAAGTGGCTGAATACTTTG
AGGAAGAGGTCAATAATGCCGTGGACGCACTCAGCAGCCTGCTTGAACCACTGATCATGGTGTTCATTGGCACCATCGTC
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(288-410)

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

(84-207)


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 Legionella pneumophila strain ERS1305867

53.202

96.897

0.516
  pilC Pseudomonas stutzeri DSM 10701

53.535

94.511

0.506
  pilC Acinetobacter baylyi ADP1

50.617

96.659

0.489
  pilC Acinetobacter baumannii D1279779

50.37

96.659

0.487
  pilG Neisseria gonorrhoeae MS11

44.03

95.943

0.422
  pilG Neisseria meningitidis 44/76-A

43.424

96.181

0.418
  pilC Vibrio cholerae strain A1552

40.25

95.465

0.384
  pilC Vibrio campbellii strain DS40M4

38.75

95.465

0.37
  pilC Thermus thermophilus HB27

37.94

94.988

0.36

Multiple sequence alignment