Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFU14_RS05325 Genome accession   NZ_CP155961
Coordinates   1265960..1267222 (-) Length   420 a.a.
NCBI ID   WP_407471758.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain NBC271     
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 1265960..1278208 1265960..1267222 within 0


Gene organization within MGE regions


Location: 1265960..1278208
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU14_RS05325 (ABFU14_05325) pilC 1265960..1267222 (-) 1263 WP_407471758.1 type II secretion system F family protein Machinery gene
  ABFU14_RS05330 (ABFU14_05330) comP 1267549..1267971 (+) 423 WP_323475831.1 pilin Machinery gene
  ABFU14_RS05335 (ABFU14_05335) pilA2 1268140..1268517 (+) 378 WP_407471905.1 pilin Machinery gene
  ABFU14_RS05340 (ABFU14_05340) pilB 1268690..1270399 (+) 1710 WP_323475836.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU14_RS05345 (ABFU14_05345) - 1270582..1271373 (-) 792 WP_407471759.1 zeta toxin family protein -
  ABFU14_RS05350 (ABFU14_05350) - 1271318..1271674 (-) 357 WP_407471760.1 hypothetical protein -
  ABFU14_RS05355 (ABFU14_05355) pilR 1271872..1273266 (-) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU14_RS05360 (ABFU14_05360) - 1273475..1275085 (-) 1611 WP_115006667.1 PAS domain-containing sensor histidine kinase -
  ABFU14_RS05365 (ABFU14_05365) sucC 1275319..1276488 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU14_RS05370 (ABFU14_05370) sucD 1276513..1277388 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFU14_RS05375 (ABFU14_05375) - 1277492..1277902 (+) 411 WP_029628876.1 CopG family ribbon-helix-helix protein -
  ABFU14_RS05380 (ABFU14_05380) - 1277906..1278208 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 420 a.a.        Molecular weight: 45866.15 Da        Isoelectric Point: 10.2171

>NTDB_id=1000316 ABFU14_RS05325 WP_407471758.1 1265960..1267222(-) (pilC) [Xanthomonas campestris pv. raphani strain NBC271]
MSATRSVVKKSQPVDRSTSQLLLFIWEGTDKRGIKMKGEQSARNMNLLRAELRRQGITPSVVKPKPKPLFGAAGKKVTAK
DISFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKQLVSQVRTDIEGGSSLHEAISKHPVQFDELYRNLVRAGEGAGVL
ETVLDTVATYKENIEALKGKIKKALFYPAMVVAVALIVSAILLIFVVPQFEEVFKGFGAELPAFTQMIVTASRFTVSYWW
LMLLIIGGSAAGFIFAYKRSPSMQHGMDRLLLKVPVIGQIMHNSSIARFARTTAVTFKAGVPLVEGLGIVAGATGNKVYE
EAVLRMRDDVSVGYPVNMAMKQVNIFPHMVIQMTAIGEEAGALDTMLFKVAEYFEQEVNNAVDALSSLLEPMIMVFIGTV
VGGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1263 bp        

>NTDB_id=1000316 ABFU14_RS05325 WP_407471758.1 1265960..1267222(-) (pilC) [Xanthomonas campestris pv. raphani strain NBC271]
ATGTCAGCTACTCGCAGTGTCGTCAAGAAGTCGCAGCCAGTGGACAGAAGTACAAGCCAGCTGCTGCTTTTCATTTGGGA
AGGGACGGACAAACGCGGCATCAAGATGAAAGGCGAACAATCCGCACGCAACATGAATTTGTTGCGCGCAGAACTTCGTC
GGCAGGGGATCACTCCCAGTGTAGTGAAACCTAAACCCAAGCCGCTTTTTGGCGCCGCTGGTAAAAAAGTTACCGCGAAA
GACATATCTTTCTTTAGTCGCCAGATGGCAACAATGATGAAGTCGGGCGTACCTATCGTCAGCTCATTGGAAATAATAGG
CGAGGGGCACAAGAACCCCCGCATGAAACAGTTGGTTTCTCAAGTACGGACCGATATCGAAGGAGGCTCATCACTCCACG
AAGCTATAAGCAAACACCCAGTTCAATTCGACGAACTTTACCGAAACCTTGTTCGTGCAGGCGAGGGAGCTGGTGTTCTT
GAGACAGTGCTTGACACAGTCGCAACCTATAAAGAGAATATTGAAGCGTTAAAAGGGAAGATTAAAAAAGCACTTTTCTA
TCCAGCCATGGTCGTTGCAGTGGCCCTAATCGTCAGCGCAATTTTACTTATTTTCGTTGTACCCCAGTTTGAAGAGGTCT
TCAAAGGTTTCGGGGCAGAATTACCTGCATTCACCCAAATGATCGTGACCGCATCACGCTTTACGGTCAGTTATTGGTGG
CTCATGCTATTAATCATTGGCGGCTCCGCAGCAGGGTTCATCTTTGCTTATAAGCGCTCCCCGAGTATGCAACACGGGAT
GGATCGCCTGCTCTTAAAAGTTCCTGTGATCGGCCAAATCATGCATAATAGCTCGATCGCCCGCTTTGCTCGCACAACTG
CTGTTACCTTTAAAGCTGGCGTGCCTTTGGTCGAGGGGTTAGGCATAGTGGCGGGCGCAACCGGAAATAAAGTTTATGAG
GAGGCCGTGTTACGCATGCGAGATGACGTATCTGTTGGCTACCCTGTGAACATGGCGATGAAACAGGTCAATATCTTCCC
TCATATGGTAATCCAAATGACCGCAATCGGCGAAGAAGCTGGCGCACTTGATACTATGTTATTCAAAGTGGCAGAGTACT
TCGAACAGGAAGTTAATAACGCCGTTGACGCTTTAAGCAGTCTCTTAGAGCCTATGATCATGGTATTCATCGGCACAGTC
GTAGGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

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 Pseudomonas stutzeri DSM 10701

53.904

94.524

0.51
  pilC Legionella pneumophila strain ERS1305867

52.217

96.667

0.505
  pilC Acinetobacter baylyi ADP1

50.864

96.429

0.49
  pilC Acinetobacter baumannii D1279779

51.134

94.524

0.483
  pilG Neisseria gonorrhoeae MS11

44.638

95.476

0.426
  pilG Neisseria meningitidis 44/76-A

44.14

95.476

0.421
  pilC Vibrio cholerae strain A1552

41.814

94.524

0.395
  pilC Vibrio campbellii strain DS40M4

40.796

95.714

0.39

Multiple sequence alignment