Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABFU26_RS16005 Genome accession   NZ_CP155935
Coordinates   3646204..3647463 (+) Length   419 a.a.
NCBI ID   WP_024939396.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. raphani strain Xcr-TH1B     
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 3635331..3648970 3646204..3647463 within 0


Gene organization within MGE regions


Location: 3635331..3648970
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFU26_RS15950 (ABFU26_15905) - 3635331..3635633 (-) 303 WP_323475834.1 type II toxin-antitoxin system RelE/ParE family toxin -
  ABFU26_RS15955 (ABFU26_15910) - 3635637..3636047 (-) 411 WP_029217117.1 CopG family ribbon-helix-helix protein -
  ABFU26_RS15960 (ABFU26_15915) sucD 3636151..3637026 (-) 876 WP_047124757.1 succinate--CoA ligase subunit alpha -
  ABFU26_RS15965 (ABFU26_15920) sucC 3637051..3638220 (-) 1170 WP_407460381.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFU26_RS15970 (ABFU26_15925) - 3638454..3640064 (+) 1611 WP_407460383.1 sensor histidine kinase -
  ABFU26_RS15975 (ABFU26_15930) pilR 3640273..3641667 (+) 1395 WP_043921909.1 sigma-54 dependent transcriptional regulator Regulator
  ABFU26_RS15980 (ABFU26_15935) - 3641865..3642221 (+) 357 WP_139328384.1 hypothetical protein -
  ABFU26_RS15985 (ABFU26_15940) - 3642166..3642957 (+) 792 WP_202796265.1 toxin -
  ABFU26_RS15990 (ABFU26_15945) pilB 3643140..3644873 (-) 1734 WP_024939398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFU26_RS15995 (ABFU26_15950) - 3644915..3645328 (-) 414 WP_080689434.1 pilin -
  ABFU26_RS16000 (ABFU26_15955) comP 3645425..3645856 (-) 432 WP_024939397.1 pilin Machinery gene
  ABFU26_RS16005 (ABFU26_15960) pilC 3646204..3647463 (+) 1260 WP_024939396.1 type II secretion system F family protein Machinery gene
  ABFU26_RS16010 (ABFU26_15965) - 3647470..3648333 (+) 864 WP_223646361.1 A24 family peptidase -
  ABFU26_RS16015 (ABFU26_15970) coaE 3648347..3648970 (+) 624 WP_323486787.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45803.20 Da        Isoelectric Point: 10.3007

>NTDB_id=999908 ABFU26_RS16005 WP_024939396.1 3646204..3647463(+) (pilC) [Xanthomonas campestris pv. raphani strain Xcr-TH1B]
MSVARNVVKKQPADRSSSQMQPFVWEGTDKRGIKMKGEQAARNVNMLRAELRRQGITPTVVKPKPKPLFGAAGKKVSPKD
IAFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMRKMVGQIRTDIEGGSSLHEAISKHPVQFDELYRNLVRAGEGAGVLE
TVLDTVANYKENIEALKGKIKKALFYPAMVVAVALVVSAILLIFVVPQFEEVFKGFGAELPAFTQLIVGASRFMVSYWWV
LLFVVAGAVIGFIYAYKRSPRMQHGMDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKVYEE
AVLRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=999908 ABFU26_RS16005 WP_024939396.1 3646204..3647463(+) (pilC) [Xanthomonas campestris pv. raphani strain Xcr-TH1B]
ATGTCAGTCGCGCGTAACGTGGTCAAGAAGCAGCCAGCCGACCGAAGCAGCAGCCAGATGCAACCCTTTGTATGGGAAGG
GACGGACAAGCGTGGCATCAAGATGAAAGGGGAGCAGGCTGCACGCAACGTGAACATGTTGCGTGCAGAACTTCGTCGCC
AGGGCATTACACCCACTGTCGTCAAGCCGAAACCCAAGCCACTCTTCGGCGCTGCCGGCAAAAAAGTCAGCCCCAAGGAC
ATTGCGTTTTTCAGTCGTCAGATGGCAACCATGATGAAGTCCGGCGTTCCCATCGTCGGATCGCTTGAGATCATTGGCGA
GGGGCACAAGAACCCCCGAATGAGGAAGATGGTCGGTCAGATAAGGACCGACATCGAGGGCGGCTCTTCACTGCATGAAG
CGATCAGCAAGCATCCGGTGCAGTTTGACGAGCTCTACCGCAACCTTGTCCGCGCGGGCGAGGGTGCGGGGGTGCTTGAG
ACAGTGCTAGACACAGTTGCCAACTACAAGGAAAACATTGAGGCCCTCAAAGGCAAGATCAAGAAGGCACTGTTCTACCC
TGCGATGGTGGTCGCAGTTGCACTGGTCGTCAGCGCTATCCTGCTAATTTTCGTGGTCCCTCAGTTCGAAGAAGTCTTCA
AGGGTTTTGGCGCGGAATTACCCGCCTTTACCCAGTTGATTGTGGGGGCTTCACGCTTCATGGTCAGTTATTGGTGGGTT
CTGTTGTTCGTTGTAGCAGGCGCGGTGATTGGTTTTATTTATGCCTATAAGCGTTCGCCACGCATGCAGCACGGAATGGA
TCGCCTAATCCTGAAGGTGCCCGTAATAGGGCAAATCATGCATAACAGTGCTATCGCACGCTTCGCTCGCACCACTGCCG
TCACGTTCAAGGCGGGTGTTCCGCTGGTGGAGGCTCTAGGCATCGTGGCTGGCGCAACCGGCAACAAGGTGTACGAAGAA
GCCGTGCTGCGTATGCGGGACGATGTATCAGTTGGCTATCCTGTGAACATGGCCATGAAGCAGGTCAACCTGTTCCCCCA
TATGGTCATCCAAATGACCGCAATCGGTGAGGAGGCGGGCGCCTTGGACGCGATGCTATTCAAGGTGGCTGAGTACTTCG
AGCAAGAAGTCAACAACGCCGTGGACGCGCTCAGCAGCCTACTGGAACCACTCATCATGGTGTTCATCGGCACCATCGTA
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

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 Pseudomonas stutzeri DSM 10701

53.788

94.511

0.508
  pilC Acinetobacter baylyi ADP1

52.334

97.136

0.508
  pilC Legionella pneumophila strain ERS1305867

52.346

96.659

0.506
  pilC Acinetobacter baumannii D1279779

50.62

96.181

0.487
  pilG Neisseria gonorrhoeae MS11

44.389

95.704

0.425
  pilG Neisseria meningitidis 44/76-A

43.89

95.704

0.42
  pilC Vibrio cholerae strain A1552

41.25

95.465

0.394
  pilC Vibrio campbellii strain DS40M4

39.95

96.181

0.384
  pilC Thermus thermophilus HB27

37.905

95.704

0.363

Multiple sequence alignment