Detailed information    

insolico Bioinformatically predicted

Overview

Name   comP   Type   Machinery gene
Locus tag   ABFU26_RS16000 Genome accession   NZ_CP155935
Coordinates   3645425..3645856 (-) Length   143 a.a.
NCBI ID   WP_024939397.1    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 3645425..3645856 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: 143 a.a.        Molecular weight: 14594.80 Da        Isoelectric Point: 8.4781

>NTDB_id=999907 ABFU26_RS16000 WP_024939397.1 3645425..3645856(-) (comP) [Xanthomonas campestris pv. raphani strain Xcr-TH1B]
MKKQQGFTLIELMIVVAIIAILAAIALPAYQDYTIRSRVSELAVMASSFKTTVAENIANNGGALPADACVGVGATAATTN
MASIACTPASGNIVVTGDATKTKGTILTYAPTIPAAGNSAVGTTWTCTGSGSQTKYYPAECRR

Nucleotide


Download         Length: 432 bp        

>NTDB_id=999907 ABFU26_RS16000 WP_024939397.1 3645425..3645856(-) (comP) [Xanthomonas campestris pv. raphani strain Xcr-TH1B]
ATGAAGAAGCAACAAGGCTTTACCCTGATCGAACTGATGATCGTTGTTGCGATCATCGCCATCCTAGCCGCCATCGCGCT
TCCGGCGTATCAGGACTACACCATTCGCTCGCGCGTTTCGGAACTGGCTGTGATGGCTAGCTCCTTCAAGACCACCGTCG
CAGAAAATATAGCTAACAACGGCGGCGCTTTGCCGGCTGATGCTTGCGTGGGTGTTGGTGCTACGGCTGCGACTACCAAC
ATGGCGTCCATCGCCTGTACTCCCGCTTCTGGCAATATCGTTGTTACCGGTGATGCAACCAAAACTAAGGGTACGATTTT
GACCTACGCGCCCACCATTCCTGCGGCGGGTAACTCTGCGGTTGGTACGACCTGGACGTGCACGGGTAGCGGTAGCCAGA
CAAAGTACTATCCGGCTGAGTGCCGCCGCTAA

Domains

Predicted by InterproScan.

Prokaryotic N-terminal methylation motif (N_methyl)

(1-27)

Pilin (bacterial filament) (Pilin)

(36-142)


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
  comP Acinetobacter baylyi ADP1

53.595

100

0.573
  pilA2 Legionella pneumophila str. Paris

55.634

99.301

0.552
  pilA2 Legionella pneumophila strain ERS1305867

54.93

99.301

0.545
  pilA Ralstonia pseudosolanacearum GMI1000

40.244

100

0.462
  pilA Vibrio campbellii strain DS40M4

41.611

100

0.434
  pilA Pseudomonas aeruginosa PAK

37.342

100

0.413
  pilA/pilA1 Eikenella corrodens VA1

38.816

100

0.413
  pilA/pilAI Pseudomonas stutzeri DSM 10701

40.278

100

0.406
  pilA Haemophilus influenzae 86-028NP

39.161

100

0.392
  pilA Haemophilus influenzae Rd KW20

38.462

100

0.385
  pilA/pilAII Pseudomonas stutzeri DSM 10701

37.241

100

0.378
  pilA Glaesserella parasuis strain SC1401

37.063

100

0.371
  pilA Vibrio parahaemolyticus RIMD 2210633

41.085

90.21

0.371

Multiple sequence alignment