Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KAF26_RS05240 Genome accession   NZ_CP074363
Coordinates   1209398..1211134 (+) Length   578 a.a.
NCBI ID   WP_003466384.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. secalis strain CFBP 2539     
Function   power the 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 1211758..1221720 1209398..1211134 flank 624


Gene organization within MGE regions


Location: 1209398..1221720
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KAF26_RS05240 (KAF26_05165) pilB 1209398..1211134 (+) 1737 WP_003466384.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KAF26_RS05245 (KAF26_05170) - 1211309..1211761 (-) 453 WP_230811680.1 Fic family protein -
  KAF26_RS05250 (KAF26_05175) - 1211758..1211940 (-) 183 WP_003466380.1 YhfG family protein -
  KAF26_RS05255 (KAF26_05180) pilR 1212129..1213517 (-) 1389 WP_003466378.1 sigma-54 dependent transcriptional regulator Regulator
  KAF26_RS05260 (KAF26_05185) - 1213592..1215205 (-) 1614 WP_003466376.1 ATP-binding protein -
  KAF26_RS05265 (KAF26_05190) sucC 1215446..1216609 (+) 1164 WP_003466374.1 ADP-forming succinate--CoA ligase subunit beta -
  KAF26_RS05270 (KAF26_05195) sucD 1216633..1217505 (+) 873 WP_003466372.1 succinate--CoA ligase subunit alpha -
  KAF26_RS05275 - 1217791..1219089 (+) 1299 WP_003466370.1 PQQ-binding-like beta-propeller repeat protein -
  KAF26_RS05280 - 1219038..1219343 (+) 306 WP_003466368.1 PQQ-binding-like beta-propeller repeat protein -
  KAF26_RS05285 (KAF26_05205) - 1219456..1221720 (-) 2265 WP_237654409.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62887.18 Da        Isoelectric Point: 6.3630

>NTDB_id=564265 KAF26_RS05240 WP_003466384.1 1209398..1211134(+) (pilB) [Xanthomonas translucens pv. secalis strain CFBP 2539]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELVHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGKLEVGAGDEDMGSGAETGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRVLDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPTHLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=564265 KAF26_RS05240 WP_003466384.1 1209398..1211134(+) (pilB) [Xanthomonas translucens pv. secalis strain CFBP 2539]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCGCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCGAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGGTGCACAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGATGACATCAAGTTCCATACCAATCTGACGGTGGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGCCGCACCCTGGAGCAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCCATGGGCAAGCTCGAGGTCGGTGCCGGCGACGAGGACATGGGCAGCGGCGCCGAGACCGGCGTCGA
TGCCAAGGGCGACGATACGCCGGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCGTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCGGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACCTTGTTCGGCGAGA
AGATCGTGCTGCGTGTCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACGGCCGAGGATCCGGTGGAAATCCGCCTGCCCG
GGGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCGGAGATTGCGATCAAGGCGGCGCAGACCGGGCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGGCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCCCGACCCATCTGCCG
CACAATGCGCTGCTGGCCGAGGGTTTCAGCGAGGCGGAAGTGGCCGCCGGCATCCAGCTGTACGAGGCGGTGGGCTGCGA
CGAGTGCACCGAGGGCTACAAGGGCCGCACCGGCATCTATCAGGTGATGCCGATGAACGACGAGATCGCGGCGATCGTGC
TGCAGGGCGGCAACGCGATGGACATCGCCCAGGCCGCGCAGAAGATCGGGGTCAAGGACCTGCGCCAGTCGGCGCTGCTC
AAGGCGCGCGCCGGCATCACCAGCCTGGCGGAGATCAATCGCGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(51-152)


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
  pilB Acinetobacter baumannii D1279779

54.482

98.443

0.536
  pilB Acinetobacter baylyi ADP1

54.577

98.27

0.536
  pilB Legionella pneumophila strain ERS1305867

52.548

98.443

0.517
  pilB Vibrio cholerae strain A1552

48.873

99.827

0.488
  pilF Neisseria gonorrhoeae MS11

48.592

98.27

0.478
  pilB Vibrio parahaemolyticus RIMD 2210633

46.643

97.924

0.457
  pilB Vibrio campbellii strain DS40M4

45.694

98.443

0.45
  pilF Thermus thermophilus HB27

40.385

89.965

0.363