Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KHA79_RS04560 Genome accession   NZ_CP074364
Coordinates   1063764..1065500 (+) Length   578 a.a.
NCBI ID   WP_039005784.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. cerealis strain CFBP 2541     
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 1065675..1074697 1063764..1065500 flank 175


Gene organization within MGE regions


Location: 1063764..1074697
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KHA79_RS04560 (KHA79_04540) pilB 1063764..1065500 (+) 1737 WP_039005784.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KHA79_RS04565 (KHA79_04545) - 1065675..1066127 (-) 453 WP_230812364.1 Fic/DOC family protein -
  KHA79_RS04570 (KHA79_04550) - 1066124..1066306 (-) 183 WP_003477093.1 YhfG family protein -
  KHA79_RS04575 (KHA79_04555) pilR 1066495..1067877 (-) 1383 WP_039005783.1 sigma-54-dependent transcriptional regulator Regulator
  KHA79_RS04580 (KHA79_04560) - 1067951..1069564 (-) 1614 WP_039008924.1 sensor histidine kinase -
  KHA79_RS04585 (KHA79_04565) sucC 1069806..1070969 (+) 1164 WP_003466374.1 ADP-forming succinate--CoA ligase subunit beta -
  KHA79_RS04590 (KHA79_04570) sucD 1070993..1071865 (+) 873 WP_009580520.1 succinate--CoA ligase subunit alpha -
  KHA79_RS04595 (KHA79_04575) - 1072555..1072872 (+) 318 WP_162483286.1 hypothetical protein -
  KHA79_RS04600 (KHA79_04580) - 1072841..1074697 (-) 1857 WP_141696241.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62878.17 Da        Isoelectric Point: 6.2656

>NTDB_id=564281 KHA79_RS04560 WP_039005784.1 1063764..1065500(+) (pilB) [Xanthomonas translucens pv. cerealis strain CFBP 2541]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELLHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGKLEVGAGDEDMGSGGDTGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPTQLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=564281 KHA79_RS04560 WP_039005784.1 1063764..1065500(+) (pilB) [Xanthomonas translucens pv. cerealis strain CFBP 2541]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCGCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCCAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGTTGCACAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGCCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGACGATATCAAGTTCCATACCAATTTGACGGTCGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGCCGCACCCTGGAACAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCCATGGGCAAGCTCGAGGTCGGTGCCGGCGACGAGGACATGGGCAGCGGCGGCGATACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGGGCCTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAATCAGCGCATTGCCGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACGCTGTTCGGCGAGA
AGATCGTGCTGCGTATCCTCGACGGCAGTGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGGTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACCGCCGAGGATCCGGTGGAAATCCGCCTGCCCG
GGGTCAATCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCACTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAGATCCGCGACCTGGAGACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCCACGCTGCATACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGCTCGGTGACGCTGGTGATCGCGCAGCGCCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCCCGACTCAGCTGCCG
CACAATGCGCTGCTGGCCGAGGGCTTCAGCGAGGCGGAAGTGGCCGCCGGCATCCAGCTGTACGAGGCGGTGGGCTGCGA
CGAGTGCACCGAGGGCTACAAGGGCCGCACCGGCATCTATCAGGTGATGCCGATGAACGACGAGATCGCGGCGATCGTGC
TGCAGGGCGGCAACGCGATGGACATCGCCCAGGCCGCGCAGAAGATCGGGGTCAAGGATCTGCGCCAGTCGGCGCTGCTC
AAGGCGCGCGCCGGCATCACCAGCCTGGCGGAGATCAATCGCGTGACCAAGGATTGA

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 baylyi ADP1

55.106

98.27

0.542
  pilB Acinetobacter baumannii D1279779

54.276

99.135

0.538
  pilB Legionella pneumophila strain ERS1305867

52.373

98.443

0.516
  pilB Vibrio cholerae strain A1552

48.873

99.827

0.488
  pilF Neisseria gonorrhoeae MS11

48.768

98.27

0.479
  pilB Vibrio parahaemolyticus RIMD 2210633

46.996

97.924

0.46
  pilB Vibrio campbellii strain DS40M4

45.694

98.443

0.45
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.23

90.311

0.363
  pilF Thermus thermophilus HB27

40.192

89.965

0.362