Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   KHF85_RS14790 Genome accession   NZ_CP076255
Coordinates   3411132..3412868 (-) Length   578 a.a.
NCBI ID   WP_039005784.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. graminis strain NCPPB 3711     
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 3383371..3411122 3411132..3412868 flank 10


Gene organization within MGE regions


Location: 3383371..3412868
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KHF85_RS14655 (KHF85_14585) - 3383371..3384327 (-) 957 WP_009597007.1 IS30 family transposase -
  KHF85_RS14660 (KHF85_14590) - 3384407..3384865 (+) 459 WP_284569625.1 transposase -
  KHF85_RS14665 (KHF85_14595) - 3384822..3385136 (-) 315 WP_284567224.1 VirB8/TrbF family protein -
  KHF85_RS14670 (KHF85_14600) - 3385142..3386104 (-) 963 WP_345782165.1 type IV secretion system protein -
  KHF85_RS14675 - 3386086..3386250 (+) 165 Protein_2888 avirulence protein -
  KHF85_RS14680 (KHF85_14605) - 3386303..3386401 (-) 99 Protein_2889 recombinase family protein -
  KHF85_RS14685 (KHF85_14610) - 3386694..3387170 (+) 477 WP_284567226.1 NYN domain-containing protein -
  KHF85_RS14690 (KHF85_14615) - 3387598..3387753 (-) 156 Protein_2891 SulP family inorganic anion transporter -
  KHF85_RS14695 (KHF85_14620) - 3387993..3389033 (+) 1041 WP_074059012.1 acyltransferase family protein -
  KHF85_RS14700 (KHF85_14625) - 3389142..3390098 (-) 957 WP_009597007.1 IS30 family transposase -
  KHF85_RS14705 (KHF85_14630) - 3390263..3391858 (+) 1596 WP_139310055.1 hypothetical protein -
  KHF85_RS20675 (KHF85_14635) - 3392037..3392237 (+) 201 Protein_2895 integrase -
  KHF85_RS14710 - 3392296..3392421 (+) 126 WP_284569616.1 hypothetical protein -
  KHF85_RS14715 (KHF85_14640) - 3392478..3393215 (+) 738 WP_284567227.1 ATP-binding cassette domain-containing protein -
  KHF85_RS14720 (KHF85_14645) - 3393224..3394711 (+) 1488 WP_284569565.1 glycine betaine ABC transporter substrate-binding protein -
  KHF85_RS14725 (KHF85_14650) - 3395454..3396653 (-) 1200 WP_284567228.1 aminotransferase class V-fold PLP-dependent enzyme -
  KHF85_RS14730 (KHF85_14655) egtB 3396808..3398097 (+) 1290 WP_284567229.1 ergothioneine biosynthesis protein EgtB -
  KHF85_RS14735 (KHF85_14660) egtD 3398094..3399077 (+) 984 WP_284567230.1 L-histidine N(alpha)-methyltransferase -
  KHF85_RS14740 (KHF85_14665) - 3399247..3399447 (-) 201 Protein_2902 NAD+ synthase -
  KHF85_RS14745 (KHF85_14670) - 3399613..3401250 (-) 1638 WP_284567231.1 NAD+ synthase -
  KHF85_RS14750 (KHF85_14675) - 3401679..3403565 (+) 1887 WP_284567232.1 hypothetical protein -
  KHF85_RS14755 (KHF85_14680) - 3403806..3404045 (-) 240 WP_284567233.1 hypothetical protein -
  KHF85_RS14760 (KHF85_14685) sucD 3404759..3405631 (-) 873 WP_009580520.1 succinate--CoA ligase subunit alpha -
  KHF85_RS14765 (KHF85_14690) sucC 3405655..3406818 (-) 1164 WP_053833739.1 ADP-forming succinate--CoA ligase subunit beta -
  KHF85_RS14770 (KHF85_14695) - 3407061..3408674 (+) 1614 WP_284567234.1 sensor histidine kinase -
  KHF85_RS14775 (KHF85_14700) pilR 3408749..3410137 (+) 1389 WP_284567235.1 sigma-54-dependent transcriptional regulator Regulator
  KHF85_RS14780 (KHF85_14705) - 3410326..3410508 (+) 183 WP_003477093.1 YhfG family protein -
  KHF85_RS14785 (KHF85_14710) - 3410505..3411122 (+) 618 WP_284567236.1 Fic/DOC family protein -
  KHF85_RS14790 (KHF85_14715) pilB 3411132..3412868 (-) 1737 WP_039005784.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


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

>NTDB_id=574102 KHF85_RS14790 WP_039005784.1 3411132..3412868(-) (pilB) [Xanthomonas translucens pv. graminis strain NCPPB 3711]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELLHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGKLEVGAGDEDMGSGGDTGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPTQLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=574102 KHF85_RS14790 WP_039005784.1 3411132..3412868(-) (pilB) [Xanthomonas translucens pv. graminis strain NCPPB 3711]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCGCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCGAAAATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGTTGCACAAGCACCAGGTGCTGCCGCTGTTTAAGCGCGGCAACCGCCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGACGATATCAAGTTCCATACCAATTTGACGGTCGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGGCGCACCCTGGAACAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGTTGGGC
GACGACGACGAGGCCATGGGCAAGCTCGAGGTCGGTGCCGGTGACGAGGACATGGGCAGCGGCGGCGATACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCCTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGGCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCCGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACGCTGTTCGGCGAGA
AGATCGTGCTGCGTATCCTCGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAACAGCAAAAA
CTCTTTCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGTCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACCGCCGAGGATCCGGTGGAAATCCGCCTGCCCG
GGGTCAATCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAGATCCGCGACCTGGAGACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGCCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCCCGACCCAGCTGCCG
CACAATGCGCTGCTGGCCGAGGGCTTCAGCGAGGCGGAAGTGGCCGCCGGCATCCAGCTGTACGAGGCGGTGGGCTGCGA
CGAGTGCACCGAGGGCTACAAGGGCCGCACCGGCATCTACCAGGTGATGCCGATGAACGACGAGATCGCGGCGATCGTGC
TGCAGGGCGGCAACGCGATGGACATCGCCCAGGCCGCGCAGAAGATCGGGGTCAAGGATCTGCGCCAGTCGGCGCTGCTC
AAGGCACGCGCCGGCATCACCAGCCTGGCGGAGATCAATCGCGTGACCAAGGATTGA

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