Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ISN38_RS15180 Genome accession   NZ_CP063993
Coordinates   3566797..3568533 (+) Length   578 a.a.
NCBI ID   WP_206710335.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. undulosa strain XtLr8     
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 3569157..3579104 3566797..3568533 flank 624


Gene organization within MGE regions


Location: 3566797..3579104
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ISN38_RS15180 (ISN38_15175) pilB 3566797..3568533 (+) 1737 WP_206710335.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ISN38_RS15185 (ISN38_15180) - 3568708..3569160 (-) 453 WP_230812364.1 Fic family protein -
  ISN38_RS15190 (ISN38_15185) - 3569157..3569339 (-) 183 WP_068873434.1 YhfG family protein -
  ISN38_RS15195 (ISN38_15190) pilR 3569528..3570916 (-) 1389 WP_058362147.1 sigma-54 dependent transcriptional regulator Regulator
  ISN38_RS15200 (ISN38_15195) - 3570991..3572604 (-) 1614 WP_058361135.1 ATP-binding protein -
  ISN38_RS15205 (ISN38_15200) sucC 3572845..3574008 (+) 1164 WP_003466374.1 ADP-forming succinate--CoA ligase subunit beta -
  ISN38_RS15210 (ISN38_15205) sucD 3574032..3574904 (+) 873 WP_003466372.1 succinate--CoA ligase subunit alpha -
  ISN38_RS20455 - 3575190..3576488 (+) 1299 WP_230938758.1 hypothetical protein -
  ISN38_RS20460 - 3576437..3576742 (+) 306 WP_003466368.1 PQQ-binding-like beta-propeller repeat protein -
  ISN38_RS15220 (ISN38_15215) - 3576855..3579104 (-) 2250 WP_206711874.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62893.19 Da        Isoelectric Point: 6.2661

>NTDB_id=498383 ISN38_RS15180 WP_206710335.1 3566797..3568533(+) (pilB) [Xanthomonas translucens pv. undulosa strain XtLr8]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELLHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGRLEVGAGDEDMGSGGETGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRVLDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNTCKRPTQLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=498383 ISN38_RS15180 WP_206710335.1 3566797..3568533(+) (pilB) [Xanthomonas translucens pv. undulosa strain XtLr8]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCGCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCCAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGTTGCACAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAATCTGACGGTCGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGCCGCACCCTGGAACAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCCATGGGCAGGCTTGAGGTCGGTGCCGGCGACGAGGACATGGGCAGCGGCGGCGAGACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCGTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCGGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACCTTGTTCGGCGAGA
AGATCGTGCTGCGTGTCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACCGCCGAGGATCCGGTGGAAATCCGCCTGCCCG
GGGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCGGAGATTGCGATCAAGGCGGCGCAGACCGGGCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGGCTGGCGCGGCGGTTGTGCAACACCTGCAAGCGCCCGACCCAGCTGCCG
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 baumannii D1279779

54.101

99.135

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

45.87

98.443

0.452
  pilF Thermus thermophilus HB27

40.385

89.965

0.363