Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   MZO50_RS08415 Genome accession   NZ_CP096570
Coordinates   1827077..1828813 (+) Length   578 a.a.
NCBI ID   WP_058363042.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. undulosa strain Xtu-UPB513     
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 1829437..1839414 1827077..1828813 flank 624


Gene organization within MGE regions


Location: 1827077..1839414
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MZO50_RS08415 (MZO50_08410) pilB 1827077..1828813 (+) 1737 WP_058363042.1 type IV-A pilus assembly ATPase PilB Machinery gene
  MZO50_RS08420 (MZO50_08415) - 1828988..1829440 (-) 453 WP_230811680.1 Fic family protein -
  MZO50_RS08425 (MZO50_08420) - 1829437..1829619 (-) 183 WP_003466380.1 YhfG family protein -
  MZO50_RS08430 (MZO50_08425) pilR 1829808..1831196 (-) 1389 WP_003466378.1 sigma-54 dependent transcriptional regulator Regulator
  MZO50_RS08435 (MZO50_08430) - 1831271..1832884 (-) 1614 WP_058361135.1 ATP-binding protein -
  MZO50_RS08440 (MZO50_08435) sucC 1833125..1834288 (+) 1164 WP_003466374.1 ADP-forming succinate--CoA ligase subunit beta -
  MZO50_RS08445 (MZO50_08440) sucD 1834312..1835184 (+) 873 WP_003466372.1 succinate--CoA ligase subunit alpha -
  MZO50_RS08450 (MZO50_08445) - 1835470..1836768 (+) 1299 WP_003466370.1 PQQ-binding-like beta-propeller repeat protein -
  MZO50_RS08455 (MZO50_08450) - 1836717..1837022 (+) 306 WP_003466368.1 PQQ-binding-like beta-propeller repeat protein -
  MZO50_RS08460 (MZO50_08455) - 1837135..1839414 (-) 2280 WP_248646114.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62859.13 Da        Isoelectric Point: 6.3627

>NTDB_id=681772 MZO50_RS08415 WP_058363042.1 1827077..1828813(+) (pilB) [Xanthomonas translucens pv. undulosa strain Xtu-UPB513]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELVHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGKLEVGAGDEDMGSGGDTGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRVLDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRPTHLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=681772 MZO50_RS08415 WP_058363042.1 1827077..1828813(+) (pilB) [Xanthomonas translucens pv. undulosa strain Xtu-UPB513]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCCCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCGAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGGTGCACAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGACGATATCAAGTTCCATACCAATTTGACGGTCGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGCCGCACCCTGGAACAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCTATGGGCAAGCTCGAGGTCGGTGCCGGCGACGAGGACATGGGCAGCGGCGGCGATACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCGTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCGGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACCTTGTTCGGCGAGA
AGATCGTGCTGCGTGTCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGAGACCCGCAACATCTCCACGGCCGAAGACCCGGTCGAAATCCGCCTGCCCG
GGGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGGATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCCCGACCCATCTGCCG
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 baylyi ADP1

54.754

98.27

0.538
  pilB Acinetobacter baumannii D1279779

54.101

99.135

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

46.996

97.924

0.46
  pilB Vibrio campbellii strain DS40M4

45.518

98.443

0.448
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.23

90.311

0.363
  pilF Thermus thermophilus HB27

40.192

89.965

0.362