Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FD63_RS14040 Genome accession   NZ_CP008714
Coordinates   3371984..3373720 (-) Length   578 a.a.
NCBI ID   WP_047325191.1    Uniprot ID   -
Organism   Xanthomonas translucens pv. undulosa strain Xtu 4699     
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 3361384..3371974 3371984..3373720 flank 10


Gene organization within MGE regions


Location: 3361384..3373720
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FD63_RS20655 - 3361384..3363663 (+) 2280 WP_155617115.1 hypothetical protein -
  FD63_RS21465 - 3363776..3364081 (-) 306 WP_003466368.1 PQQ-binding-like beta-propeller repeat protein -
  FD63_RS21470 (FD63_14515) - 3364030..3365328 (-) 1299 WP_230938758.1 hypothetical protein -
  FD63_RS14010 (FD63_14520) sucD 3365613..3366485 (-) 873 WP_003466372.1 succinate--CoA ligase subunit alpha -
  FD63_RS14015 (FD63_14525) sucC 3366509..3367672 (-) 1164 WP_003466374.1 ADP-forming succinate--CoA ligase subunit beta -
  FD63_RS14020 (FD63_14530) - 3367913..3369526 (+) 1614 WP_003466376.1 ATP-binding protein -
  FD63_RS14025 (FD63_14535) pilR 3369601..3370989 (+) 1389 WP_003466378.1 sigma-54 dependent transcriptional regulator Regulator
  FD63_RS14030 (FD63_14540) - 3371178..3371360 (+) 183 WP_003466380.1 YhfG family protein -
  FD63_RS14035 (FD63_14545) - 3371357..3371974 (+) 618 WP_047325190.1 Fic family protein -
  FD63_RS14040 (FD63_14550) pilB 3371984..3373720 (-) 1737 WP_047325191.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62860.16 Da        Isoelectric Point: 6.3630

>NTDB_id=123848 FD63_RS14040 WP_047325191.1 3371984..3373720(-) (pilB) [Xanthomonas translucens pv. undulosa strain Xtu 4699]
MNAVTSANLVGITGIARRLVQDGALEETAARTAMAHAAEAKIPLPQWFSDKKLVTAAQLAAANALEFGMPLLDVSVFDAS
QSAMKLVSEELVHKHQVLPLFKRGNRLFVGMSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGDALG
DDDEAMGKLEVGAGDEDMGSGGETGVDAKGDDTPVVKFVNKMLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVARAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRVLDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAVALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNTCKRPTHLP
HNALLAEGFSEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAQAAQKIGVKDLRQSALL
KARAGITSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=123848 FD63_RS14040 WP_047325191.1 3371984..3373720(-) (pilB) [Xanthomonas translucens pv. undulosa strain Xtu 4699]
ATGAACGCTGTGACATCCGCCAATCTCGTCGGCATCACCGGCATCGCCCGCCGCCTGGTTCAGGATGGCGCGCTCGAGGA
AACGGCTGCGCGGACCGCGATGGCGCATGCCGCCGAGGCGAAGATCCCGCTGCCGCAGTGGTTCTCGGACAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGCTGGAGTTCGGGATGCCGTTGCTGGACGTGTCGGTGTTCGATGCCAGC
CAGAGCGCGATGAAGCTGGTCAGCGAGGAGCTGGTGCACAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGTCT
GTTCGTCGGGATGAGCAATCCGACCCAGACCCGGGCGCTGGATGACATCAAGTTCCATACCAATCTGACGGTGGAGCCGA
TCCTGGTCGATGAGGACCAGATCCGCCGCACCCTGGAGCAGTGGCAGGCGAGCAACGATGCGATCGGCGACGCGCTGGGC
GACGACGACGAGGCCATGGGCAAGCTCGAGGTCGGTGCCGGCGACGAGGACATGGGCAGCGGCGGCGAGACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGATGCTGGTCGATGCGATCCGCCGCGGCGCGTCGGACA
TCCATTTCGAGCCGTACGAGGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAGGGCGCCG
GTCAAGCTCAACCAGCGCATTGCGGCGCGGCTCAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGCGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGATTTCCGCGTCAGCACGCTGCCGACCTTGTTCGGCGAGA
AGATCGTGCTGCGTGTCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAATGACGAGACCCGCAACATCTCCACCGCCGAGGATCCGGTGGAAATCCGCCTGCCCG
GGGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGTGGCGCTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAGATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGGCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGGCTGATGAACATGGGGATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAACACCTGCAAGCGCCCGACCCATCTGCCG
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

54.101

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

45.694

98.443

0.45
  pilF Thermus thermophilus HB27

40.385

89.965

0.363

Multiple sequence alignment