Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AB3X07_RS06125 Genome accession   NZ_CP162488
Coordinates   1432264..1434003 (+) Length   579 a.a.
NCBI ID   WP_369943554.1    Uniprot ID   -
Organism   Xanthomonas medicagonis strain DAR 35659     
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 1425397..1434624 1432264..1434003 within 0


Gene organization within MGE regions


Location: 1425397..1434624
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB3X07_RS06090 (AB3X07_06085) - 1425397..1426557 (+) 1161 WP_369943547.1 DegT/DnrJ/EryC1/StrS family aminotransferase -
  AB3X07_RS06095 (AB3X07_06090) - 1426543..1427778 (-) 1236 WP_369943548.1 hypothetical protein -
  AB3X07_RS06100 (AB3X07_06095) - 1427778..1428473 (-) 696 WP_369943549.1 class I SAM-dependent DNA methyltransferase -
  AB3X07_RS06105 (AB3X07_06100) - 1428470..1429390 (-) 921 WP_369943550.1 hypothetical protein -
  AB3X07_RS06110 (AB3X07_06105) - 1429383..1430531 (-) 1149 WP_369943551.1 glycosyltransferase -
  AB3X07_RS06115 (AB3X07_06110) - 1430528..1431253 (-) 726 WP_369943552.1 class I SAM-dependent methyltransferase -
  AB3X07_RS06120 (AB3X07_06115) - 1431255..1432112 (-) 858 WP_369943553.1 glycosyltransferase family 2 protein -
  AB3X07_RS06125 (AB3X07_06120) pilB 1432264..1434003 (+) 1740 WP_369943554.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB3X07_RS06130 (AB3X07_06125) - 1433990..1434325 (-) 336 WP_369943555.1 addiction module antidote protein -
  AB3X07_RS06135 (AB3X07_06130) - 1434322..1434624 (-) 303 WP_369943556.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 579 a.a.        Molecular weight: 62836.05 Da        Isoelectric Point: 5.7951

>NTDB_id=1026430 AB3X07_RS06125 WP_369943554.1 1432264..1434003(+) (pilB) [Xanthomonas medicagonis strain DAR 35659]
MNAAVSANLVGITGIARRLVQDGAIEEAAARTAMAHAAEAKIPLPQWFSEKKLVTAAQLAAANAVEFGMPLLDVSVFDAN
QSAIKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNNAIGDALG
DDDEGMGNLEVGAGDEDMGGSGDTGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDDTRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRVAPTM
PENALLKEGFTEAEIAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMDIAEAAQKIGVKDLRQSAL
LKARNGITSLAEINRVTKD

Nucleotide


Download         Length: 1740 bp        

>NTDB_id=1026430 AB3X07_RS06125 WP_369943554.1 1432264..1434003(+) (pilB) [Xanthomonas medicagonis strain DAR 35659]
ATGAACGCAGCTGTCTCGGCCAATCTCGTCGGCATCACCGGCATCGCACGCCGCCTGGTCCAGGACGGCGCCATCGAGGA
GGCCGCCGCGCGGACCGCCATGGCGCATGCCGCGGAGGCCAAGATCCCGCTGCCGCAGTGGTTTTCGGAGAAGAAGCTGG
TCACCGCGGCGCAACTGGCGGCGGCCAATGCGGTCGAGTTCGGGATGCCGCTGCTGGACGTGTCGGTGTTCGACGCCAAC
CAGAGCGCGATCAAGCTGGTCAGCGAGGAGCTGTTGCAGAAGCACCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGCTT
GTTCGTCGGGGTCAGCAATCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCACACCAACCTGACCGTCGAGCCGA
TCCTGGTCGACGAGGACCAGATCCGGCGCACGCTGGAGCAGTGGCAGGCCAGTAACAACGCCATCGGCGATGCGCTGGGC
GACGACGACGAGGGGATGGGCAACCTCGAGGTCGGTGCCGGCGACGAGGACATGGGCGGCAGCGGCGACACCGGCGTCGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGGTGCTGGTCGATGCGATCCGCCGTGGCGCTTCGGACA
TCCATTTCGAGCCGTACGAGGACGACTACCGGGTGCGCCTGCGCATCGATGGCCTGCTCAAGAGCGTGGCCAAGGCGCCG
GTCAAGCTCAACCAGCGCATCGCCGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGACTTCCGCGTCAGCACGCTGCCGACGCTTTTCGGCGAGA
AGATCGTGCTGCGTATCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGTTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGGATGGTGCTGGTCACCGGCCCCACCGGGTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGATACCCGCAACATCTCCACCGCCGAGGATCCGGTTGAAATCCGCTTGCCCG
GGGTCAACCAGGTCCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGTTGCGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTGGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCCACGCTGCATACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGTTCGGTGACGCTGGTGATCGCGCAGCGCCTGGCGCGGCGGCTGTGCAACAACTGCAAGCGGGTGGCCCCGACCATG
CCGGAGAACGCGTTGCTGAAGGAGGGCTTCACCGAGGCCGAGATCGCCGCCGGCATCCAGCTGTACGAGGCGGTGGGCTG
CGACGAATGCACCGAAGGCTACAAGGGCCGCACCGGCATCTACCAGGTGATGCCGATGAACGACGAGATCGCGGCGATCG
TGCTGCAGGGCGGCAACGCGATGGACATCGCCGAGGCCGCGCAGAAGATCGGGGTCAAGGACCTGCGCCAGTCGGCGCTG
CTCAAGGCGCGCAACGGCATCACCAGCCTGGCCGAGATCAACCGCGTCACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(50-151)


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

54.53

99.136

0.541
  pilB Acinetobacter baumannii D1279779

54.561

98.446

0.537
  pilB Legionella pneumophila strain ERS1305867

52.373

98.273

0.515
  pilB Vibrio cholerae strain A1552

50.173

99.827

0.501
  pilF Neisseria gonorrhoeae MS11

48.858

98.273

0.48
  pilB Vibrio campbellii strain DS40M4

45.789

98.446

0.451
  pilB Vibrio parahaemolyticus RIMD 2210633

46.346

96.891

0.449
  pilF Thermus thermophilus HB27

40.684

90.846

0.37

Multiple sequence alignment