Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OCJ37_RS05195 Genome accession   NZ_CP106869
Coordinates   1239974..1241713 (+) Length   579 a.a.
NCBI ID   WP_263112623.1    Uniprot ID   -
Organism   Xanthomonas sp. AM6     
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 1232963..1249279 1239974..1241713 within 0


Gene organization within MGE regions


Location: 1232963..1249279
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OCJ37_RS05165 (OCJ37_05165) - 1232963..1234081 (-) 1119 WP_263112617.1 glycosyltransferase family 4 protein -
  OCJ37_RS05170 (OCJ37_05170) - 1234482..1235357 (+) 876 WP_263112618.1 FkbM family methyltransferase -
  OCJ37_RS05175 (OCJ37_05175) - 1235354..1236517 (+) 1164 WP_263112619.1 glycosyltransferase -
  OCJ37_RS05180 (OCJ37_05180) - 1236462..1237742 (-) 1281 WP_263112620.1 oligosaccharide flippase family protein -
  OCJ37_RS05185 (OCJ37_05185) - 1237739..1238941 (-) 1203 WP_263112621.1 glycosyltransferase -
  OCJ37_RS05190 (OCJ37_05190) - 1238964..1239821 (-) 858 WP_263112622.1 glycosyltransferase family 2 protein -
  OCJ37_RS05195 (OCJ37_05195) pilB 1239974..1241713 (+) 1740 WP_263112623.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OCJ37_RS05200 (OCJ37_05200) pilR 1241868..1243256 (-) 1389 WP_263112624.1 sigma-54 dependent transcriptional regulator Regulator
  OCJ37_RS05205 (OCJ37_05205) - 1243332..1244945 (-) 1614 WP_263112625.1 ATP-binding protein -
  OCJ37_RS05210 (OCJ37_05210) sucC 1245230..1246393 (+) 1164 WP_263112626.1 ADP-forming succinate--CoA ligase subunit beta -
  OCJ37_RS05215 (OCJ37_05215) sucD 1246417..1247289 (+) 873 WP_263112627.1 succinate--CoA ligase subunit alpha -
  OCJ37_RS05220 (OCJ37_05220) - 1247342..1249279 (+) 1938 WP_263112628.1 acyltransferase family protein -

Sequence

Protein


Download         Length: 579 a.a.        Molecular weight: 62882.14 Da        Isoelectric Point: 5.7965

>NTDB_id=736180 OCJ37_RS05195 WP_263112623.1 1239974..1241713(+) (pilB) [Xanthomonas sp. AM6]
MNAAVSANLVGITGIARRLVQDGAVEEAVARTAMAHAAEAKIPLPQWFSEKKLVTAAQLAAANAVEFGMPLLDVSVFDAS
QNAMKLVSEELLQKHQVLPLFKRGNRLFVGISNPTQTRALDDIKFHTNLTVEPILVDEDQIRRTLEQWQASNDAIGNSLG
GDDEGMDNLEVGAGDEDMGSGGDTGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKSVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPEQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDDTRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRLAPAM
PENALLKEGFTEAEVAAGIQLYEAVGCDECTEGYKGRTGIYQVMPMNDEIAAIVLQGGNAMEIAEAAQKIGVKDLRQSAL
LKARNGITSLAEINRVTKD

Nucleotide


Download         Length: 1740 bp        

>NTDB_id=736180 OCJ37_RS05195 WP_263112623.1 1239974..1241713(+) (pilB) [Xanthomonas sp. AM6]
ATGAACGCAGCTGTCTCGGCCAACCTGGTTGGCATCACCGGTATCGCGCGCCGCCTGGTTCAGGATGGCGCGGTCGAAGA
AGCGGTCGCGCGGACCGCGATGGCGCATGCCGCCGAAGCCAAGATCCCGCTGCCGCAATGGTTCTCGGAGAAGAAGCTGG
TCACCGCGGCGCAGCTGGCCGCCGCCAATGCGGTGGAGTTCGGGATGCCGTTGCTGGATGTCTCGGTGTTCGACGCCAGC
CAGAACGCCATGAAGCTGGTCAGCGAGGAGCTGTTGCAGAAGCACCAGGTGCTGCCGCTGTTCAAGCGTGGCAACCGCCT
GTTCGTCGGCATCAGCAACCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAATCTGACCGTCGAGCCGA
TCCTGGTCGACGAGGACCAGATCCGGCGCACGCTGGAGCAGTGGCAGGCGAGCAACGATGCGATCGGGAACAGCCTGGGC
GGCGACGACGAGGGCATGGACAACCTCGAGGTCGGGGCCGGCGACGAGGACATGGGCAGCGGCGGCGATACCGGCGTGGA
TGCCAAGGGCGACGATACGCCCGTGGTCAAGTTCGTGAACAAGGTGCTGGTCGATGCGATCCGCCGCGGCGCCTCGGACA
TCCATTTCGAACCGTACGAGGACGACTACCGGGTGCGCCTGCGCATCGACGGCCTGCTCAAGAGCGTGGCCAAGGCGCCG
GTCAAGCTCAACCAGCGCATCGCGGCGCGGTTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGAGCAAGCAGATCGACTTCCGCGTCAGCACGCTGCCGACGCTGTTCGGCGAGA
AGATCGTGCTGCGTATCCTCGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGAGCAGCAGAAG
CTGTTCCTGGACGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACCGCGCTGGGCATCCTCAACGACGACACCCGCAACATCTCCACCGCCGAGGATCCGGTCGAAATCCGCCTGCCCG
GCGTGAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGTTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCATATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGCATCGCGCCGTACAACATCA
CCAGCTCGGTGACGCTGGTGATCGCGCAGCGCCTGGCGCGGCGGCTGTGCAACAACTGCAAGCGCCTGGCCCCGGCCATG
CCGGAGAACGCGCTGTTGAAGGAAGGCTTCACCGAGGCCGAGGTCGCCGCCGGCATCCAACTGTACGAGGCCGTGGGCTG
CGACGAGTGCACCGAGGGCTACAAGGGCCGCACCGGCATCTACCAGGTGATGCCGATGAACGACGAGATCGCCGCGATCG
TGCTGCAGGGCGGCAATGCGATGGAGATCGCCGAGGCGGCGCAGAAGATCGGAGTCAAGGACCTGCGCCAGTCGGCGCTG
CTCAAGGCCCGCAACGGCATCACCAGCCTGGCCGAGATCAATCGCGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-152)


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

55.672

98.964

0.551
  pilB Acinetobacter baylyi ADP1

55.263

98.446

0.544
  pilB Legionella pneumophila strain ERS1305867

52.197

98.273

0.513
  pilF Neisseria gonorrhoeae MS11

48.944

98.1

0.48
  pilB Vibrio cholerae strain A1552

51.206

93.092

0.477
  pilB Vibrio campbellii strain DS40M4

45.965

98.446

0.453
  pilB Vibrio parahaemolyticus RIMD 2210633

45.841

97.582

0.447
  pilF Thermus thermophilus HB27

40.691

89.983

0.366