Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ABFT86_RS05340 Genome accession   NZ_CP155990
Coordinates   1246910..1248643 (+) Length   577 a.a.
NCBI ID   WP_012437606.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain LMG 08005     
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 1240985..1255396 1246910..1248643 within 0


Gene organization within MGE regions


Location: 1240985..1255396
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABFT86_RS05315 (ABFT86_05315) pilC 1240985..1242244 (-) 1260 WP_012437601.1 type II secretion system F family protein Machinery gene
  ABFT86_RS05320 (ABFT86_05320) comP 1242596..1243009 (+) 414 WP_012437602.1 pilin Machinery gene
  ABFT86_RS05325 (ABFT86_05325) - 1243228..1244739 (+) 1512 WP_256729490.1 phosphoethanolamine transferase -
  ABFT86_RS05330 (ABFT86_05330) - 1244750..1245379 (+) 630 WP_012437604.1 hypothetical protein -
  ABFT86_RS05335 (ABFT86_05335) - 1245349..1246875 (+) 1527 WP_016944997.1 membrane protein -
  ABFT86_RS05340 (ABFT86_05340) pilB 1246910..1248643 (+) 1734 WP_012437606.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABFT86_RS05345 (ABFT86_05345) pilR 1249060..1250454 (-) 1395 WP_012437607.1 sigma-54 dependent transcriptional regulator Regulator
  ABFT86_RS05350 (ABFT86_05350) - 1250663..1252273 (-) 1611 WP_012437608.1 PAS domain-containing sensor histidine kinase -
  ABFT86_RS05355 (ABFT86_05355) sucC 1252507..1253676 (+) 1170 WP_012437609.1 ADP-forming succinate--CoA ligase subunit beta -
  ABFT86_RS05360 (ABFT86_05360) sucD 1253701..1254576 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABFT86_RS05365 (ABFT86_05365) - 1254680..1255090 (+) 411 WP_029217117.1 CopG family ribbon-helix-helix protein -
  ABFT86_RS05370 (ABFT86_05370) - 1255094..1255396 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 577 a.a.        Molecular weight: 62661.87 Da        Isoelectric Point: 5.7669

>NTDB_id=1000828 ABFT86_RS05340 WP_012437606.1 1246910..1248643(+) (pilB) [Xanthomonas campestris pv. campestris strain LMG 08005]
MNSVATTNLVGITGIARRLVQDGALEEAAARTAMEQAAAAKVPLPQWFAEKKLVSAAQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTKALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNASFGSALG
GDDEEMGDLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDASAAKLGIEKLGYEADQQK
LFLDAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNVKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPEQVANIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQKIGIRDLRQSALMK
ASHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1734 bp        

>NTDB_id=1000828 ABFT86_RS05340 WP_012437606.1 1246910..1248643(+) (pilB) [Xanthomonas campestris pv. campestris strain LMG 08005]
ATGAATTCAGTAGCTACCACTAACCTCGTTGGCATCACCGGCATCGCTCGTCGCCTCGTGCAGGATGGCGCCCTGGAGGA
AGCCGCTGCGCGGACGGCGATGGAACAGGCGGCCGCTGCCAAGGTGCCGCTGCCGCAGTGGTTTGCCGAGAAGAAGCTGG
TGTCGGCGGCGCAGCTGGCGGCGGCCAATGCCGTGGAATTCGGCATGCCGCTAATGGATGTGTCGGTGTTTGACGCTAGT
CAGAACGCGGTGAAGCTGGTAAGTGAAGAGTTGCTCCAGAAGCATCAGGTGTTGCCGCTGTTCAAGCGCGGCAACCGATT
GTTTGTGGGGGTGAGCAACCCGACGCAGACCAAGGCATTGGACGACATCAAGTTCCATACCAACTTGGTGGTGGAGCCAA
TTCTGGTCGATGAGGACCAGATCCGTAGGACGTTGGAGCAATGGCAGGCAGGAAACGCGTCCTTTGGCTCGGCGCTTGGT
GGCGACGACGAGGAGATGGGGGACCTAGACGTGTCCGCCGGGGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGTGATGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGTCGGGGAGCCTCGGACA
TCCATTTCGAGCCGTATGAAGACGACTACCGGGTGCGGTTGCGGATCGATGGGCTGTTGAAGAACGTGGCCAAGGCGCCG
GTGAAGCTCAACCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTGGACATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGATTTTCGCGTGAGCACCTTGCCGACCTTGTTCGGCGAAA
AGGTGGTGCTGCGTATCCTGGACGCCAGTGCGGCCAAGCTCGGTATCGAGAAGCTGGGCTATGAGGCGGACCAGCAGAAG
CTGTTCCTGGATGCGATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTATACCGCGCTCGGGATTCTCAACGACGAGACGCGCAACATTTCCACGGCCGAGGATCCGGTCGAAATCCGCCTGCCTG
GCGTCAATCAGGTGCAGCAGAACGTCAAGCGGGGCATGACGTTTGCCGCTGCGCTGCGCTCGTTCCTGCGTCAGGACCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATCGCGATCAAGGCGGCGCAGACCGGCCACATGGT
GCTGTCGACGCTGCACACCAACGATGCGCCGCAAACCATTGCGCGTCTGATGAACATGGGTATCGCACCGTACAACATCA
CCTCCTCGGTGACCTTGGTCATCGCGCAGCGCCTGGCGCGGCGGCTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCG
GAACATGCGCTGCTGGCGGAAGGCTTTACGCCGGAGCAGGTTGCGAACATCGAGCTCTATGAAGCGGTCGGTTGCGATGA
GTGCACGGAAGGCTACAAGGGCCGTACCGGCATCTATCAGGTAATGCCGATGACCGATGAAATCGGCGCGATCGTGCTGG
AAGGCGGCAATGCGATGCAGATCGCCGAGGCCGCACAGAAGATCGGTATCCGCGACCTGCGCCAGTCGGCGTTGATGAAG
GCTTCGCACGGCGTCACCAGCCTCGCCGAGATCAATCGTGTGACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(49-150)


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

56.514

98.44

0.556
  pilB Acinetobacter baylyi ADP1

55.652

99.653

0.555
  pilB Legionella pneumophila strain ERS1305867

52.465

98.44

0.516
  pilB Vibrio cholerae strain A1552

49.567

100

0.496
  pilF Neisseria gonorrhoeae MS11

49.12

98.44

0.484
  pilB Vibrio campbellii strain DS40M4

46.046

98.614

0.454
  pilB Vibrio parahaemolyticus RIMD 2210633

46.333

96.88

0.449

Multiple sequence alignment