Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   DWG18_RS00855 Genome accession   NZ_CP031413
Coordinates   170007..171707 (-) Length   566 a.a.
NCBI ID   WP_115647961.1    Uniprot ID   -
Organism   Lysobacter sp. TY2-98     
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 171956..184723 170007..171707 flank 249


Gene organization within MGE regions


Location: 170007..184723
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DWG18_RS00855 (DWG18_00855) pilB 170007..171707 (-) 1701 WP_115647961.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DWG18_RS00860 (DWG18_00860) - 171956..172807 (+) 852 WP_115644635.1 glycosyltransferase family 2 protein -
  DWG18_RS00865 (DWG18_00865) - 172869..173942 (+) 1074 WP_162823628.1 glycosyltransferase family 4 protein -
  DWG18_RS00870 (DWG18_00870) - 173982..174893 (-) 912 WP_162823629.1 glycosyltransferase -
  DWG18_RS00875 (DWG18_00875) - 175068..175808 (-) 741 WP_115644638.1 glycosyltransferase family 2 protein -
  DWG18_RS00880 (DWG18_00880) - 175805..177013 (-) 1209 WP_162823630.1 glycosyltransferase -
  DWG18_RS00885 (DWG18_00885) - 177010..177657 (-) 648 WP_115644640.1 DapH/DapD/GlmU-related protein -
  DWG18_RS00890 (DWG18_00890) - 177654..178751 (-) 1098 WP_115644641.1 aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme -
  DWG18_RS00895 (DWG18_00895) - 178761..180110 (-) 1350 WP_115644642.1 oligosaccharide flippase family protein -
  DWG18_RS00900 (DWG18_00900) - 180107..181045 (-) 939 WP_115644643.1 GDP-L-fucose synthase -
  DWG18_RS00905 (DWG18_00905) gmd 181050..182159 (-) 1110 WP_115644644.1 GDP-mannose 4,6-dehydratase -
  DWG18_RS00910 (DWG18_00910) - 182474..182554 (-) 81 Protein_178 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  DWG18_RS00915 (DWG18_00915) - 182867..184672 (-) 1806 WP_115644645.1 hypothetical protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 61413.16 Da        Isoelectric Point: 5.4585

>NTDB_id=306558 DWG18_RS00855 WP_115647961.1 170007..171707(-) (pilB) [Lysobacter sp. TY2-98]
MGITGIARRLVLDGALDESVAREAMAAATAEKKPLATYLSDRRLVSAASMAAANSVEFGVPLLDANAFDPGQSAIKLVNE
ELLRKHGVLPLFKRGNRLFVGVTDPTNSHALDEIKFQTNLAVEAILVDADTITRCLDRWAETSDSLSEGGDDDEGLENLE
VGKDDDLGASGDSGVDAKGDDTPVVRFVNKVLVDAIRRGASDIHFEPYETDYRVRMRIDGILKQAAKAPQKLGTRIAARL
KVMAQLDIAEKRVPQDGRIKLNLSKTKQIDFRASTLPTLFGEKVVLRILDGSAAKLGIDKLGYEDDQRDLFLSAIAKPYG
MVLVTGPTGSGKTVSLYTALNILNDETRNISTVEDPVEIRVPGINQVQQNQKRGMTFAAALRSFLRQDPDVIMVGEIRDL
ETAEIAVKAAQTGHMVLSTLHTNDAPQTVSRLMNMGIAPFNIISSVSLVIAQRLARRLHDCKRPSQLPEHALIAEGFTPE
EIATGFTVYEAVGCPDCTEGYKGRTGIYQVMPMTEEIQAIILEGGNAMQIAAAAQRSGIRDLRQSALLKVRNGVTSLAEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=306558 DWG18_RS00855 WP_115647961.1 170007..171707(-) (pilB) [Lysobacter sp. TY2-98]
GTGGGCATCACGGGCATTGCCCGTCGTCTGGTTCTCGACGGCGCGCTCGACGAGAGCGTCGCCCGCGAGGCCATGGCCGC
TGCGACCGCCGAAAAGAAGCCGCTCGCGACCTATCTGTCGGATCGCCGGCTCGTTTCGGCCGCGAGCATGGCCGCCGCCA
ACTCCGTCGAGTTCGGCGTTCCTCTGCTGGATGCGAACGCGTTCGACCCCGGCCAGTCGGCGATCAAGCTGGTCAACGAA
GAGCTGTTGCGCAAACACGGCGTCCTGCCGCTGTTCAAACGCGGCAATCGGTTATTCGTGGGCGTTACCGATCCGACGAA
TTCGCACGCGCTCGATGAAATCAAATTCCAGACCAATCTCGCAGTCGAAGCGATTCTGGTCGACGCGGACACCATCACGA
GGTGCCTTGATCGGTGGGCTGAGACGTCGGATAGCCTGAGTGAGGGCGGCGACGACGACGAAGGCCTGGAAAACCTGGAA
GTCGGCAAGGACGACGATCTTGGCGCGAGTGGCGACTCCGGCGTCGACGCCAAGGGTGACGACACGCCGGTGGTGCGCTT
CGTGAACAAGGTGCTGGTCGATGCGATCCGTCGCGGCGCGTCGGACATCCATTTCGAGCCGTACGAGACGGACTACCGCG
TGCGCATGCGCATTGACGGCATCCTCAAGCAGGCCGCGAAGGCGCCGCAGAAGCTCGGTACGCGTATCGCCGCGCGCCTG
AAGGTGATGGCGCAGCTGGACATCGCCGAGAAGCGGGTTCCCCAGGACGGCCGCATCAAGCTCAACCTGTCCAAGACCAA
GCAGATCGACTTCCGCGCCAGCACCCTGCCAACCCTGTTCGGCGAGAAAGTGGTGCTCCGTATCCTCGACGGCAGCGCGG
CGAAGCTCGGTATCGACAAGCTCGGCTACGAGGACGACCAGCGCGACCTGTTCCTGTCGGCGATCGCCAAGCCGTACGGG
ATGGTCCTCGTGACCGGCCCGACCGGCTCGGGTAAGACGGTGTCTCTCTATACGGCGCTGAATATCCTCAACGACGAGAC
GCGCAACATCTCAACGGTCGAGGACCCGGTCGAAATCCGCGTGCCGGGCATCAACCAGGTGCAGCAGAACCAGAAGCGCG
GCATGACCTTCGCGGCCGCGTTGCGCAGCTTCCTGCGCCAGGACCCGGACGTGATCATGGTCGGCGAAATCCGCGACCTC
GAAACCGCCGAGATCGCCGTCAAGGCAGCGCAGACCGGCCACATGGTGCTGTCGACGCTGCATACGAACGACGCGCCGCA
GACCGTGTCGCGCCTGATGAACATGGGCATCGCGCCCTTCAACATCATCTCCTCGGTGTCGCTGGTCATCGCCCAACGCC
TCGCCCGGCGCCTGCATGACTGCAAGCGGCCCTCGCAGCTGCCTGAGCACGCGCTCATCGCCGAAGGGTTCACGCCCGAA
GAAATCGCGACGGGCTTCACGGTGTACGAAGCTGTCGGTTGCCCCGACTGCACGGAAGGTTACAAGGGGCGGACGGGCAT
CTATCAGGTCATGCCGATGACCGAAGAGATTCAGGCGATCATCCTCGAGGGCGGCAACGCCATGCAGATCGCGGCTGCAG
CGCAGCGCTCCGGGATCCGGGACCTGCGCCAGTCGGCCCTGCTGAAGGTCCGGAACGGCGTCACCAGCCTTGCCGAAATC
AACCGCGTCACAAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(42-144)


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

55.732

100

0.558
  pilB Acinetobacter baumannii D1279779

55.379

100

0.555
  pilB Legionella pneumophila strain ERS1305867

53.065

100

0.535
  pilF Neisseria gonorrhoeae MS11

48.41

100

0.484
  pilB Vibrio cholerae strain A1552

53.01

90.989

0.482
  pilB Vibrio parahaemolyticus RIMD 2210633

48.855

92.58

0.452
  pilB Vibrio campbellii strain DS40M4

49.611

90.813

0.451
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.619

92.756

0.367
  pilB/pilB1 Synechocystis sp. PCC 6803

39.692

91.696

0.364

Multiple sequence alignment