Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LMF57_RS15765 Genome accession   NZ_CP086598
Coordinates   3455771..3457498 (-) Length   575 a.a.
NCBI ID   WP_229290187.1    Uniprot ID   -
Organism   Stenotrophomonas sp. SI-NJAU-1     
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 3444898..3459741 3455771..3457498 within 0


Gene organization within MGE regions


Location: 3444898..3459741
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LMF57_RS15720 (LMF57_15720) - 3444898..3445572 (+) 675 WP_229290185.1 hypothetical protein -
  LMF57_RS15725 (LMF57_15725) - 3445566..3446579 (+) 1014 WP_117311229.1 hypothetical protein -
  LMF57_RS15730 (LMF57_15730) - 3446573..3447589 (+) 1017 WP_117311231.1 TraB/GumN family protein -
  LMF57_RS15735 (LMF57_15735) - 3447908..3448177 (+) 270 WP_049447475.1 hypothetical protein -
  LMF57_RS15740 (LMF57_15740) - 3448229..3449986 (+) 1758 WP_229290186.1 ABC transporter transmembrane domain-containing protein -
  LMF57_RS15745 (LMF57_15745) sucD 3450088..3450963 (-) 876 WP_017356169.1 succinate--CoA ligase subunit alpha -
  LMF57_RS15750 (LMF57_15750) sucC 3450985..3452154 (-) 1170 WP_025874298.1 ADP-forming succinate--CoA ligase subunit beta -
  LMF57_RS15755 (LMF57_15755) - 3452532..3454145 (+) 1614 WP_117311237.1 ATP-binding protein -
  LMF57_RS15760 (LMF57_15760) pilR 3454200..3455573 (+) 1374 WP_025874296.1 sigma-54 dependent transcriptional regulator Regulator
  LMF57_RS15765 (LMF57_15765) pilB 3455771..3457498 (-) 1728 WP_229290187.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LMF57_RS15770 (LMF57_15770) - 3458258..3458515 (-) 258 WP_229290188.1 hypothetical protein -
  LMF57_RS15775 (LMF57_15775) - 3458896..3459741 (-) 846 WP_229290189.1 sterol desaturase family protein -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62285.22 Da        Isoelectric Point: 5.7256

>NTDB_id=625662 LMF57_RS15765 WP_229290187.1 3455771..3457498(-) (pilB) [Stenotrophomonas sp. SI-NJAU-1]
MSTVSTPNLVGITGLARRLVQDGALDEVAARDAMAKATAARQPLPTWFAQNKVVGAAQLAAANAVEFGMPLFDVSTFDSS
QNAMSLVSEELLRKHNVLPLFKRGGKLFVGTSNPTHSLDEIKFHTNLVVEPILVDEDQIRRTLEQWQSSHDTIGDALGGD
DEGMANLDIGGGDDEMGSTDSGIDAKGDDTPVVKFINKVLIDAIRKGASDIHFEPYEDDYRVRLRIDGLLKMVARAPNKL
NQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKTRQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQKLFL
DAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDII
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCSNCKRPANLPEHA
LLAEGFTQAQLDAGIELYEAVGCDECTEGYKGRTGLYQVMPMTDEIATIVLAGGNALQIAEAAQAIGVNDLRQSALKKAA
AGVTSLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=625662 LMF57_RS15765 WP_229290187.1 3455771..3457498(-) (pilB) [Stenotrophomonas sp. SI-NJAU-1]
ATGAGTACCGTTTCCACCCCAAACCTCGTCGGCATTACTGGCCTGGCCCGCCGCCTGGTCCAGGACGGCGCGCTGGACGA
AGTCGCTGCCCGCGACGCCATGGCCAAGGCCACTGCCGCGCGTCAGCCGCTGCCCACCTGGTTTGCCCAGAACAAGGTCG
TCGGTGCGGCCCAGTTGGCCGCCGCCAACGCGGTCGAATTCGGCATGCCGCTGTTCGACGTGTCTACCTTCGACAGCAGC
CAGAACGCGATGAGCCTCGTCAGCGAGGAGCTGCTGCGCAAGCACAACGTGTTGCCGCTGTTCAAACGCGGCGGCAAGCT
GTTCGTCGGCACCAGCAACCCCACCCATTCTCTGGACGAGATCAAGTTCCACACCAATCTGGTGGTGGAGCCGATCCTGG
TCGATGAAGACCAGATCCGTCGCACCCTCGAGCAGTGGCAGTCCAGCCACGACACCATCGGTGATGCCTTGGGCGGCGAT
GACGAGGGCATGGCGAACCTCGACATCGGCGGTGGCGACGATGAGATGGGCAGCACCGACAGTGGCATCGACGCCAAGGG
CGACGACACCCCGGTGGTCAAGTTCATCAACAAGGTGCTGATCGATGCGATCCGCAAGGGCGCCTCGGACATCCACTTCG
AGCCCTACGAAGACGACTACCGCGTGCGTCTGCGCATCGACGGCCTGCTGAAGATGGTCGCGCGCGCGCCGAACAAGCTC
AACCAGCGCATCGCCGCGCGCCTGAAGGTGATGGCGCAGCTGGATATCGCCGAAAAGCGCGTGCCGCAGGATGGGCGCAT
CAAGCTCAATCTTTCCAAGACCCGGCAGATTGACTTCCGCGTCAGCACGCTGCCTACGCTGTTCGGTGAGAAGGTGGTGC
TGCGTATCCTCGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGTTACGAGCCGGACCAGCAGAAGCTGTTCCTG
GATGCGATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCTGTATACCGC
GCTGGGCATCCTCAACGACGAGACCCGCAACATTTCCACCGCCGAAGATCCGGTGGAAATCCGCCTGCCGGGCGTCAACC
AGGTGCAGCAGAACAACAAGCGCGGCATGACCTTTGCTGCAGCGCTGCGCTCGTTCCTGCGACAGGATCCGGACATCATC
ATGGTCGGCGAAATCCGCGATCTGGAAACGGCGGAAATCGCGATCAAGGCGGCGCAGACCGGTCACATGGTGCTGTCCAC
GCTGCATACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGTATCGCGCCGTACAACATCACCAGCTCGG
TGACGCTGGTGATCGCCCAGCGCCTGGCGCGCCGTTTGTGTTCGAACTGCAAGCGCCCGGCCAATCTGCCGGAGCATGCG
CTGCTGGCCGAGGGCTTCACCCAGGCGCAGCTGGATGCGGGCATCGAGCTGTATGAGGCAGTGGGCTGCGACGAATGCAC
CGAGGGCTACAAGGGCCGTACCGGCCTCTACCAGGTGATGCCGATGACCGACGAGATCGCGACCATCGTGCTGGCGGGCG
GCAACGCGCTGCAGATTGCCGAGGCCGCGCAGGCGATCGGTGTGAATGACCTGCGGCAGTCGGCGTTGAAGAAGGCGGCT
GCGGGTGTGACCAGCCTGGCCGAGATCAACCGCGTCACCAAGGATTGA

Domains

Predicted by InterproScan.

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

(49-150)

Type II/IV secretion system protein (T2SSE)

(198-465)


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

55.536

100

0.558
  pilB Acinetobacter baumannii D1279779

55.732

98.609

0.55
  pilB Legionella pneumophila strain ERS1305867

51.937

98.783

0.513
  pilB Vibrio cholerae strain A1552

49.126

99.478

0.489
  pilF Neisseria gonorrhoeae MS11

49.12

98.783

0.485
  pilB Vibrio parahaemolyticus RIMD 2210633

46.06

99.304

0.457
  pilB Vibrio campbellii strain DS40M4

44.755

99.478

0.445
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.862

96

0.363