Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   DM611_RS17685 Genome accession   NZ_CP029773
Coordinates   3793533..3795263 (-) Length   576 a.a.
NCBI ID   WP_110713355.1    Uniprot ID   -
Organism   Stenotrophomonas maltophilia strain SJTL3     
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 3782682..3811575 3793533..3795263 within 0


Gene organization within MGE regions


Location: 3782682..3811575
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DM611_RS17640 (DM611_17640) - 3782682..3783356 (+) 675 WP_162622086.1 hypothetical protein -
  DM611_RS17645 (DM611_17645) - 3783350..3784363 (+) 1014 WP_049447473.1 hypothetical protein -
  DM611_RS17650 (DM611_17650) - 3784357..3785373 (+) 1017 WP_110713347.1 TraB/GumN family protein -
  DM611_RS17655 (DM611_17655) - 3785692..3785961 (+) 270 WP_110713349.1 hypothetical protein -
  DM611_RS17660 (DM611_17660) - 3786013..3787770 (+) 1758 WP_110713350.1 ABC transporter transmembrane domain-containing protein -
  DM611_RS17665 (DM611_17665) sucD 3787888..3788763 (-) 876 WP_005410793.1 succinate--CoA ligase subunit alpha -
  DM611_RS17670 (DM611_17670) sucC 3788784..3789953 (-) 1170 WP_004154430.1 ADP-forming succinate--CoA ligase subunit beta -
  DM611_RS17675 (DM611_17675) - 3790359..3791972 (+) 1614 WP_110713352.1 ATP-binding protein -
  DM611_RS17680 (DM611_17680) pilR 3792033..3793406 (+) 1374 WP_110713353.1 sigma-54 dependent transcriptional regulator Regulator
  DM611_RS17685 (DM611_17685) pilB 3793533..3795263 (-) 1731 WP_110713355.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DM611_RS17690 (DM611_17690) comP 3795544..3795969 (-) 426 WP_110714370.1 pilin Machinery gene
  DM611_RS17695 (DM611_17695) pilC 3796324..3797583 (+) 1260 WP_110713357.1 type II secretion system F family protein Machinery gene
  DM611_RS17700 (DM611_17700) - 3797592..3798455 (+) 864 WP_110713358.1 A24 family peptidase -
  DM611_RS17705 (DM611_17705) coaE 3798467..3799078 (+) 612 WP_110713359.1 dephospho-CoA kinase -
  DM611_RS17710 (DM611_17710) - 3799208..3799594 (-) 387 WP_110713361.1 hypothetical protein -
  DM611_RS17715 (DM611_17715) - 3800019..3802091 (-) 2073 WP_162622087.1 DUF2235 domain-containing protein -
  DM611_RS17720 (DM611_17720) - 3802187..3802804 (-) 618 WP_110713364.1 DUF3304 domain-containing protein -
  DM611_RS17725 (DM611_17725) - 3802805..3803560 (-) 756 WP_343126107.1 DUF2235 domain-containing protein -
  DM611_RS17730 (DM611_17730) - 3803941..3804549 (-) 609 WP_162622089.1 DUF3304 domain-containing protein -
  DM611_RS17735 (DM611_17735) - 3804740..3805555 (-) 816 WP_110713369.1 DUF4123 domain-containing protein -
  DM611_RS17740 (DM611_17740) tssI 3805548..3808157 (-) 2610 WP_110713371.1 type VI secretion system tip protein TssI/VgrG -
  DM611_RS17745 (DM611_17745) - 3808380..3808796 (-) 417 WP_110713373.1 hypothetical protein -
  DM611_RS17750 (DM611_17750) - 3809067..3810437 (-) 1371 WP_110713374.1 HAMP domain-containing sensor histidine kinase -
  DM611_RS17755 (DM611_17755) - 3810400..3811077 (-) 678 WP_005410804.1 response regulator transcription factor -
  DM611_RS17760 (DM611_17760) - 3811090..3811575 (-) 486 WP_110713376.1 hypothetical protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62114.10 Da        Isoelectric Point: 6.0426

>NTDB_id=296016 DM611_RS17685 WP_110713355.1 3793533..3795263(-) (pilB) [Stenotrophomonas maltophilia strain SJTL3]
MNTVTTANLVGITGLARRLVQDGALDEASARDAMAKAAAARQPLPTWFAQNKVVGAAQLAAANAVEFGMPLFDVSTFDAS
QNAMSLVSEELLRKHNVLPLFKRGGKLFVGTSNPTHSLDEIKFHTNLVVEPIIVDEDQIRRTLEQWHASHDTLGDALGGD
DEGMGNLEVAAGDEDLGAGGDSGIDAKGDDTPVVKFVNKVLVDAIRKGASDIHFEPYEDDYRVRLRIDGLLKMVARAPVK
LNQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKSKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQKLF
LEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDI
IMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCGNCKKPSDLPAH
ALLAEGFTQAQLDAGVQLYEAVGCDECTEGYKGRTGLYQVMPMTDEIATIVLAGGNALQIAEAAQQIGVNDLRQSALKKA
AAGITSLAEINRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=296016 DM611_RS17685 WP_110713355.1 3793533..3795263(-) (pilB) [Stenotrophomonas maltophilia strain SJTL3]
ATGAATACCGTAACCACCGCCAATCTCGTCGGCATCACCGGCCTGGCCCGTCGCCTGGTCCAGGATGGTGCGCTGGACGA
GGCTTCCGCCCGCGATGCCATGGCCAAGGCTGCCGCCGCCCGGCAGCCGCTGCCGACCTGGTTCGCGCAGAACAAGGTGG
TTGGGGCGGCCCAGCTGGCAGCCGCCAACGCGGTCGAGTTCGGCATGCCGCTGTTCGACGTGTCCACGTTCGACGCCAGC
CAGAACGCCATGAGCCTGGTCAGTGAGGAGCTGCTGCGGAAACACAATGTGCTGCCGCTGTTCAAGCGCGGCGGCAAGCT
GTTCGTCGGCACCAGCAACCCGACCCACTCGCTGGATGAGATCAAGTTCCACACCAACCTGGTGGTGGAGCCGATCATCG
TCGATGAGGACCAGATCCGCCGGACGTTGGAGCAGTGGCACGCCAGCCATGACACCCTCGGTGACGCCCTGGGTGGCGAC
GACGAGGGCATGGGAAACCTGGAAGTCGCGGCTGGCGACGAGGACCTGGGGGCCGGTGGCGACTCCGGCATCGACGCCAA
GGGTGACGACACCCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGCAAGGGCGCTTCGGACATCCACT
TCGAACCCTACGAAGACGATTACCGGGTGCGCCTGCGCATCGACGGCCTGCTGAAGATGGTGGCGCGCGCGCCGGTGAAA
TTGAACCAGCGCATTGCCGCGCGCCTGAAGGTGATGGCGCAGCTGGATATCGCCGAGAAGCGCGTGCCGCAGGACGGTCG
CATCAAGTTGAACCTGTCCAAGTCCAAGCAGATCGACTTCCGCGTCAGCACGCTGCCGACCCTGTTCGGCGAGAAGGTGG
TGCTGCGTATCCTCGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGACCAGCAGAAACTGTTC
CTGGAAGCCATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACGGTGTCGCTGTACAC
GGCGCTGGGCATCCTCAACGACGAGACGCGCAACATCTCCACCGCCGAAGACCCGGTGGAAATCCGTCTGCCCGGCGTCA
ACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCAGCGTTGCGCTCGTTCCTGCGACAGGATCCGGACATC
ATCATGGTCGGCGAAATCCGCGATCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGTGCTGTC
CACCCTGCATACCAACGATGCGCCGCAGACCATCGCGCGACTGATGAACATGGGTATTGCGCCCTACAACATCACCAGCT
CGGTGACGCTGGTGATCGCCCAGCGCCTGGCGCGCCGGCTGTGCGGCAACTGCAAGAAGCCTTCCGATCTTCCCGCGCAC
GCGTTGCTGGCCGAGGGCTTCACCCAGGCGCAGTTGGATGCAGGCGTGCAGTTGTACGAGGCGGTGGGCTGCGACGAGTG
CACCGAAGGCTACAAGGGCCGTACCGGCCTTTACCAGGTGATGCCGATGACCGATGAGATCGCCACCATCGTGCTGGCTG
GCGGTAATGCGCTGCAGATTGCCGAGGCAGCGCAGCAGATCGGGGTGAATGATCTGCGCCAATCCGCGCTGAAGAAGGCG
GCGGCGGGCATCACCAGCCTGGCCGAGATCAATCGCGTTACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(199-466)

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

55.517

99.132

0.55
  pilB Acinetobacter baylyi ADP1

54.799

99.479

0.545
  pilB Legionella pneumophila strain ERS1305867

52.548

98.785

0.519
  pilF Neisseria gonorrhoeae MS11

49.296

98.611

0.486
  pilB Vibrio cholerae strain A1552

48.517

99.479

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

45.804

99.306

0.455
  pilB Vibrio campbellii strain DS40M4

45.167

98.785

0.446

Multiple sequence alignment