Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   A6A11_RS07950 Genome accession   NZ_CP016605
Coordinates   1722379..1723818 (-) Length   479 a.a.
NCBI ID   WP_132023672.1    Uniprot ID   -
Organism   Bisgaardia hudsonensis strain M327/99/2     
Function   type IV pilus biogenesis and function (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)
ICE 1708061..1744953 1722379..1723818 within 0


Gene organization within MGE regions


Location: 1708061..1744953
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A6A11_RS07880 (A6A11_07780) - 1708219..1709577 (-) 1359 WP_132023696.1 Na+/H+ antiporter family protein -
  A6A11_RS07885 (A6A11_07785) rnt 1709630..1710283 (-) 654 WP_132023648.1 ribonuclease T -
  A6A11_RS07890 (A6A11_07790) gloA 1710397..1710804 (-) 408 WP_132023650.1 lactoylglutathione lyase -
  A6A11_RS07895 (A6A11_07795) - 1711045..1712535 (+) 1491 WP_132023652.1 SulP family inorganic anion transporter -
  A6A11_RS07900 (A6A11_07800) - 1712608..1712874 (-) 267 WP_132023654.1 helix-turn-helix domain-containing protein -
  A6A11_RS07905 (A6A11_07805) - 1713010..1713732 (+) 723 WP_132023656.1 DUF3944 domain-containing protein -
  A6A11_RS07910 - 1713828..1714010 (-) 183 Protein_1524 DUF1698 domain-containing protein -
  A6A11_RS07915 (A6A11_07810) glpQ 1714448..1715536 (-) 1089 WP_132023658.1 glycerophosphodiester phosphodiesterase -
  A6A11_RS07920 (A6A11_07815) glpT 1715608..1717050 (-) 1443 WP_132023660.1 glycerol-3-phosphate transporter -
  A6A11_RS07925 (A6A11_07820) - 1717105..1718661 (-) 1557 WP_132023662.1 glycerol-3-phosphate dehydrogenase/oxidase -
  A6A11_RS07930 (A6A11_07825) - 1718987..1719745 (-) 759 WP_132023664.1 DeoR/GlpR family transcriptional regulator -
  A6A11_RS07935 (A6A11_07830) coaE 1719779..1720396 (-) 618 WP_132023666.1 dephospho-CoA kinase -
  A6A11_RS07940 (A6A11_07835) - 1720441..1721157 (-) 717 WP_165906476.1 A24 family peptidase -
  A6A11_RS07945 (A6A11_07840) pilC 1721157..1722377 (-) 1221 WP_132023670.1 type II secretion system F family protein Machinery gene
  A6A11_RS07950 (A6A11_07845) pilB 1722379..1723818 (-) 1440 WP_132023672.1 GspE/PulE family protein Machinery gene
  A6A11_RS07955 (A6A11_07850) pilA 1723839..1724276 (-) 438 WP_132023674.1 prepilin peptidase-dependent pilin Machinery gene
  A6A11_RS07960 (A6A11_07855) ampD 1724408..1724959 (+) 552 WP_132023676.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  A6A11_RS07965 - 1725053..1725226 (-) 174 WP_176672799.1 NF038104 family lipoprotein -
  A6A11_RS07970 (A6A11_07860) ubiD 1725274..1726746 (-) 1473 WP_132023698.1 4-hydroxy-3-polyprenylbenzoate decarboxylase -
  A6A11_RS07975 (A6A11_07865) smpB 1726876..1727355 (+) 480 WP_132023678.1 SsrA-binding protein SmpB -
  A6A11_RS07980 (A6A11_07870) - 1727398..1728963 (+) 1566 WP_132023680.1 class I SAM-dependent methyltransferase -
  A6A11_RS07985 - 1729052..1730373 (+) 1322 Protein_1539 IS3 family transposase -
  A6A11_RS07990 (A6A11_07885) cgtA 1730427..1731599 (-) 1173 WP_132024939.1 Obg family GTPase CgtA -
  A6A11_RS07995 (A6A11_07890) - 1731608..1732528 (-) 921 WP_132024941.1 DMT family transporter -
  A6A11_RS08000 (A6A11_07895) rpmA 1732669..1732926 (-) 258 WP_132024943.1 50S ribosomal protein L27 -
  A6A11_RS08005 (A6A11_07900) rplU 1732947..1733258 (-) 312 WP_132024945.1 50S ribosomal protein L21 -
  A6A11_RS08010 (A6A11_07905) ispB 1733483..1734463 (+) 981 WP_418883941.1 octaprenyl diphosphate synthase -
  A6A11_RS08015 (A6A11_07910) - 1734495..1735202 (+) 708 WP_132024947.1 epoxyqueuosine reductase QueH -
  A6A11_RS08020 (A6A11_07915) parC 1735315..1737561 (-) 2247 WP_132024949.1 DNA topoisomerase IV subunit A -
  A6A11_RS08025 (A6A11_07920) parE 1737662..1739560 (-) 1899 WP_132024951.1 DNA topoisomerase IV subunit B -
  A6A11_RS08030 (A6A11_07925) lpcA 1739773..1740357 (-) 585 WP_132024953.1 D-sedoheptulose 7-phosphate isomerase -
  A6A11_RS08035 (A6A11_07930) mfd 1740462..1743902 (-) 3441 WP_132024955.1 transcription-repair coupling factor -
  A6A11_RS08040 (A6A11_07935) raiA 1744119..1744463 (-) 345 WP_132024957.1 ribosome-associated translation inhibitor RaiA -

Sequence

Protein


Download         Length: 479 a.a.        Molecular weight: 54605.67 Da        Isoelectric Point: 5.7059

>NTDB_id=189609 A6A11_RS07950 WP_132023672.1 1722379..1723818(-) (pilB) [Bisgaardia hudsonensis strain M327/99/2]
MTSYLSEMNQIAIDINGISFEITENLWQKNQQQYELLLRYLALPLKEDEFTLWLGIESFANLSACETFSFLTGKIVEPVL
LSSQHLKSLLKKLTPKLAVEDLQDIEYASFDSINVEENIEDHTDEPIIHLLNQIFESALKKKVSDIHLEPQKTCLQVRFR
VDGVLQIQKPISLSLSKRIISRLKLLAKLDISETRLPQDGRFYFKTTFSDTLDFRLSTLPTYLGEKVVLRVQQNKPTQLS
FSELGMTEKQQEYFQQALSQPQGLILVTGPTGSGKSISLYTALEWLNNESKHILTAEDPIEIELQGIIQSQINAKIGLDF
SRLLRTFLRQDPDIIMLGEIRDEETAEMALRAAQTGHLVLSTLHTNDAQSAISRLQQLGIKQHEIDNSLLLVVAQRLVRK
ICLRCNKNFINKSGQKKDNFCDCYQGYKGRIGVYQFLNVTNENHKTELQIDYATLRESALEKIATQLTDLAEINRVLGT

Nucleotide


Download         Length: 1440 bp        

>NTDB_id=189609 A6A11_RS07950 WP_132023672.1 1722379..1723818(-) (pilB) [Bisgaardia hudsonensis strain M327/99/2]
ATGACTAGCTATCTTTCTGAAATGAACCAGATTGCTATAGATATAAATGGCATTTCTTTTGAAATCACGGAAAATTTATG
GCAGAAAAATCAGCAACAATATGAACTACTTTTACGTTATCTTGCATTGCCACTAAAGGAAGATGAATTTACTTTATGGC
TTGGTATTGAGAGTTTTGCTAATTTATCTGCTTGTGAAACTTTTTCTTTTCTTACAGGAAAAATTGTTGAGCCAGTATTG
CTTTCTAGTCAACATTTAAAATCATTGTTAAAAAAACTAACGCCTAAGTTAGCTGTAGAAGATCTGCAAGATATTGAATA
TGCTTCTTTTGATAGTATTAACGTAGAAGAAAATATAGAAGATCATACTGATGAGCCTATTATACATTTATTGAATCAGA
TTTTTGAAAGTGCATTGAAGAAAAAAGTATCAGATATTCATTTAGAGCCTCAAAAAACTTGTTTGCAAGTGCGTTTTAGA
GTTGATGGTGTTTTGCAAATTCAAAAACCAATTAGTTTAAGTTTATCAAAACGCATTATCTCAAGACTAAAGTTATTAGC
TAAGTTAGATATTAGCGAAACTCGTTTACCTCAAGATGGGCGATTTTATTTTAAAACAACGTTTTCAGACACGCTTGATT
TTCGTCTTTCTACGCTACCGACTTATTTAGGCGAAAAAGTAGTGCTAAGGGTGCAACAAAACAAGCCTACACAATTAAGT
TTTTCTGAATTGGGTATGACTGAAAAACAACAAGAATATTTTCAGCAAGCCTTATCACAGCCACAGGGATTAATTTTAGT
TACCGGTCCTACTGGGAGTGGTAAAAGTATTTCACTTTATACTGCACTTGAATGGTTAAATAACGAGAGTAAGCATATTT
TAACTGCAGAAGATCCTATCGAAATTGAATTACAGGGGATTATTCAGTCACAAATTAATGCAAAAATTGGTTTGGATTTT
AGTCGTTTATTAAGAACATTTTTACGTCAAGATCCTGATATTATTATGCTAGGTGAAATTCGTGATGAAGAAACAGCTGA
AATGGCATTAAGAGCTGCTCAAACAGGGCATTTGGTGCTTTCTACACTACATACTAATGATGCTCAATCAGCTATTTCTC
GTTTACAACAACTTGGTATAAAGCAACATGAAATTGATAATAGTTTGTTATTGGTCGTTGCGCAGCGTTTAGTAAGAAAG
ATATGTCTTCGCTGTAATAAAAATTTTATTAACAAGAGCGGTCAAAAAAAGGATAATTTTTGTGATTGTTATCAGGGCTA
TAAAGGACGAATAGGCGTATATCAATTTTTAAATGTGACTAATGAAAATCATAAAACTGAGTTGCAAATTGATTATGCAA
CTTTAAGAGAAAGTGCCTTAGAAAAAATAGCTACACAACTTACTGATTTAGCAGAAATAAATCGAGTATTAGGGACTTAA

Domains

Predicted by InterproScan.

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

(20-95)

Type II/IV secretion system protein (T2SSE)

(133-400)


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 Haemophilus influenzae 86-028NP

67.782

99.791

0.676
  pilB Haemophilus influenzae Rd KW20

67.155

99.791

0.67
  pilB Glaesserella parasuis strain SC1401

57.143

96.451

0.551
  pilB Vibrio parahaemolyticus RIMD 2210633

41.372

100

0.415
  pilB Vibrio campbellii strain DS40M4

41.164

100

0.413
  pilB Vibrio cholerae strain A1552

40.123

100

0.407
  pilB Acinetobacter baumannii D1279779

40.333

100

0.405
  pilB Legionella pneumophila strain ERS1305867

40.083

100

0.405
  pilB Acinetobacter baylyi ADP1

38.229

100

0.397

Multiple sequence alignment