Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACCQ22_RS15560 Genome accession   NZ_CP167236
Coordinates   3692884..3694593 (-) Length   569 a.a.
NCBI ID   WP_372167543.1    Uniprot ID   -
Organism   Xanthomonas axonopodis pv. desmodiirotundifolii strain NCPPB 885     
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)
ICE 3694049..3752463 3692884..3694593 flank -544


Gene organization within MGE regions


Location: 3692884..3752463
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACCQ22_RS15560 (ACCQ22_15560) pilB 3692884..3694593 (-) 1710 WP_372167543.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACCQ22_RS15565 (ACCQ22_15565) - 3694687..3695142 (-) 456 WP_372166330.1 pilin -
  ACCQ22_RS15570 (ACCQ22_15570) - 3695249..3695686 (-) 438 WP_372166331.1 pilin -
  ACCQ22_RS15575 (ACCQ22_15575) pilC 3696036..3697292 (+) 1257 WP_372166332.1 type II secretion system F family protein Machinery gene
  ACCQ22_RS15580 (ACCQ22_15580) - 3697299..3698162 (+) 864 WP_008576868.1 A24 family peptidase -
  ACCQ22_RS15585 (ACCQ22_15585) coaE 3698176..3698781 (+) 606 WP_014090857.1 dephospho-CoA kinase -
  ACCQ22_RS15590 (ACCQ22_15590) - 3698851..3700185 (-) 1335 WP_164738656.1 HAMP domain-containing sensor histidine kinase -
  ACCQ22_RS15595 (ACCQ22_15595) - 3700178..3700855 (-) 678 WP_003490678.1 response regulator transcription factor -
  ACCQ22_RS15600 (ACCQ22_15600) - 3700881..3701324 (-) 444 WP_057681808.1 hypothetical protein -
  ACCQ22_RS15605 (ACCQ22_15605) rimK 3701533..3702450 (-) 918 WP_008576854.1 30S ribosomal protein S6--L-glutamate ligase -
  ACCQ22_RS15610 (ACCQ22_15610) glgX 3702921..3705053 (+) 2133 WP_031423887.1 glycogen debranching protein GlgX -
  ACCQ22_RS15615 (ACCQ22_15615) - 3705677..3706069 (-) 393 WP_372166333.1 H-NS family nucleoid-associated regulatory protein -
  ACCQ22_RS15620 (ACCQ22_15620) - 3706160..3706552 (-) 393 WP_008576845.1 hypothetical protein -
  ACCQ22_RS15625 (ACCQ22_15625) - 3706663..3707355 (-) 693 WP_071118755.1 thermonuclease family protein -
  ACCQ22_RS15630 (ACCQ22_15630) - 3707548..3707706 (-) 159 WP_159065595.1 hypothetical protein -
  ACCQ22_RS15635 (ACCQ22_15635) - 3708332..3708700 (+) 369 WP_015471731.1 hypothetical protein -
  ACCQ22_RS15640 (ACCQ22_15640) - 3708744..3710333 (-) 1590 WP_372166335.1 MobA/MobL family protein -
  ACCQ22_RS15645 (ACCQ22_15645) - 3710592..3710918 (+) 327 WP_372166336.1 hypothetical protein -
  ACCQ22_RS15650 (ACCQ22_15650) - 3711100..3711510 (+) 411 WP_372166337.1 HNH endonuclease -
  ACCQ22_RS15655 (ACCQ22_15655) - 3711523..3712173 (-) 651 WP_371893100.1 hypothetical protein -
  ACCQ22_RS15660 (ACCQ22_15660) - 3712214..3716224 (-) 4011 WP_372166338.1 hypothetical protein -
  ACCQ22_RS15665 (ACCQ22_15665) - 3716262..3716900 (-) 639 WP_014090882.1 DUF1629 domain-containing protein -
  ACCQ22_RS15670 (ACCQ22_15670) - 3717203..3717991 (+) 789 WP_372166339.1 hypothetical protein -
  ACCQ22_RS15675 (ACCQ22_15675) - 3718248..3718481 (-) 234 WP_372166342.1 hypothetical protein -
  ACCQ22_RS15680 (ACCQ22_15680) - 3718567..3718734 (-) 168 Protein_3076 JAB domain-containing protein -
  ACCQ22_RS15685 (ACCQ22_15685) - 3719327..3719596 (-) 270 Protein_3077 IS3 family transposase -
  ACCQ22_RS15695 (ACCQ22_15695) - 3720747..3721184 (-) 438 WP_372166343.1 hypothetical protein -
  ACCQ22_RS15700 (ACCQ22_15700) - 3721147..3721818 (-) 672 WP_372166344.1 hypothetical protein -
  ACCQ22_RS15705 (ACCQ22_15705) - 3721815..3723284 (-) 1470 WP_372166345.1 N-6 DNA methylase -
  ACCQ22_RS15710 (ACCQ22_15710) - 3723289..3724011 (-) 723 WP_372166346.1 hypothetical protein -
  ACCQ22_RS15715 (ACCQ22_15715) - 3724011..3724622 (-) 612 WP_228734389.1 transcriptional regulator -
  ACCQ22_RS15720 (ACCQ22_15720) hsdR 3724710..3727091 (-) 2382 WP_372166347.1 EcoAI/FtnUII family type I restriction enzme subunit R -
  ACCQ22_RS15725 (ACCQ22_15725) - 3727171..3727327 (-) 157 Protein_3085 type II toxin-antitoxin system RelE/ParE family toxin -
  ACCQ22_RS15730 (ACCQ22_15730) - 3727362..3727952 (-) 591 WP_372166348.1 TetR/AcrR family transcriptional regulator -
  ACCQ22_RS15735 (ACCQ22_15735) bdcA 3728023..3728736 (+) 714 WP_014089566.1 SDR family oxidoreductase -
  ACCQ22_RS15740 (ACCQ22_15740) - 3729460..3732132 (-) 2673 WP_372166349.1 M1 family metallopeptidase -
  ACCQ22_RS15745 (ACCQ22_15745) - 3732508..3733800 (-) 1293 WP_005913957.1 adenylosuccinate synthase -
  ACCQ22_RS15750 (ACCQ22_15750) hflC 3734325..3735188 (-) 864 WP_008578171.1 protease modulator HflC -
  ACCQ22_RS15755 (ACCQ22_15755) hflK 3735188..3736315 (-) 1128 WP_011346658.1 FtsH protease activity modulator HflK -
  ACCQ22_RS15760 (ACCQ22_15760) pilH 3737005..3737391 (-) 387 WP_008578169.1 twitching motility response regulator PilH -
  ACCQ22_RS15765 (ACCQ22_15765) - 3737885..3738784 (-) 900 WP_218489239.1 DnaJ C-terminal domain-containing protein -
  ACCQ22_RS15770 (ACCQ22_15770) - 3739198..3739674 (-) 477 WP_008571577.1 Hsp20/alpha crystallin family protein -
  ACCQ22_RS15775 (ACCQ22_15775) - 3739837..3740319 (+) 483 WP_008571578.1 peroxiredoxin -
  ACCQ22_RS15780 (ACCQ22_15780) - 3740360..3740920 (+) 561 WP_008571580.1 bacterioferritin -
  ACCQ22_RS15785 (ACCQ22_15785) pbpC 3741270..3743690 (-) 2421 WP_372166350.1 penicillin-binding protein 1C -
  ACCQ22_RS15790 (ACCQ22_15790) - 3744082..3745029 (-) 948 WP_031421465.1 glycerophosphodiester phosphodiesterase family protein -
  ACCQ22_RS15795 (ACCQ22_15795) - 3745174..3748176 (-) 3003 WP_372166351.1 TonB-dependent receptor -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 61630.63 Da        Isoelectric Point: 5.6006

>NTDB_id=1039078 ACCQ22_RS15560 WP_372167543.1 3692884..3694593(-) (pilB) [Xanthomonas axonopodis pv. desmodiirotundifolii strain NCPPB 885]
MGITGIARRLVQDGAVEEAVARSAMDQAAAAKIPLPQWFAEKKLVTASQLAAANAVEFGMPLLDVSAFDSSQNAVKLVSE
ELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSALGDDEEGMGDL
DVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAPVKLNQRIAA
RLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEADQQKLFLEAIHKP
YGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDIIMVGEIR
DLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLPDNALLAEGF
TPAQLAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQAIGIRDLRQSALMKAAHGVTSL
AEINRVTKD

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=1039078 ACCQ22_RS15560 WP_372167543.1 3692884..3694593(-) (pilB) [Xanthomonas axonopodis pv. desmodiirotundifolii strain NCPPB 885]
GTGGGAATTACGGGCATCGCGCGTCGTCTTGTGCAGGACGGTGCGGTCGAAGAAGCAGTTGCGCGATCTGCGATGGATCA
GGCGGCTGCGGCAAAAATTCCTCTGCCGCAATGGTTTGCTGAGAAGAAGTTGGTCACTGCTTCCCAGCTCGCTGCTGCTA
ATGCGGTCGAGTTCGGCATGCCGCTGCTGGATGTGTCGGCGTTCGACTCAAGCCAAAACGCGGTCAAGCTGGTAAGTGAG
GAACTACTTCAGAAGCACCAAGTGCTACCGCTGTTCAAGCGCGGCAACCGGCTGTTCGTGGGGGTGAGCAATCCGACCCA
GACCCGGGCGCTGGATGACATCAAGTTTCACACGAACTTGGTGGTCGAGCCCATCCTTGTGGATGAAGATCAGATCCGTC
GCACCCTGGAGCAATGGCAGGCCAGCAATGCTGCGCTGGGCTCCGCACTCGGTGACGACGAGGAGGGCATGGGGGATCTG
GACGTCTCGGCCGGCGACGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGATGCCAAGGGCGACGACACGCCGGTGGT
GAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCAGGCGGGGAGCCTCGGACATCCATTTCGAGCCGTATGAAGACGACT
ACCGGGTGCGCTTGCGCATCGACGGACTGCTGAAGAACGTGGCCAAGGCGCCGGTGAAGCTGAACCAGCGCATCGCAGCG
CGCTTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGACGGGCGCATCAAGCTCAATCTGTCCAA
GACCAAGCAGATCGACTTTCGTGTCAGCACCTTGCCGACCCTGTTCGGTGAAAAGGTGGTGCTGCGTATCCTGGACGGCA
GCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTATGAGGCGGACCAGCAGAAGCTGTTCCTGGAGGCGATCCACAAGCCG
TACGGGATGGTGCTGGTGACCGGGCCGACCGGCTCGGGCAAGACGGTGTCGCTGTACACCGCGCTGGGAATTCTCAACGA
CGAGACACGCAATATCTCCACCGCGGAGGATCCGGTCGAAATCCGCTTGCCTGGCGTCAATCAGGTACAGCAGAACAACA
AGCGTGGCATGACCTTTGCAGCAGCGCTGCGCTCGTTCCTACGCCAGGACCCGGACATCATCATGGTTGGCGAAATCCGT
GACCTGGAAACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGTGTTGTCGACGTTGCACACCAACGATGC
GCCGCAGACCATCGCACGCTTGATGAACATGGGCATCGCGCCCTACAACATCACCTCGTCGGTGACCTTGGTGATCGCGC
AGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCTGACAACGCCTTGCTGGCCGAAGGATTC
ACGCCCGCACAGCTTGCTGCCGGGATCGAGCTGTATGAGGCGGTCGGTTGCGACGAGTGCACCGAAGGCTACAAGGGGCG
TACCGGTATCTACCAGGTCATGCCGATGACCGACGAGATCGGCGCGATCGTGCTGGAGGGCGGCAATGCGATGCAGATCG
CCGAGGCCGCGCAGGCGATCGGTATCCGCGATTTGCGGCAGTCGGCCTTGATGAAGGCTGCGCACGGAGTGACCAGCCTG
GCCGAGATCAATCGTGTAACGAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(40-144)


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 baumannii D1279779

56.514

99.824

0.564
  pilB Acinetobacter baylyi ADP1

55.634

99.824

0.555
  pilB Legionella pneumophila strain ERS1305867

52.197

100

0.522
  pilF Neisseria gonorrhoeae MS11

48.944

99.824

0.489
  pilB Vibrio cholerae strain A1552

50

97.364

0.487
  pilB Vibrio parahaemolyticus RIMD 2210633

47.143

98.418

0.464
  pilB Vibrio campbellii strain DS40M4

45.694

100

0.457
  pilF Thermus thermophilus HB27

39.615

91.388

0.362
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.048

92.267

0.36

Multiple sequence alignment