Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACMYNJ_RS15295 Genome accession   NZ_CP180391
Coordinates   3597971..3599707 (-) Length   578 a.a.
NCBI ID   WP_416203263.1    Uniprot ID   -
Organism   Xanthomonas euvesicatoria pv. polysciadis strain Pgu1     
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 3583928..3645930 3597971..3599707 within 0


Gene organization within MGE regions


Location: 3583928..3645930
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMYNJ_RS15230 - 3584605..3585039 (-) 435 WP_416203259.1 thiol-disulfide oxidoreductase DCC family protein -
  ACMYNJ_RS15235 - 3585026..3585550 (-) 525 WP_218196302.1 DUF4166 domain-containing protein -
  ACMYNJ_RS15240 pgeF 3585553..3586365 (-) 813 WP_416203260.1 peptidoglycan editing factor PgeF -
  ACMYNJ_RS15245 rluD 3586367..3587362 (-) 996 WP_008577792.1 23S rRNA pseudouridine(1911/1915/1917) synthase RluD -
  ACMYNJ_RS15250 - 3587484..3588365 (+) 882 WP_005915798.1 outer membrane protein assembly factor BamD -
  ACMYNJ_RS15255 - 3588649..3589626 (+) 978 WP_277574693.1 hypothetical protein -
  ACMYNJ_RS15260 - 3589645..3591300 (-) 1656 WP_416203261.1 NAD+ synthase -
  ACMYNJ_RS15265 - 3591300..3591602 (-) 303 WP_008577789.1 type II toxin-antitoxin system RelE/ParE family toxin -
  ACMYNJ_RS15270 - 3591606..3591950 (-) 345 WP_008577787.1 ribbon-helix-helix domain-containing protein -
  ACMYNJ_RS15275 sucD 3592121..3592996 (-) 876 WP_029820064.1 succinate--CoA ligase subunit alpha -
  ACMYNJ_RS15280 sucC 3593021..3594190 (-) 1170 WP_007965356.1 ADP-forming succinate--CoA ligase subunit beta -
  ACMYNJ_RS15285 - 3594422..3596035 (+) 1614 WP_416203262.1 sensor histidine kinase -
  ACMYNJ_RS15290 pilR 3596362..3597756 (+) 1395 WP_046931914.1 sigma-54-dependent transcriptional regulator Regulator
  ACMYNJ_RS15295 pilB 3597971..3599707 (-) 1737 WP_416203263.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACMYNJ_RS15300 - 3599802..3600410 (-) 609 WP_416203264.1 class I SAM-dependent methyltransferase -
  ACMYNJ_RS15305 - 3600403..3601416 (-) 1014 WP_416204328.1 glycosyltransferase family 2 protein -
  ACMYNJ_RS15310 - 3601440..3602237 (-) 798 WP_416203265.1 glycosyltransferase family A protein -
  ACMYNJ_RS15315 - 3602241..3602564 (-) 324 WP_416203266.1 SMR family transporter -
  ACMYNJ_RS15320 - 3602944..3603357 (+) 414 WP_416203267.1 pilin -
  ACMYNJ_RS15325 - 3603439..3605421 (+) 1983 WP_416203268.1 hypothetical protein -
  ACMYNJ_RS15330 pilC 3605551..3606813 (+) 1263 WP_416203269.1 type II secretion system F family protein Machinery gene
  ACMYNJ_RS15335 - 3606820..3607683 (+) 864 WP_008576868.1 prepilin peptidase -
  ACMYNJ_RS15340 coaE 3607697..3608302 (+) 606 WP_416203270.1 dephospho-CoA kinase -
  ACMYNJ_RS15345 - 3608372..3609706 (-) 1335 WP_008576864.1 sensor histidine kinase -
  ACMYNJ_RS15350 - 3609699..3610376 (-) 678 WP_003490678.1 response regulator transcription factor -
  ACMYNJ_RS15355 - 3610402..3610845 (-) 444 WP_416203271.1 hypothetical protein -
  ACMYNJ_RS15360 rimK 3611054..3611971 (-) 918 WP_008576854.1 30S ribosomal protein S6--L-glutamate ligase -
  ACMYNJ_RS15365 glgX 3612443..3614575 (+) 2133 WP_416203272.1 glycogen debranching protein GlgX -
  ACMYNJ_RS15370 - 3615196..3615588 (-) 393 WP_008576847.1 H-NS family nucleoid-associated regulatory protein -
  ACMYNJ_RS15375 - 3615679..3616005 (-) 327 WP_416203273.1 hypothetical protein -
  ACMYNJ_RS15385 - 3617391..3617705 (+) 315 WP_015471699.1 hypothetical protein -
  ACMYNJ_RS15390 - 3617702..3618079 (+) 378 WP_015471698.1 hypothetical protein -
  ACMYNJ_RS15395 - 3618140..3618757 (-) 618 WP_016850733.1 hypothetical protein -
  ACMYNJ_RS15400 - 3618754..3622317 (-) 3564 WP_416203274.1 RHS repeat-associated core domain-containing protein -
  ACMYNJ_RS15405 - 3622389..3625151 (-) 2763 WP_416203275.1 RHS repeat domain-containing protein -
  ACMYNJ_RS15410 - 3625864..3626232 (+) 369 Protein_3024 DNA/RNA non-specific endonuclease -
  ACMYNJ_RS15420 - 3627499..3633111 (-) 5613 WP_416203276.1 DUF3320 domain-containing protein -
  ACMYNJ_RS15425 - 3633251..3634000 (+) 750 WP_416203277.1 abortive infection family protein -
  ACMYNJ_RS15430 - 3634236..3634379 (-) 144 Protein_3028 transposase -
  ACMYNJ_RS15435 - 3634559..3635251 (-) 693 WP_218505963.1 hypothetical protein -
  ACMYNJ_RS15440 - 3635450..3635653 (+) 204 WP_218505962.1 hypothetical protein -
  ACMYNJ_RS15445 - 3635659..3636174 (-) 516 WP_218505960.1 hypothetical protein -
  ACMYNJ_RS15450 - 3636320..3637066 (-) 747 WP_218505959.1 nucleotide-binding protein -
  ACMYNJ_RS15455 - 3637059..3637703 (-) 645 WP_416203278.1 hypothetical protein -
  ACMYNJ_RS15465 - 3638945..3640159 (-) 1215 WP_416203279.1 hypothetical protein -
  ACMYNJ_RS15470 mutS 3640362..3642917 (+) 2556 WP_416203280.1 DNA mismatch repair protein MutS -
  ACMYNJ_RS15475 - 3643205..3643819 (+) 615 WP_008571130.1 DUF937 domain-containing protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62522.63 Da        Isoelectric Point: 5.5986

>NTDB_id=1095641 ACMYNJ_RS15295 WP_416203263.1 3597971..3599707(-) (pilB) [Xanthomonas euvesicatoria pv. polysciadis strain Pgu1]
MNTAVTTNLVGITGIARRLVQDGALDESAARGAMDQAAAAKVPLPQWFAEKKLVSAAQLAAANAVEFGMPLMDVSVFDAS
QNAVKLVSEELLQKHQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQAGNATLGSALG
DDDEGMENLDVSAGDEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRFRIDGLLKGVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEADQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
DNALLAEGFTPAQLAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQAIGIRDLRQSALM
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=1095641 ACMYNJ_RS15295 WP_416203263.1 3597971..3599707(-) (pilB) [Xanthomonas euvesicatoria pv. polysciadis strain Pgu1]
ATGAATACCGCCGTTACCACGAATCTGGTCGGTATCACCGGCATCGCCCGCCGCCTGGTACAGGATGGTGCGCTCGACGA
ATCCGCCGCCCGCGGGGCGATGGACCAGGCTGCTGCGGCCAAGGTGCCGTTGCCGCAGTGGTTCGCCGAAAAGAAGCTGG
TGTCGGCGGCGCAGTTGGCGGCGGCCAATGCCGTCGAATTCGGCATGCCGTTGATGGACGTGTCGGTGTTCGATGCCAGC
CAGAATGCGGTCAAGCTGGTCAGCGAGGAGTTGCTGCAGAAGCATCAGGTGCTGCCGCTGTTCAAGCGCGGCAACCGCCT
GTTCGTGGGGGTCAGCAACCCGACCCAGACCCGGGCGTTGGACGACATCAAGTTCCATACCAATCTGGTGGTCGAGCCGA
TCCTGGTGGACGAGGACCAGATCCGACGGACGCTGGAGCAGTGGCAGGCCGGCAATGCGACCCTCGGGTCGGCGCTGGGG
GACGACGACGAGGGGATGGAGAACCTCGATGTGTCGGCCGGCGACGAGGACATGGGCGCGGGCGGGGATTCCGGCGTCGA
TGCCAAGGGGGATGACACGCCGGTAGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGCGCATCGGATA
TCCACTTCGAGCCCTACGAAGACGACTACCGCGTGCGCTTCCGGATCGATGGCCTGCTCAAGGGGGTGGCCAAGGCGCCG
GTGAAGCTCAATCAGCGCATCGCTGCGCGCCTGAAGGTCATGTCGCAGCTCGATATTGCTGAGAAGCGGGTGCCGCAGGA
CGGACGCATCAAGCTCAACCTGTCAAAGACCAAGCAGATCGACTTCCGCGTCAGCACGCTGCCGACCCTGTTCGGGGAGA
AGGTGGTGCTGCGTATCCTGGACGGTAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGTTACGAGGCGGACCAGCAGAAG
CTGTTCCTGGAGGCGATCCACAAGCCGTACGGGATGGTGCTGGTGACCGGGCCGACCGGCTCGGGCAAGACGGTGTCGTT
GTACACCGCGCTGGGCATCCTCAACGACGAGACACGCAATATCTCCACCGCGGAGGACCCGGTCGAAATCCGCTTGCCTG
GCGTCAATCAGGTGCAGCAGAACAACAAGCGTGGCATGACCTTTGCCGCAGCGTTGCGCTCGTTCCTGCGCCAGGACCCG
GACATCATCATGGTCGGCGAAATCCGTGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GTTGTCGACGTTGCACACCAACGATGCGCCGCAGACCATCGCACGCTTGATGAACATGGGCATCGCGCCCTACAACATTA
CCTCGTCGGTGACCTTGGTGATCGCGCAGCGTCTGGCGCGGCGGTTGTGCAACAACTGCAAGCGCAAGTCGACGCTGCCT
GACAACGCCTTGCTGGCCGAAGGATTCACCCCCGCACAGCTTGCTGCCGGGATCGAGCTGTATGAGGCGGTCGGTTGCGA
CGAGTGCACCGAAGGCTACAAGGGGCGTACCGGTATCTACCAGGTCATGCCGATGACCGACGAGATCGGCGCGATCGTGC
TGGAGGGCGGCAATGCGATGCAGATTGCCGAGGCCGCGCAGGCGATCGGTATCCGCGATTTGCGGCAGTCGGCCTTGATG
AAGGCTGCCCACGGGGTGACCAGCCTGGCCGAGATCAATCGGGTGACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(49-151)

Type II/IV secretion system protein (T2SSE)

(201-468)


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

55.712

98.443

0.548
  pilB Acinetobacter baylyi ADP1

54.93

98.27

0.54
  pilB Legionella pneumophila strain ERS1305867

52.166

99.827

0.521
  pilB Vibrio cholerae strain A1552

49.135

100

0.491
  pilF Neisseria gonorrhoeae MS11

49.12

98.27

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

46.786

96.886

0.453
  pilB Vibrio campbellii strain DS40M4

45.694

98.443

0.45

Multiple sequence alignment