Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JFL55_RS08480 Genome accession   NZ_CP066564
Coordinates   1815815..1817206 (-) Length   463 a.a.
NCBI ID   WP_136122165.1    Uniprot ID   -
Organism   Histophilus somni strain ASc-MMNZ-VFA-69     
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)
Prophage 1760122..1819554 1815815..1817206 within 0


Gene organization within MGE regions


Location: 1760122..1819554
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JFL55_RS08165 (JFL55_08165) - 1760122..1760406 (-) 285 WP_198974128.1 DNA helicase UvrD -
  JFL55_RS08170 (JFL55_08170) - 1760399..1761013 (-) 615 WP_198974129.1 DUF4376 domain-containing protein -
  JFL55_RS08175 (JFL55_08175) - 1761058..1761285 (-) 228 WP_198974130.1 hypothetical protein -
  JFL55_RS10570 - 1761311..1761961 (-) 651 WP_233145359.1 hypothetical protein -
  JFL55_RS10575 - 1761903..1762139 (-) 237 WP_233145360.1 phage tail protein -
  JFL55_RS10580 - 1762097..1763197 (-) 1101 WP_233145361.1 pyocin knob domain-containing protein -
  JFL55_RS08185 (JFL55_08185) - 1763190..1765169 (-) 1980 WP_012341720.1 hypothetical protein -
  JFL55_RS08190 (JFL55_08190) - 1765233..1765682 (-) 450 WP_198974131.1 hypothetical protein -
  JFL55_RS10660 - 1765699..1765833 (-) 135 WP_262363290.1 hypothetical protein -
  JFL55_RS08195 (JFL55_08195) - 1765892..1766281 (-) 390 WP_012341718.1 hypothetical protein -
  JFL55_RS08200 (JFL55_08200) - 1766278..1766724 (-) 447 WP_011609530.1 SAP domain-containing protein -
  JFL55_RS08205 (JFL55_08205) - 1766786..1767781 (-) 996 WP_012341717.1 N4-gp56 family major capsid protein -
  JFL55_RS08210 (JFL55_08210) - 1767807..1768670 (-) 864 WP_012341716.1 hypothetical protein -
  JFL55_RS08215 (JFL55_08215) - 1768748..1768930 (-) 183 WP_041605061.1 hypothetical protein -
  JFL55_RS08220 (JFL55_08220) - 1769027..1769329 (-) 303 WP_011609534.1 XRE family transcriptional regulator -
  JFL55_RS10665 - 1769587..1769718 (-) 132 WP_269846333.1 hypothetical protein -
  JFL55_RS08225 (JFL55_08225) - 1769835..1777841 (-) 8007 WP_198974132.1 LPD38 domain-containing protein -
  JFL55_RS08230 (JFL55_08230) - 1777906..1780083 (-) 2178 WP_075290792.1 hypothetical protein -
  JFL55_RS08235 (JFL55_08235) - 1780085..1781632 (-) 1548 WP_011609539.1 hypothetical protein -
  JFL55_RS08240 (JFL55_08240) - 1781632..1782327 (-) 696 WP_012341707.1 terminase -
  JFL55_RS08245 (JFL55_08245) - 1782352..1782570 (-) 219 WP_041605057.1 hypothetical protein -
  JFL55_RS08250 (JFL55_08250) - 1782524..1782853 (-) 330 WP_012341706.1 DUF2570 family protein -
  JFL55_RS08255 (JFL55_08255) - 1782826..1783362 (-) 537 WP_011609542.1 lysozyme -
  JFL55_RS08260 (JFL55_08260) - 1783355..1783591 (-) 237 WP_012341704.1 hypothetical protein -
  JFL55_RS08265 (JFL55_08265) - 1783877..1785013 (-) 1137 Protein_1625 RNA-guided endonuclease InsQ/TnpB family protein -
  JFL55_RS08270 (JFL55_08270) tnpA 1785060..1785476 (+) 417 Protein_1626 IS200/IS605 family transposase -
  JFL55_RS08275 (JFL55_08275) - 1785745..1786584 (-) 840 WP_075293599.1 KilA-N domain-containing protein -
  JFL55_RS08280 (JFL55_08280) - 1786736..1787140 (-) 405 WP_041605056.1 hypothetical protein -
  JFL55_RS08285 (JFL55_08285) - 1787130..1787717 (-) 588 WP_198974133.1 recombination protein NinG -
  JFL55_RS08290 (JFL55_08290) - 1787796..1788074 (-) 279 WP_075293602.1 hypothetical protein -
  JFL55_RS08295 (JFL55_08295) - 1788087..1788713 (-) 627 WP_075293603.1 DUF1367 family protein -
  JFL55_RS08300 (JFL55_08300) - 1788750..1789280 (-) 531 WP_198974134.1 phage N-6-adenine-methyltransferase -
  JFL55_RS08305 (JFL55_08305) - 1789290..1789982 (-) 693 WP_198974135.1 replication protein P -
  JFL55_RS08310 (JFL55_08310) - 1789979..1790803 (-) 825 WP_012341695.1 hypothetical protein -
  JFL55_RS08315 (JFL55_08315) - 1790793..1791032 (-) 240 WP_012341694.1 helix-turn-helix domain-containing protein -
  JFL55_RS08320 (JFL55_08320) - 1791187..1791414 (-) 228 WP_012341693.1 hypothetical protein -
  JFL55_RS08325 (JFL55_08325) - 1791517..1792203 (+) 687 WP_198974136.1 LexA family protein -
  JFL55_RS08330 (JFL55_08330) - 1792260..1793099 (+) 840 WP_087437244.1 BRO family protein -
  JFL55_RS08335 (JFL55_08335) - 1793644..1793910 (+) 267 WP_011609564.1 hypothetical protein -
  JFL55_RS08340 (JFL55_08340) - 1794093..1794269 (+) 177 WP_157666559.1 hypothetical protein -
  JFL55_RS08345 (JFL55_08345) - 1794256..1794444 (-) 189 WP_198974137.1 hypothetical protein -
  JFL55_RS08350 (JFL55_08350) - 1794714..1794893 (+) 180 WP_087437243.1 hypothetical protein -
  JFL55_RS08355 (JFL55_08355) - 1794890..1795306 (+) 417 WP_075293611.1 hypothetical protein -
  JFL55_RS08360 (JFL55_08360) - 1795435..1795923 (+) 489 WP_198974138.1 hypothetical protein -
  JFL55_RS08365 (JFL55_08365) - 1796064..1797086 (+) 1023 WP_075293613.1 hypothetical protein -
  JFL55_RS08370 (JFL55_08370) - 1797110..1797328 (-) 219 WP_075293614.1 hypothetical protein -
  JFL55_RS08375 (JFL55_08375) - 1797710..1798426 (+) 717 WP_081376619.1 DUF1902 domain-containing protein -
  JFL55_RS08380 (JFL55_08380) - 1798429..1798626 (+) 198 WP_075293615.1 type II toxin-antitoxin system HicA family toxin -
  JFL55_RS10585 - 1799110..1799508 (+) 399 Protein_1649 Bro-N domain-containing protein -
  JFL55_RS10590 (JFL55_08385) - 1799488..1800456 (+) 969 WP_416182626.1 KilA-N domain-containing protein -
  JFL55_RS08390 (JFL55_08390) - 1800543..1800827 (+) 285 WP_012341676.1 hypothetical protein -
  JFL55_RS08395 (JFL55_08395) - 1800830..1801246 (+) 417 WP_187378101.1 hypothetical protein -
  JFL55_RS08400 (JFL55_08400) - 1801631..1802296 (+) 666 WP_198974140.1 Bro-N domain-containing protein -
  JFL55_RS08405 (JFL55_08405) - 1802383..1802667 (+) 285 WP_012341676.1 hypothetical protein -
  JFL55_RS08410 (JFL55_08410) - 1802717..1803016 (+) 300 WP_198974141.1 hypothetical protein -
  JFL55_RS08415 (JFL55_08415) - 1803028..1803963 (+) 936 WP_087437240.1 recombinase RecT -
  JFL55_RS08420 (JFL55_08420) - 1803956..1804624 (+) 669 Protein_1657 translocation protein TolB precursor -
  JFL55_RS08425 (JFL55_08425) - 1804847..1805713 (+) 867 WP_233145363.1 hypothetical protein -
  JFL55_RS10715 - 1805975..1806448 (+) 474 WP_332908242.1 hypothetical protein -
  JFL55_RS08435 (JFL55_08435) - 1806477..1807664 (+) 1188 WP_198974142.1 DNA cytosine methyltransferase -
  JFL55_RS08440 (JFL55_08440) - 1807740..1808489 (+) 750 WP_143432439.1 hypothetical protein -
  JFL55_RS08445 (JFL55_08445) - 1808502..1808687 (+) 186 WP_011609578.1 helix-turn-helix transcriptional regulator -
  JFL55_RS08450 (JFL55_08450) - 1808649..1809890 (-) 1242 WP_198974143.1 tyrosine-type recombinase/integrase -
  JFL55_RS08460 (JFL55_08460) dauA 1810347..1812086 (+) 1740 WP_012341091.1 C4-dicarboxylic acid transporter DauA -
  JFL55_RS08465 (JFL55_08465) ffh 1812129..1813505 (-) 1377 WP_012341090.1 signal recognition particle protein -
  JFL55_RS08470 (JFL55_08470) - 1813655..1814452 (+) 798 WP_011609582.1 cytochrome C assembly family protein -
  JFL55_RS08475 (JFL55_08475) - 1814522..1815781 (+) 1260 WP_012341088.1 HlyC/CorC family transporter -
  JFL55_RS08480 (JFL55_08480) pilB 1815815..1817206 (-) 1392 WP_136122165.1 GspE/PulE family protein Machinery gene
  JFL55_RS08485 (JFL55_08485) tig 1817589..1818887 (+) 1299 WP_011609585.1 trigger factor -
  JFL55_RS08490 (JFL55_08490) clpP 1818973..1819554 (+) 582 WP_012341086.1 ATP-dependent Clp endopeptidase proteolytic subunit ClpP -

Sequence

Protein


Download         Length: 463 a.a.        Molecular weight: 52927.78 Da        Isoelectric Point: 6.2978

>NTDB_id=520957 JFL55_RS08480 WP_136122165.1 1815815..1817206(-) (pilB) [Histophilus somni strain ASc-MMNZ-VFA-69]
MSPIVMSIDGDTYEITPHLWQRNQQQSQILLRYFAIPLQENEQTLWLGVDSLNNISACETFAFLYGKIVEPVLLNNQLLK
QLLQNLSPQQNNMFVEEQPINQYVAEHRIEVTEKSDEPVIQLLDHIFENALKQHVSDIHIEPQMNCLQIRFRIDGILQCQ
SPLPLSLSKRILSRLKLLAKLDISETRLPQDGRFHFKTTFSDILDFRLSTLPTNMGEKAVLRLQQNKPVQLSFAELGMTE
NQQKSFKQALSQPQGLILVTGPTGSGKSISLYTALQWLNDKHKHIMTAEDPIEIELNGIIQCQINPQIGLDFSRLLRTFL
RQDPDIIMLGEIRDNESAIMALRAAQTGHLVLSTLHTNDAPSAVSRLLQLGVKQHEIDNSLLLVIAQRLVRKKCPHTENE
NCTCHQKYQGRIGVYQFLQPHLIDNHICYQTDYAHLRESAMEKVRLEITDLAEVDRVIGQSSE

Nucleotide


Download         Length: 1392 bp        

>NTDB_id=520957 JFL55_RS08480 WP_136122165.1 1815815..1817206(-) (pilB) [Histophilus somni strain ASc-MMNZ-VFA-69]
ATGTCTCCTATAGTGATGTCGATCGATGGAGATACTTATGAAATAACACCGCACTTATGGCAAAGAAATCAGCAACAATC
CCAAATTCTGCTACGCTATTTTGCCATTCCTTTACAGGAAAATGAACAAACGTTATGGTTAGGCGTTGATAGTCTAAATA
ATATTAGTGCCTGTGAAACATTTGCATTTTTGTATGGAAAAATTGTAGAACCGGTTTTACTTAATAACCAATTACTTAAA
CAGTTACTACAAAACTTATCACCACAGCAAAATAATATGTTCGTTGAAGAGCAACCTATAAATCAATATGTAGCCGAGCA
TCGTATAGAAGTAACTGAAAAGTCTGATGAACCCGTGATTCAACTTTTAGATCACATTTTTGAAAATGCGTTAAAGCAAC
ATGTATCAGATATTCATATTGAACCGCAAATGAATTGCTTGCAAATACGTTTCAGAATAGACGGTATTTTACAATGCCAA
TCGCCTCTTCCGCTTTCGCTGAGTAAGCGTATTCTTTCACGTTTAAAGTTACTGGCCAAATTGGATATAAGCGAAACACG
GTTACCTCAAGATGGACGATTTCATTTTAAAACAACATTTTCTGACATCCTTGATTTTCGTTTATCAACCCTTCCGACGA
ATATGGGTGAAAAAGCCGTGTTGCGTTTACAGCAAAATAAACCTGTACAGTTGAGTTTTGCGGAACTCGGCATGACAGAA
AACCAGCAAAAATCATTCAAACAGGCACTATCTCAACCCCAAGGACTCATTTTAGTGACCGGTCCAACAGGGAGTGGAAA
AAGTATCTCACTTTACACCGCACTTCAATGGCTGAATGATAAGCACAAACATATTATGACAGCGGAAGATCCGATAGAAA
TTGAATTGAACGGTATCATTCAATGTCAAATAAATCCGCAGATCGGGTTAGATTTTAGCCGACTGTTAAGAACTTTTCTT
CGTCAAGATCCTGACATTATTATGTTGGGTGAAATTCGGGATAATGAAAGTGCAATAATGGCATTAAGAGCAGCACAAAC
CGGACATCTTGTTCTCTCAACTTTACATACAAATGATGCTCCGTCGGCAGTTTCACGCTTGCTTCAATTAGGGGTAAAGC
AACATGAAATTGACAATAGTTTATTATTGGTCATCGCTCAACGCTTGGTACGAAAAAAATGTCCACATACAGAAAATGAA
AATTGCACTTGTCATCAGAAATATCAAGGGCGAATTGGTGTTTATCAATTTTTACAACCGCATCTAATAGATAATCATAT
TTGCTACCAAACGGATTATGCTCATTTGCGTGAAAGTGCAATGGAAAAAGTGCGGTTAGAAATAACAGATTTAGCAGAAG
TGGATAGAGTTATTGGACAAAGTAGTGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(126-392)

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

(8-90)


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

68.33

99.568

0.68
  pilB Haemophilus influenzae Rd KW20

67.609

99.352

0.672
  pilB Glaesserella parasuis strain SC1401

57.333

97.192

0.557
  pilB Vibrio campbellii strain DS40M4

40.456

100

0.421
  pilB Vibrio cholerae strain A1552

39.212

100

0.408
  pilB Vibrio parahaemolyticus RIMD 2210633

38.969

100

0.408
  pilB Legionella pneumophila strain ERS1305867

37.045

100

0.395
  pilB Acinetobacter baylyi ADP1

36.128

100

0.391
  pilB Acinetobacter baumannii D1279779

37.474

100

0.391
  pilF Neisseria gonorrhoeae MS11

35.865

100

0.367