Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WIF35_RS08575 Genome accession   NZ_CP150631
Coordinates   1749137..1750852 (+) Length   571 a.a.
NCBI ID   WP_412481142.1    Uniprot ID   -
Organism   Azonexus sp. IMCC34839     
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 1703829..1756513 1749137..1750852 within 0


Gene organization within MGE regions


Location: 1703829..1756513
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WIF35_RS08360 - 1703829..1705094 (-) 1266 WP_412481106.1 competence protein CoiA family protein -
  WIF35_RS08365 - 1705182..1706288 (+) 1107 WP_412481107.1 hypothetical protein -
  WIF35_RS08370 - 1706484..1707362 (-) 879 WP_412481108.1 hypothetical protein -
  WIF35_RS08375 - 1707362..1709455 (-) 2094 WP_412481109.1 DUF3696 domain-containing protein -
  WIF35_RS08380 - 1709467..1710645 (-) 1179 WP_412481110.1 restriction endonuclease subunit S -
  WIF35_RS08385 - 1710642..1712153 (-) 1512 WP_412481111.1 N-6 DNA methylase -
  WIF35_RS08390 - 1712164..1712838 (-) 675 WP_412481112.1 uracil-DNA glycosylase -
  WIF35_RS08395 rmuC 1712868..1714721 (-) 1854 WP_412481113.1 DNA recombination protein RmuC -
  WIF35_RS08400 - 1714739..1718188 (-) 3450 WP_412481114.1 DEAD/DEAH box helicase family protein -
  WIF35_RS08405 - 1718270..1719778 (-) 1509 WP_412481115.1 sigma-54 interaction domain-containing protein -
  WIF35_RS08410 - 1719960..1720256 (+) 297 WP_412481116.1 hypothetical protein -
  WIF35_RS08415 - 1720268..1720540 (+) 273 WP_412481117.1 helix-turn-helix domain-containing protein -
  WIF35_RS08420 - 1720608..1722398 (+) 1791 WP_412481118.1 DEAD/DEAH box helicase family protein -
  WIF35_RS08425 - 1722401..1722583 (+) 183 WP_412481119.1 hypothetical protein -
  WIF35_RS08430 - 1722587..1723057 (+) 471 WP_412481120.1 hypothetical protein -
  WIF35_RS08435 - 1723181..1723771 (-) 591 WP_412481121.1 antitoxin Xre/MbcA/ParS toxin-binding domain-containing protein -
  WIF35_RS08440 - 1723926..1724444 (-) 519 WP_412481122.1 helix-turn-helix domain-containing protein -
  WIF35_RS08445 - 1725794..1726429 (+) 636 WP_412481123.1 hypothetical protein -
  WIF35_RS08450 - 1726831..1727589 (+) 759 WP_412481124.1 hypothetical protein -
  WIF35_RS08455 - 1727657..1728991 (-) 1335 WP_412481125.1 site-specific integrase -
  WIF35_RS08465 ispB 1729284..1730252 (-) 969 WP_412481229.1 octaprenyl diphosphate synthase -
  WIF35_RS08470 - 1730390..1731493 (+) 1104 WP_412481126.1 HD domain-containing phosphohydrolase -
  WIF35_RS08475 - 1731493..1732263 (+) 771 WP_412481127.1 ThiF family adenylyltransferase -
  WIF35_RS08505 erpA 1737912..1738262 (-) 351 WP_412481128.1 iron-sulfur cluster insertion protein ErpA -
  WIF35_RS08510 - 1738325..1738720 (-) 396 WP_412481129.1 bactofilin family protein -
  WIF35_RS08515 - 1738730..1739395 (-) 666 WP_412481130.1 DUF6776 family protein -
  WIF35_RS08520 rpsI 1739583..1739975 (-) 393 WP_412481131.1 30S ribosomal protein S9 -
  WIF35_RS08525 rplM 1739985..1740413 (-) 429 WP_412481132.1 50S ribosomal protein L13 -
  WIF35_RS08530 - 1740920..1741348 (+) 429 WP_412481133.1 OsmC family protein -
  WIF35_RS08535 coq7 1741364..1741987 (-) 624 WP_412481134.1 2-polyprenyl-3-methyl-6-methoxy-1,4-benzoquinone monooxygenase -
  WIF35_RS08540 - 1741991..1742506 (-) 516 WP_412481135.1 CNP1-like family protein -
  WIF35_RS08545 - 1742509..1743060 (-) 552 WP_412481136.1 RNA pyrophosphohydrolase -
  WIF35_RS08550 - 1743174..1744904 (+) 1731 WP_412481137.1 proline--tRNA ligase -
  WIF35_RS08555 - 1744892..1745506 (+) 615 WP_412481138.1 lytic transglycosylase domain-containing protein -
  WIF35_RS08560 ffh 1745555..1746910 (-) 1356 WP_412481139.1 signal recognition particle protein -
  WIF35_RS08565 - 1746940..1747776 (+) 837 WP_412481140.1 inner membrane protein YpjD -
  WIF35_RS08570 - 1747783..1749057 (+) 1275 WP_412481141.1 HlyC/CorC family transporter -
  WIF35_RS08575 pilB 1749137..1750852 (+) 1716 WP_412481142.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WIF35_RS08580 pilC 1750866..1752092 (+) 1227 WP_412481143.1 type II secretion system F family protein Machinery gene
  WIF35_RS08585 pilD 1752093..1752950 (+) 858 WP_412481144.1 prepilin peptidase Machinery gene
  WIF35_RS08590 - 1753020..1753271 (+) 252 WP_412481145.1 FmdB family zinc ribbon protein -
  WIF35_RS08595 - 1753271..1753885 (+) 615 WP_412481230.1 DUF502 domain-containing protein -
  WIF35_RS08600 aspS 1753906..1755714 (+) 1809 WP_412481146.1 aspartate--tRNA ligase -
  WIF35_RS08605 - 1755720..1756088 (+) 369 WP_412481147.1 ribonuclease domain-containing protein -
  WIF35_RS08610 - 1756085..1756513 (+) 429 WP_412481148.1 barstar family protein -

Sequence

Protein


Download         Length: 571 a.a.        Molecular weight: 61906.29 Da        Isoelectric Point: 5.3355

>NTDB_id=970719 WIF35_RS08575 WP_412481142.1 1749137..1750852(+) (pilB) [Azonexus sp. IMCC34839]
MAATPQSPPLSGLARALVQAGKIKEAEAEQLLTEAAAAKVPLIEQIITSKRASAIDIARFVADTFGYPLLDLAAFDEAHI
PADAIDRKLISTHKVIPLNKRGNRLSVAIADPTNLRALDEIRFQTGLAVDPIVVEHPKLTPLVAKYSESAADTLKNLANE
DINLDFLDEEAASKTDDTAGQEIDDAPVVKFIQKILLDAINDGASDIHFEPYEKYYRIRFRVDGMLREVATPPLAIKEKI
ASRIKVISRLNIAEKRVPQDGRMKLVLSKTRAIDFRVSTLPTLQGEKIVLRILDPTSATLGIEALGYEPEQKASLLDAIS
RPYGMVLVTGPTGSGKTVSLYTCLNILNKEGVNISTAEDPAEINLAGINQVNVDDKVGLTFAAALKSFLRQDPDIIMVGE
IRDLETAEIAIKAAQTGHLVMSTLHTNDAPQTLTRLMNMGVPTFNIASSILLITAQRLARRLCTCKQPITVPEQALLDAG
FKEEDLDGSWTLFGPGGCDRCKGSGYKGRVGIYQVMPISEATQRLIMSGATALDLAEQAKREGVKDLRESGLLKVKQGLT
SLEEVLSTTNS

Nucleotide


Download         Length: 1716 bp        

>NTDB_id=970719 WIF35_RS08575 WP_412481142.1 1749137..1750852(+) (pilB) [Azonexus sp. IMCC34839]
ATGGCAGCAACCCCGCAATCCCCACCGCTCAGCGGCCTGGCCAGAGCGCTCGTTCAGGCCGGCAAGATCAAGGAGGCGGA
GGCCGAACAGCTGCTGACGGAGGCTGCCGCCGCCAAGGTTCCATTGATCGAACAGATCATTACGAGCAAGCGCGCCAGCG
CAATTGATATTGCTCGTTTCGTTGCCGACACCTTCGGTTATCCGCTACTGGACCTTGCCGCTTTCGACGAAGCCCATATC
CCGGCCGACGCGATCGACCGTAAACTGATCTCCACGCACAAGGTCATCCCGCTAAACAAGCGCGGCAACAGGCTATCCGT
AGCCATCGCCGACCCGACCAACCTGCGGGCACTCGACGAAATCCGTTTCCAGACCGGACTTGCCGTCGACCCTATCGTCG
TCGAACACCCGAAGCTGACCCCGTTGGTCGCCAAATATTCGGAATCCGCTGCTGACACGCTGAAGAATCTCGCCAACGAA
GACATCAACCTGGATTTCCTCGATGAGGAGGCTGCCAGCAAAACGGATGACACCGCAGGACAAGAGATCGACGACGCCCC
TGTCGTCAAATTCATTCAAAAAATACTGCTTGATGCCATCAATGACGGGGCCTCGGACATCCACTTCGAACCCTACGAAA
AGTACTACCGGATTCGTTTCCGCGTCGATGGCATGCTGCGTGAAGTCGCCACACCTCCCTTGGCCATCAAGGAAAAAATC
GCTTCGCGCATCAAGGTTATTTCCCGCTTGAACATCGCGGAAAAGCGTGTCCCACAAGACGGACGCATGAAGCTAGTTCT
TTCCAAGACCCGAGCCATCGACTTCCGGGTCAGCACCCTGCCGACACTGCAGGGAGAGAAGATCGTATTGCGCATTCTGG
ACCCGACATCTGCCACGTTAGGCATCGAAGCCCTAGGGTACGAACCAGAGCAAAAAGCCTCTTTGCTCGATGCCATCAGC
CGCCCCTACGGGATGGTTTTGGTGACGGGGCCTACAGGCTCCGGCAAAACTGTGTCGCTCTACACTTGCCTGAATATCCT
TAACAAAGAGGGCGTCAACATTTCGACGGCAGAAGATCCTGCGGAAATCAACCTCGCCGGAATCAATCAGGTCAACGTTG
ATGACAAAGTCGGCCTCACCTTCGCTGCGGCACTGAAGTCCTTCCTGCGCCAGGATCCGGATATCATCATGGTCGGTGAA
ATCCGCGACCTGGAAACTGCCGAGATCGCGATCAAAGCAGCTCAGACCGGTCACTTGGTGATGTCCACCCTGCACACCAA
CGATGCACCACAAACGCTGACTCGACTGATGAATATGGGCGTCCCCACTTTCAACATCGCCTCCAGCATCCTGTTGATCA
CGGCCCAACGTTTGGCCCGGCGTCTCTGCACTTGCAAACAACCGATTACCGTTCCCGAACAGGCACTGCTGGACGCAGGA
TTTAAAGAGGAAGACCTGGATGGCTCTTGGACGCTTTTTGGGCCAGGCGGCTGTGACCGCTGCAAGGGCTCCGGTTATAA
AGGTCGAGTAGGTATTTATCAGGTCATGCCCATTTCCGAAGCCACCCAACGCCTAATCATGAGCGGAGCTACCGCACTTG
ATCTCGCAGAACAAGCCAAACGAGAAGGCGTCAAGGATCTACGCGAATCTGGATTGTTAAAAGTAAAGCAAGGATTAACC
TCCTTAGAAGAAGTGTTAAGCACCACCAACTCCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(194-461)

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

(53-150)


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 baylyi ADP1

56.993

100

0.571
  pilB Acinetobacter baumannii D1279779

55.245

100

0.553
  pilB Legionella pneumophila strain ERS1305867

53.229

100

0.534
  pilF Neisseria gonorrhoeae MS11

54.093

98.424

0.532
  pilB Vibrio cholerae strain A1552

48.759

98.774

0.482
  pilB Vibrio parahaemolyticus RIMD 2210633

47.979

99.65

0.478
  pilB Vibrio campbellii strain DS40M4

47.88

99.124

0.475
  pilF Thermus thermophilus HB27

38.889

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.474

93.17

0.368

Multiple sequence alignment