Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   N5O87_RS04220 Genome accession   NZ_CP104582
Coordinates   876911..878614 (-) Length   567 a.a.
NCBI ID   WP_279532182.1    Uniprot ID   -
Organism   Pseudomonas sp. GD03919     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 871911..883614
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N5O87_RS04195 (N5O87_04195) - 872279..872596 (+) 318 WP_279532179.1 IS66-like element accessory protein TnpA -
  N5O87_RS04200 (N5O87_04200) tnpB 872602..872928 (+) 327 WP_279531102.1 IS66 family insertion sequence element accessory protein TnpB -
  N5O87_RS04205 (N5O87_04205) - 872990..874525 (+) 1536 WP_279532180.1 IS66 family transposase -
  N5O87_RS04210 (N5O87_04210) pilD 874821..875690 (-) 870 WP_279532181.1 prepilin peptidase Machinery gene
  N5O87_RS04215 (N5O87_04215) pilC 875691..876908 (-) 1218 WP_108234286.1 type II secretion system F family protein Machinery gene
  N5O87_RS04220 (N5O87_04220) pilB 876911..878614 (-) 1704 WP_279532182.1 type IV-A pilus assembly ATPase PilB Machinery gene
  N5O87_RS04225 (N5O87_04225) - 878836..879282 (+) 447 WP_279532183.1 pilin -
  N5O87_RS04230 (N5O87_04230) - 880176..880706 (+) 531 WP_279532184.1 REP-associated tyrosine transposase -
  N5O87_RS04235 (N5O87_04235) - 880769..881113 (-) 345 WP_004424987.1 type II toxin-antitoxin system HicB family antitoxin -
  N5O87_RS04240 (N5O87_04240) - 881110..881463 (-) 354 WP_004424984.1 type II toxin-antitoxin system HicA family toxin -
  N5O87_RS04245 (N5O87_04245) - 881582..881980 (+) 399 WP_074857725.1 type VII toxin-antitoxin system MntA family adenylyltransferase antitoxin -
  N5O87_RS04250 (N5O87_04250) - 881970..882392 (+) 423 WP_279532185.1 type VII toxin-antitoxin system HepT family RNase toxin -
  N5O87_RS04255 (N5O87_04255) - 882645..883034 (-) 390 WP_004424977.1 type II toxin-antitoxin system VapC family toxin -
  N5O87_RS04260 (N5O87_04260) - 883031..883288 (-) 258 WP_004424974.1 type II toxin-antitoxin system Phd/YefM family antitoxin -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62535.58 Da        Isoelectric Point: 5.3436

>NTDB_id=730703 N5O87_RS04220 WP_279532182.1 876911..878614(-) (pilB) [Pseudomonas sp. GD03919]
MNESVSLSGLAKQMVLAELLDEKAAQQAQLQAQRNKLSLVTYLVQNKLVKSRALAELASEQFGVSFLDLNTLDKEGQPRD
LISEKLVRQHRVLPLWRRGNKLFVGLSDPSNHQAVTDVQFSTGLTTEAILVEDDKLGDAIEKFFDSANSSMDELADVDLD
GLDVQAVDDDKQINDGNADADDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKAYRVRFRTDGILHEVARPPIQLAPRIAAR
LKVMAALDISERRKPQDGRIKMKISKTKAIDFRVNTLPTLWGEKIVMRILDPTSAQMGIDALGYEEEQKELYMAALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPDVNISTAEDPVEINLEGINQVNVNPKQGMDFTQALRAFLRQDPDIIMVGEIRD
LDTASIAVKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPSFNIATSVNLIIAQRLARKLCNSCKKEVDVPRETLLAEGFP
EDKIGSFKIYGPVGCENCKGGYKGRVGIYEVVKNTPNLQRIIMEEGNSIDIAAQMRKDGFNDLRTSALLKAMQGVTSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=730703 N5O87_RS04220 WP_279532182.1 876911..878614(-) (pilB) [Pseudomonas sp. GD03919]
ATGAACGAAAGCGTATCTCTCTCCGGCCTGGCCAAGCAGATGGTGCTGGCCGAGCTTCTGGACGAAAAAGCCGCTCAACA
GGCGCAACTGCAGGCCCAGCGCAACAAGCTGTCGCTGGTGACCTACCTGGTGCAGAACAAGCTGGTAAAGAGCCGCGCCC
TGGCCGAACTGGCCTCGGAGCAATTCGGCGTTTCCTTTCTCGACCTCAACACCCTCGACAAGGAAGGTCAGCCACGTGAC
CTGATCAGCGAAAAACTGGTTCGTCAGCATCGCGTGTTGCCACTTTGGCGTCGCGGCAACAAGCTGTTCGTCGGCCTTTC
CGACCCGTCCAACCACCAGGCTGTCACCGACGTACAGTTCAGTACCGGCCTGACCACAGAAGCCATTCTGGTCGAGGACG
ACAAACTCGGTGATGCCATCGAAAAGTTCTTCGACTCGGCCAATAGCAGCATGGACGAGCTGGCCGATGTCGACCTGGAC
GGCCTGGATGTTCAGGCAGTGGATGACGACAAGCAGATAAATGACGGCAACGCCGATGCTGACGATGCGCCCGTAGTGCG
CTTCGTCAACAAGATGCTTTTGGATGCCATCAAGGGCGGCTCATCGGACCTGCACTTCGAGCCTTACGAAAAAGCCTATC
GAGTGCGCTTTCGTACCGACGGTATCCTCCATGAGGTCGCTCGCCCGCCCATCCAGCTGGCGCCGCGAATTGCCGCCCGC
CTCAAGGTGATGGCCGCGCTGGATATCTCCGAACGGCGCAAGCCGCAGGACGGTCGGATCAAGATGAAAATCTCCAAGAC
CAAGGCCATCGATTTTCGGGTCAACACCCTACCCACGCTGTGGGGCGAGAAGATCGTGATGCGAATTCTCGACCCTACCA
GCGCGCAGATGGGCATCGACGCCCTGGGCTATGAGGAAGAGCAGAAAGAACTCTATATGGCTGCCCTCAAGCAACCACAG
GGCATGATTCTGGTCACCGGCCCCACTGGCTCGGGCAAAACCGTATCGCTGTACACCGGCCTGAACATCCTCAATACGCC
TGATGTGAATATTTCCACAGCCGAAGACCCGGTAGAGATCAACCTGGAGGGTATCAACCAGGTCAACGTGAATCCCAAGC
AGGGCATGGATTTTACCCAGGCGCTGCGCGCCTTTCTGCGCCAAGACCCGGATATCATCATGGTGGGTGAGATCCGCGAT
CTGGACACCGCGTCCATTGCAGTCAAGGCCGCACAGACCGGGCATATGGTGATGTCCACCCTGCACACCAACAGCGCCGC
GGAAACCCTGACCCGCTTGCGCAATATGGGCGTACCCTCCTTCAACATCGCCACCTCGGTCAACCTGATCATCGCCCAGC
GCCTGGCACGCAAGCTGTGCAATAGCTGCAAGAAGGAAGTGGACGTACCGCGCGAGACGCTACTGGCCGAAGGCTTCCCC
GAGGACAAGATCGGCAGCTTCAAGATTTATGGCCCGGTGGGCTGTGAAAACTGCAAGGGCGGTTACAAAGGGCGTGTCGG
TATTTATGAAGTGGTTAAAAACACGCCCAACCTGCAGCGGATTATCATGGAGGAAGGCAACTCCATCGATATTGCCGCGC
AGATGCGTAAAGACGGCTTTAATGACCTACGCACCTCCGCTTTGCTCAAGGCCATGCAAGGGGTCACCAGCCTTGAGGAA
GTCAACCGCGTAACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(43-147)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

58.435

100

0.593
  pilB Acinetobacter baylyi ADP1

58.451

100

0.586
  pilB Legionella pneumophila strain ERS1305867

55.009

100

0.552
  pilB Vibrio cholerae strain A1552

48.944

100

0.49
  pilF Neisseria gonorrhoeae MS11

48.49

99.295

0.481
  pilB Vibrio parahaemolyticus RIMD 2210633

49.722

95.062

0.473
  pilB Vibrio campbellii strain DS40M4

49.074

95.238

0.467
  pilF Thermus thermophilus HB27

37.368

100

0.376
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.509

93.298

0.369