Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JJQ97_RS04565 Genome accession   NZ_CP068034
Coordinates   1042522..1044216 (-) Length   564 a.a.
NCBI ID   WP_201419316.1    Uniprot ID   -
Organism   Pseudomonas syringae strain BIM B-268     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1037522..1049216
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JJQ97_RS04530 (JJQ97_04175) - 1037729..1038262 (-) 534 WP_046269799.1 MOSC domain-containing protein -
  JJQ97_RS04535 (JJQ97_04180) - 1038259..1038888 (-) 630 WP_003406555.1 DUF1780 domain-containing protein -
  JJQ97_RS04540 (JJQ97_04185) - 1039014..1039475 (+) 462 WP_181004423.1 hypothetical protein -
  JJQ97_RS04545 (JJQ97_04190) yacG 1039602..1039811 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  JJQ97_RS04550 (JJQ97_04195) coaE 1039808..1040431 (-) 624 WP_201419313.1 dephospho-CoA kinase -
  JJQ97_RS04555 (JJQ97_04200) pilD 1040428..1041300 (-) 873 WP_201419314.1 A24 family peptidase Machinery gene
  JJQ97_RS04560 (JJQ97_04205) pilC 1041302..1042519 (-) 1218 WP_201419315.1 type II secretion system F family protein Machinery gene
  JJQ97_RS04565 (JJQ97_04210) pilB 1042522..1044216 (-) 1695 WP_201419316.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JJQ97_RS04570 (JJQ97_04215) - 1044442..1044846 (+) 405 WP_032613640.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  JJQ97_RS04575 (JJQ97_04220) - 1045115..1045486 (-) 372 WP_201419317.1 helix-turn-helix domain-containing protein -
  JJQ97_RS04580 (JJQ97_04225) gstA 1045641..1046261 (+) 621 WP_201419318.1 glutathione transferase GstA -
  JJQ97_RS04585 (JJQ97_04230) - 1046358..1046903 (-) 546 WP_004415097.1 DUF1523 family protein -
  JJQ97_RS04590 (JJQ97_04235) - 1047023..1048021 (+) 999 WP_201419319.1 ATP-grasp domain-containing protein -
  JJQ97_RS04595 (JJQ97_04240) - 1048076..1049215 (+) 1140 WP_201419320.1 trypsin-like peptidase domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62459.77 Da        Isoelectric Point: 6.2546

>NTDB_id=526448 JJQ97_RS04565 WP_201419316.1 1042522..1044216(-) (pilB) [Pseudomonas syringae strain BIM B-268]
MTDAVLTGLAKQLVLAELLTEPVAQQAYQQARRDKISLVSYLVQNKLVKSLTLAEMASEQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTIAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETSLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRDTLIQEGFPEAK
IGTFKIFGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLDISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=526448 JJQ97_RS04565 WP_201419316.1 1042522..1044216(-) (pilB) [Pseudomonas syringae strain BIM B-268]
ATGACTGATGCTGTCCTCACTGGCCTGGCCAAGCAATTGGTCCTTGCCGAACTACTTACTGAACCTGTCGCGCAGCAAGC
GTATCAACAGGCGCGTCGTGACAAGATTTCGTTGGTCAGCTATCTGGTTCAGAACAAGCTAGTCAAAAGCCTGACGCTGG
CAGAGATGGCTTCAGAACAGTTTGGCGTGCCGTTCATGGACCTCGCCAGTCTGGATAAAGAAAGTCAGCCCAAAGGCTTG
GTCAGTGAAAAGCTGGTCAGACAGCATCACGCGCTGCCGCTGTGGCGACGCGGTAATAAGCTATTTATCGGGATTTCCGA
CCCTACGAATCATCAGGCGGTGACTGATATTCAGTTCAGCACCGGCCTGAATACCGAAGCGATTCTGGTCGAAGATGACA
AGCTGACCATAGCGATAGATCGATTTTTTGACAGCGATAGCGGTCTGGGCAATCTGGAAGATGTCGATCTGGGCCTGGAT
ATCGAACCGGCCGATGGTAAGGAAACCTCTCTAGCTACACAGAATGACGCTGACGATGCTCCAGTCGTGAGATTCGTCAA
CAAGATGCTGATGGACGCTATCCGATTAGGGTCATCAGACCTGCACTTCGAGCCCTATGAAAAGATTTTTCGTGTGCGCT
TGCGTACTGACGGCATCCTGCATGAGGTAGCCAGACCTCCCATTCACTTGGCCAATCGTATTGCCGCACGCTTGAAAGTC
ATGGCCAGCTTAGATATCTCGGAACGACGCAAGCCGCAGGACGGACGTGTCAAGTTGCGGGTGTCCAAAACAAAAGCTAT
CGATTTTCGTATGAATACCTTACCCACGTTGTGGGGCGAGAAGATCGTAATGCGGATCCTCGATCCGACCAGTGCGCAGA
TGGGCATTGATGCGCTGGGCTACGAGCCAGAACAAAAGGCATTGTATCTGGAGGCGCTGAAGCAGCCGCAAGGTATGATT
CTTGTGACCGGCCCGACAGGCTCCGGCAAGACCGTGTCCCTGTATACCGGCCTGAATATCCTTAATACCGTGGATATCAA
CATTTCCACAGCTGAAGACCCGGTGGAGATCAACCTGGAAGGCATCAATCAGGTCAACGTCAACCCGCGCCAAGGACTGG
ACTTTTCCCAAGCCTTGCGCGCATTTTTGCGTCAAGATCCCGACGTGATCATGGTCGGCGAGATACGAGACCTGGAAACT
GCCGAAATCGCCATCAAAGCTTCGCAGACTGGCCATATGGTACTTTCCACACTGCACACCAACAGCGCGGCGGAAACATT
GACTCGCCTGCACCATATGGGCGTTGCAGCATTCAATATTGCAACAGCGATCAACCTGATTATTGCGCAACGACTTGCGC
GGAAGCTGTGCAGCCATTGCAAGAAAGAACTGGATATCCCTCGCGACACACTGATTCAGGAAGGTTTTCCAGAAGCTAAA
ATCGGCACCTTCAAGATCTTTGGACCGGTGGGCTGTGAGCACTGCAATGGGGGCTACAGAGGCAGGGTCGGTATTTACGA
AGTGGTCAAAAAAACACCGGAGCTGGAGCGCATCATCATGGAAGAAGGCAATTCACTGGATATCTCCAGACAGATGCGTA
AGGACGGCTTCAATGACCTGCGTACCTCCGGACTGTCAAAGGCCATGCAGGGCATAACTAGTCTTGAAGAAGTCAACCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-147)


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

57.848

100

0.582
  pilB Acinetobacter baylyi ADP1

56.714

100

0.569
  pilB Legionella pneumophila strain ERS1305867

55.398

100

0.555
  pilB Vibrio cholerae strain A1552

50.89

99.645

0.507
  pilB Vibrio parahaemolyticus RIMD 2210633

50.358

98.936

0.498
  pilB Vibrio campbellii strain DS40M4

49.293

100

0.495
  pilF Neisseria gonorrhoeae MS11

47.95

99.468

0.477
  pilF Thermus thermophilus HB27

38.339

100

0.385
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.899

93.44

0.363