Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OQB64_RS04560 Genome accession   NZ_CP110809
Coordinates   1004299..1005993 (-) Length   564 a.a.
NCBI ID   WP_024648205.1    Uniprot ID   -
Organism   Pseudomonas syringae strain MUP32     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 999299..1010993
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OQB64_RS04525 (OQB64_04525) - 999505..1000038 (-) 534 WP_003317783.1 MOSC domain-containing protein -
  OQB64_RS04530 (OQB64_04530) - 1000035..1000664 (-) 630 WP_003430735.1 DUF1780 domain-containing protein -
  OQB64_RS04535 (OQB64_04535) - 1000791..1001252 (+) 462 WP_024648209.1 hypothetical protein -
  OQB64_RS04540 (OQB64_04540) yacG 1001379..1001588 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  OQB64_RS04545 (OQB64_04545) coaE 1001585..1002208 (-) 624 WP_024648208.1 dephospho-CoA kinase -
  OQB64_RS04550 (OQB64_04550) pilD 1002205..1003077 (-) 873 WP_024648207.1 A24 family peptidase Machinery gene
  OQB64_RS04555 (OQB64_04555) pilC 1003079..1004296 (-) 1218 WP_024648206.1 type II secretion system F family protein Machinery gene
  OQB64_RS04560 (OQB64_04560) pilB 1004299..1005993 (-) 1695 WP_024648205.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OQB64_RS04565 (OQB64_04565) pilA2 1006219..1006644 (+) 426 WP_003392698.1 pilin Machinery gene
  OQB64_RS04570 (OQB64_04570) - 1006785..1006956 (+) 172 Protein_897 DUF433 domain-containing protein -
  OQB64_RS04575 (OQB64_04575) - 1007004..1007549 (-) 546 WP_003317774.1 DUF1523 family protein -
  OQB64_RS04580 (OQB64_04580) - 1007669..1008667 (+) 999 WP_024648204.1 ATP-grasp domain-containing protein -
  OQB64_RS04585 (OQB64_04585) - 1008722..1009861 (+) 1140 WP_024648203.1 trypsin-like peptidase domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62388.65 Da        Isoelectric Point: 6.1188

>NTDB_id=756312 OQB64_RS04560 WP_024648205.1 1004299..1005993(-) (pilB) [Pseudomonas syringae strain MUP32]
MTDAVLTGLAKQLVLAELLTEPVALQAYQQARRDKISLVSYLVQNGLVKSLTLAEMASDQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTTAIDRFFDNDSGLGNLEDVDLGLD
IEPADGKETSLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRDTLIQEGFPEAK
IGTFKIFGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=756312 OQB64_RS04560 WP_024648205.1 1004299..1005993(-) (pilB) [Pseudomonas syringae strain MUP32]
ATGACTGATGCTGTTCTCACTGGCTTGGCCAAACAATTGGTCTTAGCCGAGCTGCTTACTGAACCTGTTGCGCTGCAAGC
GTATCAACAGGCGCGTCGTGACAAAATTTCGTTAGTGAGCTATTTGGTTCAGAACGGACTAGTCAAAAGCCTGACGCTGG
CAGAAATGGCTTCCGATCAGTTTGGCGTCCCCTTCATGGACCTAGCCAGCCTGGACAAAGAAAGCCAGCCTAAAGGCCTG
GTGAGTGAAAAGCTGGTTCGACAACATCACGCGCTGCCGCTGTGGCGACGCGGCAATAAACTGTTTATAGGGATTTCGGA
CCCTACGAATCATCAGGCGGTGACTGATATTCAGTTCAGCACAGGTCTGAACACCGAAGCGATTCTGGTCGAAGATGACA
AGCTGACGACCGCGATAGATCGGTTCTTTGACAATGATAGCGGTCTGGGCAATCTGGAAGATGTCGATCTTGGTCTGGAT
ATCGAACCGGCTGATGGCAAGGAAACTTCCCTCGCTACGCAGAATGACGCAGACGATGCCCCGGTGGTGCGATTCGTCAA
CAAAATGTTGATGGACGCTATTCGGTTAGGATCGTCCGACCTGCACTTTGAGCCTTACGAAAAGATCTTCCGCGTGCGGT
TGCGTACCGACGGCATCTTGCATGAAGTCGCTAGACCACCAATTCATTTGGCGAACCGTATCGCCGCGCGCTTGAAAGTG
ATGGCCAGCCTGGATATCTCGGAACGACGCAAACCGCAGGACGGAAGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCCAT
CGATTTTCGTATGAATACCTTGCCCACACTGTGGGGCGAAAAGATCGTGATGCGGATCCTCGACCCGACCAGCGCTCAGA
TGGGTATCGATGCGCTGGGCTATGAGCCAGAACAAAAGGCTTTGTATCTGGAGGCGCTGAAGCAGCCGCAAGGTATGATT
CTTGTAACCGGCCCGACAGGCTCCGGCAAGACCGTGTCCCTGTATACCGGCCTGAATATCCTTAATACCGTGGATATCAA
CATTTCCACAGCTGAAGACCCGGTAGAGATCAACCTGGAAGGCATCAATCAAGTCAACGTCAACCCGCGCCAGGGACTGG
ACTTTTCCCAAGCCTTGCGCGCATTTTTGCGTCAAGATCCCGACGTGATCATGGTCGGCGAGATACGAGACCTGGAAACT
GCCGAAATCGCCATCAAAGCTTCGCAGACTGGCCATATGGTGCTTTCCACACTGCACACCAACAGCGCGGCGGAAACATT
GACTCGCCTGCACCATATGGGCGTTGCAGCGTTCAATATTGCAACAGCGATCAACCTGATTATTGCGCAACGACTTGCGC
GGAAGCTGTGTAGCCATTGCAAGAAAGAACTGGATATCCCTCGCGACACACTGATTCAGGAAGGTTTTCCAGAAGCTAAA
ATCGGCACCTTCAAGATCTTTGGACCGGTGGGCTGTGAGCACTGCAATGGGGGCTACAGAGGCAGGGTCGGTATTTACGA
AGTGGTCAAAAAAACACCGGAGCTGGAGCGCATCATCATGGAAGAAGGCAACTCACTGGAGATCTCCAGACAGATGCGCA
AGGACGGCTTCAATGACCTGCGTACCTCCGGACTGTCAAAGGCTATGCAGGGCATAACCAGTCTTGAAGAAGTCAACCGC
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

55.044

100

0.551
  pilB Vibrio cholerae strain A1552

50.534

99.645

0.504
  pilB Vibrio campbellii strain DS40M4

49.647

100

0.498
  pilB Vibrio parahaemolyticus RIMD 2210633

51.371

96.986

0.498
  pilF Neisseria gonorrhoeae MS11

48.043

99.645

0.479
  pilF Thermus thermophilus HB27

39.332

95.567

0.376
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.783

93.262

0.362