Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GRB21_RS05020 Genome accession   NZ_CP047073
Coordinates   1005291..1006985 (-) Length   564 a.a.
NCBI ID   WP_011103350.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. tomato strain delta X     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1000291..1011985
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GRB21_RS04980 - 1000422..1000955 (-) 534 WP_005770014.1 MOSC domain-containing protein -
  GRB21_RS04985 - 1000952..1001581 (-) 630 WP_003381213.1 DUF1780 domain-containing protein -
  GRB21_RS04995 - 1001778..1002104 (+) 327 WP_005770015.1 hypothetical protein -
  GRB21_RS05000 yacG 1002371..1002580 (-) 210 WP_003381207.1 DNA gyrase inhibitor YacG -
  GRB21_RS05005 coaE 1002577..1003200 (-) 624 WP_005770017.1 dephospho-CoA kinase -
  GRB21_RS05010 pilD 1003197..1004069 (-) 873 WP_005770019.1 prepilin peptidase Machinery gene
  GRB21_RS05015 pilC 1004071..1005288 (-) 1218 WP_011103349.1 type II secretion system F family protein Machinery gene
  GRB21_RS05020 pilB 1005291..1006985 (-) 1695 WP_011103350.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GRB21_RS05025 - 1007210..1007638 (+) 429 WP_011103351.1 pilin -
  GRB21_RS05030 - 1007834..1008202 (-) 369 WP_011103352.1 winged helix-turn-helix transcriptional regulator -
  GRB21_RS05035 gstA 1008360..1008980 (+) 621 WP_011103353.1 glutathione transferase GstA -
  GRB21_RS05040 - 1009326..1009913 (+) 588 WP_010208432.1 DUF433 domain-containing protein -
  GRB21_RS05045 - 1009910..1010317 (+) 408 WP_011103354.1 hypothetical protein -
  GRB21_RS05050 - 1010362..1010907 (-) 546 WP_003383227.1 DUF1523 family protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62443.69 Da        Isoelectric Point: 6.3854

>NTDB_id=410155 GRB21_RS05020 WP_011103350.1 1005291..1006985(-) (pilB) [Pseudomonas syringae pv. tomato strain delta X]
MTDAVLTGLAKQLVLAELLTEPVAQQAYQQARRDKISLVSYLVQNKLVKSLTLAELASDQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTTAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETSLATQNDADDAPVVRFVNKMLLDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIREGFPEAK
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTAELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=410155 GRB21_RS05020 WP_011103350.1 1005291..1006985(-) (pilB) [Pseudomonas syringae pv. tomato strain delta X]
ATGACTGATGCTGTCCTCACTGGCTTGGCCAAACAATTGGTCCTCGCCGAGCTCCTTACTGAACCTGTTGCGCAGCAAGC
TTATCAACAGGCGCGCCGCGACAAGATTTCGTTGGTGAGCTATCTGGTTCAGAACAAACTGGTCAAAAGCCTGACGCTAG
CGGAATTGGCTTCTGATCAGTTCGGCGTTCCGTTCATGGACCTCGCCAGCCTGGACAAGGAAAGCCAGCCAAAGGGGCTG
GTCAGCGAGAAGCTGGTCAGACAACACCACGCCCTGCCGCTGTGGCGACGTGGTAACAAGCTGTTTATAGGCATCTCGGA
CCCGACCAACCATCAGGCGGTCACTGACATACAGTTCAGCACTGGCCTGAATACCGAAGCAATTCTGGTCGAAGATGACA
AGCTGACCACTGCGATAGATCGATTCTTTGACAGTGACAGCGGTCTGGGCAACCTGGAAGATGTCGATCTGGGTCTGGAT
ATCGAACCGGCTGATGGCAAGGAAACGTCACTCGCGACGCAGAATGACGCTGACGATGCCCCGGTGGTACGTTTCGTCAA
CAAAATGCTGTTGGATGCCATCCGGTTAGGATCATCAGACTTGCACTTCGAGCCCTACGAAAAGATCTTTCGCGTGCGCT
TGCGTACCGATGGCATTTTGCATGAGGTTGCTAGGCCTCCGATTCATCTGGCAAACCGTATTGCTGCACGCCTGAAAGTC
ATGGCGAGCCTCGACATTTCGGAGCGACGCAAACCGCAGGACGGCCGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCCAT
CGATTTTCGTATGAACACCTTGCCCACCCTGTGGGGCGAGAAGATCGTGATGCGGATTCTCGACCCGACCAGTGCGCAGA
TGGGTATTGATGCTCTGGGCTACGAGCCGGAGCAAAAAGCGTTGTATCTGGAGGCACTGAAACAGCCGCAGGGCATGATT
CTTGTGACTGGCCCCACGGGTTCCGGCAAGACCGTTTCTCTGTATACCGGTCTGAACATACTCAATACCGTGGACATCAA
CATTTCCACAGCCGAAGACCCGGTAGAGATCAACCTGGAAGGCATCAATCAGGTCAACGTGAACCCACGCCAAGGATTGG
ACTTTTCGCAGGCATTGCGCGCCTTCCTGCGTCAAGATCCCGACGTGATCATGGTCGGCGAGATTCGCGACCTGGAAACC
GCCGAAATCGCCATCAAGGCGTCACAGACTGGCCACATGGTGCTGTCCACCCTGCATACCAACAGCGCGGCAGAAACCTT
GACGCGACTGCATCATATGGGCGTAGCCGCATTCAACATTGCCACAGCAATCAATCTGATTATTGCGCAACGGCTCGCCC
GTAAGCTGTGCAGTCATTGCAAGAAAGAGCTCGATATTCCTCGCGAGACACTGATTCGGGAAGGTTTTCCAGAAGCGAAG
ATTGGCACTTTCAAGATCTATGGACCGGTGGGCTGCGAGCATTGCAACGGCGGTTACAGAGGCAGGGTCGGTATCTACGA
AGTCGTCAAGAAAACAGCAGAGCTGGAGCGCATCATCATGGAAGAGGGTAATTCACTGGAGATTTCCAGGCAGATGCGCA
AGGACGGTTTCAATGACCTGCGAACCTCGGGCCTGTCAAAAGCCATGCAGGGCATTACCAGCCTTGAAGAAGTCAACCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(42-147)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

57.672

100

0.58
  pilB Acinetobacter baylyi ADP1

56.537

100

0.567
  pilB Legionella pneumophila strain ERS1305867

55.575

100

0.557
  pilB Vibrio cholerae strain A1552

50.89

99.645

0.507
  pilB Vibrio parahaemolyticus RIMD 2210633

50.626

99.113

0.502
  pilB Vibrio campbellii strain DS40M4

49.47

100

0.496
  pilF Neisseria gonorrhoeae MS11

48.221

99.645

0.481
  pilF Thermus thermophilus HB27

39.046

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.973

93.262

0.363

Multiple sequence alignment