Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PSYR_RS04135 Genome accession   NC_007005
Coordinates   903509..905203 (-) Length   564 a.a.
NCBI ID   WP_011266636.1    Uniprot ID   Q4ZYB6
Organism   Pseudomonas syringae pv. syringae B728a     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 898509..910203
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYR_RS04100 (Psyr_0791) - 898715..899248 (-) 534 WP_003406554.1 MOSC domain-containing protein -
  PSYR_RS04105 (Psyr_0792) - 899245..899874 (-) 630 WP_011266631.1 DUF1780 domain-containing protein -
  PSYR_RS04110 (Psyr_0793) - 900001..900462 (+) 462 WP_024960617.1 hypothetical protein -
  PSYR_RS04115 (Psyr_0794) yacG 900589..900798 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  PSYR_RS04120 (Psyr_0795) coaE 900795..901418 (-) 624 WP_011266633.1 dephospho-CoA kinase -
  PSYR_RS04125 (Psyr_0796) pilD 901415..902287 (-) 873 WP_011266634.1 prepilin peptidase Machinery gene
  PSYR_RS04130 (Psyr_0797) pilC 902289..903506 (-) 1218 WP_011266635.1 type II secretion system F family protein Machinery gene
  PSYR_RS04135 (Psyr_0798) pilB 903509..905203 (-) 1695 WP_011266636.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSYR_RS04140 (Psyr_0799) - 905429..905848 (+) 420 WP_011266637.1 pilin -
  PSYR_RS04145 (Psyr_0800) - 906023..906568 (-) 546 WP_010415546.1 DUF1523 family protein -
  PSYR_RS04150 (Psyr_0801) - 906688..907686 (+) 999 WP_011266638.1 ATP-grasp domain-containing protein -
  PSYR_RS04155 (Psyr_0802) - 907741..908880 (+) 1140 WP_011266639.1 trypsin-like peptidase domain-containing protein -
  PSYR_RS04160 (Psyr_0803) - 908947..910080 (+) 1134 WP_011266640.1 phosphoribosyltransferase domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62450.83 Da        Isoelectric Point: 6.3329

>NTDB_id=24325 PSYR_RS04135 WP_011266636.1 903509..905203(-) (pilB) [Pseudomonas syringae pv. syringae B728a]
MTDAVLTGLAKQLVLAELLTEPVAQQAYQQARRDKISLVSYLVQHKLVKSLTLAELASDQFGVPFMDLASLDKESLPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTEIQFSTGLNTEAILVEDDKLTVAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETTLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPDQKALYLEALKLPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIQEGFPEAK
IGTFKVYGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=24325 PSYR_RS04135 WP_011266636.1 903509..905203(-) (pilB) [Pseudomonas syringae pv. syringae B728a]
ATGACTGATGCTGTCCTCACTGGCTTGGCCAAGCAATTGGTCCTCGCCGAGCTACTTACTGAACCTGTTGCGCAGCAAGC
GTATCAGCAGGCGCGCCGCGACAAGATTTCGTTGGTGAGCTATCTGGTTCAGCACAAACTGGTCAAAAGCCTGACGCTGG
CAGAACTGGCCTCCGATCAGTTCGGCGTGCCTTTCATGGACCTCGCCAGCCTGGACAAGGAAAGCCTGCCTAAAGGCTTG
GTCAGTGAAAAGCTGGTTCGACAACATCACGCACTGCCGTTGTGGCGACGCGGTAACAAACTGTTTATCGGGATTTCGGA
CCCGACCAATCATCAGGCAGTGACTGAGATCCAGTTCAGCACTGGCCTGAACACCGAAGCGATTCTGGTTGAAGATGACA
AGCTGACTGTTGCGATAGACCGGTTTTTTGACAGCGACAGCGGGCTGGGCAATCTGGAAGATGTCGATCTGGGCCTGGAT
ATCGAACCGGCCGATGGCAAGGAAACCACGCTAGCTACACAGAATGACGCTGACGATGCCCCGGTGGTGCGCTTCGTCAA
CAAGATGCTTATGGATGCCATCCGACTAGGATCATCCGACTTGCACTTCGAGCCCTATGAAAAGATCTTCCGCGTACGTT
TGCGTACCGATGGCATCCTGCACGAAGTCGCCAGACCGCCGATCCATTTGGCAAACCGTATTGCTGCGCGTCTGAAGGTC
ATGGCCAGCCTCGATATTTCGGAACGACGCAAACCGCAGGACGGAAGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCCAT
CGATTTTCGTATGAATACCCTGCCCACATTGTGGGGCGAGAAGATCGTAATGCGGATTCTCGACCCAACCAGTGCGCAGA
TGGGTATCGATGCGCTGGGCTATGAGCCTGATCAAAAGGCACTGTACTTAGAGGCGCTTAAACTGCCGCAAGGGATGATT
CTTGTGACTGGCCCTACAGGTTCAGGCAAGACTGTATCTCTCTATACCGGCCTGAACATTCTAAACACTGTGGACATTAA
CATTTCCACAGCTGAAGACCCGGTGGAGATCAACCTGGAAGGCATCAATCAGGTCAACGTCAACCCGCGCCAAGGACTGG
ACTTTTCCCAAGCCTTGCGCGCGTTTTTGCGTCAAGATCCCGACGTGATTATGGTCGGCGAAATACGAGATCTGGAAACT
GCCGAAATCGCCATCAAAGCCTCGCAGACCGGCCATATGGTGCTTTCCACATTGCACACCAACAGCGCTGCGGAAACGCT
GACCCGCCTGCATCACATGGGCGTTGCAGCATTCAACATTGCTACAGCGATCAACCTGATTATTGCGCAGCGACTGGCAC
GTAAGCTGTGTAGCCACTGCAAAAAAGAACTGGATATTCCTCGCGAGACACTGATTCAGGAAGGCTTTCCAGAAGCCAAA
ATCGGCACTTTTAAGGTATACGGCCCGGTGGGCTGTGAGCACTGCAACGGGGGTTACCGAGGCAGGGTGGGCATTTACGA
AGTGGTCAAGAAAACACCGGAACTGGAACGCATCATCATGGAAGAAGGCAACTCCCTGGAGATCTCCAGACAGATGCGCA
AGGACGGTTTCAATGACCTGCGAACCTCAGGCCTGTCAAAAGCTATGCAGGGCATTACCAGCCTTGAAGAAGTCAACCGT
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
  AlphaFold DB Q4ZYB6

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

58.201

100

0.585
  pilB Acinetobacter baylyi ADP1

56.184

100

0.564
  pilB Legionella pneumophila strain ERS1305867

55.36

100

0.559
  pilB Vibrio cholerae strain A1552

51.068

99.645

0.509
  pilB Vibrio parahaemolyticus RIMD 2210633

50.626

99.113

0.502
  pilB Vibrio campbellii strain DS40M4

49.291

100

0.493
  pilF Neisseria gonorrhoeae MS11

48.307

99.468

0.481
  pilF Thermus thermophilus HB27

38.693

100

0.388
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.089

93.44

0.365

Multiple sequence alignment