Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PSYRB_RS04215 Genome accession   NZ_CP005969
Coordinates   943440..945134 (-) Length   564 a.a.
NCBI ID   WP_003406565.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. syringae B301D     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 938440..950134
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYRB_RS04180 (PsyrB_04225) - 938646..939179 (-) 534 WP_032654590.1 MOSC domain-containing protein -
  PSYRB_RS04185 (PsyrB_04230) - 939176..939805 (-) 630 WP_003345130.1 DUF1780 domain-containing protein -
  PSYRB_RS04190 (PsyrB_04235) - 939932..940393 (+) 462 WP_003406557.1 hypothetical protein -
  PSYRB_RS04195 (PsyrB_04240) yacG 940520..940729 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  PSYRB_RS04200 (PsyrB_04245) coaE 940726..941349 (-) 624 WP_032654586.1 dephospho-CoA kinase -
  PSYRB_RS04205 (PsyrB_04250) pilD 941346..942218 (-) 873 WP_003406561.1 A24 family peptidase Machinery gene
  PSYRB_RS04210 (PsyrB_04255) pilC 942220..943437 (-) 1218 WP_032654583.1 type II secretion system F family protein Machinery gene
  PSYRB_RS04215 (PsyrB_04260) pilB 943440..945134 (-) 1695 WP_003406565.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSYRB_RS04220 (PsyrB_04265) - 945358..945786 (+) 429 WP_003406568.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  PSYRB_RS30010 - 946087..946194 (-) 108 Protein_834 transcriptional regulator -
  PSYRB_RS29650 (PsyrB_04270) - 946360..946776 (+) 417 WP_225650732.1 glutathione binding-like protein -
  PSYRB_RS04230 (PsyrB_04275) - 946873..947418 (-) 546 WP_003317774.1 DUF1523 family protein -
  PSYRB_RS04235 (PsyrB_04280) - 947538..948536 (+) 999 WP_003406578.1 ATP-grasp domain-containing protein -
  PSYRB_RS04240 (PsyrB_04285) - 948591..949730 (+) 1140 WP_032654580.1 trypsin-like peptidase domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62539.73 Da        Isoelectric Point: 6.3339

>NTDB_id=112666 PSYRB_RS04215 WP_003406565.1 943440..945134(-) (pilB) [Pseudomonas syringae pv. syringae B301D]
MTDAVLTGLAKQLVLAELLTETVAQQAYQHARRDKVSLVSYLVQSKLVKSLTLAEMASEQFGVPFMDLASLDRESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTTAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETSLSTQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALRQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIKEGFPEAE
IGKFKVYGPVGCEHCNGGYRGRVGIYEVVKKTSELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=112666 PSYRB_RS04215 WP_003406565.1 943440..945134(-) (pilB) [Pseudomonas syringae pv. syringae B301D]
ATGACTGATGCTGTCCTCACTGGCTTGGCCAAGCAACTGGTCCTCGCCGAGCTGCTTACCGAAACTGTTGCGCAGCAGGC
TTATCAGCATGCGCGTCGCGACAAGGTTTCGTTGGTGAGCTATCTGGTTCAGAGCAAGCTGGTCAAAAGTCTAACGCTGG
CGGAGATGGCTTCCGAGCAGTTTGGCGTGCCGTTTATGGATCTGGCCAGTCTGGACAGGGAAAGCCAGCCTAAAGGGCTG
GTCAGTGAAAAGCTGGTTCGACAGCATCATGCGCTGCCGCTGTGGCGACGCGGCAATAAACTGTTTATAGGGATTTCGGA
CCCTACGAATCATCAGGCGGTGACTGATATTCAGTTCAGCACAGGTCTGAACACCGAAGCGATTCTGGTCGAAGATGACA
AGCTGACTACCGCGATAGATCGGTTCTTTGACAGTGATAGCGGTCTGGGCAACCTGGAAGACGTGGATCTGGGTCTGGAT
ATCGAACCGGCTGATGGCAAGGAAACGTCCCTCTCTACGCAGAATGACGCAGACGATGCGCCGGTGGTGCGCTTCGTCAA
CAAAATGTTGATGGACGCTATCCGACTAGGATCGTCCGACCTGCATTTTGAACCTTACGAAAAGATCTTCCGAGTGCGGT
TGCGTACCGATGGCATCTTGCATGAAGTTGCCAGACCACCAATTCATTTGGCAAACCGTATTGCAGCGCGCTTGAAAGTA
ATGGCAAGCCTCGATATCTCGGAAAGGCGCAAACCGCAGGACGGACGCGTCAAGTTACGTGTGTCCAAAACAAAAGCCAT
CGATTTTCGTATGAACACTTTGCCTACGCTGTGGGGCGAGAAGATCGTGATGCGGATCCTCGACCCGACCAGCGCTCAGA
TGGGCATTGATGCTCTGGGCTACGAGCCAGAACAAAAGGCACTTTATCTGGAGGCGCTGAGGCAGCCGCAAGGTATGATT
CTTGTGACCGGCCCGACAGGCTCCGGCAAGACAGTGTCCCTGTATACTGGCCTGAATATCCTCAATACGGTTGACATCAA
TATTTCCACAGCTGAGGACCCGGTCGAAATCAACCTGGAAGGTATCAATCAAGTCAACGTCAACCCGCGTCAAGGATTGG
ATTTTTCTCAGGCATTGCGCGCATTTCTGCGTCAAGATCCCGACGTAATAATGGTTGGCGAGATCCGGGACCTGGAAACT
GCCGAAATTGCCATCAAGGCTTCGCAAACCGGCCACATGGTGCTGTCGACATTGCACACCAATAGCGCTGCAGAAACCCT
GACCCGCCTGCATCACATGGGCGTTGCAGCATTCAATATTGCAACAGCGATCAACCTCATTATTGCGCAACGACTTGCAA
GAAAGTTATGTAGCCATTGCAAGAAAGAGCTCGATATTCCTCGTGAGACACTGATTAAGGAAGGCTTCCCAGAGGCGGAA
ATTGGCAAGTTCAAGGTATATGGCCCTGTAGGTTGCGAGCACTGCAATGGTGGCTACAGGGGAAGGGTAGGTATTTACGA
AGTAGTCAAAAAAACATCGGAGCTTGAGCGTATCATCATGGAAGAGGGAAACTCACTGGAGATTTCCAGGCAAATGCGCA
AGGATGGCTTCAATGACCTGCGCACTTCAGGTTTGTCAAAAGCAATGCAGGGCATCACCAGCTTGGAAGAAGTCAACCGC
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

57.597

100

0.578
  pilB Acinetobacter baylyi ADP1

56.184

100

0.564
  pilB Legionella pneumophila strain ERS1305867

55.221

100

0.553
  pilB Vibrio cholerae strain A1552

50.534

99.645

0.504
  pilB Vibrio campbellii strain DS40M4

49.558

100

0.496
  pilB Vibrio parahaemolyticus RIMD 2210633

50.36

98.582

0.496
  pilF Neisseria gonorrhoeae MS11

48.577

99.645

0.484
  pilF Thermus thermophilus HB27

39.223

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.163

93.262

0.365

Multiple sequence alignment