Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   R6238_RS09735 Genome accession   NZ_CP138212
Coordinates   2347347..2349041 (+) Length   564 a.a.
NCBI ID   WP_017278649.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. syringae strain pss-2019     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2342347..2354041
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R6238_RS09710 - 2342428..2343567 (-) 1140 WP_004409944.1 trypsin-like peptidase domain-containing protein -
  R6238_RS09715 - 2343622..2344620 (-) 999 WP_024960623.1 ATP-grasp domain-containing protein -
  R6238_RS09720 - 2344740..2345285 (+) 546 WP_004415097.1 DUF1523 family protein -
  R6238_RS09725 - 2345333..2345920 (-) 588 WP_024960622.1 hypothetical protein -
  R6238_RS09730 - 2346687..2347121 (-) 435 WP_024960621.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  R6238_RS09735 pilB 2347347..2349041 (+) 1695 WP_017278649.1 type IV-A pilus assembly ATPase PilB Machinery gene
  R6238_RS09740 pilC 2349044..2350261 (+) 1218 WP_024960620.1 type II secretion system F family protein Machinery gene
  R6238_RS09745 pilD 2350263..2351135 (+) 873 WP_024960619.1 A24 family peptidase Machinery gene
  R6238_RS09750 coaE 2351132..2351755 (+) 624 WP_004415092.1 dephospho-CoA kinase -
  R6238_RS09755 yacG 2351752..2351961 (+) 210 WP_024960618.1 DNA gyrase inhibitor YacG -
  R6238_RS09760 - 2352088..2352549 (-) 462 WP_024960617.1 hypothetical protein -
  R6238_RS09765 - 2352675..2353304 (+) 630 WP_003406555.1 DUF1780 domain-containing protein -
  R6238_RS09770 - 2353301..2353834 (+) 534 WP_003317783.1 MOSC domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62514.89 Da        Isoelectric Point: 6.4532

>NTDB_id=901435 R6238_RS09735 WP_017278649.1 2347347..2349041(+) (pilB) [Pseudomonas syringae pv. syringae strain pss-2019]
MTDAVLTGLAKQLVLAELLTEPVAQQAYQQARRDKISLVSYLVQHKLVKSLTLAELASDQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIAISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTVAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETTLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIKEGFPEAK
IGTFKIYGPMGCEHCNGGYRGRVGIYEVVKKTAELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=901435 R6238_RS09735 WP_017278649.1 2347347..2349041(+) (pilB) [Pseudomonas syringae pv. syringae strain pss-2019]
ATGACTGATGCTGTCCTCACTGGCTTGGCCAAACAATTGGTCCTAGCCGAGCTACTTACTGAACCTGTTGCGCAGCAAGC
GTACCAGCAGGCGCGCCGCGACAAGATTTCGTTGGTGAGCTATCTAGTTCAGCACAAACTGGTCAAAAGCCTGACGCTGG
CAGAATTGGCCTCCGATCAGTTCGGCGTGCCGTTCATGGACCTCGCCAGCTTGGACAAGGAAAGCCAGCCTAAGGGGCTG
GTCAGTGAAAAGCTGGTTAGACAGCATCATGCGCTGCCGCTTTGGCGACGCGGCAATAAGCTTTTCATTGCAATCTCGGA
CCCGACTAATCATCAGGCAGTGACAGATATTCAGTTCAGCACAGGTCTGAACACCGAAGCGATTCTGGTTGAAGATGACA
AGCTGACTGTTGCGATAGACCGGTTTTTTGACAGCGATAGCGGTCTGGGCAATCTGGAGGATGTCGATCTGGGCCTGGAT
ATCGAACCGGCGGATGGCAAGGAAACCACTCTAGCTACACAGAATGACGCTGACGATGCCCCGGTGGTGCGCTTCGTCAA
CAAGATGCTTATGGATGCCATCCGACTAGGATCATCCGACTTGCACTTCGAGCCCTATGAAAAGATCTTCCGCGTACGTT
TGCGTACCGATGGCATCCTGCACGAAGTCGCCAGACCGCCGATCCATTTGGCAAACCGTATTGCTGCGCGTCTGAAGGTC
ATGGCCAGCCTCGATATTTCGGAACGACGCAAACCGCAGGACGGAAGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCCAT
CGATTTTCGCATGAATACCTTGCCCACACTGTGGGGCGAAAAGATCGTGATGCGGATCCTCGACCCGACCAGCGCTCAGA
TGGGTATCGATGCGCTGGGCTATGAGCCAGAACAAAAGGCTTTGTATCTGGAGGCGTTGAAACAGCCGCAAGGCATGATT
CTTGTGACCGGCCCCACGGGTTCCGGCAAGACAGTTTCGCTGTATACGGGCCTGAATATTCTCAATACCGTGGACATCAA
CATATCCACAGCCGAAGACCCGGTAGAGATCAACCTGGAAGGTATCAATCAGGTCAACGTCAACCCGCGCCAAGGGTTGG
ACTTTTCTCAGGCACTGCGCGCCTTCCTGCGTCAAGATCCCGACGTAATCATGGTCGGCGAGATTCGCGACCTGGAAACC
GCCGAAATCGCTATTAAGGCGTCGCAAACCGGCCACATGGTGCTCTCAACTCTGCACACCAACAGCGCAGCAGAAACATT
GACTCGACTGCATCATATGGGCGTTGCAGCGTTCAACATTGCCACCGCAATAAACCTGATTATTGCGCAGCGACTGGCGC
GCAAGCTGTGTAGCCATTGCAAGAAAGAACTCGATATTCCTCGCGAGACGTTGATTAAAGAAGGCTTTCCAGAGGCGAAG
ATCGGTACGTTCAAGATCTATGGGCCGATGGGCTGCGAGCATTGCAATGGTGGTTATAGAGGCCGAGTCGGCATTTATGA
GGTGGTCAAGAAAACAGCGGAGCTGGAGCGCATTATCATGGAAGAAGGTAACTCACTTGAGATTTCCAGGCAGATGCGCA
AGGACGGCTTCAATGACCTGCGAACCTCGGGCCTGTCAAAAGCCATGCAGGGCATCACCAGCCTTGAAGAAGTCAACCGC
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

56.36

100

0.566
  pilB Legionella pneumophila strain ERS1305867

55.185

100

0.557
  pilB Vibrio cholerae strain A1552

50.712

99.645

0.505
  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

48.485

99.468

0.482
  pilF Thermus thermophilus HB27

39.046

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.469

93.44

0.369