Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   DKY63_RS15600 Genome accession   NZ_CP029693
Coordinates   3355529..3357223 (+) Length   564 a.a.
NCBI ID   WP_110964920.1    Uniprot ID   -
Organism   Pseudomonas putida strain JBC17     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3350529..3362223
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DKY63_RS15580 (DKY63_15580) - 3350718..3353672 (+) 2955 WP_110964916.1 DUF748 domain-containing protein -
  DKY63_RS15585 (DKY63_15585) - 3353672..3353968 (+) 297 WP_110964917.1 DUF2845 domain-containing protein -
  DKY63_RS15590 (DKY63_15590) - 3354237..3354590 (-) 354 WP_110964918.1 BON domain-containing protein -
  DKY63_RS15595 (DKY63_15595) - 3354900..3355301 (-) 402 WP_110964919.1 pilin -
  DKY63_RS15600 (DKY63_15600) pilB 3355529..3357223 (+) 1695 WP_110964920.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DKY63_RS15605 (DKY63_15605) pilC 3357226..3358443 (+) 1218 WP_110964921.1 type II secretion system F family protein Machinery gene
  DKY63_RS15610 (DKY63_15610) pilD 3358445..3359317 (+) 873 WP_110964922.1 A24 family peptidase Machinery gene
  DKY63_RS15615 (DKY63_15615) coaE 3359314..3359937 (+) 624 WP_110964923.1 dephospho-CoA kinase -
  DKY63_RS15620 (DKY63_15620) yacG 3359934..3360137 (+) 204 WP_110964924.1 DNA gyrase inhibitor YacG -
  DKY63_RS15625 (DKY63_15625) - 3360168..3360857 (-) 690 WP_110964925.1 energy-coupling factor ABC transporter permease -
  DKY63_RS15630 (DKY63_15630) - 3361118..3361357 (+) 240 WP_110964926.1 DUF2790 domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62474.28 Da        Isoelectric Point: 6.2067

>NTDB_id=295372 DKY63_RS15600 WP_110964920.1 3355529..3357223(+) (pilB) [Pseudomonas putida strain JBC17]
MNDITLSGLAKQLVLAELLTDKSAQQASQQAHRNRISLVSYLVQNKLVKSRQVAEIASEHFGMALMDLNHLDRETQPKGL
VSEKLVRQHHALPLWRRGNKLFVGISDPTNHQAINDIQFSTGLSTEAILVEEDKLSDAIEKFFDSHGSGLEDIGDVDLEG
VDIETDDRQDAIVGQDADDAPVVRFVHKMLLDAIRSGSSDLHFEPYEKIFRVRVRTDGILHEVAKPPIQLAGRIAARLKV
MASLDISERRKPQDGRIKMRLSKSRSIDFRVNTLPTLWGEKVVIRILDPSSAQMGIDALGYEPDQQALYMDALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNSKQGMDFAQALRSFLRQDPDVIMVGEIRDLET
AEIAIKAAQTGHLVLSTLHTNSAAQTLTRLHNMGIQGFNIATSVSLIIAQRLARKLCSHCRTTLDIPRETLIKEGFPEER
IGSFTIYGPVGCEHCNGGYKGRVGIYEVVKNTPDLQRLIMAEGNALQIDEQMRKDGFNDLRTSGLHKAMQGITSLEEINR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=295372 DKY63_RS15600 WP_110964920.1 3355529..3357223(+) (pilB) [Pseudomonas putida strain JBC17]
ATGAATGACATCACCCTCAGCGGTCTGGCCAAACAACTGGTCCTGGCCGAGCTGCTCACTGACAAAAGCGCGCAACAGGC
CTCGCAACAAGCCCACCGCAACCGCATCTCGCTGGTCAGTTATCTGGTGCAGAACAAACTGGTGAAAAGTCGCCAGGTCG
CCGAGATCGCCTCGGAACACTTCGGCATGGCCCTGATGGATCTCAACCACCTCGACAGGGAAACCCAGCCCAAGGGACTG
GTCAGTGAAAAGCTGGTGCGCCAGCATCACGCCCTGCCGCTCTGGCGTCGTGGCAACAAGTTGTTCGTGGGGATTTCCGA
CCCGACCAATCACCAGGCCATCAACGACATTCAGTTCAGTACGGGCCTGAGTACCGAAGCGATCCTGGTCGAAGAAGACA
AGCTGAGCGACGCCATCGAAAAATTCTTCGACAGCCATGGCAGCGGCCTGGAAGACATCGGCGACGTTGACCTCGAAGGC
GTCGATATCGAAACCGACGATAGGCAGGACGCCATCGTCGGCCAGGATGCCGATGACGCGCCGGTGGTGCGCTTCGTCCA
CAAGATGCTGCTCGACGCGATCAGGAGCGGCTCTTCCGACCTGCATTTCGAGCCCTACGAGAAAATCTTTCGCGTGCGTG
TGCGCACCGACGGCATCCTGCACGAAGTCGCCAAGCCACCGATCCAGCTGGCTGGGCGCATCGCGGCGCGGCTGAAGGTC
ATGGCCAGCCTCGACATCTCAGAACGTCGCAAGCCACAGGACGGGCGGATCAAGATGCGCCTGTCGAAAAGCCGGTCGAT
CGATTTTCGGGTCAACACACTGCCCACCCTGTGGGGCGAGAAAGTGGTGATCCGGATCCTCGATCCGTCCAGCGCGCAAA
TGGGTATCGACGCCCTCGGTTACGAGCCCGACCAGCAAGCGTTGTACATGGACGCGCTCAAGCAGCCCCAGGGGATGATT
CTGGTGACAGGCCCCACCGGTTCCGGCAAGACCGTGTCGCTCTACACCGGGCTGAACATTCTCAATACCGTCGACATCAA
CATCTCCACCGCCGAAGACCCGGTGGAGATCAATATGGAAGGCATCAACCAGGTCAACGTCAATTCGAAACAAGGCATGG
ATTTCGCCCAGGCGCTGCGTTCGTTCCTGCGTCAGGACCCGGACGTGATCATGGTCGGCGAAATCCGCGATCTGGAAACC
GCTGAAATCGCCATCAAGGCGGCCCAGACCGGGCACCTGGTGCTGTCGACCCTGCACACCAACAGCGCCGCGCAAACCCT
CACCCGCCTGCACAACATGGGCATCCAGGGTTTCAACATCGCCACTTCCGTCAGCCTGATCATCGCCCAGCGCCTGGCGC
GCAAACTGTGCAGCCATTGCCGGACAACCCTCGACATCCCCCGCGAGACATTGATCAAAGAGGGCTTCCCCGAGGAACGC
ATCGGCTCCTTCACGATCTATGGGCCGGTGGGTTGCGAACACTGCAACGGCGGTTACAAGGGGCGCGTGGGGATTTATGA
AGTGGTGAAGAACACGCCGGACTTGCAGCGCCTGATCATGGCCGAAGGTAACGCACTGCAAATCGATGAGCAGATGCGCA
AGGACGGCTTCAATGACTTGCGCACCTCGGGCTTGCACAAAGCCATGCAAGGCATCACCAGCCTTGAGGAAATCAACCGG
GTCACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(42-146)

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

56.814

100

0.569
  pilB Acinetobacter baylyi ADP1

56.738

100

0.567
  pilB Legionella pneumophila strain ERS1305867

56.085

100

0.564
  pilB Vibrio cholerae strain A1552

50

99.291

0.496
  pilB Vibrio campbellii strain DS40M4

49.644

99.645

0.495
  pilB Vibrio parahaemolyticus RIMD 2210633

50.182

97.518

0.489
  pilF Neisseria gonorrhoeae MS11

48.485

99.468

0.482
  pilF Thermus thermophilus HB27

36.234

99.823

0.362

Multiple sequence alignment