Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PDR5_RS24505 Genome accession   NZ_CP011566
Coordinates   5457588..5459288 (+) Length   566 a.a.
NCBI ID   WP_064599487.1    Uniprot ID   -
Organism   Pseudomonas sp. DR 5-09     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5452588..5464288
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PDR5_RS24485 (PDR5_49280) - 5452856..5455807 (+) 2952 WP_064599483.1 DUF748 domain-containing protein -
  PDR5_RS24490 (PDR5_49290) - 5455807..5456103 (+) 297 WP_064599485.1 DUF2845 domain-containing protein -
  PDR5_RS24495 (PDR5_49300) - 5456271..5456627 (-) 357 WP_011335977.1 BON domain-containing protein -
  PDR5_RS24500 (PDR5_49310) pilA 5456924..5457361 (-) 438 WP_064382076.1 pilin Machinery gene
  PDR5_RS24505 (PDR5_49320) pilB 5457588..5459288 (+) 1701 WP_064599487.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PDR5_RS24510 (PDR5_49330) pilC 5459291..5460508 (+) 1218 WP_064599489.1 type II secretion system F family protein Machinery gene
  PDR5_RS24515 (PDR5_49340) pilD 5460510..5461382 (+) 873 WP_064599491.1 A24 family peptidase Machinery gene
  PDR5_RS24520 (PDR5_49350) coaE 5461379..5462002 (+) 624 WP_064599493.1 dephospho-CoA kinase -
  PDR5_RS24525 (PDR5_49360) yacG 5461999..5462199 (+) 201 WP_064599495.1 DNA gyrase inhibitor YacG -
  PDR5_RS24530 (PDR5_49370) - 5462205..5462420 (-) 216 WP_007959584.1 hypothetical protein -
  PDR5_RS24535 (PDR5_49380) - 5462486..5463175 (-) 690 WP_064599497.1 energy-coupling factor ABC transporter permease -
  PDR5_RS24540 (PDR5_49390) - 5463309..5463935 (+) 627 WP_007959580.1 DUF1780 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62728.75 Da        Isoelectric Point: 6.0801

>NTDB_id=146912 PDR5_RS24505 WP_064599487.1 5457588..5459288(+) (pilB) [Pseudomonas sp. DR 5-09]
MNDIALSGLAKQLVQAELLTEKSAQQAWQQAQRNRLSLVSYLVQNKLVKSWQVAEIASEHFGMAFLDLNCLDKETQPKGL
VSEKLVRQHHALPLWRRGNKLFVGISDPSNHQAINDIQFSTGLSTEAILVEDDKLTDAIEKFFDTHATGLEEMADVDLDG
LDIESVDDSKQDTLGGIDADDAPVVRFVHKMLLDAIKSGSSDLHFEPYEKNYRVRVRTDGILREVAKPPIQLAGRIAARL
KVMASLDISERRKPQDGRIKMRLSKSKSIDFRVNTLPTLWGEKVVIRILDPSSAQIGIDALGYEPEQKDLYMAALKQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPRQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLHNMGIPGFNIATSVSLIIAQRLARKLCTHCKKPIEIPRETLIKEGFPE
ERIGHFTIYEPAGCDHCNGGYKGRVGIYEVVKNTPDLQRLIMAEGNSLEIDTQMRRDGFNDLRTSGLIKAMQGITSLGEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=146912 PDR5_RS24505 WP_064599487.1 5457588..5459288(+) (pilB) [Pseudomonas sp. DR 5-09]
ATGAATGACATCGCTCTGAGCGGTCTGGCCAAGCAACTGGTCCAGGCCGAATTGCTCACGGAAAAGAGTGCCCAGCAAGC
CTGGCAACAGGCGCAGCGCAATCGCCTGTCGCTGGTCAGTTACCTGGTGCAGAACAAACTGGTGAAGAGCTGGCAGGTCG
CGGAAATTGCCTCGGAGCATTTCGGCATGGCATTTCTCGACCTCAACTGCCTCGACAAGGAAACCCAGCCCAAAGGCCTG
GTCAGCGAAAAACTGGTGCGCCAGCACCACGCCCTGCCCCTCTGGCGACGCGGCAACAAACTGTTCGTGGGGATTTCCGA
CCCGAGTAATCATCAGGCGATCAACGACATTCAGTTCAGCACCGGACTGAGCACCGAAGCCATTCTGGTCGAGGACGACA
AGCTCACCGACGCCATCGAAAAATTCTTCGACACCCACGCCACCGGCCTGGAGGAGATGGCCGATGTCGACCTCGACGGG
CTGGACATCGAATCGGTCGACGACAGCAAGCAGGACACCCTCGGCGGAATCGACGCCGACGATGCCCCGGTGGTGCGCTT
CGTTCACAAGATGCTGCTGGACGCGATCAAGAGCGGCTCGTCCGACCTGCACTTCGAGCCTTACGAAAAGAACTACCGGG
TGCGGGTGCGCACCGACGGCATTCTGCGTGAGGTAGCCAAGCCGCCGATTCAACTGGCCGGGCGCATCGCTGCACGCTTG
AAGGTAATGGCCAGCCTCGACATTTCGGAGCGACGCAAACCCCAGGACGGGCGGATCAAGATGCGTCTGTCGAAAAGCAA
GTCGATCGATTTCCGGGTCAACACCCTGCCCACCCTCTGGGGGGAGAAAGTGGTGATTCGGATCCTTGACCCGTCCAGCG
CCCAGATCGGCATCGATGCCCTCGGCTACGAGCCGGAGCAGAAAGACCTGTACATGGCCGCCCTCAAACAGCCGCAAGGC
ATGATTCTGGTGACCGGCCCCACCGGCTCGGGCAAGACCGTGTCGCTGTACACCGGGCTGAACATCCTCAATACCGTCGA
CATCAATATCTCCACGGCCGAAGACCCGGTGGAGATCAATATGGAAGGCATCAACCAGGTCAACGTCAATCCCCGTCAGG
GACTGGACTTTGCCCAGGCCCTGCGCTCGTTCCTGCGTCAGGACCCGGACGTGATCATGGTCGGCGAAATCCGCGACCTC
GAAACCGCCGAAATCGCGATCAAGGCCGCCCAGACCGGTCACCTCGTGCTGTCCACCCTGCACACCAACAGCGCAGCAGA
GACCCTCACCCGCCTGCACAACATGGGCATCCCCGGCTTCAACATCGCGACCTCGGTGAGCCTGATCATTGCCCAGCGTC
TGGCGCGAAAACTCTGCACCCACTGCAAGAAACCCATCGAGATCCCACGCGAGACCCTGATCAAGGAAGGCTTCCCCGAG
GAACGCATCGGCCATTTCACGATCTATGAGCCCGCCGGTTGCGATCACTGCAACGGCGGGTACAAGGGTCGCGTGGGGAT
TTATGAAGTGGTAAAGAACACCCCCGATCTGCAACGGCTGATCATGGCCGAGGGCAACTCACTGGAAATCGATACCCAGA
TGCGCCGGGACGGCTTCAATGACCTGCGTACCTCGGGCCTGATCAAGGCCATGCAAGGCATTACCAGCCTTGGAGAAATC
AACCGGGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(42-146)


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 baylyi ADP1

57.848

100

0.58
  pilB Acinetobacter baumannii D1279779

57.496

100

0.576
  pilB Legionella pneumophila strain ERS1305867

55.83

100

0.558
  pilB Vibrio cholerae strain A1552

50.796

99.823

0.507
  pilB Vibrio parahaemolyticus RIMD 2210633

49.383

100

0.495
  pilB Vibrio campbellii strain DS40M4

48.438

100

0.493
  pilF Neisseria gonorrhoeae MS11

48.49

99.47

0.482
  pilF Thermus thermophilus HB27

36.559

98.587

0.36

Multiple sequence alignment