Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   DLD99_RS24535 Genome accession   NZ_CP029608
Coordinates   5378393..5380093 (+) Length   566 a.a.
NCBI ID   WP_114885595.1    Uniprot ID   A0A345RW42
Organism   Pseudomonas kribbensis strain 46-2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5373393..5385093
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DLD99_RS24515 (DLD99_24510) - 5373650..5376601 (+) 2952 WP_114885589.1 DUF748 domain-containing protein -
  DLD99_RS24520 (DLD99_24515) - 5376601..5376897 (+) 297 WP_114885591.1 DUF2845 domain-containing protein -
  DLD99_RS24525 (DLD99_24520) - 5377067..5377423 (-) 357 WP_065261581.1 BON domain-containing protein -
  DLD99_RS24530 (DLD99_24525) - 5377723..5378166 (-) 444 WP_114885593.1 pilin -
  DLD99_RS24535 (DLD99_24530) pilB 5378393..5380093 (+) 1701 WP_114885595.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DLD99_RS24540 (DLD99_24535) pilC 5380096..5381313 (+) 1218 WP_114885597.1 type II secretion system F family protein Machinery gene
  DLD99_RS24545 (DLD99_24540) pilD 5381315..5382187 (+) 873 WP_085712165.1 A24 family peptidase Machinery gene
  DLD99_RS24550 (DLD99_24545) coaE 5382184..5382807 (+) 624 WP_114885599.1 dephospho-CoA kinase -
  DLD99_RS24555 (DLD99_24550) yacG 5382804..5383004 (+) 201 WP_085712167.1 DNA gyrase inhibitor YacG -
  DLD99_RS24560 (DLD99_24555) - 5383010..5383225 (-) 216 WP_096820888.1 hypothetical protein -
  DLD99_RS24565 (DLD99_24560) - 5383291..5383980 (-) 690 WP_085712168.1 energy-coupling factor ABC transporter permease -
  DLD99_RS24570 (DLD99_24565) - 5384114..5384740 (+) 627 WP_065261573.1 DUF1780 domain-containing protein -
  DLD99_RS24575 (DLD99_24570) - 5384885..5385058 (+) 174 WP_065261571.1 DUF3094 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62684.69 Da        Isoelectric Point: 5.5555

>NTDB_id=294073 DLD99_RS24535 WP_114885595.1 5378393..5380093(+) (pilB) [Pseudomonas kribbensis strain 46-2]
MNDIALSGLAKQLVQAELLTEKSAQQAWQQAQRNRLSLVSYLVQNKLVKSWQVAEIASEHFGMAFLDLNCLDKETQPKGL
VSEKLVRQHHALPLWRRGNKLFVGISDPSNHQAINDIQFSTGLTTEAILVEDDKLTDAIEKFFDTHASGLEDMADVDLDG
LDVESVDDSKQDAIGGMDADDAPVVRFVHKMLLDAIKSGSSDLHFEPYEKNYRVRVRTDGILREVAKPPIQLAGRIAARL
KVMASLDISERRKPQDGRLKMRLSKTKSIDFRVNTLPTLWGEKVVIRILDPSSAQIGIDALGYEPEQKELYLAALKQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLHNMGIPGFNIATSVSLIIAQRLARKLCSHCKKPIEIPRETLLKEGFPE
ERIGSFTIYEPVGCDQCNGGYKGRTGIYEVVRNTPELQRLIMAEGNSLEIDSQMRLDGFNDLRTSGLIKAMQGITSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=294073 DLD99_RS24535 WP_114885595.1 5378393..5380093(+) (pilB) [Pseudomonas kribbensis strain 46-2]
ATGAATGACATCGCTCTGAGCGGTCTGGCCAAGCAATTGGTCCAGGCCGAACTGCTCACGGAAAAAAGCGCCCAGCAAGC
CTGGCAGCAAGCCCAGCGCAATCGCCTGTCGCTGGTCAGCTATCTGGTACAGAACAAACTGGTAAAAAGTTGGCAGGTCG
CCGAAATCGCCTCGGAGCATTTCGGCATGGCGTTCCTCGACCTCAACTGCCTGGACAAGGAAACCCAGCCCAAGGGCCTG
GTCAGCGAAAAACTGGTTCGCCAGCACCATGCCCTGCCCCTGTGGCGACGCGGCAATAAACTGTTCGTGGGGATCTCCGA
CCCGAGCAATCACCAGGCGATCAACGACATTCAGTTCAGCACCGGGCTGACCACCGAAGCCATTCTGGTGGAGGACGACA
AGCTCACCGATGCCATCGAGAAATTCTTCGACACCCACGCCTCCGGGCTGGAAGACATGGCCGATGTCGACCTAGACGGG
CTGGACGTCGAATCCGTCGATGACAGCAAACAGGACGCCATCGGTGGAATGGACGCCGACGACGCGCCGGTGGTGCGCTT
CGTCCACAAGATGCTGCTGGATGCGATCAAGAGCGGCTCTTCCGACCTGCACTTCGAGCCCTACGAAAAAAACTACCGGG
TGCGGGTGCGTACCGACGGCATCCTGCGTGAGGTGGCCAAACCGCCGATTCAACTGGCCGGGCGCATCGCCGCCCGGCTG
AAGGTCATGGCCAGCCTCGACATCTCGGAACGCCGCAAACCCCAGGACGGGCGTCTGAAAATGCGCCTGTCGAAAACCAA
GTCGATCGACTTCCGGGTCAACACCCTGCCGACGCTGTGGGGCGAGAAAGTGGTGATCCGGATTCTCGACCCGTCCAGCG
CGCAGATCGGCATCGACGCCCTCGGCTACGAGCCGGAGCAGAAAGAGCTGTACCTGGCCGCCCTGAAACAGCCGCAAGGC
ATGATCCTGGTCACCGGCCCCACCGGCTCCGGCAAGACCGTTTCGCTGTACACCGGACTGAACATCCTCAATACCGTCGA
CATCAACATCTCCACCGCCGAAGACCCGGTGGAGATCAACATGGAAGGCATCAACCAGGTCAACGTCAACCCGAAGCAGG
GGCTGGATTTCGCCCAGGCCCTGCGCTCGTTCCTGCGTCAGGACCCGGACGTGATCATGGTCGGTGAGATACGCGACCTC
GAGACAGCGGAGATTGCGATCAAGGCTGCACAGACCGGTCACCTTGTACTGTCCACGCTGCACACCAACAGCGCGGCGGA
AACGTTGACCCGCTTGCACAACATGGGCATTCCAGGCTTCAACATCGCCACCTCGGTCAGCCTGATCATCGCCCAGCGAC
TGGCGCGAAAACTCTGCAGCCACTGCAAGAAGCCCATCGAAATTCCCCGCGAAACCCTGCTCAAGGAAGGCTTTCCCGAG
GAACGCATCGGCAGTTTCACGATCTATGAGCCCGTCGGTTGCGATCAATGCAACGGCGGCTACAAGGGCCGCACCGGCAT
CTATGAAGTGGTCAGGAACACGCCCGAACTGCAACGGCTGATCATGGCCGAGGGCAACTCACTGGAAATCGACAGCCAGA
TGCGCCTGGACGGCTTCAACGACCTGCGCACCTCGGGACTGATCAAGGCCATGCAAGGCATCACCAGCCTTGAAGAAATC
AACCGGGTTACCAAGGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(42-147)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A345RW42

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

58.053

99.823

0.58
  pilB Acinetobacter baumannii D1279779

57.624

99.647

0.574
  pilB Legionella pneumophila strain ERS1305867

56.184

100

0.562
  pilB Vibrio cholerae strain A1552

51.15

99.823

0.511
  pilB Vibrio parahaemolyticus RIMD 2210633

50.089

99.117

0.496
  pilF Neisseria gonorrhoeae MS11

49.911

99.47

0.496
  pilB Vibrio campbellii strain DS40M4

49.123

100

0.495
  pilF Thermus thermophilus HB27

36.738

98.587

0.362
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.491

93.64

0.36

Multiple sequence alignment