Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   WPAWT_RS23445 Genome accession   NZ_CP049161
Coordinates   5084285..5085157 (+) Length   290 a.a.
NCBI ID   WP_016562340.1    Uniprot ID   -
Organism   Pseudomonas aeruginosa strain MS14403     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 5081358..5091765 5084285..5085157 within 0


Gene organization within MGE regions


Location: 5081358..5091765
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WPAWT_RS23435 (WPAWT_04680) pilB 5081358..5083061 (+) 1704 WP_003116249.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WPAWT_RS23440 (WPAWT_04681) pilC 5083065..5084282 (+) 1218 WP_003116250.1 type II secretion system F family protein Machinery gene
  WPAWT_RS23445 (WPAWT_04682) pilD 5084285..5085157 (+) 873 WP_016562340.1 type IV prepilin peptidase/methyltransferase PilD Machinery gene
  WPAWT_RS23450 (WPAWT_04683) coaE 5085154..5085765 (+) 612 WP_003094654.1 dephospho-CoA kinase -
  WPAWT_RS23455 (WPAWT_04684) yacG 5085762..5085962 (+) 201 WP_003094656.1 DNA gyrase inhibitor YacG -
  WPAWT_RS23460 (WPAWT_04685) - 5085999..5086208 (-) 210 WP_003094660.1 hypothetical protein -
  WPAWT_RS23465 (WPAWT_04686) - 5086314..5087003 (-) 690 WP_003094662.1 energy-coupling factor ABC transporter permease -
  WPAWT_RS23470 (WPAWT_04687) - 5087000..5087470 (-) 471 WP_003094664.1 hypothetical protein -
  WPAWT_RS23475 (WPAWT_04688) - 5087467..5087892 (-) 426 WP_016562341.1 GNAT family N-acetyltransferase -
  WPAWT_RS23480 (WPAWT_04689) - 5088025..5088654 (+) 630 WP_003094668.1 DUF1780 domain-containing protein -
  WPAWT_RS23485 (WPAWT_04690) - 5088651..5089100 (+) 450 WP_003094670.1 MOSC domain-containing protein -
  WPAWT_RS23490 (WPAWT_04691) - 5089126..5089296 (+) 171 WP_003094672.1 DUF3094 family protein -
  WPAWT_RS23495 (WPAWT_04692) - 5089360..5090667 (+) 1308 WP_171978677.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31843.83 Da        Isoelectric Point: 7.3454

>NTDB_id=425060 WPAWT_RS23445 WP_016562340.1 5084285..5085157(+) (pilD) [Pseudomonas aeruginosa strain MS14403]
MELLDYLASHPLAFVLCAILLGLLVGSFLNVVVHRLPKMMERNWKAEAREALGLEPEPKQATYNLVLPNSACPRCGHEIR
PWENIPLASYLALGGKCSSCKAAIGKRYPLVELATALLSGYVAWHFGFTWQAGAMLLLTWGLLAMSLIDADHQLLPDVLV
LPLLWLGLIANHFGLFASLDDALFGAVFGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AILGVIMLRLRNAESGTPIPFGPYLAIAGWIALLWGDQITRTYLQFAGFK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=425060 WPAWT_RS23445 WP_016562340.1 5084285..5085157(+) (pilD) [Pseudomonas aeruginosa strain MS14403]
ATGGAACTCCTCGACTACCTGGCCAGCCATCCGCTGGCCTTTGTCTTGTGCGCCATCCTCCTCGGCCTGCTGGTCGGCAG
CTTCCTCAACGTCGTCGTGCATCGCCTGCCGAAGATGATGGAGCGCAACTGGAAGGCCGAGGCCCGCGAAGCGCTCGGGC
TGGAGCCGGAACCCAAGCAGGCGACCTACAACCTGGTGCTGCCGAATTCGGCGTGCCCGCGCTGCGGCCACGAGATCCGC
CCCTGGGAAAACATCCCGCTGGCCAGCTACCTGGCGCTGGGCGGCAAGTGTTCGTCCTGCAAGGCCGCCATCGGCAAACG
CTACCCCCTGGTGGAACTGGCCACCGCGCTACTTTCCGGCTACGTCGCCTGGCATTTCGGCTTCACCTGGCAGGCGGGCG
CGATGCTCCTGCTGACCTGGGGCCTGCTGGCGATGAGCCTGATCGATGCCGATCACCAACTGCTGCCGGACGTGCTGGTG
CTGCCGCTGCTCTGGCTGGGCCTGATCGCCAACCATTTCGGCCTCTTCGCCAGCCTCGACGATGCGCTGTTCGGCGCGGT
GTTCGGCTACCTGAGCCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACCGGCAAGGAGGGCATGGGCTACGGCGACT
TCAAGCTGCTGGCCATGCTCGGTGCCTGGGGCGGCTGGCAGATCCTGCCGCTGACCATCCTGCTGTCGTCGCTGGTCGGG
GCGATCCTCGGAGTGATCATGCTGCGCCTGCGCAACGCCGAAAGCGGCACGCCGATCCCCTTCGGTCCCTATCTGGCGAT
TGCCGGGTGGATTGCTTTGCTCTGGGGTGATCAAATAACCCGGACCTATCTGCAATTCGCCGGATTCAAATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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
  pilD Vibrio cholerae strain A1552

55.017

99.655

0.548
  pilD Vibrio campbellii strain DS40M4

53.497

98.621

0.528
  pilD Acinetobacter nosocomialis M2

50.352

97.931

0.493
  pilD Acinetobacter baumannii D1279779

50.352

97.931

0.493
  pilD Neisseria gonorrhoeae MS11

48.921

95.862

0.469