Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   RBH02_RS23890 Genome accession   NZ_CP132993
Coordinates   5151575..5152447 (+) Length   290 a.a.
NCBI ID   WP_003107301.1    Uniprot ID   -
Organism   Pseudomonas aeruginosa strain SRMPA3860     
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 5148888..5159055 5151575..5152447 within 0


Gene organization within MGE regions


Location: 5148888..5159055
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RBH02_RS23880 (RBH02_23885) - 5150048..5150353 (+) 306 Protein_4727 type IV-A pilus assembly ATPase PilB -
  RBH02_RS23885 (RBH02_23890) pilC 5150357..5151574 (+) 1218 WP_003161763.1 type II secretion system F family protein Machinery gene
  RBH02_RS23890 (RBH02_23895) pilD 5151575..5152447 (+) 873 WP_003107301.1 type IV prepilin peptidase/methyltransferase PilD Machinery gene
  RBH02_RS23895 (RBH02_23900) coaE 5152444..5153055 (+) 612 WP_003112838.1 dephospho-CoA kinase -
  RBH02_RS23900 (RBH02_23905) yacG 5153052..5153252 (+) 201 WP_003094656.1 DNA gyrase inhibitor YacG -
  RBH02_RS23905 (RBH02_23910) - 5153289..5153498 (-) 210 WP_003094660.1 hypothetical protein -
  RBH02_RS23910 (RBH02_23915) - 5153604..5154293 (-) 690 WP_003094662.1 energy-coupling factor ABC transporter permease -
  RBH02_RS23915 (RBH02_23920) - 5154290..5154760 (-) 471 WP_003103866.1 hypothetical protein -
  RBH02_RS23920 (RBH02_23925) - 5154757..5155182 (-) 426 WP_003103865.1 GNAT family N-acetyltransferase -
  RBH02_RS23925 (RBH02_23930) - 5155315..5155944 (+) 630 WP_003094668.1 DUF1780 domain-containing protein -
  RBH02_RS23930 (RBH02_23935) - 5155941..5156390 (+) 450 WP_003094670.1 MOSC domain-containing protein -
  RBH02_RS23935 (RBH02_23940) - 5156416..5156586 (+) 171 WP_003094672.1 DUF3094 family protein -
  RBH02_RS23940 (RBH02_23945) - 5156650..5157957 (+) 1308 WP_003112837.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31873.90 Da        Isoelectric Point: 7.7068

>NTDB_id=871168 RBH02_RS23890 WP_003107301.1 5151575..5152447(+) (pilD) [Pseudomonas aeruginosa strain SRMPA3860]
MTLLDYLASHPLAFVLCTILLGLLVGSFLNVVVHRLPKMMERNWKAEAREALGLEPEPKQATYNLVLPNSACPRCGHEIR
PWENIPLVSYLALGGKCSSCKAAIGKRYPLVELATALLSGYVAWHFGFTWQAGAMLLLTWGLLAMSLIDADHQLLPDVLV
LPLLWLGLIANHFGLFASLDDALFGAVFGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AILGVIMLRLRNAESGTPIPFGPYLAIAGWIALLWGDQITRTYLQFAGFK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=871168 RBH02_RS23890 WP_003107301.1 5151575..5152447(+) (pilD) [Pseudomonas aeruginosa strain SRMPA3860]
ATGACCCTCCTCGACTACCTGGCCAGCCATCCGCTGGCCTTTGTCTTGTGCACCATCCTCCTCGGCCTGCTGGTCGGCAG
CTTCCTCAACGTCGTCGTGCATCGCCTGCCGAAGATGATGGAGCGCAACTGGAAGGCCGAGGCCCGCGAAGCGCTCGGGC
TGGAGCCGGAACCCAAGCAGGCGACCTACAACCTGGTGCTGCCGAATTCGGCGTGCCCGCGCTGCGGCCACGAGATCCGC
CCCTGGGAAAACATCCCGCTGGTCAGCTACCTGGCGCTGGGCGGCAAGTGCTCGTCCTGCAAGGCCGCCATCGGCAAACG
CTACCCCCTGGTGGAACTGGCCACCGCGCTGCTTTCCGGCTACGTCGCCTGGCATTTCGGCTTCACCTGGCAGGCGGGCG
CGATGCTCCTGCTGACCTGGGGTCTGCTGGCGATGAGCCTGATCGATGCCGATCACCAACTGCTGCCGGACGTGCTGGTG
CTGCCGCTGCTCTGGCTGGGCCTGATCGCCAACCATTTCGGCCTCTTCGCCAGCCTCGACGATGCGCTGTTCGGCGCGGT
GTTCGGCTACCTGAGCCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACCGGCAAGGAGGGCATGGGCTACGGCGACT
TCAAGCTGCTGGCCATGCTCGGTGCCTGGGGCGGCTGGCAGATCCTGCCGCTGACCATCCTGCTGTCGTCGCTGGTCGGG
GCGATCCTCGGGGTGATCATGCTGCGCCTGCGCAACGCCGAAAGCGGCACGCCGATCCCTTTCGGTCCCTATCTGGCGAT
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

55.357

96.552

0.534
  pilD Vibrio campbellii strain DS40M4

52.65

97.586

0.514
  pilD Acinetobacter nosocomialis M2

50.53

97.586

0.493
  pilD Acinetobacter baumannii D1279779

50.53

97.586

0.493
  pilD Neisseria gonorrhoeae MS11

48.921

95.862

0.469