Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   WOB24_RS15000 Genome accession   NZ_CP150891
Coordinates   3189915..3190781 (+) Length   288 a.a.
NCBI ID   WP_341303787.1    Uniprot ID   -
Organism   Pseudomonas sp. TMP25     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3184915..3195781
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WOB24_RS14975 (WOB24_14975) - 3185800..3186003 (-) 204 WP_341303782.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  WOB24_RS14980 (WOB24_14980) - 3186098..3186541 (-) 444 WP_341303783.1 hypothetical protein -
  WOB24_RS14985 (WOB24_14985) - 3186561..3186746 (-) 186 WP_341303784.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  WOB24_RS14990 (WOB24_14990) pilB 3186984..3188687 (+) 1704 WP_341303785.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WOB24_RS14995 (WOB24_14995) pilC 3188691..3189911 (+) 1221 WP_341303786.1 type II secretion system F family protein Machinery gene
  WOB24_RS15000 (WOB24_15000) pilD 3189915..3190781 (+) 867 WP_341303787.1 A24 family peptidase Machinery gene
  WOB24_RS15005 (WOB24_15005) coaE 3191034..3191648 (+) 615 WP_341303788.1 dephospho-CoA kinase -
  WOB24_RS15010 (WOB24_15010) yacG 3191645..3191845 (+) 201 WP_341303789.1 DNA gyrase inhibitor YacG -
  WOB24_RS15015 (WOB24_15015) - 3191907..3192122 (-) 216 WP_341303790.1 hypothetical protein -
  WOB24_RS15020 (WOB24_15020) - 3192227..3192916 (-) 690 WP_339080105.1 energy-coupling factor ABC transporter permease -
  WOB24_RS15025 (WOB24_15025) - 3193061..3193690 (+) 630 WP_341303791.1 DUF1780 domain-containing protein -
  WOB24_RS15030 (WOB24_15030) - 3193687..3194181 (+) 495 WP_341303792.1 MOSC domain-containing protein -
  WOB24_RS15035 (WOB24_15035) - 3194243..3194416 (+) 174 WP_339080108.1 DUF3094 family protein -
  WOB24_RS15040 (WOB24_15040) - 3194480..3195781 (+) 1302 WP_341303793.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31915.04 Da        Isoelectric Point: 6.4639

>NTDB_id=973532 WOB24_RS15000 WP_341303787.1 3189915..3190781(+) (pilD) [Pseudomonas sp. TMP25]
MMLEFLAGNLPAFICVCLVLGLLIGSFLNVVVYRLPKMMQRDWREQAREILELPAETQPETFNLVLPNSQCPHCAHEIKP
WENIPVISYLFLRGKCASCKAPISLRYPLVELTCGVLSAYIAWHFGFTWQAGAMLVLTWGLLAMSLIDIDHQLLPDSLVL
PLLWLGLIANSSGLFISLDDALWGAIAGYLSLWSVYWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSLVGA
VLGLIMLRLRNAKTSTPIPFGPYLAIAGWIALLWGEQITSSYLQIAGF

Nucleotide


Download         Length: 867 bp        

>NTDB_id=973532 WOB24_RS15000 WP_341303787.1 3189915..3190781(+) (pilD) [Pseudomonas sp. TMP25]
ATGATGCTTGAATTTTTAGCCGGCAACTTGCCGGCTTTTATTTGTGTATGCCTCGTACTGGGTCTGCTTATCGGTAGTTT
TCTTAATGTTGTGGTGTATCGCCTGCCGAAAATGATGCAGCGCGATTGGCGCGAGCAGGCCCGCGAGATATTGGAATTAC
CTGCCGAAACCCAGCCAGAAACATTCAACTTAGTACTGCCTAACTCGCAATGCCCACACTGCGCCCATGAAATAAAGCCG
TGGGAAAATATCCCGGTTATCAGTTATCTGTTTTTGCGTGGCAAATGCGCCAGCTGCAAGGCGCCGATCAGCCTGCGTTA
CCCGCTGGTTGAGCTGACCTGCGGTGTGCTCTCGGCTTATATCGCCTGGCATTTCGGTTTTACCTGGCAGGCCGGCGCGA
TGCTGGTGCTGACCTGGGGCTTACTGGCGATGAGCCTGATCGATATTGACCATCAATTGCTGCCGGATTCGCTGGTATTG
CCACTGCTGTGGCTGGGTCTGATTGCCAACAGCTCCGGCTTGTTTATCAGTCTGGATGATGCACTTTGGGGCGCGATTGC
CGGCTACCTAAGCCTGTGGTCGGTGTACTGGTTGTTTAAGCTGGTCACCGGCAAGGAAGGCATGGGTTATGGCGATTTCA
AGCTGCTGGCCATGCTCGGCGCGTGGGGCGGTTGGCAGGTTTTGCCGCTGACCATTCTGCTGTCATCACTGGTGGGCGCA
GTACTCGGCCTGATTATGCTGCGGTTGCGCAACGCCAAAACCAGCACACCGATCCCCTTCGGCCCTTACCTAGCGATTGC
CGGCTGGATTGCCCTGCTCTGGGGCGAGCAGATCACCTCCAGCTACCTGCAGATTGCCGGTTTCTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(19-125)


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

54.945

94.792

0.521
  pilD Vibrio campbellii strain DS40M4

54.579

94.792

0.517
  pilD Acinetobacter baumannii D1279779

51.049

99.306

0.507
  pilD Acinetobacter nosocomialis M2

50.35

99.306

0.5
  pilD Neisseria gonorrhoeae MS11

50.558

93.403

0.472

Multiple sequence alignment