Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AAEO81_RS26825 Genome accession   NZ_CP151650
Coordinates   5954254..5955126 (+) Length   290 a.a.
NCBI ID   WP_341960025.1    Uniprot ID   -
Organism   Pseudomonas sp. RC10     
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 5953034..5964703 5954254..5955126 within 0


Gene organization within MGE regions


Location: 5953034..5964703
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AAEO81_RS26820 (AAEO81_26820) pilC 5953034..5954251 (+) 1218 WP_341960024.1 type II secretion system F family protein Machinery gene
  AAEO81_RS26825 (AAEO81_26825) pilD 5954254..5955126 (+) 873 WP_341960025.1 A24 family peptidase Machinery gene
  AAEO81_RS26830 (AAEO81_26830) coaE 5955123..5955758 (+) 636 WP_341960027.1 dephospho-CoA kinase -
  AAEO81_RS26835 (AAEO81_26835) yacG 5955755..5955958 (+) 204 WP_166597108.1 DNA gyrase inhibitor YacG -
  AAEO81_RS26840 (AAEO81_26840) - 5956114..5956797 (-) 684 WP_341960031.1 energy-coupling factor ABC transporter permease -
  AAEO81_RS26845 (AAEO81_26845) - 5956909..5957553 (-) 645 WP_341960034.1 hydrolase -
  AAEO81_RS26850 (AAEO81_26850) - 5957709..5958608 (+) 900 WP_166597111.1 LysR family transcriptional regulator -
  AAEO81_RS26855 (AAEO81_26855) - 5958668..5959621 (-) 954 WP_341960035.1 2-hydroxyacid dehydrogenase -
  AAEO81_RS26860 (AAEO81_26860) - 5959654..5960418 (-) 765 WP_166597113.1 SDR family oxidoreductase -
  AAEO81_RS26865 (AAEO81_26865) - 5960460..5961161 (-) 702 WP_341964630.1 fumarylacetoacetate hydrolase family protein -
  AAEO81_RS26870 (AAEO81_26870) - 5961458..5962801 (-) 1344 WP_341960037.1 MFS transporter -
  AAEO81_RS26875 (AAEO81_26875) - 5963124..5964026 (+) 903 WP_341960039.1 AraC family transcriptional regulator -
  AAEO81_RS26880 (AAEO81_26880) - 5964146..5964703 (+) 558 WP_341960041.1 hypothetical protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31798.01 Da        Isoelectric Point: 7.9660

>NTDB_id=979525 AAEO81_RS26825 WP_341960025.1 5954254..5955126(+) (pilD) [Pseudomonas sp. RC10]
MSLVEIMASSPLAFAVCALILGLLVGSFLNVVVYRLPKMMLRDWKTQAREVLELPPEPTPETFNLLLPHSRCPHCSHKIR
AWENLPVVSYLALGGKCSSCKAPISKRYPMVELVCGLMSAFIAWHFGFGWQAGAVLVLSWGLLSMSLIDADHQLLPDAIV
LPLLWLGLIVNAFGLFASLSDALWGAVAGYLVLWTVFWLFKLITGKEGMGYGDFKLLSMLGAWGGWQILPLTILLSSIVG
AVLGLILLRVRNVETSTPIPFGPYLAIAGWIALLWGDQITSSYLQIAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=979525 AAEO81_RS26825 WP_341960025.1 5954254..5955126(+) (pilD) [Pseudomonas sp. RC10]
ATGTCCTTAGTTGAAATAATGGCCAGCTCTCCGCTGGCCTTCGCCGTTTGCGCTTTGATCCTGGGTCTACTCGTCGGCAG
TTTCCTCAACGTCGTCGTTTACCGCCTCCCCAAAATGATGCTTCGCGACTGGAAAACCCAAGCCCGTGAGGTCCTGGAAC
TCCCTCCAGAACCCACCCCGGAAACCTTCAATCTCCTGCTCCCCCACTCCCGCTGCCCGCATTGTTCCCACAAGATCCGC
GCATGGGAAAACCTGCCTGTCGTGAGCTATCTGGCTTTGGGCGGGAAATGTTCGAGCTGCAAGGCGCCGATCAGTAAACG
CTATCCGATGGTTGAGCTGGTCTGTGGGTTGATGTCGGCGTTTATCGCCTGGCATTTCGGTTTCGGTTGGCAAGCGGGCG
CTGTGTTGGTGTTGAGTTGGGGGTTGTTGTCGATGAGTTTGATCGACGCCGATCACCAATTGTTGCCGGATGCGATTGTG
TTGCCGTTGTTGTGGCTGGGCCTGATCGTCAATGCGTTCGGGCTGTTTGCTTCGCTGAGCGATGCGCTGTGGGGTGCGGT
CGCGGGGTATTTGGTGTTGTGGACGGTGTTTTGGCTGTTCAAGCTGATCACAGGCAAGGAAGGCATGGGCTATGGCGATT
TCAAGTTGCTGTCGATGCTGGGGGCCTGGGGTGGTTGGCAGATTTTGCCGCTGACGATTTTGCTGTCGTCGATTGTCGGC
GCGGTGCTGGGCCTGATTTTGTTGCGTGTGCGCAATGTCGAGACGAGCACGCCGATCCCGTTTGGGCCGTATCTGGCCAT
CGCGGGGTGGATCGCGTTGCTGTGGGGTGATCAAATAACGTCTTCGTATTTGCAGATCGCCGGTTTCAGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-245)

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

54.417

97.586

0.531
  pilD Vibrio campbellii strain DS40M4

51.59

97.586

0.503
  pilD Acinetobacter baumannii D1279779

50.73

94.483

0.479
  pilD Acinetobacter nosocomialis M2

50

94.483

0.472
  pilD Neisseria gonorrhoeae MS11

48.708

93.448

0.455

Multiple sequence alignment