Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JN403_RS00730 Genome accession   NZ_CP068986
Coordinates   168877..169749 (+) Length   290 a.a.
NCBI ID   WP_205484814.1    Uniprot ID   -
Organism   Pseudomonas sp. 15A4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 163877..174749
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JN403_RS25755 (JN403_00715) - 165119..165736 (-) 618 WP_205484812.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  JN403_RS00720 (JN403_00720) pilB 165961..167655 (+) 1695 WP_205484813.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JN403_RS00725 (JN403_00725) - 167658..168874 (+) 1217 Protein_137 type II secretion system F family protein -
  JN403_RS00730 (JN403_00730) pilD 168877..169749 (+) 873 WP_205484814.1 A24 family peptidase Machinery gene
  JN403_RS00735 (JN403_00735) coaE 169746..170366 (+) 621 WP_205484815.1 dephospho-CoA kinase -
  JN403_RS00740 (JN403_00740) yacG 170366..170569 (+) 204 WP_074888353.1 DNA gyrase inhibitor YacG -
  JN403_RS00745 (JN403_00745) - 170826..171470 (-) 645 WP_122535388.1 hydrolase -
  JN403_RS00750 (JN403_00750) - 171627..172526 (+) 900 WP_122622750.1 LysR family transcriptional regulator -
  JN403_RS00755 (JN403_00755) - 172800..173765 (-) 966 WP_205484816.1 2-hydroxyacid dehydrogenase -
  JN403_RS00760 (JN403_00760) - 173797..174561 (-) 765 WP_205484817.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32039.40 Da        Isoelectric Point: 7.5669

>NTDB_id=531791 JN403_RS00730 WP_205484814.1 168877..169749(+) (pilD) [Pseudomonas sp. 15A4]
MPLLDLLASSPLAFVLCTLILGLLVGSFLNVVIYRLPLMMIRDWKIQSREMLDLPAEPQSETFNLILPHSRCPHCSHKIR
AWENIPVVSYLCLGGRCSQCKAPISKRYPLVELACGLLSAFIAWHFGFGWQAGAMLVLTWGLLSMSLIDADHQLLPDAIV
LPLLWLGLIVNAFGLFTSLTDALWGAVAGYLVLWCVFWLFKLITGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSIVG
AVLGLILLRLRNVETSTPIPFGPYLALAGWIALLWGDQITTSYLQIAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=531791 JN403_RS00730 WP_205484814.1 168877..169749(+) (pilD) [Pseudomonas sp. 15A4]
ATGCCCCTCCTCGATCTCCTGGCCAGCTCCCCGCTGGCCTTCGTTCTTTGCACCCTCATCCTCGGCCTACTCGTCGGCAG
CTTCCTAAACGTCGTGATCTACCGATTACCGCTGATGATGATCCGCGACTGGAAAATCCAGTCCCGGGAAATGCTCGACC
TCCCCGCCGAGCCGCAATCAGAAACCTTCAACCTCATCCTCCCCCACTCCCGCTGCCCGCACTGCTCACACAAAATCCGT
GCGTGGGAGAACATTCCGGTCGTGAGTTATCTGTGCCTCGGCGGCAGATGCTCACAGTGCAAAGCGCCCATCAGCAAGCG
CTACCCCCTCGTTGAACTGGCGTGCGGGTTACTCTCGGCCTTCATCGCCTGGCATTTCGGTTTCGGCTGGCAGGCTGGGG
CGATGCTGGTGCTGACGTGGGGCTTGCTGTCGATGAGTCTGATCGATGCCGACCACCAGCTTCTGCCGGACGCGATTGTG
TTGCCGCTGCTGTGGCTGGGCCTGATCGTGAATGCGTTCGGGCTGTTCACGTCGCTGACCGATGCGCTGTGGGGCGCGGT
CGCGGGGTATCTGGTGTTGTGGTGTGTGTTCTGGCTGTTCAAGCTGATCACGGGCAAGGAAGGCATGGGTTATGGCGATT
TCAAATTGCTGGCGATGCTCGGCGCGTGGGGCGGCTGGCAGATTCTGCCGCTGACGATTCTGCTGTCGTCGATTGTCGGA
GCGGTGTTGGGCCTGATTCTGTTGCGCTTGCGCAATGTCGAAACCAGCACGCCGATCCCCTTCGGTCCTTATCTGGCCCT
CGCGGGGTGGATCGCTTTGCTCTGGGGTGATCAAATAACCACCTCGTATTTGCAGATCGCCGGCTTCAGATGA

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

52.297

97.586

0.51
  pilD Vibrio campbellii strain DS40M4

51.59

97.586

0.503
  pilD Acinetobacter baumannii D1279779

52.555

94.483

0.497
  pilD Acinetobacter nosocomialis M2

52.19

94.483

0.493
  pilD Neisseria gonorrhoeae MS11

50

95.172

0.476