Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OGV21_RS03245 Genome accession   NZ_CP109606
Coordinates   707045..707911 (-) Length   288 a.a.
NCBI ID   WP_264316784.1    Uniprot ID   -
Organism   Pseudomonas putida strain QH1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 702045..712911
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OGV21_RS03215 - 702917..704212 (-) 1296 WP_012270390.1 NAD(P)/FAD-dependent oxidoreductase -
  OGV21_RS03220 - 704297..704470 (-) 174 WP_008091951.1 DUF3094 domain-containing protein -
  OGV21_RS03225 - 704603..705232 (-) 630 WP_003247546.1 DUF1780 domain-containing protein -
  OGV21_RS03230 - 705330..706013 (+) 684 WP_012270391.1 energy-coupling factor ABC transporter permease -
  OGV21_RS03235 yacG 706225..706425 (-) 201 WP_012270392.1 DNA gyrase inhibitor YacG -
  OGV21_RS03240 coaE 706422..707045 (-) 624 WP_012270393.1 dephospho-CoA kinase -
  OGV21_RS03245 pilD 707045..707911 (-) 867 WP_264316784.1 prepilin peptidase Machinery gene
  OGV21_RS03250 - 707914..709122 (-) 1209 WP_264316785.1 type II secretion system F family protein -
  OGV21_RS03255 - 709339..709749 (+) 411 WP_264316786.1 pilin -
  OGV21_RS03265 - 710058..711386 (+) 1329 WP_264316787.1 tyrosine-type recombinase/integrase -
  OGV21_RS03270 - 711700..712557 (+) 858 WP_264316788.1 hypothetical protein -
  OGV21_RS03275 - 712641..712874 (+) 234 WP_264316789.1 helix-turn-helix domain-containing protein -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31931.05 Da        Isoelectric Point: 7.5974

>NTDB_id=748437 OGV21_RS03245 WP_264316784.1 707045..707911(-) (pilD) [Pseudomonas putida strain QH1]
MTSWTLLAEQPAYFLTLATLLGLLVGSFLNVLVYRLPIMLERQWQREAQEMLGQPIAQHERFDLCLPASRCPHCAHPVRA
WENIPVISYLALRGRCSSCKTRISPRYPLVEVASALLSLVVAWRFGASVEALLALPLTWCLLALSLIDADHQLLPDALVL
PMLWLGLIVNAFGIYAPLTDALWGAVAGYLSLWTVYWLFKLITGKEGMGYGDFKLMALIGAWGGWQVLPLTLLLSSVVGA
LVGLCLLRLRRHAMGTAIPFGPYLAIAGWIAVLWGDEMYASYMQLLGY

Nucleotide


Download         Length: 867 bp        

>NTDB_id=748437 OGV21_RS03245 WP_264316784.1 707045..707911(-) (pilD) [Pseudomonas putida strain QH1]
ATGACTTCATGGACTCTGCTGGCTGAACAGCCGGCGTACTTCCTCACCCTGGCCACGCTGCTCGGCCTGCTGGTGGGCAG
CTTTCTCAACGTGCTGGTGTATCGCCTGCCGATCATGCTGGAGCGGCAATGGCAGCGTGAAGCACAGGAGATGTTGGGGC
AGCCGATTGCGCAACACGAACGGTTCGACCTGTGCCTACCGGCCTCCCGCTGCCCACATTGCGCGCATCCGGTTCGCGCG
TGGGAGAACATCCCGGTGATCAGCTATCTGGCCTTGCGCGGGCGGTGTTCATCCTGCAAAACCCGCATCAGCCCGCGCTA
CCCGCTGGTGGAAGTGGCCAGCGCGCTGCTTTCGCTGGTGGTGGCCTGGCGCTTTGGCGCTTCGGTCGAAGCCTTGCTGG
CATTACCGCTCACCTGGTGCCTGCTGGCCCTGAGCCTGATCGATGCGGACCACCAGTTGCTGCCGGATGCGCTGGTGCTG
CCGATGCTGTGGCTGGGGCTTATCGTCAATGCCTTTGGCATCTATGCCCCACTGACCGACGCGCTGTGGGGCGCGGTGGC
CGGATACCTCAGCTTGTGGACCGTGTACTGGCTGTTCAAGCTGATCACCGGCAAGGAAGGCATGGGCTATGGCGATTTCA
AGCTGATGGCGCTGATCGGGGCCTGGGGTGGCTGGCAGGTGCTGCCGTTGACGCTGCTGCTGTCGTCGGTGGTGGGGGCG
CTGGTTGGCCTGTGCTTGCTGCGTTTGCGCCGGCATGCGATGGGGACAGCGATACCGTTTGGCCCTTATCTGGCGATTGC
GGGGTGGATTGCTGTGCTCTGGGGTGATGAAATGTACGCCTCTTACATGCAACTGCTTGGATACTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(137-244)


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

54.874

96.181

0.528
  pilD Acinetobacter baumannii D1279779

52.669

97.569

0.514
  pilD Acinetobacter nosocomialis M2

53.383

92.361

0.493
  pilD Vibrio campbellii strain DS40M4

49.275

95.833

0.472
  pilD Neisseria gonorrhoeae MS11

48.699

93.403

0.455