Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   Q5O_RS03320 Genome accession   NZ_CP016212
Coordinates   741886..742752 (-) Length   288 a.a.
NCBI ID   WP_070383412.1    Uniprot ID   -
Organism   Pseudomonas putida JB     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 736886..747752
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Q5O_RS03285 (Q5O_03285) - 737276..738571 (-) 1296 WP_003247549.1 NAD(P)/FAD-dependent oxidoreductase -
  Q5O_RS03290 (Q5O_03290) - 738656..738829 (-) 174 WP_008091951.1 DUF3094 domain-containing protein -
  Q5O_RS03295 (Q5O_03295) - 738962..739591 (-) 630 WP_003247546.1 DUF1780 domain-containing protein -
  Q5O_RS03300 (Q5O_03300) - 739647..740078 (-) 432 WP_070383410.1 hypothetical protein -
  Q5O_RS03305 (Q5O_03305) - 740165..740872 (+) 708 WP_019437917.1 energy-coupling factor ABC transporter permease -
  Q5O_RS03310 (Q5O_03310) yacG 741066..741266 (-) 201 WP_014589600.1 DNA gyrase inhibitor YacG -
  Q5O_RS03315 (Q5O_03315) coaE 741263..741886 (-) 624 WP_070383411.1 dephospho-CoA kinase -
  Q5O_RS03320 (Q5O_03320) pilD 741886..742752 (-) 867 WP_070383412.1 prepilin peptidase Machinery gene
  Q5O_RS03325 (Q5O_03325) - 742755..743963 (-) 1209 WP_019437920.1 type II secretion system F family protein -
  Q5O_RS03330 (Q5O_03330) - 744180..744590 (+) 411 WP_070383413.1 pilin -
  Q5O_RS03340 (Q5O_03340) - 744987..746141 (+) 1155 WP_070383414.1 Fic family protein -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31800.87 Da        Isoelectric Point: 7.9101

>NTDB_id=186207 Q5O_RS03320 WP_070383412.1 741886..742752(-) (pilD) [Pseudomonas putida JB]
MTLWALLVEQPAYFLTLATVLGLLVGSFINVLVYRLPIMLERQWQREAQEVLGLPTTQHARFDLCLPASRCPHCAHRIRA
WENIPVISYLALGGRCSSCKNRISLRYPVVEVASALLSLVVAWRFGASVEALLALPLTWCLLALSLIDADHQLLPDVLVL
PTMWLGLIVNAFGIHVPLADALWGAVAGYLSLWTVYWVFRLVTGKEGMGYGDFKLMALIGAWGGWQVLPLTLLLSSAVGA
LVGLCLLRFRRHALGTAIPFGPYLAIAGWIAVLWGDEIYASYMQLLGY

Nucleotide


Download         Length: 867 bp        

>NTDB_id=186207 Q5O_RS03320 WP_070383412.1 741886..742752(-) (pilD) [Pseudomonas putida JB]
ATGACTTTATGGGCTTTGCTGGTTGAACAGCCAGCGTATTTCCTCACCCTTGCCACGGTGCTCGGCCTGCTGGTGGGCAG
CTTTATCAACGTGCTGGTGTACCGCCTGCCGATCATGCTGGAGCGGCAATGGCAGCGTGAGGCGCAAGAGGTATTGGGGC
TGCCGACCACGCAGCACGCGCGTTTCGACCTGTGCCTGCCCGCCTCCCGCTGCCCACACTGCGCGCACCGGATTCGTGCG
TGGGAGAACATTCCGGTCATCAGTTACCTGGCCTTGGGCGGGCGCTGTTCGTCCTGCAAAAACCGCATCAGCCTGCGTTA
CCCGGTAGTGGAAGTGGCCAGCGCGCTGCTGTCGCTGGTAGTGGCCTGGCGCTTCGGCGCTTCGGTAGAGGCGTTGCTGG
CTCTGCCGCTGACCTGGTGCCTGCTGGCGCTGAGCCTGATCGATGCGGACCACCAGCTGCTGCCGGATGTGCTGGTGCTG
CCGACCATGTGGCTAGGGCTGATCGTCAATGCCTTTGGCATCCATGTGCCCCTGGCCGACGCACTGTGGGGCGCAGTGGC
CGGGTACCTCAGCCTGTGGACGGTGTACTGGGTGTTCAGGCTGGTCACCGGCAAGGAAGGCATGGGCTATGGCGATTTCA
AGCTGATGGCGCTGATCGGGGCATGGGGTGGTTGGCAGGTGCTGCCGTTGACGCTGCTGTTGTCGTCGGCGGTGGGGGCG
CTTGTTGGCCTGTGCCTGCTGCGTTTTCGCCGGCATGCCTTGGGCACGGCAATCCCGTTTGGCCCTTATCTGGCAATTGC
GGGGTGGATTGCCGTGCTCTGGGGTGATGAAATATACGCCTCATACATGCAACTGCTTGGATACTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

51.625

96.181

0.497
  pilD Acinetobacter baumannii D1279779

49.11

97.569

0.479
  pilD Acinetobacter nosocomialis M2

48.399

97.569

0.472
  pilD Vibrio campbellii strain DS40M4

48.188

95.833

0.462
  pilD Neisseria gonorrhoeae MS11

48.327

93.403

0.451

Multiple sequence alignment