Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CHR26_RS04070 Genome accession   NZ_CP022560
Coordinates   865430..866296 (+) Length   288 a.a.
NCBI ID   WP_145913392.1    Uniprot ID   -
Organism   Pseudomonas putida strain B1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 860430..871296
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CHR26_RS04060 (CHR26_04035) - 863592..864002 (-) 411 WP_016484801.1 pilin -
  CHR26_RS04065 (CHR26_04040) - 864219..865427 (+) 1209 WP_145913391.1 type II secretion system F family protein -
  CHR26_RS04070 (CHR26_04045) pilD 865430..866296 (+) 867 WP_145913392.1 prepilin peptidase Machinery gene
  CHR26_RS04075 (CHR26_04050) coaE 866296..866919 (+) 624 WP_016484798.1 dephospho-CoA kinase -
  CHR26_RS04080 (CHR26_04055) yacG 866916..867116 (+) 201 WP_016484797.1 DNA gyrase inhibitor YacG -
  CHR26_RS04090 (CHR26_04060) - 867328..868035 (-) 708 WP_016484796.1 energy-coupling factor ABC transporter permease -
  CHR26_RS04095 (CHR26_04065) - 868122..868553 (+) 432 WP_016484795.1 hypothetical protein -
  CHR26_RS04100 (CHR26_04070) - 868609..869238 (+) 630 WP_013970766.1 DUF1780 domain-containing protein -
  CHR26_RS04105 (CHR26_04075) - 869371..869544 (+) 174 WP_013970765.1 DUF3094 family protein -
  CHR26_RS04110 (CHR26_04080) - 869629..870924 (+) 1296 WP_145913393.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31845.03 Da        Isoelectric Point: 8.2221

>NTDB_id=240769 CHR26_RS04070 WP_145913392.1 865430..866296(+) (pilD) [Pseudomonas putida strain B1]
MTLWTLLAEQPAYFLTLATVLGLLVGSFLNVLVYRLPIMLGRQWQREAQEVLGLPLARHERFDLCLPASRCPHCAHQIRA
WENIPVLSYLALRGRCSACKARISPRYPLVEIASALLSLVVAWRFGASAEALLALPLTWCLLALSLIDADHQLLPDVLVL
PMLWLGLIVNAFGLYVPLADALWGAVAGYLSLWTVYWVFKLVTGKEGMGYGDFKLMALIGAWGGWQVLPLTLLLSSVVGA
LVGVYLLRLRRHALGTAIPFGPYLAIAGWIAVLWGDEIYASYMQLLGY

Nucleotide


Download         Length: 867 bp        

>NTDB_id=240769 CHR26_RS04070 WP_145913392.1 865430..866296(+) (pilD) [Pseudomonas putida strain B1]
ATGACTCTATGGACTTTGCTGGCTGAGCAGCCGGCGTACTTCCTCACCCTGGCCACGGTGCTCGGCCTGCTGGTGGGCAG
CTTTCTCAACGTGCTGGTGTATCGCCTGCCGATCATGCTGGGGCGACAATGGCAGCGTGAGGCGCAAGAGGTATTGGGGC
TGCCGCTTGCGCGACACGAACGCTTCGACCTGTGCCTGCCGGCATCCCGCTGCCCGCATTGCGCGCATCAGATTCGCGCG
TGGGAGAACATTCCGGTACTCAGCTACCTGGCCTTGCGCGGGCGTTGCTCAGCCTGCAAGGCCCGTATCAGCCCGCGCTA
CCCGCTGGTCGAGATAGCCAGCGCGCTGCTGTCGCTGGTGGTGGCTTGGCGCTTTGGCGCTTCGGCCGAGGCGTTGCTGG
CACTGCCGCTCACTTGGTGCCTGCTGGCCCTGAGCCTGATCGATGCGGACCACCAATTGCTGCCGGATGTGCTGGTGCTG
CCGATGCTGTGGCTTGGGCTAATCGTGAACGCCTTCGGCCTGTATGTGCCACTGGCTGACGCGTTGTGGGGCGCGGTGGC
CGGGTATCTTAGCCTGTGGACGGTGTACTGGGTGTTCAAGCTGGTCACCGGCAAGGAAGGCATGGGCTATGGCGACTTCA
AGCTGATGGCGCTGATCGGGGCCTGGGGCGGCTGGCAGGTGCTGCCGTTGACGCTGCTGCTGTCGTCGGTGGTGGGGGCG
CTGGTAGGCGTGTACCTGCTGCGTTTGCGCCGGCATGCGCTGGGTACGGCGATCCCCTTTGGCCCTTATCTGGCGATTGC
GGGGTGGATTGCTGTGCTCTGGGGTGATGAAATATATGCCTCTTACATGCAACTGCTTGGATACTGA

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

53.623

95.833

0.514
  pilD Acinetobacter baumannii D1279779

50.178

97.569

0.49
  pilD Acinetobacter nosocomialis M2

49.466

97.569

0.483
  pilD Vibrio campbellii strain DS40M4

49.281

96.528

0.476
  pilD Neisseria gonorrhoeae MS11

49.442

93.403

0.462

Multiple sequence alignment