Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACA097_RS17665 Genome accession   NZ_CP166971
Coordinates   3763581..3764453 (-) Length   290 a.a.
NCBI ID   WP_371364857.1    Uniprot ID   -
Organism   Pseudomonas sp. QL9     
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 3764456..3793076 3763581..3764453 flank 3


Gene organization within MGE regions


Location: 3763581..3793076
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACA097_RS17665 (ACA097_17660) pilD 3763581..3764453 (-) 873 WP_371364857.1 A24 family peptidase Machinery gene
  ACA097_RS17670 (ACA097_17665) pilC 3764456..3765676 (-) 1221 WP_371364859.1 type II secretion system F family protein Machinery gene
  ACA097_RS17675 (ACA097_17670) pilB 3765680..3767383 (-) 1704 WP_371364862.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACA097_RS17680 (ACA097_17675) comP 3767609..3768031 (+) 423 WP_371364865.1 pilin Machinery gene
  ACA097_RS17685 (ACA097_17680) - 3768079..3769167 (+) 1089 WP_371364867.1 hypothetical protein -
  ACA097_RS17695 (ACA097_17690) - 3769469..3770788 (+) 1320 WP_371364870.1 tyrosine-type recombinase/integrase -
  ACA097_RS17700 (ACA097_17695) - 3770785..3771603 (+) 819 WP_371364872.1 hypothetical protein -
  ACA097_RS17705 (ACA097_17700) - 3771695..3771928 (+) 234 WP_371364874.1 helix-turn-helix transcriptional regulator -
  ACA097_RS17710 (ACA097_17705) - 3771925..3772338 (+) 414 WP_371364877.1 helix-turn-helix domain-containing protein -
  ACA097_RS17715 (ACA097_17710) - 3772774..3773088 (+) 315 WP_371364879.1 hypothetical protein -
  ACA097_RS17720 (ACA097_17715) - 3773085..3773396 (+) 312 WP_371364881.1 hypothetical protein -
  ACA097_RS17725 (ACA097_17720) - 3773401..3774324 (+) 924 WP_371364884.1 toprim domain-containing protein -
  ACA097_RS17730 (ACA097_17725) - 3774321..3775865 (+) 1545 WP_371364888.1 DUF3631 domain-containing protein -
  ACA097_RS17735 (ACA097_17730) - 3775865..3776158 (+) 294 WP_371364890.1 hypothetical protein -
  ACA097_RS17740 (ACA097_17735) - 3776214..3777110 (+) 897 WP_371364893.1 hypothetical protein -
  ACA097_RS17745 (ACA097_17740) - 3777405..3778136 (-) 732 WP_371364896.1 HNH endonuclease -
  ACA097_RS17750 (ACA097_17745) - 3778136..3779470 (-) 1335 WP_371364899.1 AAA family ATPase -
  ACA097_RS17755 (ACA097_17750) - 3779633..3779866 (+) 234 WP_371364902.1 hypothetical protein -
  ACA097_RS17760 (ACA097_17755) - 3780169..3780621 (+) 453 WP_371364904.1 DUF1441 family protein -
  ACA097_RS17765 (ACA097_17760) - 3780766..3782178 (+) 1413 WP_371364906.1 HEPN domain-containing protein -
  ACA097_RS17770 (ACA097_17765) - 3783412..3787746 (+) 4335 WP_371364908.1 AAA domain-containing protein -
  ACA097_RS17775 (ACA097_17770) - 3787846..3788589 (+) 744 WP_371364910.1 hypothetical protein -
  ACA097_RS17780 (ACA097_17775) - 3789260..3790117 (-) 858 WP_371364913.1 HNH endonuclease -
  ACA097_RS17785 (ACA097_17780) - 3790557..3791795 (+) 1239 Protein_3492 transposase -
  ACA097_RS17790 (ACA097_17785) - 3792006..3793076 (+) 1071 WP_371364915.1 diguanylate cyclase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32056.99 Da        Isoelectric Point: 7.0816

>NTDB_id=1036484 ACA097_RS17665 WP_371364857.1 3763581..3764453(-) (pilD) [Pseudomonas sp. QL9]
MTIFNFLASHALAFVLCAALLGLLVGSFLNVVIHRLPKMLQLDWEQQARDTLALPQPEKRETYNLILPNSHCPHCDHEIR
PWENIPVVSYLALRGKCSSCKAPISARYPLIEVATALLSAFVAWHFGFTWQAGAMLLLSWGLLAMSMIDVDHQLLPDALV
LPLLWLGLIVNAFGLFTSLSDALWGAVFGYLSLWTVFWVFKLVTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSLVG
AVLGVIMLRLRNAESGTPIPFGPYLAIAGWIALLWGDQITTSYLQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1036484 ACA097_RS17665 WP_371364857.1 3763581..3764453(-) (pilD) [Pseudomonas sp. QL9]
ATGACAATATTTAACTTTCTGGCCAGCCACGCGCTGGCCTTTGTTTTGTGTGCTGCCCTACTTGGCCTTTTGGTTGGCAG
CTTCCTCAACGTAGTCATCCACCGCCTGCCGAAGATGCTGCAGCTCGACTGGGAGCAGCAGGCCAGGGATACGCTGGCTC
TTCCGCAACCCGAAAAGCGCGAAACCTACAACCTCATCCTGCCCAACTCGCATTGCCCGCATTGCGACCATGAGATTCGC
CCCTGGGAGAACATCCCGGTGGTGAGCTACCTCGCTCTGCGGGGCAAGTGTTCGTCGTGCAAGGCGCCGATCAGTGCGCG
TTATCCGCTGATTGAAGTGGCTACCGCCCTCCTCTCCGCTTTCGTTGCCTGGCACTTTGGCTTCACCTGGCAGGCGGGCG
CGATGTTGCTGCTGAGCTGGGGGCTTCTGGCGATGAGCATGATCGACGTCGATCACCAGTTGCTGCCCGATGCCCTGGTG
CTTCCGCTGCTCTGGCTCGGGCTTATCGTCAATGCCTTCGGCCTCTTCACCTCGCTGAGCGATGCGCTCTGGGGCGCCGT
TTTCGGCTACCTCAGCCTGTGGACGGTGTTCTGGGTGTTCAAGCTGGTCACCGGCAAGGAAGGCATGGGCTATGGCGACT
TCAAGCTGCTGGCCATGCTTGGCGCCTGGGGTGGCTGGCAAGTGCTGCCGCTGACCATCCTGCTTTCCTCGCTGGTTGGG
GCGGTGCTGGGTGTCATCATGCTGCGCCTTCGCAATGCCGAAAGCGGCACGCCCATCCCCTTCGGGCCCTACCTGGCCAT
TGCCGGCTGGATTGCGCTGCTCTGGGGTGATCAAATAACCACTTCCTATCTGCAGTTCGCCGGTTTCCGCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

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

56

94.828

0.531
  pilD Acinetobacter baumannii D1279779

52.297

97.586

0.51
  pilD Vibrio campbellii strain DS40M4

53.48

94.138

0.503
  pilD Acinetobacter nosocomialis M2

51.59

97.586

0.503
  pilD Neisseria gonorrhoeae MS11

50.19

90.69

0.455

Multiple sequence alignment