Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   A0T30_RS18680 Genome accession   NZ_CP014784
Coordinates   4052680..4053552 (+) Length   290 a.a.
NCBI ID   WP_156480593.1    Uniprot ID   -
Organism   Aquipseudomonas alcaligenes strain NEB 585     
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 4043987..4056249 4052680..4053552 within 0


Gene organization within MGE regions


Location: 4043987..4056249
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A0T30_RS18630 (A0T30_18630) - 4043987..4044235 (+) 249 WP_061905368.1 hypothetical protein -
  A0T30_RS21190 (A0T30_18635) - 4044228..4044617 (+) 390 WP_061905369.1 hypothetical protein -
  A0T30_RS18640 (A0T30_18640) - 4045003..4046283 (+) 1281 WP_061905370.1 hypothetical protein -
  A0T30_RS18645 (A0T30_18645) - 4046280..4047272 (+) 993 WP_061905745.1 tyrosine-type recombinase/integrase -
  A0T30_RS21040 - 4047331..4047810 (+) 480 WP_156480592.1 hypothetical protein -
  A0T30_RS18660 (A0T30_18660) tfpZ 4048040..4048789 (-) 750 WP_061905372.1 TfpX/TfpZ family type IV pilin accessory protein -
  A0T30_RS18665 (A0T30_18665) - 4049081..4049557 (+) 477 WP_061905373.1 pilin -
  A0T30_RS18670 (A0T30_18670) pilB 4049749..4051452 (+) 1704 WP_061905374.1 type IV-A pilus assembly ATPase PilB Machinery gene
  A0T30_RS18675 (A0T30_18675) pilC 4051459..4052676 (+) 1218 WP_061905375.1 type II secretion system F family protein Machinery gene
  A0T30_RS18680 (A0T30_18680) pilD 4052680..4053552 (+) 873 WP_156480593.1 A24 family peptidase Machinery gene
  A0T30_RS18685 (A0T30_18685) coaE 4053549..4054160 (+) 612 WP_061905376.1 dephospho-CoA kinase -
  A0T30_RS18690 (A0T30_18690) yacG 4054157..4054351 (+) 195 WP_021702222.1 DNA gyrase inhibitor YacG -
  A0T30_RS18695 (A0T30_18695) - 4054355..4054570 (-) 216 WP_061905747.1 hypothetical protein -
  A0T30_RS18700 (A0T30_18700) - 4054661..4055356 (-) 696 WP_061905377.1 energy-coupling factor ABC transporter permease -
  A0T30_RS18705 (A0T30_18705) - 4055353..4055829 (-) 477 WP_061905378.1 hypothetical protein -
  A0T30_RS18710 (A0T30_18710) - 4055833..4056249 (-) 417 WP_061905379.1 GNAT family N-acetyltransferase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32063.10 Da        Isoelectric Point: 7.1241

>NTDB_id=174037 A0T30_RS18680 WP_156480593.1 4052680..4053552(+) (pilD) [Aquipseudomonas alcaligenes strain NEB 585]
MSAMNFLAGNLPAFVLLATLLGLLVGSFLNVVIYRLPVMMQRDWRKQAREILELSEEPEQGTFNLVLPNSCCPNCGHQIR
PWENIPVLSYLFLRGKCAGCKAPISKRYPLVELACGLLSGYVAFHFGFGWQAAGMLLLTWGLLAMSMIDCDHQLLPDALV
LPLLWLGLIANQFGLFTSLEDALWGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSLVG
AVLGVIMLRLRNQETSTPIPFGPYLAIAGWIALLWGDQITATYLQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=174037 A0T30_RS18680 WP_156480593.1 4052680..4053552(+) (pilD) [Aquipseudomonas alcaligenes strain NEB 585]
ATGTCCGCAATGAACTTCCTGGCCGGCAACTTGCCGGCCTTTGTTTTACTGGCCACGCTGCTCGGCCTGCTGGTCGGCAG
CTTCCTCAACGTCGTCATCTACCGCCTGCCGGTGATGATGCAGCGCGACTGGCGCAAGCAGGCGCGGGAGATTCTCGAGC
TGTCGGAAGAGCCCGAGCAGGGCACGTTCAATCTGGTACTGCCAAACTCCTGCTGCCCCAACTGCGGCCACCAGATTCGC
CCCTGGGAGAATATCCCGGTGCTCAGCTACCTGTTCCTGCGCGGCAAGTGCGCGGGGTGTAAGGCCCCCATCAGCAAGCG
CTACCCGCTGGTCGAGCTGGCCTGCGGCCTGCTGTCCGGCTATGTCGCCTTCCATTTCGGTTTTGGCTGGCAGGCGGCCG
GCATGCTGCTGCTGACCTGGGGGCTGCTGGCGATGAGCATGATCGACTGCGATCATCAGCTGCTACCCGACGCTCTGGTG
CTGCCACTACTGTGGCTGGGCCTGATCGCCAACCAGTTCGGTCTGTTCACCAGCCTCGAGGATGCGCTGTGGGGGGCCAT
CGCCGGCTACCTCAGCCTGTGGTCGGTGTACTGGCTGTTCAAGCTGCTGACCGGCAAGGAAGGCATGGGCTACGGCGACT
TCAAGCTGCTGGCCATGCTCGGCGCCTGGGGTGGCTGGCAGGTGTTGCCGCTGACCATCCTGCTCTCGTCGCTGGTAGGC
GCGGTGCTCGGGGTGATCATGCTGCGCCTGCGCAACCAGGAAACCAGCACGCCCATCCCCTTCGGCCCCTATCTGGCCAT
TGCCGGCTGGATCGCATTGCTCTGGGGTGATCAAATAACCGCGACCTATCTGCAGTTCGCCGGTTTTAGATGA

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

57.875

94.138

0.545
  pilD Vibrio campbellii strain DS40M4

57.143

94.138

0.538
  pilD Acinetobacter baumannii D1279779

52.669

96.897

0.51
  pilD Acinetobacter nosocomialis M2

52.313

96.897

0.507
  pilD Neisseria gonorrhoeae MS11

51.429

96.552

0.497

Multiple sequence alignment