Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACFJY4_RS17215 Genome accession   NZ_CP170500
Coordinates   3650897..3651766 (-) Length   289 a.a.
NCBI ID   WP_017246372.1    Uniprot ID   -
Organism   Stutzerimonas stutzeri strain MBI-RS3     
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)
IS/Tn 3649851..3650831 3650897..3651766 flank 66


Gene organization within MGE regions


Location: 3649851..3651766
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACFJY4_RS17210 (ACFJY4_17205) - 3649851..3650831 (-) 981 WP_058131641.1 IS5-like element ISPa16 family transposase -
  ACFJY4_RS17215 (ACFJY4_17210) pilD 3650897..3651766 (-) 870 WP_017246372.1 A24 family peptidase Machinery gene

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32109.02 Da        Isoelectric Point: 7.2753

>NTDB_id=1057783 ACFJY4_RS17215 WP_017246372.1 3650897..3651766(-) (pilD) [Stutzerimonas stutzeri strain MBI-RS3]
MGLLDYLASHVLAFVLSAAVLGLLVGSFLNVVIYRVPIMMQREWRMQAREYLEYPPEPIGERFNLLVPSSRCPHCGHRIR
AWENIPLVSWLALRGKCSSCQAPISCRYPLVELACGVLSGYVAWHFGFSWQAGAMLLLTWGLLAMSMIDVDHQLLPDSLV
LPLLWLGLIANSFALFASLEDALWGAIAGYLSLWSVYWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSVVG
AVLGSILLRVQRAESSTPIPFGPYLAIAGWIALLWGDRITESYLQFARF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=1057783 ACFJY4_RS17215 WP_017246372.1 3650897..3651766(-) (pilD) [Stutzerimonas stutzeri strain MBI-RS3]
ATGGGGCTGCTCGATTATTTGGCCAGCCACGTGCTGGCCTTTGTTTTGTCTGCTGCAGTGCTCGGTCTGCTGGTTGGCAG
CTTTCTCAATGTCGTCATCTACCGTGTGCCGATCATGATGCAGCGCGAATGGCGCATGCAGGCGCGGGAATATTTGGAGT
ATCCGCCCGAGCCAATTGGGGAGCGTTTCAATCTACTGGTGCCGAGTTCACGCTGCCCTCACTGCGGTCATCGTATCCGT
GCCTGGGAGAACATTCCCTTGGTCAGCTGGCTGGCGCTGCGTGGAAAGTGCTCGTCTTGTCAGGCGCCGATCAGCTGTCG
ATATCCGTTGGTTGAGCTGGCGTGTGGCGTGCTATCCGGATACGTGGCATGGCATTTCGGTTTTTCCTGGCAGGCAGGGG
CGATGCTTCTGCTGACCTGGGGGTTGCTGGCGATGAGCATGATCGATGTCGATCATCAGTTGTTGCCTGACTCGCTGGTG
CTGCCGCTCTTGTGGTTAGGGTTGATTGCCAACAGCTTTGCTTTGTTCGCCTCTCTCGAGGATGCGCTGTGGGGGGCGAT
AGCCGGTTACCTGAGCCTATGGTCCGTTTATTGGCTGTTCAAGCTGGTCACAGGCAAAGAGGGTATGGGCTACGGCGATT
TCAAGCTGCTGGCGATGCTTGGTGCCTGGGGCGGCTGGCAGGTTCTGCCCCTCACTATCTTGCTGTCTTCGGTGGTCGGC
GCCGTTCTTGGCAGTATTTTGCTGAGGGTGCAGCGGGCTGAAAGCAGTACGCCCATTCCGTTCGGGCCGTATCTGGCGAT
AGCGGGGTGGATTGCGTTGCTTTGGGGCGACCGAATTACCGAAAGCTACCTCCAGTTCGCTCGCTTCTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

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

57.818

95.156

0.55
  pilD Vibrio campbellii strain DS40M4

57.664

94.81

0.547
  pilD Acinetobacter baumannii D1279779

50.704

98.27

0.498
  pilD Acinetobacter nosocomialis M2

50.704

98.27

0.498
  pilD Neisseria gonorrhoeae MS11

53.612

91.003

0.488

Multiple sequence alignment