Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ABO_RS03160 Genome accession   NC_008260
Coordinates   671910..672785 (-) Length   291 a.a.
NCBI ID   WP_011587897.1    Uniprot ID   A0AAD1EYW2
Organism   Alcanivorax borkumensis SK2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 666910..677785
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABO_RS03140 (ABO_0608) argJ 668549..669772 (+) 1224 WP_011587893.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  ABO_RS03145 (ABO_0609) - 669953..670891 (+) 939 WP_011587894.1 Nudix family hydrolase -
  ABO_RS03150 (ABO_0610) - 671005..671205 (-) 201 WP_011587895.1 DNA gyrase inhibitor YacG -
  ABO_RS03155 (ABO_0611) coaE 671227..671847 (-) 621 WP_011587896.1 dephospho-CoA kinase -
  ABO_RS03160 (ABO_0612) pilD 671910..672785 (-) 876 WP_011587897.1 prepilin peptidase Machinery gene
  ABO_RS03165 (ABO_0613) pilC 672788..674014 (-) 1227 WP_035460653.1 type II secretion system F family protein Machinery gene
  ABO_RS03170 (ABO_0614) pilB 674017..675723 (-) 1707 WP_011587899.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABO_RS14630 (ABO_0615) comP 676258..676704 (+) 447 WP_011587900.1 pilin Machinery gene

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32085.29 Da        Isoelectric Point: 7.9389

>NTDB_id=26145 ABO_RS03160 WP_011587897.1 671910..672785(-) (pilD) [Alcanivorax borkumensis SK2]
MISDSLMLLSSSPTLLIGLCVVMGLLVGSFLNVVIHRLPLMMERSWKQEAREVLELPAEETDGIFNLATPRSRCPKCGHA
IRWYENIPVLSWLALRGKCRGCKTPISKRYPIIEIVSGILAGLCAWHFGYGPWLAFTLFATWVLLAAAMIDADTTLLPDT
LNYWLLWAGLLAAVTGVSPVSLNDAVIGAMMGYLSLWSIYWLFKLITGKEGMGYGDFKLLAALGAWVGWQYLPVIILLSS
IVGLVFAIAMMIFSGERRAQIPFGPYLATAGWIALLWGDSIVSSYLGMFKL

Nucleotide


Download         Length: 876 bp        

>NTDB_id=26145 ABO_RS03160 WP_011587897.1 671910..672785(-) (pilD) [Alcanivorax borkumensis SK2]
ATGATTTCAGATTCCCTGATGCTTCTCTCTTCCAGTCCGACCCTTCTGATCGGGCTTTGTGTTGTTATGGGGCTGCTGGT
AGGCAGTTTTTTAAATGTAGTCATCCACCGTTTACCGTTAATGATGGAACGAAGCTGGAAGCAAGAAGCCCGTGAAGTGC
TTGAGCTACCAGCGGAAGAAACCGATGGTATTTTCAACCTAGCAACGCCGCGCTCGCGCTGCCCGAAATGCGGCCATGCG
ATCCGCTGGTATGAGAATATCCCAGTGCTTAGCTGGCTTGCCCTGCGCGGTAAGTGCAGGGGCTGCAAAACACCGATCAG
TAAGCGCTACCCCATTATCGAAATTGTCAGCGGGATCCTGGCGGGACTTTGCGCCTGGCACTTTGGTTATGGCCCCTGGT
TGGCATTCACGCTTTTTGCTACCTGGGTGTTGTTAGCTGCTGCCATGATTGATGCGGATACTACATTACTGCCAGACACC
CTAAATTACTGGCTATTGTGGGCAGGCTTGCTGGCTGCAGTGACGGGGGTGTCTCCGGTTTCACTAAATGATGCTGTCAT
TGGCGCGATGATGGGCTATTTATCCTTGTGGAGCATCTATTGGCTATTCAAGCTAATCACCGGCAAAGAAGGTATGGGCT
ACGGCGATTTCAAGCTGTTGGCTGCACTGGGTGCTTGGGTTGGCTGGCAATACCTACCCGTGATCATTCTATTATCGTCT
ATCGTGGGGCTAGTCTTTGCTATCGCCATGATGATATTTAGCGGTGAAAGGCGCGCGCAAATCCCCTTTGGCCCCTATCT
CGCCACAGCCGGGTGGATTGCCTTGCTCTGGGGCGATAGTATCGTCAGCTCGTATCTGGGTATGTTTAAACTCTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-128)

Type IV leader peptidase family (Peptidase_A24)

(139-248)


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

56.835

95.533

0.543
  pilD Vibrio campbellii strain DS40M4

53.623

94.845

0.509
  pilD Neisseria gonorrhoeae MS11

50.187

91.753

0.46
  pilD Acinetobacter baumannii D1279779

48.881

92.096

0.45
  pilD Acinetobacter nosocomialis M2

48.507

92.096

0.447

Multiple sequence alignment