Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACGEDC_RS10625 Genome accession   NZ_CP171406
Coordinates   2376099..2377028 (-) Length   309 a.a.
NCBI ID   WP_394498122.1    Uniprot ID   -
Organism   Shewanella sp. WPAGA9     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2371099..2382028
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACGEDC_RS10605 mutT 2374072..2374467 (-) 396 WP_119967846.1 8-oxo-dGTP diphosphatase MutT -
  ACGEDC_RS10610 yacG 2374484..2374693 (-) 210 WP_055022953.1 DNA gyrase inhibitor YacG -
  ACGEDC_RS10615 zapD 2374734..2375471 (-) 738 WP_372036595.1 cell division protein ZapD -
  ACGEDC_RS10620 coaE 2375481..2376086 (-) 606 WP_372036593.1 dephospho-CoA kinase -
  ACGEDC_RS10625 pilD 2376099..2377028 (-) 930 WP_394498122.1 prepilin peptidase Machinery gene
  ACGEDC_RS10630 - 2377055..2378326 (-) 1272 Protein_2047 type II secretion system F family protein -
  ACGEDC_RS10635 pilB 2378388..2380097 (-) 1710 WP_372036587.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACGEDC_RS10640 - 2380728..2381690 (+) 963 WP_394498124.1 O-antigen ligase family protein -

Sequence

Protein


Download         Length: 309 a.a.        Molecular weight: 34776.53 Da        Isoelectric Point: 8.3109

>NTDB_id=1061206 ACGEDC_RS10625 WP_394498122.1 2376099..2377028(-) (pilD) [Shewanella sp. WPAGA9]
MNEFLMTFVESMTQSPWLFMSISFIFAATIGSFLNVVIHRFPVMMKREWQSECNFYLSEYHPDIVKEVGEKRLNKPIDKY
PLKYNLVVPGSACPKCKSNIKPWHNLPILGWILLKGKCANCKAAISARYPLFELITGILVAVLAWHFGPTWQFLFASILT
FILIALTGIDLDEMLLPDQLTLPLLWLGLLINLKGIYASPTDAIVGAAAGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAV
FGAWLGWQFLPLIILLSSLVGAIVGITMMLLKNLSRDNPIPFGPYIAVAGWIALVWGQDIINWYLGTLY

Nucleotide


Download         Length: 930 bp        

>NTDB_id=1061206 ACGEDC_RS10625 WP_394498122.1 2376099..2377028(-) (pilD) [Shewanella sp. WPAGA9]
ATGAATGAATTCCTAATGACTTTTGTTGAGTCAATGACCCAATCACCTTGGCTCTTTATGTCAATTAGCTTTATCTTTGC
TGCCACCATTGGCAGCTTTTTAAACGTCGTCATCCACCGCTTTCCAGTGATGATGAAACGTGAATGGCAAAGTGAATGTA
ACTTTTATTTATCAGAATACCACCCAGACATCGTCAAAGAAGTCGGTGAAAAACGTTTAAATAAGCCAATAGACAAATAC
CCCCTAAAATATAACTTAGTTGTACCTGGCTCAGCCTGCCCGAAATGCAAAAGTAATATCAAACCTTGGCATAATTTACC
TATCTTAGGTTGGATTTTACTAAAAGGTAAATGTGCTAATTGTAAAGCAGCAATTAGCGCTAGATACCCTCTATTTGAAT
TAATAACAGGCATTTTAGTTGCGGTGCTTGCTTGGCACTTTGGACCTACCTGGCAGTTTCTATTTGCATCAATACTGACG
TTTATACTGATAGCACTAACAGGTATTGACCTAGATGAAATGCTACTACCGGATCAGTTAACCTTACCTTTATTGTGGCT
TGGCTTGCTTATTAATCTTAAAGGTATCTATGCAAGCCCTACTGATGCCATTGTAGGTGCAGCTGCTGGTTATTTAAGTC
TTTGGTCTGTGTTTTGGTTGTTCAAGCTAGTTACAGGCAAAGAAGGCATGGGTTATGGCGATTTCAAATTGTTAGCCGTG
TTTGGTGCTTGGTTAGGCTGGCAATTTTTACCGCTTATCATCCTCCTATCTTCGTTAGTAGGAGCCATTGTCGGTATTAC
GATGATGTTATTGAAAAATTTATCGAGAGACAACCCGATTCCATTTGGCCCATACATAGCGGTAGCAGGCTGGATTGCAT
TAGTCTGGGGACAAGATATTATCAATTGGTACCTTGGAACCTTATATTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-147)

Type IV leader peptidase family (Peptidase_A24)

(158-266)


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 campbellii strain DS40M4

50.498

97.411

0.492
  pilD Vibrio cholerae strain A1552

51.361

95.146

0.489
  pilD Acinetobacter baumannii D1279779

48.366

99.029

0.479
  pilD Acinetobacter nosocomialis M2

48.039

99.029

0.476
  pilD Neisseria gonorrhoeae MS11

45

90.615

0.408

Multiple sequence alignment