Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QPX86_RS18510 Genome accession   NZ_CP126972
Coordinates   4399487..4400404 (+) Length   305 a.a.
NCBI ID   WP_407696605.1    Uniprot ID   -
Organism   Shewanella goraebulensis strain DAU312     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4394487..4405404
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QPX86_RS18495 - 4395844..4396266 (+) 423 WP_285163481.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  QPX86_RS18500 pilB 4396383..4398095 (+) 1713 WP_285163482.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QPX86_RS18505 pilC 4398171..4399439 (+) 1269 WP_285163483.1 type II secretion system F family protein Machinery gene
  QPX86_RS18510 pilD 4399487..4400404 (+) 918 WP_407696605.1 prepilin peptidase Machinery gene
  QPX86_RS18515 coaE 4400406..4401011 (+) 606 WP_285163485.1 dephospho-CoA kinase -
  QPX86_RS18520 zapD 4401021..4401758 (+) 738 WP_285163486.1 cell division protein ZapD -
  QPX86_RS18525 yacG 4401799..4402008 (+) 210 WP_285163487.1 DNA gyrase inhibitor YacG -
  QPX86_RS18530 mutT 4402023..4402418 (+) 396 WP_285163488.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 305 a.a.        Molecular weight: 34184.54 Da        Isoelectric Point: 8.3075

>NTDB_id=840908 QPX86_RS18510 WP_407696605.1 4399487..4400404(+) (pilD) [Shewanella goraebulensis strain DAU312]
MNTFIESMSQSPWLFISISFIFAATIGSFLNVVIHRFPVMMKREWQSECNYYLSEYHPDIVKEVGEKRLNKRIDNYPEKY
NLVVPGSACPKCKANIKPWHNVPIIGWLMIGGKCASCKASISARYPVFELITGLLVATLAWHFGPTWQFLYASILTFVLI
ALTGIDLDEMLLPDQLTLPILWLGLIINLKGVYASPTDAVIGATAGYLSLWSVFWLFKLATGKEGMGYGDFKLLAVFGAW
LGWQFLPLIILLSSLVGAVIGISMMISKKITRENPIPFGPYIAIAGWVALVWGQDIINWYLGTFI

Nucleotide


Download         Length: 918 bp        

>NTDB_id=840908 QPX86_RS18510 WP_407696605.1 4399487..4400404(+) (pilD) [Shewanella goraebulensis strain DAU312]
ATGAATACTTTTATTGAATCAATGAGCCAATCACCTTGGCTCTTTATTTCAATTAGCTTTATTTTTGCTGCCACCATTGG
CAGCTTTCTCAATGTGGTAATTCATCGCTTTCCAGTAATGATGAAACGTGAATGGCAAAGTGAATGTAATTATTACCTTT
CAGAATACCACCCTGATATCGTAAAAGAAGTCGGTGAGAAACGACTGAATAAACGTATTGATAATTATCCTGAGAAATAT
AACTTAGTTGTACCTGGTTCTGCTTGTCCCAAATGTAAAGCCAATATAAAGCCTTGGCATAATGTACCTATTATAGGTTG
GTTAATGATCGGTGGTAAATGTGCAAGTTGTAAGGCATCTATCAGCGCAAGGTATCCAGTATTTGAATTAATAACGGGTC
TTTTAGTAGCAACGCTGGCTTGGCACTTTGGTCCAACTTGGCAATTTTTATACGCATCTATTCTTACCTTCGTCTTGATT
GCCCTTACCGGTATTGATCTAGATGAAATGCTGCTACCAGATCAATTAACGCTGCCCATTTTATGGTTAGGTCTAATTAT
TAATCTAAAAGGTGTTTATGCGAGCCCAACAGATGCTGTTATTGGTGCTACTGCAGGTTATTTGAGCCTTTGGTCGGTGT
TTTGGCTGTTCAAACTTGCGACAGGCAAAGAAGGCATGGGCTATGGAGACTTTAAACTACTTGCAGTATTTGGTGCATGG
TTAGGCTGGCAATTCCTTCCTTTAATTATTTTACTTTCATCATTGGTAGGTGCTGTAATTGGCATTTCGATGATGATAAG
CAAGAAAATCACCAGAGAAAACCCAATTCCATTCGGTCCTTATATTGCCATCGCAGGATGGGTTGCCCTTGTATGGGGAC
AGGATATTATCAACTGGTATCTAGGTACATTCATATAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-262)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)


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

99.016

0.495
  pilD Vibrio cholerae strain A1552

50.676

97.049

0.492
  pilD Acinetobacter baumannii D1279779

49.333

98.361

0.485
  pilD Acinetobacter nosocomialis M2

49.333

98.361

0.485
  pilD Neisseria gonorrhoeae MS11

42.561

94.754

0.403