Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IGB07_RS20525 Genome accession   NZ_CP062058
Coordinates   4799938..4800867 (-) Length   309 a.a.
NCBI ID   WP_192023124.1    Uniprot ID   -
Organism   Shewanella sp. WPAGA9     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4794938..4805867
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IGB07_RS20505 mutT 4797911..4798348 (-) 438 WP_225442156.1 8-oxo-dGTP diphosphatase MutT -
  IGB07_RS20510 yacG 4798323..4798532 (-) 210 WP_192021958.1 DNA gyrase inhibitor YacG -
  IGB07_RS20515 zapD 4798573..4799310 (-) 738 WP_192021959.1 cell division protein ZapD -
  IGB07_RS20520 coaE 4799320..4799925 (-) 606 WP_192021961.1 dephospho-CoA kinase -
  IGB07_RS20525 pilD 4799938..4800867 (-) 930 WP_192023124.1 prepilin peptidase Machinery gene
  IGB07_RS20530 pilC 4800893..4802158 (-) 1266 WP_119967825.1 type II secretion system F family protein Machinery gene
  IGB07_RS20535 pilB 4802212..4803921 (-) 1710 WP_119967824.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IGB07_RS20540 - 4804300..4805655 (+) 1356 WP_192021962.1 O-antigen ligase family protein -
  IGB07_RS20545 - 4805624..4805803 (-) 180 WP_192021963.1 hypothetical protein -

Sequence

Protein


Download         Length: 309 a.a.        Molecular weight: 34714.38 Da        Isoelectric Point: 8.3118

>NTDB_id=485940 IGB07_RS20525 WP_192023124.1 4799938..4800867(-) (pilD) [Shewanella sp. WPAGA9]
MNEFITNLITSMTQSPWLFMSISFIFAATIGSFLNVVIHRFPVMMKREWQSECNFYLSEYHPDIVKEVGETRLNKPIDKY
PLKYNLVVPGSACPKCKSNIKPWHNLPILGWILLKGKCANCKAAISARYPLFELITGILVAVLAWHFGPTWQFLFASILT
FILIALTGIDLDEMLLPDQLTLPLLWFGLLINLKGIYASPTDAIVGAAAGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAV
FGAWLGWQFLPLIILLSSLVGAIVGITMILLKNLSRENPIPFGPYIAVAGWIALVWGQDIINWYLGTLY

Nucleotide


Download         Length: 930 bp        

>NTDB_id=485940 IGB07_RS20525 WP_192023124.1 4799938..4800867(-) (pilD) [Shewanella sp. WPAGA9]
ATGAATGAATTTATAACGAACCTCATAACATCAATGACCCAATCACCTTGGCTCTTTATGTCAATTAGCTTTATCTTTGC
TGCCACTATTGGCAGCTTTTTAAACGTCGTCATCCACCGCTTTCCAGTGATGATGAAACGTGAATGGCAAAGTGAATGTA
ACTTTTATTTATCAGAATACCACCCAGACATCGTCAAAGAAGTCGGTGAAACACGTTTAAATAAGCCAATAGACAAATAC
CCCCTAAAATATAACTTAGTTGTACCTGGCTCAGCCTGCCCGAAATGCAAAAGTAATATCAAACCTTGGCATAATTTACC
TATCTTAGGTTGGATTTTACTAAAAGGTAAATGCGCTAATTGTAAAGCAGCAATTAGCGCTAGATACCCTCTATTTGAAT
TAATAACAGGCATTTTAGTTGCGGTGCTTGCTTGGCACTTTGGACCTACCTGGCAGTTTCTATTTGCATCAATACTGACG
TTTATACTGATAGCACTAACAGGTATTGACCTAGATGAAATGCTACTACCAGACCAGCTAACCTTACCTTTATTGTGGTT
TGGCTTGCTTATTAATCTTAAAGGCATCTATGCTAGCCCTACTGATGCCATTGTAGGTGCAGCTGCTGGTTATTTAAGTC
TTTGGTCTGTGTTTTGGTTGTTCAAGCTAGTAACAGGCAAAGAAGGCATGGGTTATGGCGATTTTAAATTGTTAGCCGTG
TTTGGTGCTTGGTTAGGCTGGCAGTTTTTACCGCTTATCATCCTCCTATCTTCGTTAGTAGGAGCCATTGTTGGTATTAC
GATGATATTATTGAAAAATTTATCGAGAGAAAACCCGATTCCATTTGGCCCATACATAGCGGTAGCAGGCTGGATTGCAT
TAGTCTGGGGACAGGATATTATCAATTGGTACCTTGGAACCTTATATTAA

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

51.701

95.146

0.492
  pilD Vibrio cholerae strain A1552

51.02

95.146

0.485
  pilD Acinetobacter baumannii D1279779

48.366

99.029

0.479
  pilD Acinetobacter nosocomialis M2

48.039

99.029

0.476
  pilD Neisseria gonorrhoeae MS11

44.643

90.615

0.405