Answers.Body: <p>A simple BLAST on the <a href="https://www.uniprot.org/blast/" rel="nofollow noreferrer">UniProt website</a> does the trick (target database <em>plants</em>). </p>
  
  <p>Best matches are subsequences <code>ETVEREKE</code> and <code>EKKRRETV</code> in <em>Green alga</em> and <em>Eelgrass</em> respectively.</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2018-10-30T10:45:52.510Z
Answers.LastActivityDate: 2018-10-30T10:45:52.510Z
Answers.UserDisplayName: lars20070
Body: <p>I would like to blast a peptide sequence against all available plant proteome databases, i.e. a <code>blastp</code> metaproteome analysis.</p>
  
  <p>What tools are available? Which database can I use?</p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-10-28T10:09:39.897Z
Comments.Text: Welcome to the site lars. You seem aware of blastp, did it not solve your problem? Or do you expect something else of blastp? Could you explain what have you tried?  (to avoid suggesting the same you have already done)
Comments.UserDisplayName: llrs
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-10-28T10:48:55.183Z
Comments.Text: Thank you for the very quick reply. So far I installed `ncbi-blast-2.7.1+`. With `makeblastdb` I generated `*.phr, *.pin, *psq` from a `fasta`. I now try `blastp` against this database. Next steps would be to compile a metadatabase from all plant proteome databases I can find.
  
  I wonder if all of this work has already been done. Is there a website/API that I can use? I simply want to find all plant proteins which contain the amino acid sequence `TEKKRRETVEREKE`. Thanks.
Comments.UserDisplayName: lars20070
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-10-29T08:03:35.853Z
Comments.Text: Please [edit] the question to include this information. In addition, what sequences are in your fasta file? I think that you can download fasta files from NCBI. You  could download the sequences from plants proteins and make the database from that (if this is not already what you did)
Comments.UserDisplayName: llrs
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-10-29T08:25:57.657Z
Comments.Text: At the moment, I work only with *arabidopsis thaliana*. Is there a plant meta-database? My main objective is to figure out in which plant species this peptide is expressed.
Comments.UserDisplayName: lars20070
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-10-29T08:40:19.740Z
Comments.Text: For example, [PPDB](http://ppdb.tc.cornell.edu) is only for *arabidopsis thaliana* and maize.
Comments.UserDisplayName: lars20070
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2018-10-29T08:42:45.363Z
Comments.Text: Sorry I don't work with plants (nor with blast) and I can't answer where to find such data. But add this relevant information to the question, so make it easier to those who might be able to answer you.
Comments.UserDisplayName: llrs
Tags: <proteins><blast><metagenome>
Title: API/website for blasting peptide sequence against database of all plant proteomes
ThreadText: # API/website for blasting peptide sequence against database of all plant proteomes
  
  (Asked by: username_0 on 2018-10-28)
  
  I would like to blast a peptide sequence against all available plant proteome databases, i.e. a `blastp` metaproteome analysis.
  
  What tools are available? Which database can I use?
  
  **Tags:** proteins, blast, metagenome
  
  > **Comments:**
  > **username_1**: Welcome to the site lars. You seem aware of blastp, did it not solve your problem? Or do you expect something else of blastp? Could you explain what have you tried?  (to avoid suggesting the same you have already done)  
  > **username_0**: Thank you for the very quick reply. So far I installed `ncbi-blast-2.7.1+`. With `makeblastdb` I generated `*.phr, *.pin, *psq` from a `fasta`. I now try `blastp` against this database. Next steps would be to compile a metadatabase from all plant proteome databases I can find.  I wonder if all of this work has already been done. Is there a website/API that I can use? I simply want to find all plant proteins which contain the amino acid sequence `TEKKRRETVEREKE`. Thanks.  
  > **username_1**: Please [edit] the question to include this information. In addition, what sequences are in your fasta file? I think that you can download fasta files from NCBI. You  could download the sequences from plants proteins and make the database from that (if this is not already what you did)  
  > **username_0**: At the moment, I work only with *arabidopsis thaliana*. Is there a plant meta-database? My main objective is to figure out in which plant species this peptide is expressed.  
  > **username_0**: For example, [PPDB](http://ppdb.tc.cornell.edu) is only for *arabidopsis thaliana* and maize.  
  > **username_1**: Sorry I don't work with plants (nor with blast) and I can't answer where to find such data. But add this relevant information to the question, so make it easier to those who might be able to answer you.  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_0 on 2018-10-30. Score: 1 | Accepted answer
  
  A simple BLAST on the [UniProt website](https://www.uniprot.org/blast/) does the trick (target database *plants*).
  
  Best matches are subsequences `ETVEREKE` and `EKKRRETV` in *Green alga* and *Eelgrass* respectively.
  
  
  ---
  
  