<p>I don't think there is a human_nr or human_nt database for NCBI.</p>
<p>An equivalent database is accessible via the standard <code>nr/nt</code> database and simply restrict the organism parameter to <code>human</code> or to taxa id <code>9606 </code>. This essentially will do the same thing.</p>
<p>Or maybe this sort of thing?,</p>
<pre><code>blastdbcmd -db nr -entry all -outfmt &quot;%g %T&quot; | awk ' { if (<span class="math-container">$2 == 9606) { print $</span>1 } } ' &gt; human_flat-list.db
</code></pre>

CC BY-SA 4.0
2023-05-12T14:23:38.657Z
This is super helpful!  I'm guessing these were custom prepared similar to what you describe.  Thank you!
KirkD-CO
CC BY-SA 4.0
2023-05-12T14:28:09.800Z
Thanks for your feedback @KirkD-CO
M__
CC BY-SA 4.0
2023-05-12T00:45:17.817Z
2023-05-12T01:07:16.590Z
2023-05-12T01:07:16.590Z
M__
<p>I'm working with a system that does local BLAST searches using some preconfigured BLAST databases.  From what I see, these were updated within the last year, but I cannot find any current databases available that have those same names.  One specific set is a non-redundant set of human protein or nucleotide sequences.  The databases are named human_nr and human_nt (with various extensions as per the BLAST db format).  There are others names up_sp_human (Uniprot-Swissprot human?) and up_tbl_human (Uniprot-Tremble human?), but a cannot find any similar databases on the NCBI site or other sites.</p>
<p>Where else should I look for such preconfigured databases?</p>

<phylogenetics><phylogeny><blast><public-databases><ncbi>
NCBI Blast databases - cannot find some databases
# NCBI Blast databases - cannot find some databases

(Asked by: username_0 on 2023-05-11)

I'm working with a system that does local BLAST searches using some preconfigured BLAST databases. From what I see, these were updated within the last year, but I cannot find any current databases available that have those same names. One specific set is a non-redundant set of human protein or nucleotide sequences. The databases are named human\_nr and human\_nt (with various extensions as per the BLAST db format). There are others names up\_sp\_human (Uniprot-Swissprot human?) and up\_tbl\_human (Uniprot-Tremble human?), but a cannot find any similar databases on the NCBI site or other sites.

Where else should I look for such preconfigured databases?

**Tags:** phylogenetics, phylogeny, blast, public-databases, ncbi

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## 1 answers

### Answer by username_1 on 2023-05-12. Score: 3 | Accepted answer

I don't think there is a human_nr or human_nt database for NCBI.
An equivalent database is accessible via the standard nr/nt database and simply restrict the organism parameter to human or to taxa id 9606 . This essentially will do the same thing.
Or maybe this sort of thing?,
blastdbcmd -db nr -entry all -outfmt "%g %T" | awk ' { if ($2 == 9606) { print $1 } } ' > human_flat-list.db

> **Comments:**
> **username_0**: This is super helpful!  I'm guessing these were custom prepared similar to what you describe.  Thank you!  
> **username_1**: Thanks for your feedback @KirkD-CO  

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