# Can Qiime assign taxonomy to proteins?
**URL:** https://forum.qiime2.org/t/can-qiime-assign-taxonomy-to-proteins/20737
**Category:** User Support
**Created:** [September 14, 2021, 9:17am UTC](https://forum.qiime2.org/t/can-qiime-assign-taxonomy-to-proteins/20737 "2021-09-14T09:17:05Z")
**Posts on this page:** 3
**Page:** 1
### Author:  [@iquasere](https://forum.qiime2.org/u/iquasere)
#### Post date: [September 14, 2021, 9:17am UTC](https://forum.qiime2.org/t/can-qiime-assign-taxonomy-to-proteins/20737/1 "2021-09-14T09:17:05Z")
I am trying to run Qiime2 to taxonomically annotate proteins. So far, I have run this command to import a FASTA as a Qiime object:
qiime tools import --type "FeatureData[ProteinSequence]" --input-path protein\_fasta\_qiime2\_test/non\_chimeric\_prot\_corr\_q2\_import\_test.fasta --output-path sequences.qza
and have tried running this command to classify the sequences
qiime feature-classifier classify-hybrid-vsearch-sklearn
but it doesn't accept "FeatureData[ProteinSequence]" as a valid input format. How can I classify protein sequences taxonomically with Qiime2? Also, would it be preferable (faster or more accurate) to common methods with BLAST or DIAMOND?
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### Author:  [@Nicholas\_Bokulich](https://forum.qiime2.org/u/Nicholas_Bokulich)
#### Post date: [September 16, 2021, 5:26am UTC](https://forum.qiime2.org/t/can-qiime-assign-taxonomy-to-proteins/20737/2 "2021-09-16T05:26:48Z")
Welcome @iquasere !
QIIME 2 cannot currently assign taxonomy to proteins. It is a work in progress to add this functionality (contributions are very welcome! 😉 ), see here for more details and relevant discussion:
> [@Importing protein sequences into version 2021.2](https://forum.qiime2.org/t/importing-protein-sequences-into-version-2021-2/18708):
>
> Hi q2-team! I was excited to see the 2021.2 version including q2-types that can read proteins/amino acid sequences. But I am getting errors importing an unaligned .fasta file, which contains typical fasta headers and amino acid sequence lines. I reference this announcement about protein types ([https://forum.qiime2.org/t/qiime-2-2021-2-is-now-available/18642](https://forum.qiime2.org/t/qiime-2-2021-2-is-now-available/18642)). Can I confirm the formats/q2-types listed in the announcement are immediately available? For instance, when running a qiime tools import…
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### Author:  [@system](https://forum.qiime2.org/u/system)
#### Post date: [October 17, 2021, 11:27am UTC](https://forum.qiime2.org/t/can-qiime-assign-taxonomy-to-proteins/20737/3 "2021-10-17T11:27:34Z")
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