Question: Mutation database for protein
0
gravatar for ashamscsoft
2.9 years ago by
ashamscsoft10
ashamscsoft10 wrote:

I need one help can somebody help me? I need to know is there any database available for protein mutation information like HGMD is available? I saw protein mutant database(PMD) but im unable to get into that page. Could someone help me?

protein • 1.7k views
ADD COMMENTlink written 2.9 years ago by ashamscsoft10

Can you be more specific about what you need?

ADD REPLYlink written 2.9 years ago by WouterDeCoster39k
0
gravatar for RamRS
2.9 years ago by
RamRS21k
Houston, TX
RamRS21k wrote:

All protein mutations have underlying DNA/RNA mutations.

HGMD has a Missense/Nonsense section for each gene that shows you protein changes. You might also have to look through insertions, deletions and indels to find in-frame variants that lead to a protein change, or frameshift variants (if you're looking for such) as well.

For the insertions/deletions/indels, you will have to use the python hgvs module to translate cDNA changes to predicted protein changes.

ADD COMMENTlink written 2.9 years ago by RamRS21k

ya i know about HGMD, but there is no separate database for protein mutation?

ADD REPLYlink written 2.9 years ago by ashamscsoft10

What is a protein mutation exactly? Mutations in protein coding sequences? Mutations changing protein coding sequences?

ADD REPLYlink written 2.9 years ago by WouterDeCoster39k

Both will be same when, what ram is true if the protein mutations underlie DNA/RNA. Both will be different when there is no mutation in DNA/RNA, and the mutation occurs in protein due to misfold etc.

ADD REPLYlink written 2.9 years ago by ashamscsoft10

Are you sure you know what you're talking about? (Or perhaps I misunderstand)

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by WouterDeCoster39k

k now i got a doubt can u clear my doubt without mutation in DNA/RNA, is there a chance of a mutation in a protein?

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by ashamscsoft10

Cystic fibrosis most certainly occurs due to a genetic mutation (potentially resulting in protein misfolding). In addition, there is no such a thing as a non-genetic mutation. Every mutation is "genetic".

ADD REPLYlink written 2.9 years ago by WouterDeCoster39k

Ya im sorry ur right but my doubt is without mutation in DNA/RNA, is there a chance of a mutation in a protein?

ADD REPLYlink written 2.9 years ago by ashamscsoft10

i think protein mutation is Mutations changing protein coding sequences. Am i rite

ADD REPLYlink written 2.9 years ago by ashamscsoft10

I haven't heard of the term "protein mutation".

ADD REPLYlink written 2.9 years ago by WouterDeCoster39k

Most variants affect the DNA sequence. If you are looking for aberrations brought in during post translational modifications, such as misfolding, they are highly specific to where they happen and are quite rare. I doubt there is a database out there for all proteins.

You may have to focus on your proteins of interest and build one for yourself probably based on molecular dynamics and sequence analysis.

ADD REPLYlink written 2.9 years ago by RamRS21k

Theoretically yes, you can have differences in a protein without mutation in the DNA, because RNA editing enzymes exist which could posttranslationally modify a transcript, resulting in a different codon, resulting in a different protein. But that's probably not a frequent event.

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by WouterDeCoster39k
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