Question

Webservice/Download Options For Homology Models

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12.0 years ago

andreas.steffen • 0

Hi,

I am looking for a webservice from which I can programmatically download homology model(s) for a given transcript accession code of human genes. Swiss-Model seems to explicitely forbid to scrape structures from their wepage (see FAQ: http://swissmodel.expasy.org/?pid=smd06) and they don't offer an API. Is there any other webservice which would allow for this? Alternatively, is there any repository of homology models for all human genes that I could download?

Very many thanks in advance, A.

homology modeling webservice • 3.2k views

ADD COMMENT • link updated 9.7 years ago by Fabrice Jossinet ▴ 150 • written 12.0 years ago by andreas.steffen • 0

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Please define "transcript accession code." You mean something like an Ensembl transcript ID?

ADD REPLY • link 12.0 years ago by Neilfws 49k

score 0 · Answer 1 · 2012-12-09

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12.0 years ago

Neilfws 49k

is there any repository of homology models

There are at least 3:

ADD COMMENT • link 12.0 years ago by Neilfws 49k

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many thanks! Problem is I need one providing an API or the possibility to download.

ADD REPLY • link 12.0 years ago by andreas.steffen • 0

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ModBase - probably the best of the 3 - provides FTP download: ftp://salilab.org/databases/modbase/.

ADD REPLY • link 12.0 years ago by Neilfws 49k

score 0 · Answer 2 · 2015-03-17

I just found that in the README of the ModBase FTP:

All models for a database ID:

http://salilab.org/modbase/retrieve?databaseID=database_id_from_summary_file
for example:
curl "http://salilab.org/modbase/retrieve?databaseID=Q12321"

One specific model:

http://salilab.org/modbase/retrieve?modelID=modelid_from_summary_file
for example:
curl "http://salilab.org/modbase/retrieve?modelID=064dd62ea7483831c9cfc1f72499630e"