PhosphoSite client¶
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class
protmapper.phosphosite_client.
PhosphoSite
(GENE, PROTEIN, ACC_ID, HU_CHR_LOC, MOD_RSD, SITE_GRP_ID, ORGANISM, MW_kD, DOMAIN, SITE_7_AA, LT_LIT, MS_LIT, MS_CST, CST_CAT)¶ Bases:
tuple
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ACC_ID
¶ Alias for field number 2
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CST_CAT
¶ Alias for field number 13
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DOMAIN
¶ Alias for field number 8
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GENE
¶ Alias for field number 0
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HU_CHR_LOC
¶ Alias for field number 3
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LT_LIT
¶ Alias for field number 10
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MOD_RSD
¶ Alias for field number 4
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MS_CST
¶ Alias for field number 12
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MS_LIT
¶ Alias for field number 11
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MW_kD
¶ Alias for field number 7
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ORGANISM
¶ Alias for field number 6
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PROTEIN
¶ Alias for field number 1
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SITE_7_AA
¶ Alias for field number 9
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SITE_GRP_ID
¶ Alias for field number 5
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class
protmapper.phosphosite_client.
PspMapping
(mapped_id, mapped_res, mapped_pos, motif, respos)¶ Bases:
tuple
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mapped_id
¶ Alias for field number 0
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mapped_pos
¶ Alias for field number 2
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mapped_res
¶ Alias for field number 1
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motif
¶ Alias for field number 3
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respos
¶ Alias for field number 4
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protmapper.phosphosite_client.
has_data
()[source]¶ Check if the PhosphoSite data is available and can be loaded.
Returns: True if the data can be loaded, False otherwise. Return type: bool
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protmapper.phosphosite_client.
map_to_human_site
(up_id, mod_res, mod_pos)[source]¶ Find site on human ref seq corresponding to (possibly non-human) site.
Parameters: Returns: Returns amino acid position on the human reference sequence corresponding to the site on the given protein.
Return type:
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protmapper.phosphosite_client.
sites_only
(exclude_isoforms=False)[source]¶ Return PhosphositePlus data as a flat list of proteins and sites.
Parameters: exclude_isoforms (bool) – Whether to exclude sites for protein isoforms. Default is False (includes isoforms). Returns: Each tuple consists of (uniprot_id, residue, position). Return type: list of tuples