Protein details/Glycosylation: Difference between revisions
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==GlyGen portal== | ==GlyGen portal== | ||
[[File:Protein_Glycosylation_Screenshot.jpg|thumb|upright|Screenshot of the Glycosylation section on the [[Protein information]] page in GlyGen.]] | [[File:Protein_Glycosylation_Screenshot.jpg|thumb|upright|Screenshot of the Glycosylation section on the [[Protein information]] page in GlyGen.]] | ||
Glycosylation is presented in 4 tabs on the [[Protein information]] page in GlyGen. | Glycosylation is presented in 4 tabs on the [[Protein information]] page in GlyGen. The Glycosylation summary provides the overall information about the section like the total number of sites (O,N,S,C linked sites), total number of N linked and O-linked sites with the total number of glycan annotations (structures) observed on the protein. | ||
===Reported Sites with Glycan=== | ===Reported Sites with Glycan=== | ||
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This tab shows a table with the following columns: | This tab shows a table with the following columns: | ||
*'''Source''' - | *'''Source''' - GlyGen evidence linking to the databases and papers that provided the glycosylation information | ||
*'''Type''' - .. | *'''Type''' - Type of glycosylation. Eg. N-linked, O-linked | ||
*'''GlyTouCan ID''' - ... | *'''GlyTouCan ID''' - Unique accession assigned to the registered glycan structure in [https://glytoucan.org/ GlyTouCan] database. Eg. G01543ZX | ||
*'''Glycan Image''' - Image of the glycan | *'''Glycan Image''' - Image of the glycan in SNFG format | ||
*'''Residue''' - | *'''Residue''' - Amino acid residue of the given protein along with its position. | ||
*'''Note''' - | *'''Note''' - Additional information about the entry such as curation notes, O-glycosylation subtype, remarks, etc. | ||
===Reported Sites=== | ===Reported Sites=== | ||
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==Data access== | ==Data access== | ||
{{Expand section|small=no}} | {{Expand section|small=no}} | ||
The Glycosylation data is collected from the resources such as '''[https://www.uniprot.org/ UniProtKB]''', Glyconnect, UniCarbKB, RCSB PDB, The O-GlcNAc Database. The collected data is processed and stored in data.glygen.org in following datasets. | |||
* Human Glycosylation Sites (UniProtKB) | *Human Glycosylation Sites (UniProtKB) | ||
* Mouse Glycosylation Sites (UniProtKB) | *Mouse Glycosylation Sites (UniProtKB) | ||
* Glycosylation Sites - UniCarbKB [Human proteins] | *Glycosylation Sites - UniCarbKB [Human proteins] | ||
* Glycosylation sites - UniCarbKB [Mouse proteins] | *Glycosylation sites - UniCarbKB [Mouse proteins] | ||
* Human Glycosylation Sites (RCSB PDB) | *Human Glycosylation Sites (RCSB PDB) | ||
* Mouse Glycosylation Sites (RCSB PDB) | *Mouse Glycosylation Sites (RCSB PDB) | ||
* Glycosylation sites - UniCarbKB [Rat proteins] | *Glycosylation sites - UniCarbKB [Rat proteins] | ||
* Rat Glycosylation Sites (UniProtKB) | *Rat Glycosylation Sites (UniProtKB) | ||
* Rat Glycosylation Sites (RCSB PDB) | *Rat Glycosylation Sites (RCSB PDB) | ||
* Human Glycosylation Sites (GlyConnect) | *Human Glycosylation Sites (GlyConnect) | ||
* Mouse Glycosylation Sites (GlyConnect) | *Mouse Glycosylation Sites (GlyConnect) | ||
* Rat Glycosylation Sites (GlyConnect) | *Rat Glycosylation Sites (GlyConnect) | ||
* HCV1a Glycosylation Sites (Literature + UniCarbKB) | *HCV1a Glycosylation Sites (Literature + UniCarbKB) | ||
* HCV1a Glycosylation Sites (UniProtKB) | *HCV1a Glycosylation Sites (UniProtKB) | ||
* HCV1b Glycosylation Sites (UniProtKB) | *HCV1b Glycosylation Sites (UniProtKB) | ||
* SARS-CoV2 Glycosylation Sites (UniProtKB) | *SARS-CoV2 Glycosylation Sites (UniProtKB) | ||
* Glycosylation Sites - UniCarbKB [SARS CoV 2 proteins] | *Glycosylation Sites - UniCarbKB [SARS CoV 2 proteins] | ||
* Human Glycosylation Sites [GPTwiki] | *Human Glycosylation Sites [GPTwiki] | ||
* Human Glycosylation Sites [Automatic Literature Mining] [Automatically verified] | *Human Glycosylation Sites [Automatic Literature Mining] [Automatically verified] | ||
* SARS-CoV1 Glycosylation Sites (UniProtKB) | *SARS-CoV1 Glycosylation Sites (UniProtKB) | ||
* Human O-GlcNAc Glycosylation Sites (MCW) | *Human O-GlcNAc Glycosylation Sites (MCW) | ||
* SARS-CoV2 Glycosylation sites | *SARS-CoV2 Glycosylation sites | ||
* Human Glycosylation Sites UniCarbKB Glycomics Study | *Human Glycosylation Sites UniCarbKB Glycomics Study | ||
* SARS-CoV1 Glycosylation Sites (Literature) | *SARS-CoV1 Glycosylation Sites (Literature) | ||
==Data harmonization== | ==Data harmonization== |
Revision as of 15:10, 11 November 2021
The glycosylation section of the Protein information page in GlyGen provides the detailed list of glycosylation sites, reported glycans attached to the protein and predicted sites.
GlyGen portal
![](/images/thumb/a/ae/Protein_Glycosylation_Screenshot.jpg/230px-Protein_Glycosylation_Screenshot.jpg)
Glycosylation is presented in 4 tabs on the Protein information page in GlyGen. The Glycosylation summary provides the overall information about the section like the total number of sites (O,N,S,C linked sites), total number of N linked and O-linked sites with the total number of glycan annotations (structures) observed on the protein.
Reported Sites with Glycan
This section needs expansion. You can help by adding to it. |
This tab shows a table with the following columns:
- Source - GlyGen evidence linking to the databases and papers that provided the glycosylation information
- Type - Type of glycosylation. Eg. N-linked, O-linked
- GlyTouCan ID - Unique accession assigned to the registered glycan structure in GlyTouCan database. Eg. G01543ZX
- Glycan Image - Image of the glycan in SNFG format
- Residue - Amino acid residue of the given protein along with its position.
- Note - Additional information about the entry such as curation notes, O-glycosylation subtype, remarks, etc.
Reported Sites
This section needs expansion. You can help by adding to it. |
Source of information
This section needs expansion. You can help by adding to it. |
The following resources provided information that was integrated in GlyGen
- UniProtKB - only reported sites information and predicted information is downloaded from UniProtKB
Data access
This section needs expansion. You can help by adding to it. |
The Glycosylation data is collected from the resources such as UniProtKB, Glyconnect, UniCarbKB, RCSB PDB, The O-GlcNAc Database. The collected data is processed and stored in data.glygen.org in following datasets.
- Human Glycosylation Sites (UniProtKB)
- Mouse Glycosylation Sites (UniProtKB)
- Glycosylation Sites - UniCarbKB [Human proteins]
- Glycosylation sites - UniCarbKB [Mouse proteins]
- Human Glycosylation Sites (RCSB PDB)
- Mouse Glycosylation Sites (RCSB PDB)
- Glycosylation sites - UniCarbKB [Rat proteins]
- Rat Glycosylation Sites (UniProtKB)
- Rat Glycosylation Sites (RCSB PDB)
- Human Glycosylation Sites (GlyConnect)
- Mouse Glycosylation Sites (GlyConnect)
- Rat Glycosylation Sites (GlyConnect)
- HCV1a Glycosylation Sites (Literature + UniCarbKB)
- HCV1a Glycosylation Sites (UniProtKB)
- HCV1b Glycosylation Sites (UniProtKB)
- SARS-CoV2 Glycosylation Sites (UniProtKB)
- Glycosylation Sites - UniCarbKB [SARS CoV 2 proteins]
- Human Glycosylation Sites [GPTwiki]
- Human Glycosylation Sites [Automatic Literature Mining] [Automatically verified]
- SARS-CoV1 Glycosylation Sites (UniProtKB)
- Human O-GlcNAc Glycosylation Sites (MCW)
- SARS-CoV2 Glycosylation sites
- Human Glycosylation Sites UniCarbKB Glycomics Study
- SARS-CoV1 Glycosylation Sites (Literature)
Data harmonization
This section needs expansion. You can help by adding to it. |
Data filtering
This section needs expansion. You can help by adding to it. |