Sunid
From Foldeomics Wiki
PFD uses SCOP Unique IDs (or sunids) to identify unique protein constructs & mutants of those constructs.
If the construct of data you are depositing has had its structure solved, then we ask that you enter the sunid of that construct during deposition.
Contents |
What Is A Sunid?
Proteins which have had their structures solved are grouped into families with homologues and other proteins with similar structures.
They are then entered into the Structural Classification of Proteins (SCOP) Database.
Proteins in the SCOP Database are sorted at several hierarchical levels.
Each individual grouping within the Class, Fold, Superfamily, Family and Protein groups has its own specific ID allocated.
Hierarchical Structure Of SCOP Database
Class
Class refers to general structural classification of the protein, according to the dominant structural components of the protein eg. Alpha, beta, alpha/beta, small proteins, multi-domain proteins.
Fold
Fold refers to the major tertiary fold and arrangement of secondary structural components within the protein (eg. In β-sheets, barrels).
Superfamily
Superfamily relates proteins which have a 'probable common evolutionary origin' - they share the same fold, similar functional and structural features but low sequence homology.
Family
Family relates proteins with a 'clear evolutionary relationship'. Generally this suggests that they share relatively high sequence homology and/or very similar functions and structures.
Protein
Protein refers to the individual proteins and structures, taking into account the organism of origin and specific sequence.
How Do I Find My Sunid?
During deposition of your measurement data, you will be prompted for the sunid of the construct.
If the construct of your protein has had its structure solved, we ask that you fill this field in.
When depositing your construct data, you should notice a link entitled 'Search SCOP' (directly below the field).
Clicking on the link will open the SCOP Database in a new window.
Searching SCOP Database
You can use the search box at the top of the SCOP Database page to find the sunid relevant to your construct.
Simply enter a SCOP Identifier (e.g. sunid, sid, sccs), or a keyword relevant to your construct (e.g. protein name, SCOP family name, SCOP class name, etc).
When searching the SCOP Database, it is best to search on single words terms (eg.'sapiens' rather than 'homo sapiens'), then select the appropriate choice from the list provided.
The SCOP Database may also be searched using reference codes from the PDB Database.
More information on keywords that can be used in the searchbox can be found in SCOP's help manual.
Note: Some proteins have not been structurally characterized, in which case the SCOP class and family should be listed as 'unknown'.
If your construct has had its structure solved, then it will have a sunid.
The sunid is the number in the square brackets [ ].
eg. Calcineurin (FKBP12.6) = [54539]
Mark Bate 15:12, 31 August 2006 (EST)
