This web page was produced for Genetics 564, an undergraduate course at UW-Madison
What is a domain?
Domains are large structural units within a protein [2]. Understanding domains may yield some primary information about the function of a specific portion of the protein.
Identification of polycystin-1 domains was performed using PROSITE, a domain repository. PROSITE collects patterns and profiles of domains which it can then use to later identify domains present within large input sequences. Polycystin-1 contains a large number of domains that are involved in protein and carbohydrate binding. Polycystin-1 also includes domains whose function is less well understood.
Identification of polycystin-1 domains was performed using PROSITE, a domain repository. PROSITE collects patterns and profiles of domains which it can then use to later identify domains present within large input sequences. Polycystin-1 contains a large number of domains that are involved in protein and carbohydrate binding. Polycystin-1 also includes domains whose function is less well understood.
Domains present in polycystin-1
polycystin-1 protein not to scale. Due to protein size, domains have been condensed.
Signal peptide [PEP]: short sequence characteristic of newly synthesized proteins destined towards the secretory pathway
LRR: leucine rich repeats that normally fold in to an arc or a horseshoe shape
WSC: The WSC domain is a putative carbohydrate binding domain. The domain contains up to eight conserved cysteine residues that may be involved in disulphide bridges.
CLECT [c-type lectin]: CLECT domains often function in calcium-dependent carbohydrate binding
PKD [polycystic kidney disease]: Within PKD1, there are fourteen PKD domains. These domains contribute to a large cell-surface glycoprotein involved in adhesive protein-protein and protein-carbohydrate interactions. However, it is not yet clear if the PDK domain is directly responsible for mediating these interactions.
REJ: The exact function of this domain is unknown
GPS [GCPR proteolytic site]: contains a cleavage site
LH2: Lipoxygenase homology 2 (beta barrel) domain
PKD Channel: Polycystin cation channel
LRR: leucine rich repeats that normally fold in to an arc or a horseshoe shape
WSC: The WSC domain is a putative carbohydrate binding domain. The domain contains up to eight conserved cysteine residues that may be involved in disulphide bridges.
CLECT [c-type lectin]: CLECT domains often function in calcium-dependent carbohydrate binding
PKD [polycystic kidney disease]: Within PKD1, there are fourteen PKD domains. These domains contribute to a large cell-surface glycoprotein involved in adhesive protein-protein and protein-carbohydrate interactions. However, it is not yet clear if the PDK domain is directly responsible for mediating these interactions.
REJ: The exact function of this domain is unknown
GPS [GCPR proteolytic site]: contains a cleavage site
LH2: Lipoxygenase homology 2 (beta barrel) domain
PKD Channel: Polycystin cation channel
Analysis
Polycystin-1's domains are well-conserved, although as might be expected they are better conserved among organisms that have kidneys. It is not entirely clear the function that each of polycystin-1's domains play in development of disease, especially as mutations are found along the length of the protein and there are no mutation "hotspots".
References[1] Banner Image: http://atlasgeneticsoncology.org/Genes/GC_PKD1.html
[2] (2004). Domains and Motifs - proteins in bite-sized chunks. Briefings in bioinformatics. 5(1) 71-74. [3] PROSITE [2] SMART |
Site created by: Elizabeth Roeske
Last Updated: 5.14.2014 University of Wisconsin-Madison, Genetics 564 |