Searching a protein structure for 3D side chain arrangements of sites and motifs
SPRITE is a protein structural motif database searching program.

Users can upload a PDB file of a query protein structure, and SPRITE compares the input coordinates to a database of 3D side chain arrangements of sites and motifs using a graph theoretical approach.

In favorable cases, comparing 3D motifs may reveal biologically interesting similarities that are not detectable by comparing sequences or folds. The SPRITE search is independent of sequence order.

Citation for referencing SPRITE:
Nurul Nadzirin, Eleanor Gardiner, Peter Willett, Peter J. Artymiuk, Mohd Firdaus-Raih. 2012. SPRITE and ASSAM: web servers for side chain 3D-motif searching in protein structures. Nucleic Acids Res. 2012 Jul;40(Web Server issue):W380-6. Epub 2012 May 9. HTML, PDF.

Notes: 
1. Please ensure that the query is a PDB formatted file.
2. Submitted searches may take a few minutes to complete, pease leave your browser on the page until the results are returned or use the link provided to retrieve the results. The program typically takes 1-5 minutes to complete depending on the size of your protein and the current server load. Thank you for your patience.
[see the Help page]

If your search query is a 3D motif or side chain arrangement to be searched against a structure database, please use the ASSAM program.

Upload a protein structure (query) and select a curated database of conserved amino acid substructure patterns to submit for SPRITE search:
Search Query (a PDB file of protein structure, size limit 10 GB)

Drag & drop a file here or click below

Or enter a 4-letter PDB ID:
Upload protein structure(s) (query) and amino acids pattern(s) (database) to submit for SPRITE search:
Search Query (PDB files of protein structures, up to 10GB total)

Drag & drop a file here or click below

Search Database (PDB files of amino acids patterns, up to 10 files)

Drag & drop files here or click below

* PDB/mmCIF input files will not be used for purposes other than the search and will be deleted after 2 days to a week upon search completion.

Demonstration run:
Click 'Submit' to do a demonstration SPRITE run :
4cha.pdb    [Submit]    Alpha-chymotrypsin
3tu8.pdb    [Submit]     Burkholderia Lethal Factor 1 (BLF1)
2oo2.pdb    [Submit]    Hypothetical protein AF_1782

Precomputed example:
View the precomputed results of a SPRITE search using:
4cha.pdb as input. [View]
3tu8.pdb as input. [View]
2oo2.pdb as input. [View]
 
Please contact info_at_mfrlab.org ( _at_ = @ ) for any queries or to report errors.