Bioinformatics with protein sequence

SPINE database software

SPINE (Structural Proteomics in the NorthEast) is the NESG's project coordination database.
The SPINE data model closely mirrors the current pepcDB data model with database tables responsible for tracking target, construct, expression, purification, X-Ray and NMR structure data. Spine generates weekly targetDB and pepcDB data depositions which are retrieved by the PSI-KB, generates meta-data required for archiving NESG constructs at the PSI-MR, and provides key NESG protein production pipeline, sample distribution, and structure determination statistics.

SPINE's Protein Sample Tube (PST) records provide detais about NESG protein samples and link into the samples target, construct, expression, purification, and structure screening SPINE records.

SPINE provides Bioinformatics information based on the protein sequences, including:

1. link to Swiss-Prot/Uniprot page for each target protein
2. Competition report
3. ZincFinder
4. pXs to predict protein crystallography success
5. DisMeta - disorder and secondary structure prediction

Web based servers for sequence analysis:

• PredictProtein
  PredictProtein is a service for sequence analysis, structure and function prediction. When you submit any protein sequence PredictProtein retrieves similar sequences in the database and predicts aspects of protein structure and function. You may want to save the Predictprotein results on the local disk, because after a few days they will delete the files from their data base. Registration is free.

• Proteomics server
  The ExPASy (Expert Protein Analysis System) proteomics server of the Swiss Institute of Bioinformatics (SIB) is dedicated to the analysis of protein sequences.