Web-based Resources


There are several online resources that can assist in the various stages of structure production listed below. Tools in the PSI Structural Biology Knowledgebase can also help with the analysis of protein sequences and structures.


RPF: a quality assessment tool for protein NMR structures

Northeast Structural Genomics Consortium

The RPF web server is a protein NMR spectra and structure quality assessment tool.

Details

http://nmr.cabm.rutgers.edu/rpf


Remote data collection at the SSRL

Joint Center for Structural Genomics

A remote access system for protein crystallography data collection is now in place at SSRL. Users can routinely collect data remotely with all the same functionality as if they were at the synchrotron beamline.

Details

http://smb.slac.stanford.edu/public/facilities/hardware/cassette_kit/


SAM: Stanford Automated Mounting system

Joint Center for Structural Genomics

The Stanford Auto-Mounter (SAM) has been been developed, which allows automated screening of crystals at the synchrotron.

Details

http://smb.slac.stanford.edu/public/facilities/hardware/SAM/


SHELX

SHELXC/D/E are programs designed to reduce experimental phasing to absolute essentials in order to produce an interpretable electron density map quickly and in a reliable fashion.

Details

http://shelx.uni-ac.gwdg.de/SHELX/


SPINE - Structural Proteomics In the NorthEast database

Northeast Structural Genomics Consortium

SPINE (Structural Proteomics In the NorthEast) is the NESG’s inter-institutional project coordination database. SPINE is based on a three-tier software architecture. It is an Apache server hosted web-based data management application built upon a MySQL database and driven by a series of Perl scripts and modules. Initially developed to manage the NESG protein production pipeline, SPINE has evolved to include components designed to coordinate activities and projects in laboratories across the consortium. The Oracle-based PLIMS (Protein Laboratory Information System) manages the majority of the NESG protein production pipeline at Rutgers University.

Details

http://spine.nesg.org/index.cgi


Sesame Laboratory Information Management for Structural Genomics

Center for Eukaryotic Structural Genomics

The Sesame laboratory information management system (LIMS) consists of a series of web-based Java applet-applications designed to organize data generated by projects in structural genomics, structural biology, metabolomics, and shared laboratory resources (Zolnai et al., 2003). Sesame allows collaborators on a given project to enter, process, view, and extract relevant data, regardless of location, so long as web access is available. Sesame is a multi-tier system, with data residing in a relational database.

Details

http://www.sesame.wisc.edu


Strategies for producing membrane proteins in E. coli vs. yeast

This webinar, given by James Love, PhD, of NYCOMPS (now at NYSGRC) and Mark Dumont, PhD, of MPSBC (formerly of CHTSB), was co-sponsored by the Protein Society and Current Protocols and covers strategies for expressing and purifying membrane proteins.

Details

http://www.brighttalk.com/webcast/1480/25524