New York Structural Genomics Research Consortium:


A modular perspective of protein structures: application to fragment-based loop modeling using ArchPred

New York Structural Genomics Research Consortium

"Smotifs" are composed of two secondary structures connected by a loop. These generically defined supersecondary structure elements were used to explore the evolution and current variety of structure building blocks. The Smotifs classifications were used in a loop conformation modeling algorithm, ArchPred.

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An integrated system for anaerobic structural genomics

New York Structural Genomics Research Consortium

We have assembled a unique instrumentation system (including approximately 50 linear feet of glove box space), which has allowed us to recreate our established structural genomics pipeline in an anaerobic environment. This will facilitate high-throughput protein expression, purification, crystallization, and structure determination of oxygen-sensitive proteins for the bio-inorganic community.

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Automated protein structure annotation

New York Structural Genomics Research Consortium

Novel methods have been developed that automatically examine protein structures and extract structural functional information. Functional analysis of all PSI-1 and PSI-2 NYSGXRC structures, including tabulations of structure comparison and output from Dali, CE, and SURFNET, are available at http://www.nysgrc.org/nysgrc/result.html

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Automated structure report and manuscript preparation using AUTOPUBLISH

New York Structural Genomics Research Consortium

AUTOPUBLISH is a comprehensive web server that automatically annotates protein sequences and structures and prepares manuscript drafts in the style of a short structure reports like those published in Acta Crystallographica, Section F.

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BlastProfiler - an automatic sequence profile generator program

New York Structural Genomics Research Consortium

As a first step in establishing an automated annotation pipeline, Fajardo, Madrid, Zhai and Fiser coded BlastProfiler, an automatic sequence profile generator program.

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