TY - JOUR
T1 - New York-Structural GenomiX Research Consortium (NYSGXRC)
T2 - A large scale center for the protein structure initiative
AU - Bonanno, Jeffrey B.
AU - Almo, Steven C.
AU - Bresnick, Anne
AU - Chance, Mark R.
AU - Fiser, Andras
AU - Swaminathan, S.
AU - Jiang, J.
AU - Studier, F. William
AU - Shapiro, Lawrence
AU - Lima, Christopher D.
AU - Gaasterland, Theresa M.
AU - Sali, Andrej
AU - Bain, Kevin
AU - Feil, Ingeborg
AU - Gao, Xia
AU - Lorimer, Don
AU - Ramos, Aurora
AU - Sauder, J. Michael
AU - Wasserman, Steven R.
AU - Emtage, Spencer
AU - D'Amico, Kevin L.
AU - Burley, Stephen K.
N1 - Funding Information:
Almo (AECOM), Swaminathan (BNL), Shap- iro (CU), and Lima (SKI) are separately responsible for publication of the results of NYSGXRC structure determinations at their respective institutions. The NYSGXRC has cleared much of its publication backlog for structures determined during PSI-1 Years 1 and 2. Development of an automated publication preparation system, utilizing mmCIF files for efficient transfer of experimental/calculable results for each newly structure, is underway in Fiser’s laboratory. NY-SGXRC members have contributed to numerous functional studies arising from PSI-1 activities. This work has been funded various non-PSI sources, including a supplemental PSI grant from NIH-NIGMS to AECOM scientists.
PY - 2005/9
Y1 - 2005/9
N2 - Structural GenomiX, Inc. (SGX), four New York area institutions, and two University of California schools have formed the New York Structural GenomiX Research Consortium (NYSGXRC), an industrial/academic Research Consortium that exploits individual core competencies to support all aspects of the NIH-NIGMS funded Protein Structure Initiative (PSI), including protein family classification and target selection, generation of protein for biophysical analyses, sample preparation for structural studies, structure determination and analyses, and dissemination of results. At the end of the PSI Pilot Study Phase (PSI-1), the NYSGXRC will be capable of producing 100-200 experimentally determined protein structures annually. All Consortium activities can be scaled to increase production capacity significantly during the Production Phase of the PSI (PSI-2). The Consortium utilizes both centralized and de-centralized production teams with clearly defined deliverables and hand-off procedures that are supported by a web-based target/sample tracking system (SGX Laboratory Information Data Management System, LIMS, and NYSGXRC Internal Consortium Experimental Database, ICE-DB). Consortium management is provided by an Executive Committee, which is composed of the PI and all Co-PIs. Progress to date is tracked on a publicly available Consortium web site (http://www.nysgxrc. org) and all DNA/protein reagents and experimental protocols are distributed freely from the New York City Area institutions. In addition to meeting the requirements of the Pilot Study Phase and preparing for the Production Phase of the PSI, the NYSGXRC aims to develop modular technologies that are transferable to structural biology laboratories in both academe and industry. The NYSGXRC PI and Co-PIs intend the PSI to have a transforming effect on the disciplines of X-ray crystallography and NMR spectroscopy of biological macromolecules. Working with other PSI-funded Centers, the NYSGXRC seeks to create the structural biology laboratory of the future. Herein, we present an overview of the organization of the NYSGXRC and describe progress toward development of a high-throughput Gene→Structure platform. An analysis of current and projected consortium metrics reflects progress to date and delineates opportunities for further technology development.
AB - Structural GenomiX, Inc. (SGX), four New York area institutions, and two University of California schools have formed the New York Structural GenomiX Research Consortium (NYSGXRC), an industrial/academic Research Consortium that exploits individual core competencies to support all aspects of the NIH-NIGMS funded Protein Structure Initiative (PSI), including protein family classification and target selection, generation of protein for biophysical analyses, sample preparation for structural studies, structure determination and analyses, and dissemination of results. At the end of the PSI Pilot Study Phase (PSI-1), the NYSGXRC will be capable of producing 100-200 experimentally determined protein structures annually. All Consortium activities can be scaled to increase production capacity significantly during the Production Phase of the PSI (PSI-2). The Consortium utilizes both centralized and de-centralized production teams with clearly defined deliverables and hand-off procedures that are supported by a web-based target/sample tracking system (SGX Laboratory Information Data Management System, LIMS, and NYSGXRC Internal Consortium Experimental Database, ICE-DB). Consortium management is provided by an Executive Committee, which is composed of the PI and all Co-PIs. Progress to date is tracked on a publicly available Consortium web site (http://www.nysgxrc. org) and all DNA/protein reagents and experimental protocols are distributed freely from the New York City Area institutions. In addition to meeting the requirements of the Pilot Study Phase and preparing for the Production Phase of the PSI, the NYSGXRC aims to develop modular technologies that are transferable to structural biology laboratories in both academe and industry. The NYSGXRC PI and Co-PIs intend the PSI to have a transforming effect on the disciplines of X-ray crystallography and NMR spectroscopy of biological macromolecules. Working with other PSI-funded Centers, the NYSGXRC seeks to create the structural biology laboratory of the future. Herein, we present an overview of the organization of the NYSGXRC and describe progress toward development of a high-throughput Gene→Structure platform. An analysis of current and projected consortium metrics reflects progress to date and delineates opportunities for further technology development.
KW - Crystallography
KW - NYSGXRC
KW - Protein structure initiative
KW - Structural genomics
UR - http://www.scopus.com/inward/record.url?scp=26444608688&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=26444608688&partnerID=8YFLogxK
U2 - 10.1007/s10969-005-6827-0
DO - 10.1007/s10969-005-6827-0
M3 - Article
C2 - 16211523
AN - SCOPUS:26444608688
SN - 1345-711X
VL - 6
SP - 225
EP - 232
JO - Journal of Structural and Functional Genomics
JF - Journal of Structural and Functional Genomics
IS - 2-3
ER -