Structural Genomics, ISGO, and Structural Genomics Task Forces

Open ISGO Structural Genomics Task Force Meeting

ISGO International Structural Genomics Conference

Berlin, 10 October 2002

Udo Heinemann (MDC, Berlin)

Structural Genomics

A large-scale project to determine the three-dimensional

shapes of all proteins and other important biomolecules encoded by the genomes of key

organisms

Definition phrased at the April 2001 Second International Structural Genomics Meeting, Airlie House, VA, USA

Structural Genomics

The Structural Genomics Project aims at determination of the 3D structure of all proteins.

This aim can be achieved in four steps:

• Organize known protein sequences into families.

• Select family representatives as targets.

• Solve the 3D structure of targets by X-ray crystallography or NMR spectroscopy.

• Build models for other proteins by homology to solved 3D structures.

http://www.structuralgenomics.org/main.html

A Brief History of Structural Genomics1995 SG project proposed in Japan

1997 Apr. SG pilot project starts at RIKEN Inst.

1997 SG studies initiated through DOE, NIGMS in US

1998/99 Initial SG projects start in Canada, Germany, US

1999 June Call for SG pilot projects issued by NIGMS/NIH

2000 Jan.OECD Committee for Scientific and Technological Policy (CSTP) proposes to initiate SG studies

2000 Apr. 1st International SG Meeting, Hinxton, UK

2000 June OECD/Global Science Forum (GSF) and SG Workshop, Florence, Italy

2000 Sep. SG: From Gene to Structure to Function, Cambridge, UK

2000 Sep. NIGMS Protein Structure Initiative starts in US with 7 Centers

2000 Nov. International Conference on SG (ICSG 2000), Yokohama, Japan / International SG Task Force Meeting / OECD/GSF Meeting

2001 Jan.OECD/CSTP/GSF, Paris, France – Further Study on SG

2001 Apr. 2nd International SG Meeting, Airlie House, US – Start of ISGO

2001 Sep. NIGMS Protein Structure Initiative adds 2 new centers

2002 Mar. European Commission announces funding of Structural Proteomics in Europe (SPINE)

2002 Apr. National project on Protein Structural and Functional Analyses starts in Japan

2002 Oct. ISGO International Conference on SG (ICSG 2002), Berlin, Germany

Projects

Taken fromwww.isgo.org

Ontario Centre for SG

Montreal-Kingston Bacterial SG Initiative

Montreal Network for Pharmaco-Proteomics and SG

CyberCell Project

Structural Proteomics in Europe (SPINE)

SG of Mycobacterium pathogens

SG of Eukaryotes

Yeast SG

SG of Orphan E. coli Genes

Protein Structure Factory

RIKEN SG/Proteomics Initiative

National Project on Protein Structural and Functional Analyses (7 centers)

Biological Information Research Center (BIRC)

The Korean Structural Proteomics Research Organization

National Centers for Competence in Research (NCCR)

North West SG Centre

Oxford Protein Production Facility

Cambridge Group

New York SG Research Consortium

Midwest Center for SG

Berkeley SG Center

Northeast SG Consortium

TB SG Consortium

Southeast Collaboratory for SG

Joint Center for SG

SG of Pathogenic Protozoa Consortium

Center for Eukaryotic SG

Structure 2 Function Project

Canada

EuropeFrance

Germany

Japan

Korea

SwitzerlandUK

USA

Structural Genomics

Structural Genomics: A large-scale project to determine the three-dimensional shapes of all proteins and other important biomolecules encoded by the genomes of key organisms

SG is genome-driven, aims at completeness

SG needs high throughput, automation

SG needs international coordination to foster cooperation and avoid waste of resources

International Coordination

www.proteinstrukturfabrik.de

International agreements

• The projects make their structure analysis targets public (Target Tracking)

• The projects grant mutual technical help

• Protein structures from structural genomics projects must meet stringent quality criteria

• The structures are published in a timely manner

• Deriving utility from protein structures is not excluded

The International Structural Genomics Organisation (ISGO)

Initiated at Airlie House Meeting (2001)

Activities

• International coordination (task forces)• Workshops, meetings• Conferences

Appointed officers

• Udo Heinemann (Germany / Europe)• Tom Terwilliger (USA / North America)• Shigeyuki Yokoyama (Japan / Asia)

Structural Genomics Taskforces

Informatics (J. Moult, U. Maryland, USA)

Numerical Criteria for Evaluating and Assuring Structure Quality (R. Read, U. Cambridge, UK)

Tracking and Registra-tion of Targets (S. Bryant, NIH, Bethesda, USA)

Deposition, Archiving, and Curation of the Primary Information (H. Berman, Rutgers U., USA)

Mechanisms for Publication and Recording of Methods (G. Dodson, U. York, UK)

Intellectual Property (B. Skene, Wellcome Trust, UK, and J. Norvell, NIGMS, USA)