pims at the oppf jon diprose embo course ebi, 23/09/2008
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PiMS at the OPPF
Jon Diprose
EMBO Course
EBI, 23/09/2008
Overview
■ The OPPF
■ Workflows and Protocols
■ Using PiMS at the OPPF
Aims of the OPPF
■ To develop technology for high throughput protein production and crystallisation.
■ To apply this technology to challenging biomedical problems through the development of a portfolio of collaborative projects.
■ To make the technology available to the wider structural biology community.
http://www.oppf.ox.ac.uk/
Construct Design
Cloning
Purification
Crystal Growth
Crystallography…
OPTIC
Nautilus
PlateDB
Large-scaleExpression
Crystallogenesis
The OPPF PipelineBioinformatics
PCRSmall-scaleExpression
Characterization
Construct Design
Cloning
Purification
Crystal Growth
Crystallography…
OPTIC
xtalPiMS
Large-scaleExpression
Crystallogenesis
The OPPF PipelineBioinformatics
PCRSmall-scaleExpression
Characterization
Overview
■ The OPPF
■ Workflows and Protocols
■ Using PiMS at the OPPF
Workflows
Workflows in PiMS
PiMS Protocols
OPPF Protocols
Overview
■ The OPPF
■ Workflows and Protocols
■ Using PiMS at the OPPF
PCR plate design
■ Plates designed in a spreadsheet template
Primer order plate
■
Primer order form
■
Operon order form page 1
■
Operon order form page 2
Plate experiment workflow
Rescue and cleanup workflow
Scoring PCR plates
Scoring PCR plates
Scoring an expression plate
Scoring an expression plate
Purification protocols
■ 9 protocols to match Akta programmes■ Single column protocols
■ Affinity with gradient elution
■ Batch affinity
■ Desalt
■ Gel filtration
■ Ion exchange
■ Two column protocols■ Affinity desalt
■ Affinity gel filtration
■ Mammalian affinity gel filtration
■ Mammalian affinity desalt
PiMS usage
■ PiMS has been in use at the OPPF for 18 months■ Used exclusively to record wet-lab work this year
■ 221 Targets
■ 134 Plates
■ 544 Simple experiments
Acknowledgements
› Dave Stuart (PI)
› Ray Owens (Project Manager)
› Robert Esnouf
› Jon Diprose
› Marc Savitsky (PiMS)
› Ian Berry (now Evotec)
› Joanne Nettleship
› Louise Bird
› Kim Henrick (PI)
› Chris Morris (Project Manager)
› Ed Daniels
› Susy Griffiths
› Bill Lin
› Jo van Niekirk (now Ingres)
› Anne Pajon
› Peter Troshin
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