Cluster use for Biological Electron microscopy and NMR - Karolinska Institutet and KTH

Dnr:

SNIC 2016/1-390

Type:

SNAC Medium

Principal Investigator:

Martin Hällberg

Affiliation:

Karolinska Institutet

Start Date:

2016-10-01

End Date:

2017-10-01

Primary Classification:

10601: Strukturbiologi

Secondary Classification:

10602: Biokemi och molekylärbiologi

Tertiary Classification:

10603: Biofysik

Webpage:

http://hallberglab.org/

Allocation

Abstract

We study biological macromolecules using three main techniques: X-ray, electron microscopy and nuclear magnetic resonance. For X-ray we are members of the SNIC 2015/1-166 (Martin Moche (#2147)). For NMR and primarily for electron microscopy we are in strong need of additional cluster resources. Biological electron microscopy is currently going through a revolution in terms of usability and the attained results in terms of the resolution (~quality) of the resulting reconstruction. The current state-of-the-art program RELION is very computer intensive and it is impossible to run in the home lab. With electron microscopy programs run on the cluster we will analyse biological supermolecules involved in mitochondrial RNA processing (KI) and membrane protein complexes involved in cellulose synthesis (KTH). With NMR, the use of ROSETTA-NMR is also only really possible on a cluster. ROSETTA-NMR is running on Triolith. With ROSETTA-NMR and CYANA we will analyse protein and protein-RNA complexes primarily involved in the tRNA modification and processing.