Online workshop held on Nov 18th 2022
Presented by Debashish Sahu, Director of BioNMR core, University of Michigan
The University of Michigan‘s Biosciences Initiative has funded the upgrade of this instrument via the Biosciences Core Lab Funding Program read more: here. This will be updated to the latest helium cooled TCI CryoProbe with NEO console offered by Bruker Biospin
The BioNMR core assumed operations of three older NMR instruments, including a Varian 600 MHz instrument. As Varian is no longer in business, parts are more and more difficult to find and the instrument and software are no longer supported. In order to overcome this, our proposal to Biosciences Core Lab Funding program was to reuse the newer Varian magnet at the core of this instrument and replace the console, probe, and control units to transition this to a Bruker instrument, currently the only other practical supplier of such instruments. This would ensure long-term instrument availability for the U-M research community while being a good steward of prior investment.
BioNMR core facility has been selected as one of the awardees of the Biosciences Core Lab Funding program and has been granted funds to update/upgrade the Agilent/Varian 600 MHz spectrometer with cryo-probe located in 1047 chemistry to the latest Helium cooled TCI CryoProbe, along with NEO console by Bruker. The accompanying software with this console will be Topspin 4, which can take advantage of the latest capabilities of the NEO console. In order to handle multiple samples along with automation in ICON interface, we will be equipping this instrument with Bruker’s SampleJet sample handling system. This upgrade is in the works and we will post updates as we get delivery updates from Bruker.
The University of Michigan‘s Biosciences Initiative has funded the upgrade of 600 MHz instrument via the Biosciences Research Initiative Program awarded to Natural Products Discovery Core read more: here. This will be updated to the latest nitrogen cooled Prodigy CryoProbe with NEO console offered by Bruker Biospin
In 2018, Drs. David H. Sherman and Ashootosh Tripathi (part of Natural Products Discovery Core) received funding from the Biosciences Research Initiative Program to upgrade the room temperature broadband probe connected to 600 MHz NMR spectrometer to Bruker’s latest nitrogen cooled Prodigy CryoProbe with NEO console and 24 SampleCase sample handling system.
The Prodigy CryoProbe will be ideal for routine small molecule NMR experiments, with broadband technology that covers large number of nuclei and 2-3x boost to signal as compared to room temperature probes. The ICON automation interface allows users to setup multiple experiments across many samples, and current users will be retrained to use this interface in order to use this spectrometer. This upgrade is in the works and delivery of the components from Bruker are scheduled for March/April 2020. During the upgrade users will be redirected to use the BioNMR core instruments in chemistry building.
In order to assist with chemical shift assignments of proteins, here are two plots of aliphatic chemical shifts based on BMRB data as of 10/17/2018.
For assignments of Cα and Cβ present in proteins, we usually run HNCACB and CBCA(CO)NH. Some residues such as Gly, Leu, Ala, Thr, Ser etc can be used as anchor points for starting assignments due to their unique distribution of aliphatic carbon chemical shift as shown below. Once can use this interactive map of chemical shifts below for chemical shift assignment.
A similar graph has been generated for assignments of aliphatic protons below. HCCH-TOCSY and H(CCCO)NH-TOCSY experiments give rise to chemical shifts of aliphatic protons, where this interactive distribution of chemical shift can be used for assignment purposes.