Quarterly Newsletter

Announcements

  • All NMR users need to use iLabs (https://bionmrcore.umich.edu/index.php/reservations/) to reserve time and use the instrument. Please note that providing short-codes directly to BioNMR core staff will not grant access to the instruments.
  • NMR 400 (LSI) is currently down due to a sample breaking on the probe. Please use the NMR 600 (LSI) in the meantime.
  • NMR 600CP (Chem) has issues with tuning to Nitrogen and the stability of the cryo-system causing issues for experiments longer than 2 hours. The NMR facility is in touch with Varian about this issue and will update the impacted users as things get sorted out.

Recharge Rate

NMR users of BioNMR core facility, please note the latest rates for instrument usage and consultation. The rates listed below are effective Nov 20th 2018.

InstrumentU-M Rate
($/hr)
External Academic Rate
($/hr)
Corporate Rate
($/hr)
NMR 400 (LSI)$11$16.50$33
NMR 600 (LSI)$11$16.50$33
NMR 600 CP (Chem)$9.50$14.25$28.50
NMR 800 (Chem)$11.50$17.25$34.50
NMR Core Labor/
Consultation
$61$91.50$183

Seminar on advanced metabolomics analysis on NMR data

Rafael Bruschweiler from Ohio State University is presenting his recent work where they employ advanced metabolomics tools on NMR data to study protein interactions. Dr. Bruschweiler is credited for the development of Covariance NMR, which reduces the NMR measurement time for multidimensional spectra of both solution and solid-state NMR. For more details on the seminar please see the flyer below.

Guide: Connecting remotely to NMR 800CP

As a convenience for the users of NMR 800CP, users can remotely monitor the progress of their experiments using VNC servers. Users have to manually start the X11VNC server and access using VNC viewers (like RealVNC viewer). Instructions on this process is available here: http://bionmrcore.umich.edu/wp-content/uploads/2018/11/Accessing-the-Bruker-800CP-machine-in-Chem-1047-using-VPN.pdf

NMR Technique Highlight: BEST and SOFAST NMR for assigning His & Tyr side-chains

In the following paper, the authors present a NMR technique that uses time-efficient resonance assignment of histidine and tyrosine side chains in uniformly 13C/15N-labeled proteins. The use of band-selective 13C pulses allows to deal with linear chains of coupled spins, thus avoiding signal loss that occurs in branched spin systems during coherence transfer. Details of the paper can be found in the link below:

Christou NE, Brutscher B, BEST and SOFAST experiments for resonance assignment of histidine and tyrosine side chains in 13C/15N labeled proteins (2018) J. Biomol NMR doi: 10.1007/s10858-018-0216-z Link: https://link.springer.com/article/10.1007/s10858-018-0216-z

NMR Webinars by Bruker

Bruker has various webinars on advanced NMR techniques and technologies.

Link: https://www.bruker.com/service/education-training/webinars/nmr-webinars.html

NMR Conferences

Here are a few conferences (deadlines are fast approaching) that current BioNMR users will find useful:

  1. Biophysical Society 63nd Annual Meeting (March 2-6, 2019) at Baltimore, Maryland Link: http://www.biophysics.org/2019meeting
  2.  PANIC 2019 Practical Applications of NMR in Industry Conference (March 3-7, 2019) at Hilton Head, South Carolina Link: http://www.panicnmr.com/
  3. 60th Experimental Nuclear Magnetic Resonance Conference (April 7 – 12, 2019) at Asilomar Conference Center, Pacific Grove, California
  4. Computational Aspects of Biomolecular NMR – Gordon Research Seminar (June 8-9, 2019) at Les Diablerets, Switzerland Link: https://www.grc.org/computational-aspects-of-biomolecular-nmr-grs-conference/2019/
  5. ISMAR 2019 21st International Society of Magnetic Resonance Conference joint with EUROMAR 2019 (August 25-30, 2019) at Berlin, Germany Link: http://www.ismar2019.org/

NMRFAM-Sparky tutorial videos

Sparky is the most popular NMR analysis tool for biomolecules for more than a decade. NMRFAM has taken over the original Sparky from UCSF for the continuous development to implement advances in biomolecular NMR field. This software is very useful for biological NMR community for NMR resonance assignment, structure prediction, semi-automatic structure calculation, etc. For details on the updated NMRFAM-Sparky software can be found here: https://nmrfam.wisc.edu/nmrfam-sparky-distribution/

There is a YouTube playlist of video tutorials on NMRFAM-Sparky software:

NMR Staff

Debashish Sahu, Ph. D.
Director, Biomolecular NMR Research Lab
LSA/LSI Core Facility 
University of Michigan
Chemistry Building Room # 4015
930 N University Ave, Ann Arbor MI 48109

Email: debsahu@umich.edu
Phone: 734-647-3872


Wendy Feng, Ph. D.
Senior Lab Specialist
BioNMR Core Facility

University of Michigan
Life Sciences Institute # 3214
210 Washtenaw Ave, Ann Arbor MI 48109
Email: wendyfen@umich.edu
Phone: 734-615-5516

Emily Scott, Ph.D.
Professor, Medicinal Chemistry/Pharmacology/Biophysics
Faculty Director, BioNMR Core Lab
University of Michigan
428 Church Street
Ann Arbor, MI 48109-1065
Email: scottee@med.umich.edu
Phone:  734-764-3530
Lab webpage:  http://scottlab.info

Cathy Andrews
Director of Operations
BioNMR Core Lab
University of Michigan
Life Sciences Institute # 3119
210 Washtenaw Ave, Ann Arbor MI 48109 

Email: cathyand@umich.edu
Phone:  734-763-1200

Interactive graphs of Aliphatic Carbon and Proton Chemical shifts

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.