[NMRFAM enews] NMRFAM eNewsletter_May 2017
Lai Bergeman
lai.bergeman at wisc.edu
Fri May 12 10:45:02 CDT 2017
NMRFAM eNewsletter – May 2017
________________________________
* June 2017 time requests: This is a reminder that May 19th 4pm CST is the deadline to have spectrometer time reserved for you for June 2017; please contact Lai Bergeman<mailto:lai.bergeman at wisc.edu> by e-mail or call 608-262-3173. You may schedule time yourself, as soon as the calendar is open by end-of-day on May 22nd, by logging into Sundial and following the requests process.
* Contact Lai Bergeman<mailto:lai.bergeman at wisc.edu> by e-mail or at 608-262-3173 for general assistance. For scientific questions/discussions contact Milo Westler<mailto:milo at nmrfam.wisc.edu>.
* 2017 NMRFAM Introductory Structure Determination workshop (June 4th- 9th) - http://www.nmrfam.wisc.edu/introductory-workshop.htm<-%20http:/www.nmrfam.wisc.edu/introductory-workshop.htm> (don’t miss out on this popular workshop!)
* 2017 NMRFAM Advanced Structure Refinement Workshop (August 6th -9th) –
http://www.nmrfam.wisc.edu/advanced-workshop.htm
New User/Collaborator Information:
Please note that if you would like to collaborate with our facility you will need to submit an abstract providing some detail to Dave Aceti<mailto:djaceti at wisc.edu>, our coordinator, who will bring it up for review at our weekly staff meeting for approval. Please visit the NMRFAM website<http://www.nmrfam.wisc.edu/become-a-collaborator.htm> for more information.
Other NMRFAM capabilities:
Solid state probes at NMRFAM:
· 3.2mmEfree CPMAS, 4mm CPMAS and HRMAS probes - 500 MHz (Devon) - UNDER MAINTENANCE
· 3.2mm Efree CPMAS and static BioProbe (PISEMA experiments) - 600 MHz III (Vosges)
· 3.2mm Efree CPMAS probe and 1.3mm ultrafast CPMAS probe- 900 MHz (Fleckvieh)
v LC/MS micrOTOF Q II is now available for collaboration.
v Bruker Nanostar SAXS (small angle X-ray scattering) instrument is available. For information about SAXS, please email Mark Anderson<mailto:Mark%20Anderson%20%28wombats at nmrfam.wisc.edu%29>.
* Other News:
· Telluride School on Biomolecular Structure and Dynamics: Theory and Experiment<https://telluridescience.org/schools/tsrc-summer-school-biomolecular-structure-and-dynamics-theory-and-experiment> (July 24-31, 2017; Telluride, CO).
· AMPERE NMR School<http://www.staff.amu.edu.pl/~school/> (June 25-July 1, 2017; Zakopane, Poland)
* NMRFAM Software News:
New features in the latest version of NMRFAM-SPARKY
- Mouse wheel (and/or +, - keys) to zoom in and out
- Arrow keys to move around in spectrum view
- Better contour level adjustment bar (two-letter-code: vC)
- Updated peak list window (two-letter-code: lt)
- Peak and assignment numbers in the peak list
- Data height sorting option in the peak list options
- Extra strip plot window (two-letter-code: sp / SP)
- NMRFAM extensions in the popup menu (right-click)
- Help manual updates for two-letter codes (two-letter-code: hn / hI)
- A new conversion script for importing NMRView to UCSF (nv2ucsf)
* Donate to NMRFAM:
US deductible donations can be made to NMRFAM. Please write check payable to -
"UW Foundation, Account 112152802" and mail to:
Attn: Sarah Lynn Traver Saunders
Associate Administrative Program Specialist
University of Wisconsin - Madison
Department of Biochemistry
433 Babcock Drive
Madison WI 53706
For further information, please contact Ms. Saunders, Tel: 608-265-2507 or email<mailto:slsaunders2 at wisc.edu>
Spectrometers at NMRFAM:
· NMRFAM Spectrometers availability (Live Schedule) for current and upcoming month can be view at http://www.nmrfam.wisc.edu/Spectrometer-Live-Calendar.htm
NMRFAM instrumentation
Spectrometer status:
Instrument
Cow name
Shortcut name
Probe(a)
Status
Bruker AV-HD 900
Fleckvieh
900
c-tr
OK - cold 1H and13C preamps
Agilent VNS 800
Gelbvieh
800
ct-tr
OK - cold probe
Bruker AV III 750
Telemark
750
c-tr
OK - cold probe
Bruker AV III 600
Dexter
600 I
c-qr1H{13C,15N,31P}
OK - SampleJet
Agilent VNS 600
Jaulan
600 II
c-tr
OK - cold probe
Bruker AV III 600
Vosges
600 III
c-tr
OK - cold probe
Bruker AV III 600
Kurgan
600 IV
c-tr-(1.7mm)
OK - SampleJet (cooled)
Bruker AV III 500
Kerry
500 I
c-tr(13C/15N)
OK-all cold preamp; SampleJet
Bruker AV III 500
Devon
500 II
c-tr/hrmas/BBFO/cpmas
(solid probes under maintenance)
OK - cold probe
BrukerNanostar
Bond
SAXS
N/A
OK - temperature control available
(a)rt - room temperature; c - cryogenic; tr - 1H{13C,15N} triple resonance; qr -1H{13C,15N,31P} quadruple resonance; multiple - multiple probes; VNS- Varian Direct Drive console; AV- BrukerAvance III console
Below is a listing of the available software on our website that you are free to use or download and some associated publications:
1 - NMRFAM-SPARKY
2 - NMRbot
3 - HIFI-NMR
4 - LACS / PECAN
5 - PINE
6 - PINE-Sparky
7 - ADAPT-NMR
8 - ADAPT-NMR Enhancer
9 - Newton
10 - PACSY
11 - PONDERSOSA
12- PONDEROSA-C/S
13 - SPIDER
14 - RNA-PAIRS
15 - NMR Structure Tools
16 – rNMR
Please visit the NMRFAM software website<http://www.nmrfam.wisc.edu/software.htm> for more information on the above listed software.
References for some publications are:
Cai K, Tonelli M, Frederick RO, Markley JL, Mitochondrial Cysteine Desulfurase and ISD11 Coexpressed in Escherichia coli Yield Complex Containing Acyl Carrier Protein. ACS Chem Biol. 2017 Mar. PMID:28233492
Cai K, Tonelli M, Frederick RO, Markley JL, Human Mitochondrial Ferredoxin 1 (FDX1) and Ferredoxin 2 (FDX2) Both Bind Cysteine Desulfurase and Donate Electrons for Iron-Sulfur Cluster Biosynthesis. Biochemistry. 2017 Jan. PMID:28001042
Yokochi M, Kobayashi N, Ulrich EL, Kinjo AR, Iwata T, Ioannidis YE, Livny M, Markley JL, Namamura H, Kojima C, Fujiwara T, Publication of nuclear magnetic resonance experimental data with semantic web technology and the application thereof to biomedical research of proteins. J Biomed Semantics, 2016 May. PMID 27927232
Cai K., Liu G., Frederick R.O., Xiao R., Montelione G.T., Markley J.L., Structural/Functional Properties of Human NFU1, an Intermediated [4Fe-4S] Carrier in Human Mitochondrial Iron-Sulfur Cluster Biogenesis. Structure. 2016. PMID 27818104
Eghbalnia H.R., Romero P.R, Westler W.M, Baskaran K., Ulrich E.L, Markley J.L, Increasing rigor in NMR-based metabolomics through validated and open source tools. Curr Opin Biotechnol. 2016. PMID: 27643760
Markley J.L, Bruschweiler R., Edison A.S., Eghbalnia H.R, Powers R., Raftery D., Wishart D.S., The future of NMR-based metabolomics. Curr Opin Biotechnol. 2016. PMID: 27580257
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Thanks.
Lai Bergeman
NMRFAM Administrator
RM 171, 433 Babcock Dr.
University of Wisconsin – Madison,
Madison WI 53706
lai.bergeman at wisc.edu
http://www.nmrfam.wisc.edu/
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