University of Groningen
- Zernike Institute for Advanced Materials
- University of Groningen Library
- University of Groningen Masters & PhD Programs information
- Groningen NMR and spectrometers information and booking page.
- Movement Disorders Groningen Expertise Centre
University of Pittsburgh
- Department of Structural Biology, University of Pittsburgh School of Medicine
- Molecular Biophysics and Structural Biology Graduate Program
- Medical Scientist Training Program (MD/PhD)
- NMR facilities at the Dept. of Structural Biology
- Pitt Summer Undergraduate Research Program, including Biophysics or Structural Biology
- University of Pittsburgh Brain Institute
- Pittsburgh institute for neurodegenerative diseases (PIND)
- Pittsburgh Center for Protein Conformational Diseases
Selected collaborators, Former research groups
- Amalia Dolga (University of Groningen; Pharmacy)
- Ron Wetzel (Department of Structural Biology, University of Pittsburgh)
- Valerian Kagan (University of Pittsburgh)
- Angela Gronenborn (University of Pittsburgh)
- Bob Griffin (at the Francis Bitter Magnet Lab., MIT, Cambridge MA)
- Roger E. Koeppe II (University of Arkansas, Fayetteville AR)
- Antoinette Killian (Utrecht University, Utrecht, the Netherlands)
- Józef Lewandowski (Warwick University, UK)
- Nat Rosi (Pitt Chemistry)
Conferences and meetings
- NMR-related meetings
- SSNMR winter school
- Biophysical Society (BPS) meeting
- Experimental NMR conference (ENC)
- Rocky Mountain Solid-State NMR Conference
- Chamonix SSNMR conference
- International Council on Magnetic Resonance in Biological Systems (ICMRBS)
- ISMAR Conference in Québec, Canada (2017)
- Gateway Regional NMR meeting (PA/OH region USA)
- EUROMAR European Magnetic Resonance meeting
- EMBO Workshop Challenges for Magnetic Resonance in Life Sciences
- Biological physics meetings
- Biophysical Society (BPS) meeting
- European Biophysics Meeting (2019 in Madrid)
- NWO Biophysics (Netherlands)
- Huntington’s disease/neurodegeneration meetings
Other Scientific Links
NMR Links
- Dror Warschawski’s NMR list (in particular the e-mail list with NMR-related announcements)
- ultra-high field NMR for the Netherlands (uNMR-NL)
- Netherlands’ magnetic resonance graduate school (NMARRS)
- Bruker Biospin: MagRes, Topspin software, WebShop
NMR Software (see also here for more info and links related to NMR scripts and software)
- NMRPipe – Powerful NMR processing software. (Download and installation instructions)
- Sparky – NMR spectrum assignment program (advanced viewer for multidimensional data).
- CCPNMR / Analysis – NMR assignment program, in heavy development.
- Bruker User Library (ssNMR pulse programs)
On-line resources related to NMR shift analysis etc
- TALOS+ web server
- SPARTA+ web server at the NIH
- SHIFTX web server
- BMRB chemical shift visualisation tools
- Biological Magnetic Resonance Bank (BMRB)
Other Scientific Software
- PyMol molecular modeling system (WIN/MAC/UNIX)- A nice program to produce images of (biological) molecules
- Chimera PDB Viewer (and more) (WIN/MAC/UNIX) Various resources at UCSF, including the nice Chimera PDB-based structure viewer
- PDB Goodies: online tool for analysis and modification of PDB files.
- Molecular Weight Calculator (WIN) – This MW calculator is particularly useful to calculate precise molecular mass values for peptides and proteins (e.g. for mass spectrometry)
- GeomView 3D graphic program to be used with SIMMOL output; final rendering can be done with Pixie (RenderMan compatible)
Membrane Biophysics and Protein Structure Databases:
- Biological Magnetic Resonance Bank (BMRB)
- Protein Data Bank (PDB)
- Membrane protein structure database (Stephen White’s laboratory)
- Membrane protein structures by NMR (Dror Warschawski)
- Membrane protein data bank (MPDB) (M. Caffrey)
- LIPIDAT (database of lipid characteristics)
- Orientations of Proteins in Membranes (OPM) database
Amyloid / protein structure analysis resources
- Vendruscolo lab software: Zyggregator, CamSol, etc.
- TANGO website
- AmyloFit website
- ZipperDB / 3D Profile (Eisenberg lab)
- PSIPRED, DISOPRED, and related protein structure prediction servers
- I-TASSER – Protein Structure Prediction (by Iterative Threading Assembly Refinement)
- Robetta – Baker lab full-chain protein structure prediction
- PONDR – Predictor of Natural Disordered Regions
Biochemistry Reference Pages
- Entrez Pubmed search
- The Protein Databank (PDB)
- CCTBX – online fractional vs cartesian coordinate transformation
- Biological numerical data: BioNumbers and the related book
- Beckman-Coulter centrifugation calculator
Pittsburgh-related Links