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| All are welcome to use the materials provided here. Credit is appreciated but not required. | All are welcome to use the materials provided here. Credit is greatly appreciated but not required. |
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| Note: All protein illustrations in are licensed under a Creative Commons Attribution 4.0 International license by David S. Goodsell and the RCSB PDB. |
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| '''Note:''' The presenter notes in this file contain a full transcription of my talk. |
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| [[attachment:cryoet_poster.pdf]], [[attachment:cryoet_poster.pptx]] | 2019 Sealy Symposium for Structural Biology and Molecular Biophysics & 2018 Keck ARC 2018: [[attachment:cryoet_poster.pdf]], [[attachment:cryoet_poster.pptx]] |
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| [[attachment:scbmb_retreat_2016.pdf]] | Keck Annual Research Conference 2017: [[attachment:keck_arc_2017.pdf]] |
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| [[attachment:biochem_retreat_2016.pdf]] | Biophysical Society Meeting 2017: [[attachment:biophysical_society_2017.pdf]] |
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| [[attachment:biophysical_society_2017.pdf]] | 2016 Biochemistry departmental retreat: [[attachment:biochem_retreat_2016.pdf]] |
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| [[attachment:keck_arc_2017.pdf]] [[attachment:sealy_2018.pdf]] Note, these posters are have been uploaded without modification. There may be typos. |
2016 Structural & Computational Biology and Molecular Biophysics Graduate Program Retreat: [[attachment:scbmb_retreat_2016.pdf]] |
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| [[attachment:mapchallenge_wrapup_2017.key]] | Slides from 2015 EMDatabank map/model challenge wrap up meeting: [[attachment:mapchallenge_wrapup_2017.key]] |
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| [[attachment:microscopy_microanalysis_2018.ppt]] | Slides from 2018 Microscopy & Microanalysis meeting on the new cryoET workflow in EMAN2: [[attachment:microscopy_microanalysis_2018.ppt]] |
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| {{attachment:struct_bio.png||align="center",width=400}} | Please see my thesis for corresponding figure captions. |
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| A. Example proteins. 1. Ribosomes such as this use the information encoded in ribonucleic acid (RNA) to assemble amino acids into chains, forming other protein structures. 2. Membrane transporters such as the TolC-AcrAB complex shown here move molecules across cellular membranes, helping maintain homeostatic conditions. 3. Enzymes. Shown here are a set of glycolytic enzymes that break down sugars to produce energy for cellular functions in the form of adenosine triphosphate (ATP) molecules. B. Length scales. Structural biology studies topics spanning a wide range of length scales from cells, which span multiple microns to atoms and small molecules, spanning only a few angstroms. While objects larger than ~200 nm can be examined using a light microscope, higher-resolution techniques such as X-ray crystallography (XRC), nuclear magnetic resonance (NMR), and electron microscopy are required to visualize features ranging from protein complexes to individual atoms. C. Taxonomy of protein structure elements superimposed on a structure of hemoglobin (PDB 2HHB). Protein structures are taxonomized according to their primary, secondary, tertiary, and quaternary structure elements. A protein’s primary structure corresponds to its sequence of amino acids. Secondary structure assigns spatial relationships between sequence elements, forming motifs such as the alpha-helix shown in this example. Tertiary structure describes how secondary structure elements conform within a single chain, and quaternary structure describes how multiple amino acid chains combine to form a complex. | |
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| Protein illustrations in A and B are licensed under a Creative Commons Attribution 4.0 International license by David S. Goodsell and the RCSB PDB. | '''Structural biology overview''' |
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| {{attachment:tem.png||align="center",width=400}} | {{attachment:struct_bio.png||width=400}} |
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| {{attachment:grid.png||align="center",width=400}} | '''Transmission electron microscopes (TEM)''' |
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| {{attachment:movie.png||align="center",width=400}} | {{attachment:tem.png||width=400}} |
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| {{attachment:imgproc.png||align="center",width=400}} | '''TEM grids''' |
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| {{attachment:fft.png||align="center",width=400}} | {{attachment:grid.png||width=400}} |
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| {{attachment:spa.png||align="center",width=400}} | '''Movie-mode imaging''' |
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| {{attachment:ctf.png||align="center",width=400}} | {{attachment:movie.png||width=400}} |
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| {{attachment:fsc.png||align="center",width=400}} | '''Basic image processing''' |
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| {{attachment:cryoet.png||align="center",width=400}} | {{attachment:imgproc.png||width=400}} |
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| {{attachment:subtomoavg.png||align="center",width=400}} | '''Fourier transforms''' {{attachment:fft.png||width=400}} '''Single particle analysis''' {{attachment:spa.png||width=400}} '''Contrast transfer function (CTF)''' {{attachment:ctf.png||width=400}} '''Gold Standard resolution measurement via Fourier Shell Correlation (FSC)''' {{attachment:fsc.png||width=400}} '''Electron cryo-tomography (cryoET)''' {{attachment:cryoet.png||width=400}} '''Subtomogram Averaging''' {{attachment:subtomoavg.png||width=400}} |
Michael Bell, Ludtke Lab (2014 - 2019)
All are welcome to use the materials provided here. Credit is greatly appreciated but not required.
Thesis
Thesis Defense Presentation
Note: The presenter notes in this file contain a full transcription of my talk.
Posters
2019 Sealy Symposium for Structural Biology and Molecular Biophysics & 2018 Keck ARC 2018: cryoet_poster.pdf, cryoet_poster.pptx
Keck Annual Research Conference 2017: keck_arc_2017.pdf
Biophysical Society Meeting 2017: biophysical_society_2017.pdf
2016 Biochemistry departmental retreat: biochem_retreat_2016.pdf
2016 Structural & Computational Biology and Molecular Biophysics Graduate Program Retreat: scbmb_retreat_2016.pdf
Talks
Slides from 2015 EMDatabank map/model challenge wrap up meeting: mapchallenge_wrapup_2017.key
Slides from 2018 Microscopy & Microanalysis meeting on the new cryoET workflow in EMAN2: microscopy_microanalysis_2018.ppt
Select Thesis Figures
Please see my thesis for corresponding figure captions.
Structural biology overview
Transmission electron microscopes (TEM)
TEM grids
Movie-mode imaging
Basic image processing
Fourier transforms
Single particle analysis
Contrast transfer function (CTF)
Gold Standard resolution measurement via Fourier Shell Correlation (FSC)
Electron cryo-tomography (cryoET)
Subtomogram Averaging
