The bumbling biochemist (Bri Bibel)
@bumblingbiochemist.bsky.social
Assistant Prof of Biochemistry & Chemistry @ LMU | Metabolic enzymes of bioremediating bacteria. Making biochemistry fun & accessible #biochemsky #chemsky
http://thebumblingbiochemist.com/ & https://www.youtube.com/@thebumblingbiochemist
http://thebumblingbiochemist.com/ & https://www.youtube.com/@thebumblingbiochemist
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biochemistry (hopefully) made accessible!
You can also find lots of videos on my YouTube channel
here - as in life - feel free to explore!
My site is constantly a work in progress, so...
thebumblingbiochemist.com
Hi all. I'm the bumbling biochemist, on a mission to make biochemistry and chemistry fun and accessible for all. I have a blog & YouTube with a lot of content that can hopefully help people, especially biochemists-in-training. Hope it helps! thebumblingbiochemist.com
The camera symbol in the right upper corner of PyMOL will allow you to easily export figures. You have multiple options for settings when you click it but the key one is Draw vs Ray.
youtu.be/0xwu39JDiOs
youtu.be/0xwu39JDiOs
Say hi to PyMol: getting familiar with this molecular visualization software
You know those super pretty “pictures” of proteins that you see in journals and stuff? A lot of them were made using a free software called PyMol - although many of the cryo-EM ones were likely made i...
bit.ly
November 29, 2025 at 5:35 AM
The camera symbol in the right upper corner of PyMOL will allow you to easily export figures. You have multiple options for settings when you click it but the key one is Draw vs Ray.
youtu.be/0xwu39JDiOs
youtu.be/0xwu39JDiOs
Introducing "Metabolic notes from the bumbling biochemist: Making metabolism content meaningful and manageable, not merely menacing memorization."
No clue how this domain was still available, but: metabolicnotes.com
No clue how this domain was still available, but: metabolicnotes.com
Metabolic Notes from the Bumbling Biochemist – Making metabolism content meaningful and manageable, not merely menacing memorization.
metabolicnotes.com
November 27, 2025 at 10:47 PM
Introducing "Metabolic notes from the bumbling biochemist: Making metabolism content meaningful and manageable, not merely menacing memorization."
No clue how this domain was still available, but: metabolicnotes.com
No clue how this domain was still available, but: metabolicnotes.com
Metabolism rocks :)
November 26, 2025 at 10:52 PM
Metabolism rocks :)
How we typically (though not technically-correctly) talk about talk about & describe “mutant” proteins & constructs
YouTube: youtu.be/mX_gM8kbIiI
YouTube: youtu.be/mX_gM8kbIiI
How we typically (not technically-correctly) talk about & describe “mutant” proteins & constructs
YouTube video by the bumbling biochemist
youtu.be
November 26, 2025 at 1:01 AM
How we typically (though not technically-correctly) talk about talk about & describe “mutant” proteins & constructs
YouTube: youtu.be/mX_gM8kbIiI
YouTube: youtu.be/mX_gM8kbIiI
Glycolysis + TCA (citric acid cycle) meets M&Ms demo - remember things double!
YouTube: youtu.be/N7uCVpR8j6c
When thinking about glucose oxidation, don't forget things split in 2 and then you've got to count everything twice once they do!
YouTube: youtu.be/N7uCVpR8j6c
When thinking about glucose oxidation, don't forget things split in 2 and then you've got to count everything twice once they do!
Glycolysis + TCA (citric acid cycle) meets M&Ms demo - remember things double!
YouTube video by the bumbling biochemist
youtu.be
November 25, 2025 at 1:03 AM
Glycolysis + TCA (citric acid cycle) meets M&Ms demo - remember things double!
YouTube: youtu.be/N7uCVpR8j6c
When thinking about glucose oxidation, don't forget things split in 2 and then you've got to count everything twice once they do!
YouTube: youtu.be/N7uCVpR8j6c
When thinking about glucose oxidation, don't forget things split in 2 and then you've got to count everything twice once they do!
Tracking carbon through the TCA – why it takes at least 3 cycles to get rid of acetyl-CoA's carbons
youtu.be/Sqm8wun5Jbo
youtu.be/Sqm8wun5Jbo
Tracking carbon through the TCA – why it takes at least 3 cycles to get rid of acetyl-CoA's carbons
YouTube video by the bumbling biochemist
youtu.be
November 23, 2025 at 11:55 PM
Tracking carbon through the TCA – why it takes at least 3 cycles to get rid of acetyl-CoA's carbons
youtu.be/Sqm8wun5Jbo
youtu.be/Sqm8wun5Jbo
One of those "in too deep" videos I made where I allow myself to totally geek out beyond the level of detail that I give my class – this one a deep dive into the chemical logic of the TCA. Thanks for letting me geek out here :)
YouTube: youtu.be/UPsd5vbYads
YouTube: youtu.be/UPsd5vbYads
Chemistry of the TCA (TriCarboxylic Acid)/citric acid/Krebs cycle
YouTube video by the bumbling biochemist
youtu.be
November 22, 2025 at 11:22 PM
One of those "in too deep" videos I made where I allow myself to totally geek out beyond the level of detail that I give my class – this one a deep dive into the chemical logic of the TCA. Thanks for letting me geek out here :)
YouTube: youtu.be/UPsd5vbYads
YouTube: youtu.be/UPsd5vbYads
TCA meets M&Ms - citric acid demo - anaplerotic reactions, etc. Because biochem's better with some hands-on activities! youtube.com/shorts/Pr0eg...
TCA meets M&Ms - citric acid demo - anaplerotic reactions, etc.
YouTube video by the bumbling biochemist
youtube.com
November 22, 2025 at 2:47 AM
TCA meets M&Ms - citric acid demo - anaplerotic reactions, etc. Because biochem's better with some hands-on activities! youtube.com/shorts/Pr0eg...
Specialized isoforms of glucose transporters & hexokinase let different tissues meet their metabolic needs/roles
youtu.be/Fqyf2HpR_Q0
youtu.be/Fqyf2HpR_Q0
Isoforms of glucose transporters & hexokinase let different tissues meet their metabolic needs/roles
YouTube video by the bumbling biochemist
youtu.be
November 21, 2025 at 1:20 AM
Specialized isoforms of glucose transporters & hexokinase let different tissues meet their metabolic needs/roles
youtu.be/Fqyf2HpR_Q0
youtu.be/Fqyf2HpR_Q0
TCA time!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
November 20, 2025 at 2:09 AM
TCA time!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
Don't let your gel run away from you! Quick lab tip: use a kimwipe (or other lintless tissue) to prevent your agarose gel from sliding when you image it
youtube.com/shorts/CKh1J...
more practical lab tips & tricks: bit.ly/lab_tricks_p... & www.youtube.com/playlist?lis...
youtube.com/shorts/CKh1J...
more practical lab tips & tricks: bit.ly/lab_tricks_p... & www.youtube.com/playlist?lis...
Quick lab tip: use a kimwipe (or other lintless tissue) to prevent your agarose gel from sliding
YouTube video by the bumbling biochemist
youtube.com
November 19, 2025 at 1:06 AM
Don't let your gel run away from you! Quick lab tip: use a kimwipe (or other lintless tissue) to prevent your agarose gel from sliding when you image it
youtube.com/shorts/CKh1J...
more practical lab tips & tricks: bit.ly/lab_tricks_p... & www.youtube.com/playlist?lis...
youtube.com/shorts/CKh1J...
more practical lab tips & tricks: bit.ly/lab_tricks_p... & www.youtube.com/playlist?lis...
Honestly not a paid endorsement, but I'm continuously amazed and grateful for the customer support of Reclaim Hosting @www.reclaimhosting.com if any academics are looking for a website host.
November 18, 2025 at 2:45 PM
Honestly not a paid endorsement, but I'm continuously amazed and grateful for the customer support of Reclaim Hosting @www.reclaimhosting.com if any academics are looking for a website host.
Watch out DC – we're coming for ya! One of my favorite parts of working with undergrads is getting to give them their first conference experiences! This year, Alice and hopefully Korina, Liam, and/or Ryan next! @asbmb.bsky.social #ASBMB26
November 18, 2025 at 2:39 AM
Watch out DC – we're coming for ya! One of my favorite parts of working with undergrads is getting to give them their first conference experiences! This year, Alice and hopefully Korina, Liam, and/or Ryan next! @asbmb.bsky.social #ASBMB26
Amino acid and lipid metabolism: an overview, focusing on key points
YouTube video by the bumbling biochemist
youtu.be
November 16, 2025 at 10:45 PM
A quick walk through glycolysis
YouTube: youtu.be/vs7wtESXxxw
For a longer stroll: youtu.be/trasn7OtJNc
YouTube: youtu.be/vs7wtESXxxw
For a longer stroll: youtu.be/trasn7OtJNc
A quick walk through glycolysis
YouTube video by the bumbling biochemist
youtu.be
November 15, 2025 at 11:03 PM
A quick walk through glycolysis
YouTube: youtu.be/vs7wtESXxxw
For a longer stroll: youtu.be/trasn7OtJNc
YouTube: youtu.be/vs7wtESXxxw
For a longer stroll: youtu.be/trasn7OtJNc
Getting your sample on the AKTA: Sample Loops and Sample Pumps
Bottom line: Sample loops are good for small volumes, sample pumps for large volumes, but the pumps are expensive. Superloops are an option for larger volumes without a pump, but they're kinda a pain
youtu.be/OkgW7RrVuXA
Bottom line: Sample loops are good for small volumes, sample pumps for large volumes, but the pumps are expensive. Superloops are an option for larger volumes without a pump, but they're kinda a pain
youtu.be/OkgW7RrVuXA
Getting your sample on the AKTA: Sample Loops and Sample Pumps
YouTube video by the bumbling biochemist
youtu.be
November 15, 2025 at 3:24 AM
Getting your sample on the AKTA: Sample Loops and Sample Pumps
Bottom line: Sample loops are good for small volumes, sample pumps for large volumes, but the pumps are expensive. Superloops are an option for larger volumes without a pump, but they're kinda a pain
youtu.be/OkgW7RrVuXA
Bottom line: Sample loops are good for small volumes, sample pumps for large volumes, but the pumps are expensive. Superloops are an option for larger volumes without a pump, but they're kinda a pain
youtu.be/OkgW7RrVuXA
Let's go on a rapid roadtrip through the heart of human metabolism!
Feel free to download and use this map – please cite if you do, thanks!
youtu.be/-x8S4SSbn58
Bibel, B., & The bumbling biochemist. (2024). Core Metabolic Roadmap. Zenodo. zenodo.org/doi/10.5281/...
Feel free to download and use this map – please cite if you do, thanks!
youtu.be/-x8S4SSbn58
Bibel, B., & The bumbling biochemist. (2024). Core Metabolic Roadmap. Zenodo. zenodo.org/doi/10.5281/...
Metabolic roadtrip: A whirlwind overview of the fundamentals of central metabolism
YouTube video by the bumbling biochemist
youtu.be
November 13, 2025 at 2:37 AM
Let's go on a rapid roadtrip through the heart of human metabolism!
Feel free to download and use this map – please cite if you do, thanks!
youtu.be/-x8S4SSbn58
Bibel, B., & The bumbling biochemist. (2024). Core Metabolic Roadmap. Zenodo. zenodo.org/doi/10.5281/...
Feel free to download and use this map – please cite if you do, thanks!
youtu.be/-x8S4SSbn58
Bibel, B., & The bumbling biochemist. (2024). Core Metabolic Roadmap. Zenodo. zenodo.org/doi/10.5281/...
PCR (Polymerase Chain Reaction) overview, design, and troubleshooting tips youtu.be/DIiRT8OuzJ8
PCR (Polymerase Chain Reaction) overview, design, and troubleshooting tips
YouTube video by the bumbling biochemist
youtu.be
November 11, 2025 at 11:19 PM
PCR (Polymerase Chain Reaction) overview, design, and troubleshooting tips youtu.be/DIiRT8OuzJ8
In the lab, X-marks the relative concentration! youtu.be/gigGrPm5CyU
Working with x-factors of relative concentrations of stock & working solutions (e.g. 6X loading dye)
YouTube video by the bumbling biochemist
youtu.be
November 11, 2025 at 5:15 AM
In the lab, X-marks the relative concentration! youtu.be/gigGrPm5CyU
Take a hint! Key word roots etc. that will help you figure out lots about biochemical reactions from names of molecules and enzymes alone! youtu.be/OtKkzX15ikw
What's in a name? A lot! How to get the most info you can out of enzyme, molecule, & pathway names
YouTube video by the bumbling biochemist
youtu.be
November 9, 2025 at 11:33 PM
Take a hint! Key word roots etc. that will help you figure out lots about biochemical reactions from names of molecules and enzymes alone! youtu.be/OtKkzX15ikw
Uniprot vs. the PDB: Understanding their entries and differences
Bottom line:
* Each entry in Uniprot corresponds to a protein (chain)
* Each entry in the PDB (Protein DataBank) corresponds to a structural model
Bottom line:
* Each entry in Uniprot corresponds to a protein (chain)
* Each entry in the PDB (Protein DataBank) corresponds to a structural model
Uniprot vs. the PDB: Understanding their entries and differences
YouTube video by the bumbling biochemist
youtu.be
November 8, 2025 at 11:50 PM
Uniprot vs. the PDB: Understanding their entries and differences
Bottom line:
* Each entry in Uniprot corresponds to a protein (chain)
* Each entry in the PDB (Protein DataBank) corresponds to a structural model
Bottom line:
* Each entry in Uniprot corresponds to a protein (chain)
* Each entry in the PDB (Protein DataBank) corresponds to a structural model
You finally got your PCR to work? Great! Now, clean up your mess! youtu.be/3FyGRAlbv_8 blog version (text old, video new): bit.ly/spincolumns
PCR product purification/clean-up (eg. QIAquick PCR Purification) & other nucleic acid spin columns
YouTube video by the bumbling biochemist
youtu.be
November 8, 2025 at 4:41 AM
You finally got your PCR to work? Great! Now, clean up your mess! youtu.be/3FyGRAlbv_8 blog version (text old, video new): bit.ly/spincolumns
If you've got glucose, you've got options! Glycolysis tends to get all the spotlight, but that's just one way to go! (At least until you reach a one-way arrow!)
More on metabolism: bit.ly/metabolismgl... & bit.ly/bbmetabolism
More on metabolism: bit.ly/metabolismgl... & bit.ly/bbmetabolism
November 7, 2025 at 2:06 AM
If you've got glucose, you've got options! Glycolysis tends to get all the spotlight, but that's just one way to go! (At least until you reach a one-way arrow!)
More on metabolism: bit.ly/metabolismgl... & bit.ly/bbmetabolism
More on metabolism: bit.ly/metabolismgl... & bit.ly/bbmetabolism
Quick lab tip: Use magnetic clips to clip your protocol above you as you. You can use metal tape to create surfaces if needed and allowed. Unlike just taping up your protocol, with clips you can easily flip through things to see what's coming up, change ordering, etc.
youtube.com/shorts/Qw93p...
youtube.com/shorts/Qw93p...
Quick lab tip: Use magnetic clips to clip your protocol above you as you work
YouTube video by the bumbling biochemist
youtube.com
November 6, 2025 at 2:24 AM
Quick lab tip: Use magnetic clips to clip your protocol above you as you. You can use metal tape to create surfaces if needed and allowed. Unlike just taping up your protocol, with clips you can easily flip through things to see what's coming up, change ordering, etc.
youtube.com/shorts/Qw93p...
youtube.com/shorts/Qw93p...
Electron Transport Chain and Oxidative Phosphorylation practice problems (uncouplers, low O2, etc.) & review youtu.be/cne0QtdKPOo
Made for my class, so your mileage may vary, but hope this can help someone.
Made for my class, so your mileage may vary, but hope this can help someone.
Electron Transport Chain and Oxidative Phosphorylation practice (uncouplers, low O2, etc.) & review
YouTube video by the bumbling biochemist
youtu.be
November 5, 2025 at 12:32 AM
Electron Transport Chain and Oxidative Phosphorylation practice problems (uncouplers, low O2, etc.) & review youtu.be/cne0QtdKPOo
Made for my class, so your mileage may vary, but hope this can help someone.
Made for my class, so your mileage may vary, but hope this can help someone.