http://www.protocolpedia.com/ Recent Videos Video  *edit* We are the Hui Zheng lab at BCM and study Alzheimer's Disease. Thanks everyone for your comments and words of encouragement! We had no idea this would spread like it has, but I guess some of these feelings are universal (and international!). This was all in good fun and took us only a few days to do the filming and editing. If you are caught in a bad project, best of luck and hope you can turn it around soon! Our submission for the Molecular and Human Genetics Retreat 2011 at Baylor College of Medicine. We decided to parody Lady Gaga's Bad Romance with a science twist. Many thanks to On the Rocks for the dance moves, and http://tinyurl.com/4lddjag for the mouse video.]]> Tue, 01 Feb 2011 22:50:00 GMT  This is a showreel for SURE Animations, a high quality 3-D animation suite for the SQA Higher Biology curriculum. The software contains 20 fully annotated animations with additional detailed descriptions of the physical processes. The animations cover: Cell types, Cell absorption, Diffusion and osmosis, Plasma membrane fluid mosaic model, Active transport, Glycolosis, Mitochondrial structure, Krebs' cycle, Cytochrome system, Photosynthesis: Light-dependent stage, Photosynthesis: Calvin cycle, Antibody, DNA, DNA and RNA, Protein synthesis, Virus replication, Phagocytosis, Meiosis, Mutation, Jacob-Monod hypothesis. Produced by Counting Thoughts Ltd.]]> Thu, 06 Jan 2011 23:20:25 GMT  G Protein Coupled Receptors (GPCRs) are proteins embedded in the surface of cells. GPCRs comprise the largest superfamily of proteins in the body. More than 1,000 different GPCRs have been identified since the first receptors were cloned. These proteins receive chemical signals from outside the cell and pass the signal into the cell, so that the cell can respond to the signal. The structures of the endogenous ligands for GPCRs are exceptionally diverse. They include biogenic amines such as norephnephrine and serotonine, peptides, glycoproteins, lipids, nucleotides, ions, and proteases. The sensation of exogenous stimuli, such as light, odors, and taste, is also mediated by this class of receptors. Activation of the receptor causes an effector inside the cell to produce a second signal chemical, which eventually triggers the cell to react to the original external chemical signal.............]]> Thu, 06 Jan 2011 23:13:19 GMT  Biology class]]> Thu, 06 Jan 2011 23:13:04 GMT  This video shows an animated version of protein synthesis.]]> Thu, 06 Jan 2011 23:12:53 GMT  Mr. Lomize and Ms. Clifton helping 9th grade Biology students with a membrane protein sorting activity.]]> Thu, 06 Jan 2011 23:12:36 GMT  http://www.bimatics.blogspot.com/ Life Cycle of a Protein-animated tutorial]]> Thu, 06 Jan 2011 23:12:26 GMT  Kit 3: The versatility of this magnetic manipulative set enables you to demonstrate the four levels of protein folding in three-dimensions. Build an alpha helix on your chalkboard or whiteboard with the layers built in 3-D. This realistic representation clarifies any student misconceptions of protein folding. 3-D folded proteins can now be used to demonstrate the induced fit model, enzyme substrate complex, denatured proteins, active sites, allosteric sites, as well as competitive and non competitive inhibitors. The kit contents reveal how the same molecules are used repeatedly to build simple to complex structures in different biological processes. Partial assembly required. Includes a DVD with easy to follow instructions and video lessons. Kit 3, lesson 1 Protein Folding: Using the 82 amino acid polypeptide chain and the 25 purple amino acid polypeptide chain teachers can clearly demonstrate all levels of protein folding: primary structure, secondary structure (beta pleated sheet and alpha helix) , tertiary structure and quaternary structure. To purchase this kit, please visit www.virtmac.com.]]> Thu, 06 Jan 2011 23:12:17 GMT  SUBSCRIBE! A brief overview of protein synthesis, the process by with DNA transcribes into a chain of amino acids. I did this for a school project, by the way. FOLLOW ME ON TWITTER: http://www.twitter.com/itsjake]]> Thu, 06 Jan 2011 23:12:07 GMT  Protein Synthesis, Translation Translation - the process of converting the mRNA codon sequences into an amino acid polypeptide chain. 1. Initiation - A ribosome attatches to the mRNA and starts to code at the FMet codon (usualy AUG, sometimes GUG or UUG). 2. Elongation - tRNA brings the corresponding amino acid to each codon as the ribosome moves down the mRNA strand. 3. Termination - Reading of the final mRNA codon (aka the STOP codon), which ends the sythesis of the peptide chain and releases it.]]> Thu, 06 Jan 2011 23:11:57 GMT  Dr Gross, as you said once, coming up with good questions mean knowing a lot. So I spent a week researching my question which still may not have been long enough. My question relates to the intersection of two fields (a specialty at KITP), computational biology and string theory. In both proteins and strings, shape is everything. Shape determines function. Both proteins (which are made up of DNA and RNA strands which also fold) and strings fold in accordance with their environment. A protein folds according to the chemistry of the solution around it (such as its hydrophobic property). If properly folded the protein will successfully function to regulate a metabolic process necessary for life, but if not it could cause disease. In string theory, "string folding" is the way the shape of the dimensions around a string determines the way it folds or vibrates. Depending on the way the string folds, twists, vibrates, wraps, opens or closes predicts which of the fundamental particles could be formed. The problem is, most biologists are experimentalists, and haven't been very receptive to some of my questions about the physics of DNA, though some I've met are interested in topology for pharmaceutical development--and there has been a recent development in looking at the atomic interactions that may form a network affecting protein folding patterns. Most physicists shy away from biology since Schrödinger's "What is Life?" developed into molecular biology rather than a new form of physics in living organisms. So where do the two meet? Can the language of topology or atomic theory unite the two to tell us about a generalized theory about the underlying role (or theory) that compaction or "compactification" plays in the biology and the physics of Nature?]]> Thu, 06 Jan 2011 23:11:46 GMT  ( http://www.abnova.com ) - Dialysis (ultrafiltration) is a method to concentrate protein or other macromolecules through a membrane with defined pores. The membranes will have a molecular weight cut-off (MWCO). This is the limit of size (or range) of a protein that can fit through the membrane. More videos at Abnova http://www.abnova.com]]> Thu, 06 Jan 2011 23:11:30 GMT  Protein Synthesis, Translation Translation - the process of converting the mRNA codon sequences into an amino acid polypeptide chain. 1. Initiation - A ribosome attatches to the mRNA and starts to code at the FMet codon (usualy AUG, sometimes GUG or UUG). 2. Elongation - tRNA brings the corresponding amino acid to each codon as the ribosome moves down the mRNA strand. 3. Termination - Reading of the final mRNA codon (aka the STOP codon), which ends the sythesis of the peptide chain and releases it.]]> Thu, 06 Jan 2011 23:11:17 GMT  Visit the MIT BLOSSOMS website at http://blossoms.mit.edu/ This Protein Purification video lesson is intended to give students some insight into the process and tools that scientists and engineers use to explore proteins. See the original video and more on MIT TechTV - http://techtv.mit.edu/videos/4083]]> Thu, 06 Jan 2011 23:11:06 GMT  part three of four LICENSE: Creative Commons (Attribution-Noncommercial-Share Alike) The copyright owner allows distribution and also creation of derivative works of this video, in each case with attribution and under the same or similar license as this license, but prohibits commercial use. For more information about this license, please read: http://creativecommons.org/licenses/by-nc-sa/3.0/.]]> Thu, 06 Jan 2011 23:09:56 GMT  Protein Synthesis, DNA Structure]]> Thu, 06 Jan 2011 23:09:45 GMT  ( http://www.abnova.com ) - Conference: 8th Bioinformatics and Systems Biology in Taiwan (BIT) Dissection of protein-protein interaction-mediated cross-talk pathways in hepatocellular carcinoma (Dr. Chi-Ying F. Huang) Dr. Huang used a newly developed Proximity Ligation Assay(PLA), which detects endogenous protein-protein interaction(PPI) through a pair of antibodies that bind to proteins in close proximity. By PLA, he validated 50 PPI events in hepatocellular carcinoma(HCC). More videos at Abnova ( http://www.abnova.com ).]]> Thu, 06 Jan 2011 23:09:36 GMT  Share your videos with friends, family, and the world]]> Thu, 06 Jan 2011 23:09:22 GMT  This is Adipocyte Lipid Binding Protein, a beta barrel protein. As it rotates, it demonstrates 5 different views of the same structure: 1) Only the backbone atoms, in a ball and stick representation, with the hydrogen bonds shown in blue-green 2) All atoms, again in ball and stick representation 3) All atoms, now represented as Van der Waals spheres 4) A molecular surface, which becomes transparent 5) The secondary structure cartoon is traced while it rotates, in order to show the path of the backbone]]> Thu, 06 Jan 2011 23:09:02 GMT  Protein Synthesis, DNA Replication DNA replication is the process of copying a double-stranded DNA molecule to form two double-stranded molecules.[1][2] The process of DNA replication is a fundamental process used by all living organisms as it is the basis for biological inheritance. As each DNA strand holds the same genetic information, both strands can serve as templates for the reproduction of the opposite strand. The template strand is preserved in its entirety and the new strand is assembled from nucleotides — this process is called "semiconservative replication". The resulting double-stranded DNA molecules are identical; proofreading and error-checking mechanisms exist to ensure near perfect fidelity.]]> Thu, 06 Jan 2011 23:08:09 GMT  this was a project for my biology class. it's "you know what they do to guys like us in prison" by my chemical romance. i dont realy make informational videos. this was just for school. and yes their is one inaccuracy. there is no amino acid on a stop codon. please check out my other videos. if you have a song that you want me to make a video for please let me know!! i'd be happy to make it for you.]]> Thu, 06 Jan 2011 23:07:58 GMT  http://www.biology-forums.com ... Free Homework Help, Free Science / Biology Help, Share E-Books, Test Banks, Exam Material, Join for Free, Biology Tutoring, Biology Resourses, Biology Discussions, Bioethics]]> Thu, 06 Jan 2011 23:07:51 GMT  http://www.bimatics.blogspot.com/ Protein Secretion animated tutorial]]> Thu, 06 Jan 2011 23:07:36 GMT  Researchers fluorescently-labeled the protein ERK and found it cycles between the nucleus and the cell proper of these breast cells over about 7 hours, causing them to pulsate green. Credit Steve Wiley.]]> Thu, 06 Jan 2011 23:07:28 GMT  The endoplasmic reticulum (ER) is the most extensive membrane system in eucaryotic cells. Proteins transported to the Golgi apparatus, endosomes, lysosomes, and the cell surface, all must first enter the ER from the cytosol. This video shows how proteins enter the ER. This video is from: Essential Cell Biology, 3rd Edition Alberts, Bray, Hopkin, Johnson, Lewis, Raff, Roberts, & Walter ISBN: 978-0-8153-4129-1]]> Thu, 06 Jan 2011 23:05:51 GMT  NDSU Virtual Cell Animations Project animation 'Protein Recycling'. For more information please see http://vcell.ndsu.edu/animations. Certain intercellular proteins are needed to respond to specific extracellular signals. This movie covers how such proteins can be stored, recycled and kept available during the periods of time in between the arrival of such extracellular signals.]]> Thu, 06 Jan 2011 23:05:38 GMT  Ever sat in Biology and wondered: what the heck is this guy talking about? Well, luckily 2 students (Brian Hague and Sean Sarcu) had to do a project on something we had no clue about: protein synthesis. After reading through our book, Wikipedia, and other random sites, we made this movie. It explains protein synthesis with the help of cool animations and a cheesy situation. Hopefully this will make sense if you have no clue about protein synthesis.]]> Thu, 06 Jan 2011 23:05:31 GMT  There are many different ways that protein structures can be displayed. A small protein domain, called the SH2 domain, is used here to demonstrate the different ways in which a protein structure can be displayed. This video is from: Essential Cell Biology, 3rd Edition Alberts, Bray, Hopkin, Johnson, Lewis, Raff, Roberts, & Walter ISBN: 978-0-8153-4129-1]]> Thu, 06 Jan 2011 23:05:08 GMT  ( http://www.abnova.com ) - The bicinchoninic acid assay (BCA Assay) is a biochemical assay for determining the total level of protein in a solution, similar to Bradford protein assay. The total protein concentration is exhibited by a color change of the sample solution from green to purple in proportion to protein concentration, which can then be measured using colorimetric techniques. More videos at Abnova http://www.abnova.com]]> Thu, 06 Jan 2011 23:04:53 GMT  ( http://www.abnova.com ) - Abnova offers a variety of arrays for protein expression profiling. These arrays are designed for researchers to study highly relevant proteins in the specific research fields like Angiogenesis, Apoptosis, Cancer Marker, Cell Cycle, Cytokine, Hematopoiesis, Hormone, Signal Transduction and Stem Cell. More videos at Abnova http://www.abnova.com]]> Thu, 06 Jan 2011 23:04:43 GMT  Aston University researchers have discovered a method of overproducing eukaryotic membrane proteins in Saccharomyces cerevisiae, with broad implications for the field of structural biology.]]> Thu, 06 Jan 2011 23:04:28 GMT  this is about genes and dna and protein]]> Thu, 06 Jan 2011 23:04:15 GMT  Preparing protein cartoon image for printing with Pymol]]> Thu, 06 Jan 2011 23:04:01 GMT  Protein Synthesis, Translation Translation - the process of converting the mRNA codon sequences into an amino acid polypeptide chain. 1. Initiation - A ribosome attatches to the mRNA and starts to code at the FMet codon (usualy AUG, sometimes GUG or UUG). 2. Elongation - tRNA brings the corresponding amino acid to each codon as the ribosome moves down the mRNA strand. 3. Termination - Reading of the final mRNA codon (aka the STOP codon), which ends the sythesis of the peptide chain and releases it.]]> Thu, 06 Jan 2011 23:03:23 GMT  ( http://www.abnova.com ) - Proteins with histidine tag can be purified and detected easily because the string of histidine residues binds to several types of immobilized metal ions, including nickel, cobalt and copper, under specific buffer conditions. This video provides generic protocol to purify 6xHis-tagged protein by Nickel nitrilotriacetic (Ni-NTA) sepharose. More videos at Abnova ( http://www.abnova.com ).]]> Thu, 06 Jan 2011 23:03:10 GMT  ( http://www.abnova.com ) - Dr. Masaki Madono introduced wheat germ cell-free protein synthesis system. This system is pioneered by Professor Yaeta Endo of Ehime University, Japan. This platform is based on the eukaryotic translation apparatus of wheat germ, which has significant advantages over other commonly used protein expression systems. More videos at Abnova ( http://www.abnova.com ).]]> Thu, 06 Jan 2011 23:02:40 GMT  ( http://www.abnova.com ) - Dr. Masaki Madono introduced wheat germ cell-free protein synthesis system. This system is pioneered by Professor Yaeta Endo of Ehime University, Japan. This platform is based on the eukaryotic translation apparatus of wheat germ, which has significant advantages over other commonly used protein expression systems. More videos at Abnova ( http://www.abnova.com ).]]> Thu, 06 Jan 2011 23:02:08 GMT  The MPDB or membrane protein database at http://www.mpdb.ul.ie/ is a treasure trove of information and statistics on every aspect of membrane protein biochemistry and structural biology ranging from expression systems used , source organisms to detergents and additives used during crystallization]]> Thu, 06 Jan 2011 23:01:56 GMT  ( http://www.abnova.com ) - BLAST-Protein (blastp) is used for both identifying a query amino acid sequence and for finding similar sequences in protein databases. Like other BLAST programs, blastp is designed to find local regions of similarity. When sequence similarity spans the whole sequence, blastp will also report a global alignment, which is the preferred result for protein identification purposes. More videos at Abnova http://www.abnova.com]]> Thu, 06 Jan 2011 23:01:40 GMT  ( http://www.abnova.com ) - Conference: 8th Bioinformatics and Systems Biology in Taiwan (BIT) Dissection of protein-protein interaction-mediated cross-talk pathways in hepatocellular carcinoma (Dr. Chi-Ying F. Huang) Dr. Huang used a newly developed Proximity Ligation Assay(PLA), which detects endogenous protein-protein interaction(PPI) through a pair of antibodies that bind to proteins in close proximity. By PLA, he validated 50 PPI events in hepatocellular carcinoma(HCC). More videos at Abnova ( http://www.abnova.com ).]]> Thu, 06 Jan 2011 23:01:28 GMT  For a Biology project!]]> Thu, 06 Jan 2011 23:01:00 GMT  This video shows how proteins in the cytosol are delivered into a mitochondrion. This video is from: Essential Cell Biology, 3rd Edition Alberts, Bray, Hopkin, Johnson, Lewis, Raff, Roberts, & Walter ISBN: 978-0-8153-4129-1]]> Thu, 06 Jan 2011 23:00:42 GMT  This is a short animation about the protein biosynthesis including transcription, splicing and translation.]]> Thu, 06 Jan 2011 23:00:28 GMT  ***From Wikipedia*** Function In the cell, small molecules such as gases and glucose diffuse to where they are needed. Large molecules synthesized in the cell body, intracellular components such as vesicles, and organelles such as mitochondria are too large (and the cytosol too crowded) to diffuse to their destinations. Most kinesins transport such cargo about the cell by walking unidirectionally along microtubule tracks hydrolysing one molecule of adenosine triphosphate (ATP) at each step. It was thought that ATP hydrolysis powered the kinesin walk but it now seems that the force of binding to the microtubule is what pulls the cargo along while the binding of ATP assists the direction of motion. Structure The typical kinesin is a protein dimer consisting of two heavy chains and two light chains. The heavy chains comprise a globular head (the motor domain) connected via a short, flexible neck linker to the stalk - a long, central coiled-coil region - that ends in a tail region formed with a light-chain. The stalks intertwine to form the kinesin dimer. Cargo binds to the tail while the twin heads alternately bind the microtubule as the kinesin pulls the cargo along. The heads will hydrolyze 2 ATP molecules per step. Polarity Motor proteins travel in a specific direction along a microtubule. This is because the microtubule is polar, the heads only bind to the microtubule in one orientation, and ATP hydrolysis drives the molecule in one direction. Most kinesins walk towards the positive end of a microtubule which, in most cells, entails transporting cargo from the centre of the cell towards the periphery. This form of transport is known as anterograde transport. Some kinesins {EG5}, and a different type of motor protein known as dyneins, move towards the minus end of the microtubule. Thus they transport cargo from the periphery of the cell towards the centre. This is known as retrograde transport. These motors have a different morphology: their structure is such that they move in the opposite direction though the directional principle is the same as for the rest of the family. Proposed mechanisms Kinesin accomplishes transport by essentially "walking" along a microtubule. Two mechanisms have been proposed to explain how this movement occurs. * In the "hand-over-hand" mechanism, the kinesin heads step over one another, alternating the lead position. * In the "inchworm" mechanism, one kinesin head always leads, moving forward a step before the trailing head catches up. Despite some remaining controversy, mounting academic evidence points towards the symmetric inchworm mechanism as being more likely. Asters and assembly In recent years, it has been found that microtubule-based molecular motors (including a number of kinesins) have a role in mitosis (cell division). The mechanism by which the cytoskeleton of the daughter cell separates from that of the mother cell was unclear. It seems that motors organize the two separate microtubule asters into a metastable structure independent of any external positional cues. This self-organization is in turn dependent on the directionality of the motors as well as their processivity (ability to walk). Thus motors are necessary for the formation of the mitotic spindle assemblies that perform chromosome separation. Specifically, proteins from the Kinesin 13 family act as regulators of microtubule dynamics. The prototypical member of this family is MCAK (formerly Kif2C, XKCM1, Gene KIF2C) which acts at the ends of microtubule polymers to depolymerize them. The function of MCAK in cells and its mechanism in vitro is currently being investigated by numerous labs.]]> Thu, 06 Jan 2011 23:00:01 GMT  brynn, pinky, amber]]> Thu, 06 Jan 2011 22:59:30 GMT  Short biology project using stop motion '08.]]> Thu, 06 Jan 2011 22:59:23 GMT  Our biology project on Protein synthesis and other organelles stuff: Ribosome goes on a quest to find his RNA, and gets stuck outside of the cell. OH NOES!]]> Thu, 06 Jan 2011 22:59:00 GMT  The TATA-binding protein is a subunit of RNA polymerase II that initiates mRNA transcription. This video describes this initiation process. This video is from: Essential Cell Biology, 3rd Edition Alberts, Bray, Hopkin, Johnson, Lewis, Raff, Roberts, & Walter ISBN: 978-0-8153-4129-1]]> Thu, 06 Jan 2011 22:58:51 GMT  This is a basic animation of the process of protein synthesis I made when revising for my A-level Biology module. Hey, I'm no artist- but it helped me for the exam!]]> Thu, 06 Jan 2011 22:58:44 GMT  For Biology.]]> Thu, 06 Jan 2011 22:58:33 GMT