scholarly journals A Simple and Effective Protein Folding Activity Suitable for Large Lectures

2006 ◽  
Vol 5 (3) ◽  
pp. 264-269 ◽  
Author(s):  
Brian White

This article describes a simple and inexpensive hands-on simulation of protein folding suitable for use in large lecture classes. This activity uses a minimum of parts, tools, and skill to simulate some of the fundamental principles of protein folding. The major concepts targeted are that proteins begin as linear polypeptides and fold to three-dimensional structures, noncovalent interactions drive this folding process, and the final folded shape of a protein depends on its amino acid sequence. At the start of the activity, students are given pieces of insulated wire from which they each construct and fold their own polypeptide. This activity was evaluated in three ways. A random sample of student-generated polypeptides collected after the activity shows that most students were able to create an appropriate structure. After this activity, students (n = 154) completed an open-ended survey. Their responses showed that more than three-quarters of the students learned one or more of the core concepts being demonstrated. Finally, a follow-up survey was conducted seven weeks after the activity; responses to this survey (n = 63) showed that a similar fraction of students still retained these key concepts. This activity should be useful in large introductory-level college biology or biochemistry lectures.

Author(s):  
A. Alexiou ◽  
I. Roumeliotis ◽  
N. Aretakis ◽  
A. Tsalavoutas ◽  
K. Mathioudakis

This paper presents a method of modeling contra-rotating turbomachinery components for engine performance simulations. The first step is to generate the performance characteristics of such components. In this study, suitably modified one-dimensional mean line codes are used. The characteristics are then converted to three-dimensional tables (maps). Compared to conventional turbomachinery component maps, the speed ratio between the two shafts is included as an additional map parameter and the torque ratio as an additional table. Dedicated component models are then developed that use these maps to simulate design and off-design operation at the component and engine levels. Using this approach, a performance model of a geared turbofan with a contra-rotating core (CRC) is created. This configuration was investigated in the context of the European program “NEW Aero-Engine Core Concepts” (NEWAC). The core consists of a seven-stage compressor and a two-stage turbine without interstage stators and with successive rotors running in the opposite direction through the introduction of a rotating outer spool. Such a configuration results in a reduced parts count, length, weight, and cost of the entire high pressure (HP) system. Additionally, the core efficiency is improved due to reduced cooling air flow requirements. The model is then coupled to an aircraft performance model and a typical mission is carried out. The results are compared against those of a similar configuration employing a conventional core and identical design point performance. For the given aircraft-mission combination and assuming a 10% engine weight saving when using the CRC arrangement over the conventional one, a total fuel burn reduction of 1.1% is predicted.


Author(s):  
A. Alexiou ◽  
I. Roumeliotis ◽  
N. Aretakis ◽  
A. Tsalavoutas ◽  
K. Mathioudakis

This paper presents a method of modelling contra-rotating turbomachinery components for engine performance simulations. The first step is to generate the performance characteristics of such components. In this study, suitably modified one-dimensional mean line codes are used. The characteristics are then converted to three-dimensional tables (maps). Compared to conventional turbomachinery component maps, the speed ratio between the two shafts is included as an additional map parameter and the torque ratio as an additional table. Dedicated component models are then developed that use these maps to simulate design and off-design operation at component and engine level. Using this approach, a performance model of a geared turbofan with a Contra-Rotating Core (CRC) is created. This configuration was investigated in the context of the European program NEWAC (NEW Aero-engine core Concepts). The core consists of a seven-stage compressor and a two-stage turbine without inter-stage stators and with successive rotors running in opposite direction through the introduction of a rotating outer spool. Such a configuration results in reduced parts count, length, weight and cost of the entire HP system. Additionally, the core efficiency is improved due to reduced cooling air flow requirements. The model is then coupled to an aircraft performance model and a typical mission is carried out. The results are compared against those of a similar configuration employing a conventional core and identical design point performance. For the given aircraft-mission combination and assuming a 10% engine weight saving when using the CRC arrangement over the conventional one, a total fuel burn reduction of 1.1% is predicted.


1975 ◽  
Vol 36 (2) ◽  
pp. 599-606 ◽  
Author(s):  
G. B. Northcraft ◽  
G. C. Jernstedt

60 college students taking introductory psychology were randomly divided into four groups. The first three groups attended a lecture and received either outlines of the lecture material, examples of the concepts in the lecture, or no supplementary materials. The fourth group did not attend the lecture but instead received a typed transcript of it. Students receiving outlines or lists of examples scored significantly higher on follow-up objective examinations than either students receiving transcripts or no supplementary materials; students receiving transcripts did not differ significantly in scoring from students who attended the lecture but did not receive supplementary materials. Groups also differed in time spent preparing for the exams.


2020 ◽  
Vol 1 (1) ◽  
pp. 46-53
Author(s):  
Kyota Uchimura ◽  
Akifumi Yamaji

A supercritical water-cooled reactor (SCWR) adopts a once-through direct cycle, which is compatible with a small modular reactor class (SMR) plant system. The core is cooled by supercritical light water, which does not exhibit phase change, but undergoes large temperature and density changes. A super fast reactor (Super FR) is a fast reactor type concept of SCWR. Unlike other SCWR core concepts, it adopts the single coolant pass flow scheme, in which the coolant passes the core only once from the bottom to the top without any reverse flows or preheating stages. In the meantime, reducing the core size tends to increase the core power peaking and reduce criticality. Therefore, the key issues with the small Super FR core design is reducing the core power peaking and achieving high average core outlet temperature with the single coolant pass scheme. This study aims to highlight the design issues through conceptual core designs of SMR class Super FR. To evaluate the core characteristics, three-dimensional coupled core calculations are carried out. The proposed design with small fuel assemblies, which are equivalent to those of boiling water reactors, attains a high core average outlet temperature of about 500 °C, which is compatible to that of typical large SCWR core design.


2008 ◽  
Author(s):  
Christopher Layne ◽  
Abigail Gewirtz ◽  
Chandra Ghosh Ippen ◽  
Renee Dominguez ◽  
Robert Abramovitz ◽  
...  
Keyword(s):  
The Core ◽  

2019 ◽  
Vol 1 (2) ◽  
pp. V3
Author(s):  
Guilherme H. W. Ceccato ◽  
Rodolfo F. M. da Rocha ◽  
Duarte N. C. Cândido ◽  
Wladimir O. Melo ◽  
Marcio S. Rassi ◽  
...  

Foramen magnum (FM) meningiomas are challenging lesions. We present the case of a 38-year-old female with neck pain, dysphonia, and slight twelfth nerve palsy. Imaging workup was highly suggestive of an FM meningioma, and microsurgical resection with the aid of intraoperative neurophysiological monitoring was indicated. A transcondylar approach was employed, the vertebral artery was mobilized, and the tumor was completely removed. Postoperative MRI demonstrated complete resection. There were no signs of cervical instability. The patient presented with improvement of her symptoms and no new neurological deficit on follow-up. FM meningiomas can be successfully resected using a transcondylar approach, since it increases the exposure of the ventral FM, allowing the surgeon to work parallel to the skull base and flush with the tumor’s attachment. Informed consent was obtained from the patient for publication of this operative video.The video can be found here: https://youtu.be/itfUOB-6zM0.


2020 ◽  
Vol 26 (42) ◽  
pp. 7537-7554 ◽  
Author(s):  
Juan Zeng ◽  
Zunnan Huang

Background: The rapidly increasing number of known protein sequences calls for more efficient methods to predict the Three-Dimensional (3D) structures of proteins, thus providing basic knowledge for rational drug design. Understanding the folding mechanism of proteins is valuable for predicting their 3D structures and for designing proteins with new functions and medicinal applications. Levinthal’s paradox is that although the astronomical number of conformations possible even for proteins as small as 100 residues cannot be fully sampled, proteins in nature normally fold into the native state within timescales ranging from microseconds to hours. These conflicting results reveal that there are factors in organisms that can assist in protein folding. Methods: In this paper, we selected a crowded cell-like environment and temperature, and the top three Posttranslational Modifications (PTMs) as examples to show that Levinthal’s paradox does not reflect the folding mechanism of proteins. We then revealed the effects of these factors on protein folding. Results: The results summarized in this review indicate that a crowded cell-like environment, temperature, and the top three PTMs reshape the Free Energy Landscapes (FELs) of proteins, thereby regulating the folding process. The balance between entropy and enthalpy is the key to understanding the effect of the crowded cell-like environment and PTMs on protein folding. In addition, the stability/flexibility of proteins is regulated by temperature. Conclusion: This paper concludes that the cellular environment could directly intervene in protein folding. The long-term interactions of the cellular environment and sequence evolution may enable proteins to fold efficiently. Therefore, to correctly understand the folding mechanism of proteins, the effect of the cellular environment on protein folding should be considered.


2020 ◽  
Author(s):  
Hongfeng Sheng ◽  
Weixing Xu ◽  
Bin Xu ◽  
Hongpu Song ◽  
Di Lu ◽  
...  

UNSTRUCTURED The retrospective study of Taylor's three-dimensional external fixator for the treatment of tibiofibular fractures provides a theoretical basis for the application of this technology. The paper collected 28 patients with tibiofibular fractures from the Department of Orthopaedics in our hospital from March 2015 to June 2018. After the treatment, the follow-up evaluation of Taylor's three-dimensional external fixator for the treatment of tibiofibular fractures and concurrency the incidence of the disease, as well as the efficacy and occurrence of the internal fixation of the treatment of tibial fractures in our hospital. The results showed that Taylor's three-dimensional external fixator was superior to orthopaedics in the treatment of tibiofibular fractures in terms of efficacy and complications. To this end, the thesis research can be concluded as follows: Taylor three-dimensional external fixation in the treatment of tibiofibular fractures is more effective, and the incidence of occurrence is low, is a new technology for the treatment of tibiofibular fractures, it is worthy of clinical promotion.


Jumping, climbing and suspensory locomotion are specialized locomotor mechanisms used on land and in the air. Jumping is used for rapid launches from substrates. Climbing and suspensory movements enable locomotion up, under and through vertically-structured habitats, such as forests. Elastic energy storage is particularly important for jumping and catapult systems and we address the core concepts of power amplification that are exemplified in nature’s extreme jumpers. We examine the diverse mechanisms of attachment that characterize animals that can grasp and adhere to a diversity of structures. We conclude the chapter by examining the integration of biological capabilities with engineering innovations in these systems.


Neurosurgery ◽  
2004 ◽  
Vol 55 (3) ◽  
pp. 519-531 ◽  
Author(s):  
Erol Veznedaroglu ◽  
David W. Andrews ◽  
Ronald P. Benitez ◽  
M. Beverly Downes ◽  
Maria Werner-Wasik ◽  
...  

Abstract OBJECTIVE: Despite the success of stereotactic radiosurgery, large inoperable arteriovenous malformations (AVMs) of 14 cm3 or more have remained largely refractory to stereotactic radiosurgery, with much lower obliteration rates. We review treatment of large AVMs either previously untreated or partially obliterated by embolization with fractionated stereotactic radiotherapy (FSR) regimens using a dedicated linear accelerator (LINAC). METHODS: Before treatment, all patients were discussed at a multidisciplinary radiosurgery board and found to be suitable for FSR. All patients were evaluated for pre-embolization. Those who had feeding pedicles amenable to glue embolization were treated. LINAC technique involved acquisition of a stereotactic angiogram in a relocatable frame that was also used for head localization during treatment. The FSR technique involved the use of six 7-Gy fractions delivered on alternate days over a 2-week period, and this was subsequently dropped to 5-Gy fractions after late complications in one of seven patients treated with 7-Gy fractions. Treatments were based exclusively on digitized biplanar stereotactic angiographic data. We used a Varian 600SR LINAC (Varian Medical Systems, Inc., Palo Alto, CA) and XKnife treatment planning software (Radionics, Inc., Burlington, MA). In most cases, one isocenter was used, and conformality was established by non-coplanar arc beam shaping and differential beam weighting. RESULTS: Thirty patients with large AVMs were treated between January 1995 and August 1998. Seven patients were treated with 42-Gy/7-Gy fractions, with one patient lost to follow-up and the remaining six with previous partial embolization. Twenty-three patients were treated with 30-Gy/5-Gy fractions, with two patients lost to follow-up and three who died as a result of unrelated causes. Of 18 evaluable patients, 8 had previous partial embolization. Mean AVM volumes at FSR treatment were 23.8 and 14.5 cm3, respectively, for the 42-Gy/7-Gy fraction and 30-Gy/5-Gy fraction groups. After embolization, 18 patients still had AVM niduses of 14 cm3 or more: 6 in the 7-Gy cohort and 12 in the 5-Gy cohort. For patients with at least 5-year follow-up, angiographically documented AVM obliteration rates were 83% for the 42-Gy/7-Gy fraction group, with a mean latency of 108 weeks (5 of 6 evaluable patients), and 22% for the 30-Gy/5-Gy fraction group, with an average latency of 191 weeks (4 of 18 evaluable patients) (P = 0.018). For AVMs that remained at 14 cm3 or more after embolization (5 of 6 patients), the obliteration rate remained 80% (4 of 5 patients) for the 7-Gy cohort and dropped to 9% for the 5-Gy cohort. A cumulative hazard plot revealed a 7.2-fold greater likelihood of obliteration with the 42-Gy/7-Gy fraction protocol (P = 0.0001), which increased to a 17-fold greater likelihood for postembolization AVMs of 14 cm3 or more (P = 0.003). CONCLUSION: FSR achieves obliteration for AVMs at a threshold dose, including large residual niduses after embolization. With significant treatment-related morbidities, further investigation warrants a need for better three-dimensional target definition with higher dose conformality.


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