scholarly journals The Miyazawa-Jernigan Contact Energies Revisited

2012 ◽  
Vol 6 (1) ◽  
pp. 1-8 ◽  
Author(s):  
Hui Zeng ◽  
Ke-Song Liu ◽  
Wei-Mou Zheng
Keyword(s):  
Amino Acids ◽  
Mutual Information ◽  
Globular Proteins ◽  
Coarse Grained ◽  
Contact Potential ◽  
Coordination Numbers ◽  
Residue Contact ◽  
Knowledge Based ◽  
Clustering Approach ◽  
The One

The Miyazawa-Jernigan (MJ) contact potential for globular proteins is a widely used knowledge-based potential. It is well known that MJ’s contact energies mainly come from one-body terms. Directly in the framework of the MJ energy for a protein, we derive the one-body term based on a probabilistic model, and compare the term with several hydrophobicity scales of amino acids. This derivation is based on a set of native structures, and the only information of structures manipulated in the analysis is the contact numbers of each residue. Contact numbers strongly correlate with layers of a protein when it is viewed as an ellipsoid. Using an entropic clustering approach, we obtain two coarse-grained states by maximizing the mutual information between coordination numbers and residue types, and find their differences in the two-body correction. A contact definition using sidechain centers roughly estimated from Cα atoms results in no significant changes.

Research Regarding Content in Amino-acids and Biological Value of Proteins from Polyodon spathula Sturgeon Meat

2017 ◽  
Vol 68 (5) ◽  
pp. 1063-1069
Author(s):  
Cristina Simeanu ◽  
Daniel Simeanu ◽  
Anca Popa ◽  
Alexandru Usturoi ◽  
Dan Bodescu ◽  
...  
Keyword(s):  
Amino Acids ◽  
Nutritive Value ◽  
Essential Amino Acids ◽  
Meat Production ◽  
Age Group ◽  
Chemical Methods ◽  
Biological Value ◽  
Polyodon Spathula ◽  
The One ◽  
Total Amino Acids

Polyodon spathula sturgeon breed is successfully reared in Romania in many fishery farms for meat production and it is capitalized on domestic market as consumption fish. In the current paper were studied a number of 1400 sturgeons from Polyodon spathula breed (1200 individuals of one summer - P.s.0+ and 200 individuals of fourth summers - P.s.3+). From this flock were weighted around 10%, for each age group, and for laboratory determinations were chosen 10 fishes for each age with the corporal mass close to the group mean. After analysing the fillets gathered from the studied fishes for establishing the chemical characteristics, nutritive and biological values of proteins were drawn some interesting conclusions. So, regarding chemical composition we notice that in the meat of analysed fishes water is in a rate of 75.41% at P.s.3+ and 78.37% for P.s.0+; proteins - between 18.08% for P.s.0+ and 19.89% for P.s.3+, values which place those fishes in the group of protein fishes; lipids - between 2.45% and 3.45%, values which situated those sturgeons in category of fishes with a low content in lipids; collagen � 3.83% at P.s.0+ and 4.14% at P.s.3+ which indicate low values for proteins of weak quality in the meat of those sturgeons. Study of nutritive value for the analysed fishes indicate the fact that fishes P.s.0+ have a mediocre nutritive value, having the ratio w/p of 4.33 while sturgeons P.s.3+ were placed in the 2nd category � fishes with a good nutritive value (rate w/p = 3.79). Energetic value of the studied fillets was 97.39 kcal/100 g for P.s.0+ and 114.31 kcal/100 g for P.s.3+, which enlightened an increase of nutritive value with aging, fact especially due to accumulation of adipose tissue. Study of proteins quality, through the presence of those 8 essential amino-acids in the meat of analysed fishes, show the fact that at sturgeons P.s.0+ proportion of essential amino-acids was 20.88% from total amino-acids, while at sturgeons P.s.3+ was 26.23%, fact which enlightened an increasing of proteins� biological value with fish aging. This fact was also shown by calculation of proteins� biological value through chemical methods (EAA index); calculated value for sturgeons P.s.0+ was a little bit lower (118.73) than the one calculated for sturgeons P.s.3+ (118.79).

scholarly journals PSIV-21 Pellet processing reduces variability of corn soybean meal-based diet digestibility in growing pigs

2020 ◽  
Vol 98 (Supplement_3) ◽  
pp. 175-175
Author(s):  
Élisabeth Chassé ◽  
Frédéric Guay ◽  
Marie-Pierre Létourneau-Montminy
Keyword(s):  
Amino Acids ◽  
Soybean Meal ◽  
Crude Protein ◽  
Dry Matter ◽  
Crossover Design ◽  
Growing Pigs ◽  
Distal Ileum ◽  
Ileal Digestibility ◽  
Pelleted Diet ◽  
The One

Abstract This study was conducted to determine the effect of pelleting on the digestibility of corn-soybean meal-based diet in growing pigs. Two trials with 6 pigs cannulated at the distal ileum were conducted. In each trial, pigs were assigned to each treatment following a crossover design. In each experiment, the same diet, composed of corn and soybean meal with 10% wheat from two different feed mills, was served in pellet or mash form. Pelleting allowed an increase in digestibility in one of the trials. Apparent ileal digestibility (AID) of dry matter (DM), crude protein (CP) and digestible energy (DE) were improved with pelleting by 8, 12 and 9% (P< 0.01). The AID of amino acids (AA) was also improved (P< 0.05). Apparent total tract digestibility (ATTD) was increased by pelleting in DM, CP and DE by 5, 7 and 6% respectively (P< 0.01). The digestibility of the mash diet in experiment 1 was lower than in the pelleted diet in the experiment 1 and both diets in experiment 2 as shown by the interaction Pelleting X Trial which was significant for the AID and ATTD of DM, CP and DE (P< 0.01). Therefore, in experiment 1, pelleting allows to improve the digestibility of diet to the same level as in experiment 2. The AID of CP was higher by 37% in the mash diet from the second experiment compared to the one in the first experiment. Even though the same ingredients were chosen in the two experiments, this shows the variability in digestibility existing between different feed mills and ingredient sources. This difference was not observed in pelleted diets. The results obtained in these two trials show that pelleting can reduce the variability of digestibility and then give a good digestibility of diets even if the ingredients are of different quality or sources.

scholarly journals A Water-Soluble Copper-Immobilized Covalent Organic Framework Functioning as an “OFF–ON” Fluorescent Sensor for Amino Acids

2021 ◽  
Author(s):  
Lamiaa Reda Ahmed ◽  
Ahmed F. M. EL-Mahdy ◽  
Cheng-Tang Pan ◽  
Shiao-Wei Kuo
Keyword(s):  
Amino Acids ◽  
Fluorescent Sensor ◽  
Water Soluble ◽  
One Pot ◽  
Covalent Organic Framework ◽  
The One ◽  
Organic Framework

In this paper, we describe the construction of a new fluorescent hydroxyl- and hydrazone-based covalent organic framework (TFPB-DHTH COF) through the one-pot polycondensation of 1,3,5-tris(4-formylphenyl)benzene (TFPB) and 2,5-dihydroxyterephthalohydrazide (DHTH) under...

Natural Vulcanization Accelerators in Hevea Latex

1948 ◽  
Vol 21 (4) ◽  
pp. 853-859
Author(s):  
R. F. A. Altman
Keyword(s):  
Amino Acids ◽  
Experimental Results ◽  
The Other ◽  
Active Nitrogen ◽  
Nitrogen Bases ◽  
Other Hand ◽  
Decomposition Processes ◽  
Volatile Products ◽  
Nitrogenous Substances ◽  
The One

Abstract As numerous investigators have shown, some of the nonrubber components of Hevea latex have a decided accelerating action on the process of vulcanization. A survey of the literature on this subject points to the validity of certain general facts. 1. Among the nonrubber components of latex which have been investigated, certain nitrogenous bases appear to be most important for accelerating the rate of vulcanization. 2. These nitrogen bases apparently occur partly naturally in fresh latex, and partly as the result of putrefaction, heating, and other decomposition processes. 3. The nitrogen bases naturally present in fresh latex at later stages have been identified by Altman to be trigonelline, stachhydrine, betonicine, choline, methylamine, trimethylamine, and ammonia. These bases are markedly active in vulcanization, as will be seen in the section on experimental results. 4. The nitrogenous substances formed by the decomposition processes have only partly been identified, on the one hand as tetra- and pentamethylene diamine and some amino acids, on the other hand as alkaloids, proline, diamino acids, etc. 5. It has been generally accepted that these nitrogenous substances are derived from the proteins of the latex. 6. Decomposition appears to be connected with the formation of a considerable amount of acids. 7. The production of volatile nitrogen bases as a rule accompanies the decomposition processes. These volatile products have not been identified. 8. The active nitrogen bases, either already formed or derived from complex nitrogenous substances, seem to be soluble in water but only slightly soluble in acetone.

Knowledge Based Expert Systems for CAD/CAM Experience of an EDM Application

1993 ◽  
Author(s):  
D. Kiritsis ◽  
Michel Porchet ◽  
L. Boutzev ◽  
I. Zic ◽  
P. Sourdin
Keyword(s):  
Natural Language ◽  
System Development ◽  
Constraint Propagation ◽  
Programming Environment ◽  
Knowledge Based ◽  
Natural Language Programming ◽  
Cad Cam ◽  
The One ◽  
Rule System ◽  
Cam Systems

Abstract In this paper we present our experience from the use of two different expert system development environments to Wire-EDM CAD/CAM knowledge based application. The two systems used follow two different AI approaches: the one is based on the constraint propagation theory and provides a natural language oriented programming environment, while the other is a production rule system with backward-forward chaining mechanisms and a conventional-like programming style. Our experience showed that the natural language programming style offers an easier and more productive environment for knowledge based CAD/CAM systems development.

scholarly journals X-Ray and Neutron Diffraction of Amorphous Nickel-Zirconium-Alloys as Prepared in Different Ways

1991 ◽  
Vol 46 (6) ◽  
pp. 491-498 ◽  
Author(s):  
L. Schultz ◽  
P. Lamparter ◽  
S. Steeb
Keyword(s):  
Neutron Diffraction ◽  
Short Range ◽  
Melt Spinning ◽  
Short Range Order ◽  
Pair Correlation ◽  
Zirconium Alloys ◽  
X Ray ◽  
Coordination Numbers ◽  
Structure Factors ◽  
The One

AbstractThe structure of amorphous NiχZr100-χ-alloys (Χ= 30, 31, 34, 63.7, and 65), which were produced by melt spinning (MS), mechanical alloying (MA), and sputtering (SP) was studied by X-ray- and neutron diffraction yielding structure factors, pair correlation functions, coordination numbers, atomic distances, and Warren-Cowley chemical short range order parameters. The atomic arrangement within the first coordination sphere is independent of the method of preparation while in the second and higher spheres it differs between the MS- and the MA-alloys on the one side and the SP-specimens on the other side. Thus one understands that some physical properties of the different specimens differ

scholarly journals ARMC Subfamily: Structures, Functions, Evolutions, Interactions, and Diseases

2021 ◽  
Vol 8 ◽  
Author(s):  
Yutao Huang ◽  
Zijian Jiang ◽  
Xiangyu Gao ◽  
Peng Luo ◽  
Xiaofan Jiang
Keyword(s):  
Signal Transduction ◽  
Amino Acids ◽  
Cell Adhesion ◽  
Tandem Repeats ◽  
Critical Role ◽  
The Other ◽  
Biological Functions ◽  
Armadillo Repeat ◽  
The One ◽  
Similar Domain

Armadillo repeat-containing proteins (ARMCs) are widely distributed in eukaryotes and have important influences on cell adhesion, signal transduction, mitochondrial function regulation, tumorigenesis, and other processes. These proteins share a similar domain consisting of tandem repeats approximately 42 amino acids in length, and this domain constitutes a substantial platform for the binding between ARMCs and other proteins. An ARMC subfamily, including ARMC1∼10, ARMC12, and ARMCX1∼6, has received increasing attention. These proteins may have many terminal regions and play a critical role in various diseases. On the one hand, based on their similar central domain of tandem repeats, this ARMC subfamily may function similarly to other ARMCs. On the other hand, the unique domains on their terminals may cause these proteins to have different functions. Here, we focus on the ARMC subfamily (ARMC1∼10, ARMC12, and ARMCX1∼6), which is relatively conserved in vertebrates and highly conserved in mammals, particularly primates. We review the structures, biological functions, evolutions, interactions, and related diseases of the ARMC subfamily, which involve more than 30 diseases and 40 bypasses, including interactions and relationships between more than 100 proteins and signaling molecules. We look forward to obtaining a clearer understanding of the ARMC subfamily to facilitate further in-depth research and treatment of related diseases.

scholarly journals The Enigma of Darwin Diagram

2017 ◽  
Author(s):  
Miloje M. Rakocevic
Keyword(s):  
Amino Acids ◽  
Genetic Code ◽  
Origin Of Species ◽  
Logical Square ◽  
Famous Book ◽  
The One ◽  
First Time ◽  
Direct Inspection

According to my best knowledge, for the first time here is presented a hypothesis, that the one and only "accompanying diagram" in Darwin's famous book On the Origin of Species contains, may be, a hidden code. Direct inspection reveals that the Diagram, viewed as built of four parts [(two upper and two lower / two left and two right); (two with more and two with less branches / two with multiple and two with single branches)], corresponds to the logical square of the genetic code. When, however, viewed as built of two parts (upper and lower), then it corresponds with Shcherbak’s diagram (Shcherbak, 1993, 1994) of four-codon and non-four-codon amino acids (AAs); not only by the form but also by the number of elementary quantities. [This version was storing 2015.01.06. on my website; the first one, under the title "The Darwin (hidden) code" at 2014.10.12.]

Knowledge-based clustering approach for data abstraction

1994 ◽  
Vol 7 (2) ◽  
pp. 103-113 ◽  
Author(s):  
V. Sridhar ◽  
M. Narasimha Murty
Keyword(s):  
Data Abstraction ◽  
Knowledge Based ◽  
Clustering Approach
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