A Novel Measure to Analyze Protein Structures: Aspect Ratio in Protein Alpha Shapes

2021 ◽  
Author(s):  
Elife Z. Bagci ◽  
Fatma Senguler‐Ciftci ◽  
Unver Ciftci ◽  
Ayhan Demir
Keyword(s):  
Aspect Ratio ◽  
Protein Structures ◽  
Alpha Shapes

Biotemplate Synthesis of Ag Nanoparticles and Nanowires

2004 ◽  
Vol 818 ◽  
Author(s):  
S. Behrens ◽  
E. Unger ◽  
J. Wu ◽  
W. Habicht ◽  
E. Dinjus
Keyword(s):  
Aspect Ratio ◽  
Chemical Reaction ◽  
High Aspect Ratio ◽  
Ag Nanoparticles ◽  
Protein Structures ◽  
Tubular Structure ◽  
Metal Nanostructures ◽  
Protein Assemblies ◽  
Ag Nanowires

AbstractWe address the template-directed deposition of metals on microtubule supports for generating metal nanostructures with different morphologies. Microtubules are highly ordered protein assemblies of tubular structure with a high aspect ratio. In this approach, the biostructure serves as a functionalised scaffold where the metal is generated in situ and shaped into a nanostructure with its morphology complementary to that of the biotemplate. When the biotemplate is coupled to an appropriate chemical reaction, different Ag / protein structures are produced, ranging from microtubules densely covered by small Ag nanoparticles to continuous Ag nanowires.

Insights into the biochemical and functional characterization of sortase E transpeptidase of Corynebacterium glutamicum

2019 ◽  
Vol 476 (24) ◽  
pp. 3835-3847 ◽  
Author(s):  
Aliyath Susmitha ◽  
Kesavan Madhavan Nampoothiri ◽  
Harsha Bajaj
Keyword(s):  
Protein Engineering ◽  
Cell Attachment ◽  
Functional Characterization ◽  
Protein Structures ◽  
Structural Similarity ◽  
Surface Proteins ◽  
Sortase A ◽  
Peptide Cleavage ◽  
New Findings

Most Gram-positive bacteria contain a membrane-bound transpeptidase known as sortase which covalently incorporates the surface proteins on to the cell wall. The sortase-displayed protein structures are involved in cell attachment, nutrient uptake and aerial hyphae formation. Among the six classes of sortase (A–F), sortase A of S. aureus is the well-characterized housekeeping enzyme considered as an ideal drug target and a valuable biochemical reagent for protein engineering. Similar to SrtA, class E sortase in GC rich bacteria plays a housekeeping role which is not studied extensively. However, C. glutamicum ATCC 13032, an industrially important organism known for amino acid production, carries a single putative sortase (NCgl2838) gene but neither in vitro peptide cleavage activity nor biochemical characterizations have been investigated. Here, we identified that the gene is having a sortase activity and analyzed its structural similarity with Cd-SrtF. The purified enzyme showed a greater affinity toward LAXTG substrate with a calculated KM of 12 ± 1 µM, one of the highest affinities reported for this class of enzyme. Moreover, site-directed mutation studies were carried to ascertain the structure functional relationship of Cg-SrtE and all these are new findings which will enable us to perceive exciting protein engineering applications with this class of enzyme from a non-pathogenic microbe.

Modification of MnS inclusion by tellurium in 38MnVS6 micro-alloyed steel

2020 ◽  
Vol 117 (6) ◽  
pp. 615
Author(s):  
Ping Shen ◽  
Lei Zhou ◽  
Qiankun Yang ◽  
Zhiqi Zeng ◽  
Kenan Ai ◽  
...  
Keyword(s):  
Fatigue Life ◽  
Aspect Ratio ◽  
Strong Influence ◽  
Experimental Results ◽  
Alloyed Steel ◽  
Equivalent Diameter ◽  
Small Aspect Ratio ◽  
Steel Quality ◽  
Eds Analysis ◽  
Micro Alloyed Steel

In 38MnVS6 steel, the morphology of sulfide inclusion has a strong influence on the fatigue life and machinability of the steel. In most cases, the MnS inclusions show strip morphology after rolling, which significantly affects the steel quality. Usually, the MnS inclusion with a spherical morphology is the best morphology for the steel quality. In the present work, tellurium was applied to 38MnVS6 micro-alloyed steel to control the MnS inclusion. Trace tellurium was added into 38MnVS6 steel and the effect of Te on the morphology, composition, size and distribution of MnS inclusions were investigated. Experimental results show that with the increase of Te content, the equivalent diameter and the aspect ratio of inclusion decrease strikingly, and the number of inclusions with small aspect ratio increases. The inclusions are dissociated and spherized. The SEM-EDS analysis indicates that the trace Te mainly dissolves in MnS inclusion. Once the MnS is saturated with Te, MnTe starts to generate and wraps MnS. The critical Te/S value for the formation of MnTe in the 38MnV6 steel is determined to be approximately 0.075. With the increase of Te/S ratio, the aspect ratio of MnS inclusion decreases and gradually reaches a constant level. The Te/S value in the 38MnVS6 steel corresponding to the change of aspect ratio from decreasing to constant ranges from 0.096 to 0.255. This is most likely to be caused by the saturation of Te in the MnS inclusion. After adding Te in the steel, rod-like MnS inclusion is modified to small inclusion and the smaller the MnS inclusion, the lower the aspect ratio.

Sequence Specific Dihedral Angle Distribution: Application in Protein Structure Prediction and Evaluation

1970 ◽  
Vol 19 (2) ◽  
pp. 217-226
Author(s):  
S. M. Minhaz Ud-Dean ◽  
Mahdi Muhammad Moosa
Keyword(s):  
Protein Structure ◽  
Dihedral Angle ◽  
Protein Structure Prediction ◽  
Structure Prediction ◽  
Protein Structures ◽  
Angle Distribution ◽  
Ramachandran Plot ◽  
Specific Data ◽  
Specific Distribution ◽  
Structure Evaluation

Protein structure prediction and evaluation is one of the major fields of computational biology. Estimation of dihedral angle can provide information about the acceptability of both theoretically predicted and experimentally determined structures. Here we report on the sequence specific dihedral angle distribution of high resolution protein structures available in PDB and have developed Sasichandran, a tool for sequence specific dihedral angle prediction and structure evaluation. This tool will allow evaluation of a protein structure in pdb format from the sequence specific distribution of Ramachandran angles. Additionally, it will allow retrieval of the most probable Ramachandran angles for a given sequence along with the sequence specific data. Key words: Torsion angle, φ-ψ distribution, sequence specific ramachandran plot, Ramasekharan, protein structure appraisal D.O.I. 10.3329/ptcb.v19i2.5439 Plant Tissue Cult. & Biotech. 19(2): 217-226, 2009 (December)

PENINGKATAN KEMAMPUAN GURU BAHASA INDONESIA DALAM MENYUSUN RENCANA PROGRAM PEMBELAJARAN (RPP) SDN 015 PAGARAN TAPAH DARUSSALAM MELALUI METODE PEMBERIAN TUGAS

2017 ◽  
Vol 5 (3) ◽  
pp. 713
Author(s):  
Mukhlis '
Keyword(s):  
Aspect Ratio ◽  
Duty Cycle ◽  
Lesson Plans ◽  
Learning Program ◽  
School Subjects ◽  
Bahasa Indonesia

Based on the observation of some teachers found the symptoms as follows: the lack of abilityof Indonesian teachers in designing learning program (RPP), the learning device is only usedas a supplement and not to the needs of teaching, most teachers again if asked the lessonanswered not have or has not been made. The purpose of this research is to improve theability of Indonesian teachers in designing learning program (RPP) at SDN 015 PagaranTapah Darussalam through the method of administration tasks. This type of research is actionresearch school. Subjects in this study were teachers Indonesian as many as 12 people. Basedon the analysis and discussion can be concluded that the method of administration tasks canimprove the ability of Indonesian teachers in making learning device in SDN 015 PagaranTapah Darussalam through the method of administration tasks. Under these conditions, thelevel of acceptance of teachers increased. The aspect ratio capability Indonesian teachers inpreparing lesson plans through the provision of duty cycle I and II of the increase from 56%and the second cycle to 79%.

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