scholarly journals Characterization and Functional Annotation of Uncharacterized ABC Transporter ATP-Binding Protein Rv0986 of Mycobacterium tuberculosis (Strain ATCC 25618 / H37Rv)

2020 ◽  
Author(s):  
Abu Saim Mohammad Saikat
Keyword(s):  
Mycobacterium Tuberculosis ◽  
Functional Annotation ◽  
Mycobacterial Infection ◽  
Structural Quality ◽  
Atp Binding ◽  
Model Quality ◽  
Uncharacterized Protein ◽  
Z Scores ◽  
Atp Binding Protein ◽  
Human Death

AbstractThe most significant ancient infectious disease tuberculosis is causes by a human pathogen, Mycobacterium tuberculosis (MTB). Amazingly, tuberculosis (TB) has become one of the major causes of human death worldwide. The protein Rv0986 is associated with the ATP-binding cassette domain of the transporters involved in the export of lipoprotein and macrolide, and cell division protein, therefore, related to mycobacterial infection. But the protein Rv0986 is not yet explored. As a result, identification, characterization, and functional annotation of uncharacterized protein Rv0986 were predicted where the structure modeling was generated by using Modeller, Phyre2, and Swiss Model with the structural quality assessment by Ramachandran Plot (PROCHECK), Verify 3d, and Swiss-Model Interactive Workplace as well. Z-scores obtained from Prosa-web were also applied for overall 3D model quality. This in-silico method will uncover the significance of undiscovered uncharacterized protein Rv0986 present in MTB, and indeed it can accelerate the way to enrich our knowledge in the pathogenesis and drug-targeting opportunity against infection by MTB.

scholarly journals Structural and Functional Annotation of Uncharacterized Protein NCGM946K2_146 of Mycobacterium tuberculosis: An In-Silico Approach

2020 ◽  
Author(s):  
Abu Saim Mohammad Saikat
Keyword(s):  
Mycobacterium Tuberculosis ◽  
In Silico ◽  
Functional Annotation ◽  
Tertiary Structure ◽  
Human Pathogen ◽  
Ramachandran Plot ◽  
Uncharacterized Protein ◽  
Trehalose Synthase ◽  
Z Scores ◽  
Human Death

The human pathogen <i>Mycobacterium tuberculosis</i> ( MTB) is indeed one of the renowned important longtime infectious diseases that cause tuberculosis (TB). Interestingly, MTB infection has become one of the world's leading causes of human death. In trehalose synthase, the protein NCGM 946K2 146 found in MTB has an important role. For carbohydrate transport and metabolism, trehalose synthase is required. The protein is not clarified yet, however. In this research, an <i>in silico</i> approach was therefore formulated for functional and structural documentation of the uncharacterized protein NCGM946K2 146. Three different servers, including the Modeller, the Phyre2, and the Swiss Model, were used to evaluate the predicted tertiary structure. The top materials are selected using structural evaluations conducted with the analysis of Ramachandran Plot, Swiss-Model Interactive Workplace, Prosa-web, Verify 3D, and Z scores. This analysis aimed to uncover the value of the NCGM946K2 146 protein of MTB. This research will, therefore, improve our pathogenesis awareness and give us a chance to target the protein compound.

scholarly journals Structural and Functional Annotation of Uncharacterized Protein NCGM946K2_146 of Mycobacterium Tuberculosis: An In-Silico Approach

Proceedings ◽  
2020 ◽  
Vol 66 (1) ◽  
pp. 13
Author(s):  
Abu Saim Mohammad Saikat ◽  
Rabiul Islam ◽  
Shahriar Mahmud ◽  
Md. Abu Sayeed Imran ◽  
Mohammad Shah Alam ◽  
...  
Keyword(s):  
Mycobacterium Tuberculosis ◽  
In Silico ◽  
Functional Annotation ◽  
Tertiary Structure ◽  
Human Pathogen ◽  
Ramachandran Plot ◽  
Uncharacterized Protein ◽  
Trehalose Synthase ◽  
Z Scores ◽  
Human Death

The human pathogen Mycobacterium tuberculosis (MTB) is indeed one of the renowned, important, longtime infectious diseases, tuberculosis (TB). Interestingly, MTB infection has become one of the world’s leading causes of human death. In trehalose synthase, the protein NCGM 946K2 146 found in MTB has an important role. For carbohydrate transport and metabolism, trehalose synthase is required. The protein is not clarified yet, though. In this research, an in silico approach was, therefore, formulated for functional and structural documentation of the uncharacterized protein NCGM946K2_146.Three distinct servers, including Modeller, Phyre2, and Swiss Model, were used to evaluate the predicted tertiary structure. The top materials are selected using structural evaluations conducted with the analysis of Ramachandran Plot, Swiss-Model Interactive Workplace, ProSA-web, Verify 3D, and Z scores. This analysis aimed to uncover the value of the NCGM946K2_146 protein of MTB. This research will, therefore, improve our pathogenesis awareness and give us a chance to target the protein compound.

scholarly journals Structural and Functional Annotation of Uncharacterized Protein NCGM946K2_146 of Mycobacterium tuberculosis: An In-Silico Approach

2020 ◽  
Author(s):  
Abu Saim Mohammad Saikat
Keyword(s):  
Mycobacterium Tuberculosis ◽  
In Silico ◽  
Functional Annotation ◽  
Tertiary Structure ◽  
Human Pathogen ◽  
Ramachandran Plot ◽  
Uncharacterized Protein ◽  
Trehalose Synthase ◽  
Z Scores ◽  
Human Death

The human pathogen <i>Mycobacterium tuberculosis</i> ( MTB) is indeed one of the renowned important longtime infectious diseases that cause tuberculosis (TB). Interestingly, MTB infection has become one of the world's leading causes of human death. In trehalose synthase, the protein NCGM 946K2 146 found in MTB has an important role. For carbohydrate transport and metabolism, trehalose synthase is required. The protein is not clarified yet, however. In this research, an <i>in silico</i> approach was therefore formulated for functional and structural documentation of the uncharacterized protein NCGM946K2 146. Three different servers, including the Modeller, the Phyre2, and the Swiss Model, were used to evaluate the predicted tertiary structure. The top materials are selected using structural evaluations conducted with the analysis of Ramachandran Plot, Swiss-Model Interactive Workplace, Prosa-web, Verify 3D, and Z scores. This analysis aimed to uncover the value of the NCGM946K2 146 protein of MTB. This research will, therefore, improve our pathogenesis awareness and give us a chance to target the protein compound.

scholarly journals An In silico Approach for Structural and Functional Annotation of Uncharacterized Protein Rv0986 present in Mycobacterium tuberculosis

2020 ◽  
pp. 61-67
Keyword(s):  
Mycobacterium Tuberculosis ◽  
In Silico ◽  
Functional Annotation ◽  
Mycobacterial Infection ◽  
Z Score ◽  
Human Pathogen ◽  
Ramachandran Plot ◽  
Uncharacterized Protein ◽  
Tertiary Structures ◽  
Plot Analysis

Tuberculosis (TB) is an ancient infectious disease caused by Mycobacterium tuberculosis (MTB). MTB is a human pathogen. Surprisingly, TB has become the top disease for its death rate worldwide. The uncharacterized protein Rv0986 is closely related to the transporters of the ATP-binding cassette domain, therefore, take part in the export of macrolide as well as a lipoprotein. Furthermore, it is associated with cell division protein. Hence, the protein has a significant role in mycobacterial infection. But, so far, the uncharacterized protein Rv0986 is not elaborated. As a result, in this study, the structural and functional annotation of the protein is described through in silico approach. The predicted tertiary structures of the protein generated by Swiss Model, Modeller, and Phyre2, and documented by the Ramachandran Plot analysis with PROCHECK, Verify 3D, and Swiss-Model Interactive Workplace. Z-score also applied for the overall structural assessment. This study will unleash the importance of the uncharacterized protein present in MTB, therefore, it provides an opportunity for drug and vaccine targeting against infection by MTB.

scholarly journals Structure Prediction, Characterization, and Functional Annotation of Uncharacterized Protein BCRIVMBC126_02492 of Bacillus cereus: An In Silico Approach

2020 ◽  
pp. 104-111
Keyword(s):  
Bacillus Cereus ◽  
Structure Prediction ◽  
Functional Annotation ◽  
Protein A ◽  
Food Poisoning ◽  
Structural Quality ◽  
Functional Protein ◽  
Model Quality ◽  
Uncharacterized Protein ◽  
Comparison Of The Results

Bacillus cereus is enteropathogenic and widely distributed pathogen in the environment, which is mainly associated with food poisoning. In the intestine, B. cereus produces enterotoxins resulting in diarrhoea, abdominal distress and vomiting, and a range of infections in humans. BCRIVMBC126_02492 is a functional protein of B. cereus, which is related to oxidation glutathione persulfide in the mitochondria, cyanide fixation, and also has a variety of biological functions. Nevertheless, protein BCRIVMBC126_02492 is not explored. Therefore, the structure prediction, functional annotation, and characterization of the protein are proposed in this study. Modeller, Swiss-model, and Phyre2 are used for generating tertiary structures. The structural quality assessment of the protein determined by Ramachandran Plot analysis, Swiss-Model Interactive Workplace, and Verify 3D tools. Furthermore, Z-scores applied to detect the overall tertiary model quality of the protein. A comparison of the results showed that the models generated by Modeller were more suitable than Phyre2 and Swiss Models. This investigation decoded the role of this unexplored protein of B. cereus. Therefore, it can bolster the way for enriching our knowledge for pathogenesis and drug and vaccine targeting opportunities against B. cereus infection.

scholarly journals Structural and Functional Annotation of Uncharacterized Protein NCGM946K2_146 of Mycobacterium tuberculosis: An In-Silico Approach

2020 ◽  
Author(s):  
Rabiul Islam ◽  
Abu Saim Mohammad Saikat ◽  
Shahriar Mahmud ◽  
Md. Abu Sayeed Imran ◽  
Mohammad Shah Alam ◽  
...  
Keyword(s):  
Mycobacterium Tuberculosis ◽  
In Silico ◽  
Functional Annotation ◽  
Uncharacterized Protein

scholarly journals A Novel Tuberculosis DNA Vaccine in an HIV-1 p24 Protein Backbone Confers Protection against Mycobacterium tuberculosis and Simultaneously Elicits Robust Humoral and Cellular Responses to HIV-1

2012 ◽  
Vol 19 (5) ◽  
pp. 723-730 ◽  
Author(s):  
Xiaoman Li ◽  
Wei Xu ◽  
Sidong Xiong
Keyword(s):  
Mycobacterium Tuberculosis ◽  
T Cell ◽  
Dna Vaccine ◽  
Cellular Response ◽  
Mycobacterial Infection ◽  
T Cell Epitopes ◽  
Content Type ◽  
P24 Protein ◽  
Elevated Frequency ◽  
Hiv 1

ABSTRACTTuberculosis (TB) caused byMycobacterium tuberculosisremains a major infectious disease worldwide. Moreover, latentM. tuberculosisinfection is more likely to progress to active TB and eventually leads to death when HIV infection is involved. Thus, it is urgent to develop a novel TB vaccine with immunogenicity to bothM. tuberculosisand HIV. In this study, four uncharacterized T cell epitopes from MPT64, Ag85A, Ag85B, and TB10.4 antigens ofM. tuberculosiswere predicted, and HIV-1-derived p24, an immunodominant protein that can induce protective responses to HIV-1, was used as an immunogenic backbone.M. tuberculosisepitopes were incorporated separately into the gene backbone of p24, forming a pP24-Mtb DNA vaccine. We demonstrated that pP24-Mtb immunization induced a strongM. tuberculosis-specific cellular response as evidenced by T cell proliferation, cytotoxicity, and elevated frequency of gamma interferon (IFN-γ)-secreting T cells. Interestingly, a p24-specific cellular response and high levels of p24-specific IgG were also induced by pP24-Mtb immunization. When the protective effect was assessed after mycobacterial challenge, pP24-Mtb vaccination significantly reduced tissue bacterial loads and profoundly attenuated the mycobacterial infection-related lung inflammation and injury. Our findings demonstrated that the pP24-Mtb tuberculosis vaccine confers effective protection against mycobacterial challenge with simultaneously elicited robust immune responses to HIV-1, which may provide clues for developing novel vaccines to prevent dual infections.

scholarly journals Mycobacterium marinum infection drives foam cell differentiation in zebrafish infection

2018 ◽  
Author(s):  
Matt D. Johansen ◽  
Joshua A. Kasparian ◽  
Elinor Hortle ◽  
Warwick J. Britton ◽  
Auriol C. Purdie ◽  
...  
Keyword(s):  
Mycobacterium Tuberculosis ◽  
Lipid Metabolism ◽  
Foam Cell ◽  
Mycobacterial Infection ◽  
Foam Cells ◽  
Mycobacterium Marinum ◽  
Infection Model ◽  
Structural Components ◽  
Important Target ◽  
Zebrafish Infection

AbstractHost lipid metabolism is an important target for subversion by pathogenic mycobacteria such as Mycobacterium tuberculosis. The appearance of foam cells within the granuloma are well-characterised effects of chronic tuberculosis. The zebrafish-Mycobacterium marinum infection model recapitulates many aspects of human-M. tuberculosis infection and is used as a model to investigate the structural components of the mycobacterial granuloma. Here, we demonstrate that the zebrafish-M. marinum granuloma contains foam cells and that the transdifferentiation of macrophages into foam cells is driven by the mycobacterial ESX1 pathogenicity locus. This report demonstrates conservation of an important aspect of mycobacterial infection across species.

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