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

In Silico ◽

Functional Annotation ◽

Tertiary Structure ◽

Human Pathogen ◽

Ramachandran Plot ◽

Uncharacterized Protein ◽

Trehalose Synthase ◽

Z Scores ◽

The human pathogen Mycobacterium tuberculosis ( 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 in silico 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.

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

Proceedings ◽

10.3390/proceedings2020066013 ◽

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):

In Silico ◽

Functional Annotation ◽

Tertiary Structure ◽

Human Pathogen ◽

Ramachandran Plot ◽

Uncharacterized Protein ◽

Trehalose Synthase ◽

Z Scores ◽

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.

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

10.26434/chemrxiv.12881873 ◽

2020 ◽

Author(s):

Abu Saim Mohammad Saikat

Keyword(s):

In Silico ◽

Functional Annotation ◽

Tertiary Structure ◽

Human Pathogen ◽

Ramachandran Plot ◽

Uncharacterized Protein ◽

Trehalose Synthase ◽

Z Scores ◽

The human pathogen Mycobacterium tuberculosis ( 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 in silico 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.

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

10.3390/ecm2020-07124 ◽

2020 ◽

Author(s):

Rabiul Islam ◽

Abu Saim Mohammad Saikat ◽

Shahriar Mahmud ◽

Md. Abu Sayeed Imran ◽

Mohammad Shah Alam ◽

...

Keyword(s):

In Silico ◽

Functional Annotation ◽

Uncharacterized Protein

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

10.1101/2020.05.23.112680 ◽

2020 ◽

Author(s):

Abu Saim Mohammad Saikat

Keyword(s):

Functional Annotation ◽

Mycobacterial Infection ◽

Structural Quality ◽

Atp Binding ◽

Model Quality ◽

Uncharacterized Protein ◽

Z Scores ◽

Atp Binding Protein ◽

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.

In-Silico Structural prediction and functional annotation of uncharacterized protein Q7TLC7 (Y14_SARS) presence in SARS-COV2

10.33774/chemrxiv-2021-phwsx ◽

2021 ◽

Author(s):

MD. Ashiqur Rahman ◽

Rumana Akter Rumi

Keyword(s):

In Silico ◽

Functional Annotation ◽

Uncharacterized Protein ◽

Structural Prediction

Isolation and comparative genomics of Mycobacterium tuberculosis isolates from cattle and their attendants in South India

Scientific Reports ◽

10.1038/s41598-019-54268-x ◽

2019 ◽

Vol 9 (1) ◽

Cited By ~ 2

Author(s):

Kannan Palaniyandi ◽

Narender Kumar ◽

Maroudam Veerasamy ◽

Ahmed Kabir Refaya ◽

Chandrakumar Dolla ◽

...

Keyword(s):

South India ◽

Mycobacterial Infection ◽

Intradermal Test ◽

Human Pathogen ◽

Nucleotide Polymorphism ◽

Cross Sectional ◽

Single Nucleotide ◽

Genome Comparisons ◽

Culture Positive

AbstractThe major human pathogen Mycobacterium tuberculosis is rarely reported to cause disease in other animals. Cases in livestock are thought to occur through contact with infected handlers, but previous studies evaluating putative livestock-human transmission used typing techniques with limited resolution. Here, we undertook cross-sectional surveillance for tuberculosis in 271 livestock handlers and 167 cattle on three farms in Chennai, India and defined the relatedness of cultured isolates using whole genome sequencing. Humans and livestock were screened for active mycobacterial infection, and opportunistic post-mortem examination was performed on comparative intradermal test-positive cattle that died. Four cattle and 6 handlers on two farms were culture-positive for M. tuberculosis; M. bovis was not isolated. All 10 isolates (one from each case) belonged to Lineage 1. Pairwise genome comparisons of single nucleotide polymorphism (SNP) differences ranged from 1 to 600 SNPs, but 3 isolate pairs were less than 5 SNPs different. Two pairs were from handlers and the third pair were from two cattle on the same farm. The minimum pairwise SNP difference between a cattle and human isolate was >250 SNPs. Our study confirms the presence of M. tuberculosis infection in cattle in India, sequencing of which characterised relatedness between human and cattle-derived isolates.