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  1. Article ; Online: NMR Relaxation Experiments Probe Monomer-Fibril Interaction and Identify Critical Interacting Residues Responsible for Distinct Tau Fibril Morphologies.

    Oliyantakath Hassan, Muhammed Shafeek / Abdul Vahid, Arshad / Sahayaraj, Allwin Ebenezer / Viswanathan, Renjith / Vijayan, Vinesh

    The journal of physical chemistry letters

    2023  Volume 14, Issue 29, Page(s) 6583–6591

    Abstract: Tau aggregation is governed by secondary processes, a major pathological pathway for tau protein fibril propagation, yet its molecular mechanism remains unknown. This work uses saturation transfer and lifetime line-broadening experiments to identify the ... ...

    Abstract Tau aggregation is governed by secondary processes, a major pathological pathway for tau protein fibril propagation, yet its molecular mechanism remains unknown. This work uses saturation transfer and lifetime line-broadening experiments to identify the critical residues involved in these secondary processes. Distinct residue-specific NMR relaxation parameters were obtained for the truncated three repeat tau construct (K19) in equilibrium with structurally different, self-aggregated (saK19) or heparin-induced (hK19) fibrils. The interacting residues are restricted to R3 repeat for hK19 and to R3, R4, and R' repeats for saK19 fibrils. Furthermore, the relaxation profiles of tau monomers in equilibrium with the structurally comparable, in vitro pathological fibrils (tauAD and tauCTE) were similar but distinct from hK19 or saK19 fibrils. Thus, residue-specific relaxation identifies the important residues involved in the binding of monomers to the fibrils. The relaxation profile of the monomers in equilibrium with the NMR invisible fibril seeds potentially distinguishes the distinct structures of tau fibrils.
    MeSH term(s) tau Proteins/chemistry ; Amino Acid Sequence ; Magnetic Resonance Spectroscopy ; Magnetic Resonance Imaging ; Amyloid/chemistry
    Chemical Substances tau Proteins ; Amyloid
    Language English
    Publishing date 2023-07-17
    Publishing country United States
    Document type Journal Article
    ISSN 1948-7185
    ISSN (online) 1948-7185
    DOI 10.1021/acs.jpclett.3c00912
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Identification of novel genes by targeted exome sequencing in Retinoblastoma.

    Bisht, Shilpa / Chawla, Bhavna / Kumar, Amit / Vijayan, Viswanathan / Kumar, Manoj / Sharma, Pradeep / Dada, Rima

    Ophthalmic genetics

    2022  Volume 43, Issue 6, Page(s) 771–788

    Abstract: Background: Retinoblastoma (RB) is initiated by mutation in both alleles of : Methodology: The current study was planned to utilize targeted exome sequencing in Indian RB patients affected with unilateral non-familial RB. 75 unilateral RB patients ... ...

    Abstract Background: Retinoblastoma (RB) is initiated by mutation in both alleles of
    Methodology: The current study was planned to utilize targeted exome sequencing in Indian RB patients affected with unilateral non-familial RB. 75 unilateral RB patients below 5 years of age were enrolled. Genomic DNA was extracted from blood and tumor tissue. From peripheral blood DNA, all coding and exon/intron regions were amplified using PCR and direct sequencing. Cases which did not harbor pathogenic variants in peripheral blood DNA were further screened for mutations in their tumor tissue DNA using targeted exome sequencing. Three pathogenicity prediction tools (Mutation Taster, SIFT, and PolyPhen-2) were used to determine the pathogenicity of non-synonymous variations. An in-house bioinformatics pipeline was devised for the mutation screening by targeted exome sequencing. Protein modeling studies were also done to predict the effect of the mutations on the protein structure and function.
    Results: Using the mentioned approach, we found two novel variants (g.69673_69674insT and g.48373314C>A) in
    Conclusion: The present study expands our current knowledge regarding the genomic landscape of RB and also highlights the importance of NGS technologies to detect genes and novel variants that may play an important role in cancer initiation, progression, and prognosis.
    MeSH term(s) Humans ; Retinoblastoma/pathology ; Exome Sequencing ; Mutation ; Genes, Retinoblastoma/genetics ; DNA Mutational Analysis ; Retinal Neoplasms/pathology ; Proteins/genetics ; ADP-Ribosylation Factors/genetics ; Tumor Suppressor Proteins/genetics ; SOX Transcription Factors/genetics
    Chemical Substances OTOR protein, human ; Proteins ; ARL11 protein, human (EC 3.6.5.2) ; ADP-Ribosylation Factors (EC 3.6.5.2) ; SOX30 protein, human ; Tumor Suppressor Proteins ; SOX Transcription Factors
    Language English
    Publishing date 2022-08-05
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1199279-7
    ISSN 1744-5094 ; 0167-6784 ; 1381-6810
    ISSN (online) 1744-5094
    ISSN 0167-6784 ; 1381-6810
    DOI 10.1080/13816810.2022.2106497
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  3. Article ; Online: Targeting acid ceramidase enhances antitumor immune response in colorectal cancer.

    Vijayan, Yadu / James, Shirley / Viswanathan, Arun / Aparna, Jayasekharan S / Bindu, Anu / Namitha, Narayanan N / Anantharaman, Devasena / Babu Lankadasari, Manendra / Harikumar, Kuzhuvelil B

    Journal of advanced research

    2023  

    Abstract: Introduction: Acid ceramidase (hereafter referred as ASAH1) is an enzyme in sphingolipid metabolism that converts pro-survival ceramide into sphingosine. ASAH1 has been shown to be overexpressed in certain cancers. However, the role of ASAH1 in ... ...

    Abstract Introduction: Acid ceramidase (hereafter referred as ASAH1) is an enzyme in sphingolipid metabolism that converts pro-survival ceramide into sphingosine. ASAH1 has been shown to be overexpressed in certain cancers. However, the role of ASAH1 in colorectal cancer still remain elusive.
    Objective: The present study is aimed to understand how ASAH1 regulates colorectal cancer (CRC) progression and resistance to checkpoint inhibitor therapy.
    Methods: Both pharmacological and genetic silencing of ASAH1 was used in the study. In vitro experiments were done on human and mouse CRC cell lines. The in vivo studies were conducted in NOD-SCID and BALB/c mice models. The combination of ASAH1 inhibitor and checkpoint inhibitor was tested using a syngeneic tumor model of CRC. Transcriptomic and metabolomic analyses were done to understand the effect of ASAH1 silencing.
    Results: ASAH1 is overexpressed in human CRC cases, and silencing the expression resulted in the induction of immunological cell death (ICD) and mitochondrial stress. The ASAH1 inhibitor (LCL-521), either as monotherapy or in combination with an anti-PD-1 antibody, resulted in reduction of tumors and, through induction of type I and II interferon response, activation of M1 macrophages and T cells, leading to enhanced infiltration of cytotoxic T cells. Our findings supported that the combination of LCL-521 and ICIs, which enhances the antitumor responses, and ASAH1 can be a druggable target in CRC.
    Language English
    Publishing date 2023-12-21
    Publishing country Egypt
    Document type Journal Article
    ZDB-ID 2541849-X
    ISSN 2090-1224 ; 2090-1224
    ISSN (online) 2090-1224
    ISSN 2090-1224
    DOI 10.1016/j.jare.2023.12.013
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  4. Article: Ligand recognition by peptidoglycan recognition protein-S (PGRP-S): structure of the complex of camel PGRP-S with heptanoic acid at 2.15 Å resolution.

    Maurya, Ankit / Ahmad, Nabeel / Singh, Prashant K / Viswanathan, Vijayan / Kaur, Punit / Sharma, Pradeep / Sharma, Sujata / Singh, Tej P

    International journal of biochemistry and molecular biology

    2022  Volume 13, Issue 4, Page(s) 28–39

    Abstract: Peptidoglycan recognition proteins (PGRPs) are important components of the innate immune system which provide the first line of defense against invading microbes. There are four members in the family of PGRPs in animals of which PGRP-S is a common domain. ...

    Abstract Peptidoglycan recognition proteins (PGRPs) are important components of the innate immune system which provide the first line of defense against invading microbes. There are four members in the family of PGRPs in animals of which PGRP-S is a common domain. It is responsible for the binding to microbial cell wall molecules. In order to understand the mode of binding of PGRP-S to the components of the bacterial cell wall, the structure of the complex of camel PGRP-S (CPGRP-S) with heptanoic acid has been determined at 2.15 Å resolution. The structure determination showed the presence of four crystallographically independent protein molecules which are designated as A, B, C, and D. These four protein molecules associate in the form of two homodimers which are represented as A-B and C-D dimers. The association between molecules A and B gives rise to a shallow cleft on the surface at one end of the dimeric interface. One molecule of heptanoic acid is observed at this binding site in the A-B dimer. The association of C and D molecules results in the formation of a long zig-zag tunnel along with the C-D interface. In the cleft at the C-D interface, three molecules of hydrogen peroxide along with other non-water solvent molecules have been observed. The analysis of the several complexes of CPGRP-S with fatty acids and non-fatty acids such as peptidoglycan, lipopolysaccharide, and lipoteichoic acid shows that the fatty acids bind at the A-B site while non-fatty acids interact through C-D interface.
    Language English
    Publishing date 2022-08-20
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2588039-1
    ISSN 2152-4114
    ISSN 2152-4114
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  5. Article: Crystal structures of (

    Viswanathan, Vijayan / Ananth, Mani Karthik / Narasimhan, S / Velmurugan, Devadasan

    Acta crystallographica. Section E, Crystallographic communications

    2017  Volume 73, Issue Pt 1, Page(s) 20–23

    Abstract: In the title compounds, ... ...

    Abstract In the title compounds, C
    Language English
    Publishing date 2017-01-01
    Publishing country England
    Document type Journal Article
    ZDB-ID 2041947-8
    ISSN 2056-9890 ; 1600-5368
    ISSN 2056-9890 ; 1600-5368
    DOI 10.1107/S2056989016018983
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  6. Article: Crystal structures and Hirshfeld surface analyses of 4,4'-{[1,3-phenyl-enebis(methyl-ene)]bis-(-oxy)}bis-(3-meth-oxy-benzaldehyde) and 4,4'-{[(1,4-phenyl-ene-bis(methyl-ene)]bis-(-oxy)}bis-(3-meth-oxy-benzalde-hyde).

    Iqbal, Saleem / Viswanathan, Vijayan / Velmurugan, Devadasan / Abiraman, Tamilselvan / Balasubramanian, Sengottuvelan / Gunasekaran, Krishnasamy

    Acta crystallographica. Section E, Crystallographic communications

    2019  Volume 75, Issue Pt 6, Page(s) 875–879

    Abstract: The title compounds, ... ...

    Abstract The title compounds, C
    Language English
    Publishing date 2019-05-24
    Publishing country England
    Document type Journal Article
    ZDB-ID 2041947-8
    ISSN 2056-9890 ; 1600-5368
    ISSN 2056-9890 ; 1600-5368
    DOI 10.1107/S2056989019006662
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  7. Article ; Online: Structure prediction and discovery of inhibitors against phosphopantothenoyl cysteine synthetase of

    Gupta, Akshita / Vijayan, Viswanathan / Pant, Pradeep / Kaur, Punit / Singh, Tej P / Sharma, Pradeep / Sharma, Sujata

    Journal of biomolecular structure & dynamics

    2021  Volume 40, Issue 21, Page(s) 11405–11417

    Abstract: Acinetobacter ... ...

    Abstract Acinetobacter baumannii
    MeSH term(s) Acinetobacter baumannii/drug effects ; Catalytic Domain ; Coenzyme A/metabolism ; Ligands ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Peptide Synthases/antagonists & inhibitors
    Chemical Substances Coenzyme A (SAA04E81UX) ; Ligands ; phosphopantothenoyl-cysteine synthetase (EC 6.3.2.5) ; Peptide Synthases (EC 6.3.2.-)
    Language English
    Publishing date 2021-08-04
    Publishing country England
    Document type Journal Article
    ZDB-ID 49157-3
    ISSN 1538-0254 ; 0739-1102
    ISSN (online) 1538-0254
    ISSN 0739-1102
    DOI 10.1080/07391102.2021.1958699
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  8. Article: Lactosmart: A Novel Therapeutic Molecule for Antimicrobial Defense.

    Singh, Jiya / Vijayan, Viswanathan / Ahmedi, Saiema / Pant, Pradeep / Manzoor, Nikhat / Singh, Tej P / Sharma, Pradeep / Sharma, Sujata

    Frontiers in microbiology

    2021  Volume 12, Page(s) 672589

    Abstract: The problem of antibiotic resistance has prompted researchers around the globe to search for new antimicrobial agents. Antimicrobial proteins and peptides are naturally secreted by almost all the living organisms to fight infections and can be safer ... ...

    Abstract The problem of antibiotic resistance has prompted researchers around the globe to search for new antimicrobial agents. Antimicrobial proteins and peptides are naturally secreted by almost all the living organisms to fight infections and can be safer alternatives to chemical antibiotics. Lactoferrin (LF) is a known antimicrobial protein present in all body secretions. In this study, LF was digested by trypsin, and the resulting hydrolysates were studied with respect to their antimicrobial properties. Among the hydrolysates, a 21-kDa basic fragment of LF (termed lactosmart) showed promise as a new potent antimicrobial agent. The antimicrobial studies were performed on various microorganisms including
    Language English
    Publishing date 2021-06-18
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2587354-4
    ISSN 1664-302X
    ISSN 1664-302X
    DOI 10.3389/fmicb.2021.672589
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  9. Article: Crystal structures of

    Subasri, S / Kumar, Timiri Ajay / Sinha, Barij Nayan / Jayaprakash, Venkatesan / Viswanathan, Vijayan / Velmurugan, Devadasan

    Acta crystallographica. Section E, Crystallographic communications

    2017  Volume 73, Issue Pt 4, Page(s) 467–471

    Abstract: The title compounds, ... ...

    Abstract The title compounds, C
    Language English
    Publishing date 2017-03-03
    Publishing country England
    Document type Journal Article
    ZDB-ID 2041947-8
    ISSN 2056-9890 ; 1600-5368
    ISSN 2056-9890 ; 1600-5368
    DOI 10.1107/S2056989017003243
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  10. Article: Crystal structures and Hirshfeld surface analyses of 2-[(4,6-di-amino-pyrimidin-2-yl)sulfan-yl]-

    Choudhury, Manisha / Viswanathan, Vijayan / Timiri, Ajay Kumar / Sinha, Barij Nayan / Jayaprakash, Venkatesan / Velmurugan, Devadasan

    Acta crystallographica. Section E, Crystallographic communications

    2018  Volume 74, Issue Pt 5, Page(s) 718–723

    Abstract: In the title compounds, ... ...

    Abstract In the title compounds, C
    Language English
    Publishing date 2018-04-27
    Publishing country England
    Document type Journal Article
    ZDB-ID 2041947-8
    ISSN 2056-9890 ; 1600-5368
    ISSN 2056-9890 ; 1600-5368
    DOI 10.1107/S2056989018005704
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