4.8 Article

Crystal Structure and Functional Insights of Hemopexin Fold Protein from Grass Pea

Journal

PLANT PHYSIOLOGY
Volume 152, Issue 4, Pages 1842-1850

Publisher

AMER SOC PLANT BIOLOGISTS
DOI: 10.1104/pp.109.150680

Keywords

-

Categories

Funding

  1. Department of Biotechnology
  2. Department of Science and Technology of the Government of India
  3. Council of Scientific and Industrial Research

Ask authors/readers for more resources

A regulatory protein from grass pea (Lathyrus sativus), LS-24, a close homolog of albumin 2 from garden pea (Pisum sativum) that is associated with polyamine biosynthesis, was characterized and the structure of a hemopexin-type fold among plant proteins illustrated. Crystal structure of LS-24 determined at 2.2 angstrom resolution by multiple isomorphous replacement phasing showed four-bladed beta-propeller structure having a pseudo 4-fold molecular symmetry along a metal ion-binding central channel. The structure represents typical mammalian hemopexin fold with discernible features correlated with the possible functional variations. The protein was found to exist in the dimeric state. While LS-24 dimer binds to spermine in the crystal structure as well as in solution, binding of heme in solution resulted in the dissociation of the dimer into monomers with concomitant release of bound spermine. Interactions of heme and spermine with LS-24 bear physiological implications. While binding of spermine to LS-24 can be linked with polyamine biosynthesis that of heme correlates with oxidative stress. Mutually exclusive binding of heme and spermine in different oligomeric states suggest a role for LS-24 in sensing oxidative stress through a ligand-regulated monomer-dimer transition switch.

Authors

I am an author on this paper
Click your name to claim this paper and add it to your profile.

Reviews

Primary Rating

4.8
Not enough ratings

Secondary Ratings

Novelty
-
Significance
-
Scientific rigor
-
Rate this paper

Recommended

Article Biochemistry & Molecular Biology

Exploring naphthyl derivatives as SARS-CoV papain-like protease (PLpro) inhibitors and its implications in COVID-19 drug discovery

Sk. Abdul Amin, Kalyan Ghosh, Samayaditya Singh, Insaf Ahmed Qureshi, Tarun Jha, Shovanlal Gayen

Summary: The COVID-19 pandemic poses a global threat to public health, with the novel coronavirus possibly never completely disappearing. Studying enzymes vital for viral replication can accelerate the design of broad-spectrum PLpro inhibitors against infectious SARS-CoV and SARS-CoV-2 in the future.

MOLECULAR DIVERSITY (2022)

Article Chemistry, Multidisciplinary

Biophysical and Structural Characterization of Ribulose-5-phosphate Epimerase from Leishmania donovani

Bandigi Narsimulu, Rahila Qureshi, Pranay Jakkula, Sayanna Are, Insaf Ahmed Qureshi

Summary: The study focuses on cloning, purification, and characterization of Ribulose-5-phosphate epimerase (RPE) of Leishmania donovani, revealing unique structural features of the enzyme. Biophysical and structural approaches showed the dimeric state of the enzyme and variations in alpha helical content under different conditions, while molecular docking and dynamics simulations provided insights into substrate and ligand binding. The research suggests that understanding the structure of leishmanial RPE may lead to the development of effective antileishmanial drugs.

ACS OMEGA (2022)

Review Biochemistry & Molecular Biology

Pyridoxal Kinase of Disease-causing Human Parasites: Structural and Functional Insights to Understand its Role in Drug Discovery

Mayank Saini, Sayanna Are, Insaf Ahmed Qureshi

Summary: Human parasites cause deadly diseases, but there is no effective vaccine. Vitamin B6 plays a crucial role in parasites and the enzyme PdxK can be a potential target for drug discovery.

CURRENT PROTEIN & PEPTIDE SCIENCE (2022)

Article Virology

Mapping of SARS-CoV-2 spike protein evolution during first and second waves of COVID-19 infections in India

Vijay Rani Rajpal, Shashi Sharma, Avinash Kumar, Samantha Vaishnavi, Apekshita Singh, Deepmala Sehgal, Mughdha Tiwari, Shailendra Goel, Soom Nath Raina

Summary: This study investigated the evolution of the SARS-CoV-2 spike protein during the first and second wave of COVID-19 infections in India. Mutation analysis revealed 242 mutations, including 51 novel mutations with higher transmissibility and immune evasion functions.

FUTURE VIROLOGY (2022)

Review Agronomy

Overview of developed core and mini core collections and their effective utilization in cultivated rice and its related species (Oryza sp.)-A review

Dhananjay Raturi, Manju Chaudhary, Vishnu Bhat, Shailendra Goel, Soom Nath Raina, Vijay Rani Rajpal, Apekshita Singh

Summary: The genus Oryza consists of cultivated and wild species, with cultivated rice being a staple food and a model crop for genomic studies. To enhance the characterization and utilization of rice germplasm, core collections and mini core collections have been developed, providing maximum diversity and wider genetic coverage in manageable numbers.

PLANT BREEDING (2022)

Article Agronomy

Evaluation of genetic diversity and population structure in elite south Indian tea [Camellia sinensis (L.) Kuntze] using RAPD and ISSR markers

Suman Sharma, Avinash Kumar, Vijay Rani Rajpal, Apekshita Singh, Sadhana Babbar, Soom Nath Raina

Summary: In this study, the genetic diversity of 42 tea clones was analyzed using RAPD and ISSR markers. The results showed that tea has a narrow genetic base and high genetic variation. Population structure analysis revealed diverse genetic ancestry of the tea clones. Some superior clones were found to be genetically distinct and could be utilized in future tea breeding programs.

GENETIC RESOURCES AND CROP EVOLUTION (2023)

Review Virology

A comprehensive account of SARS-CoV-2 genome structure, incurred mutations, lineages and COVID-19 vaccination program

Vijay Rani Rajpal, Shashi Sharma, Deepmala Sehgal, Apekshita Singh, Avinash Kumar, Samantha Vaishnavi, Mugdha Tiwari, Hemal Bhalla, Shailendra Goel, Soom Nath Raina

Summary: This review provides a comprehensive overview of COVID-19 onset, SARS-CoV-2 genome architecture, emergence of novel viral lineages, and the development of vaccines. The continuously evolving SARS-CoV-2 has acquired a larger number of mutations, leading to increased transmission, pathogenesis, and immune escape potential. These mutations have also resulted in reduced efficacy of vaccines and antibodies currently in use. Therefore, there is a need for developing next-generation vaccines and therapeutics targeting more conservative genomic regions for adequate protection.

FUTURE VIROLOGY (2022)

Article Biochemistry & Molecular Biology

Comparative analysis of the efficiency of seed protein profiles in assessing genetic variation and population structure among indigenous Manipur black rice cultivars

Manisha Sharma, Manju Chaudhary, Soom Nath Raina, Dinabandhu Sahoo, Neel Sarovar Bhavesh, Rakesh Kr Thakur, Vijay Rani Rajpal, Dhananjay Raturi, Apekshita Singh

Summary: This research analyzed the genetic diversity and population structure of black rice cultivars in Manipur, North East India, which has distinct geographical and agroclimatic variations. The results showed that the black rice cultivars in Manipur formed two main groups, with the hill black rice cultivars being more diverse. The population structure analysis revealed seven subpopulations, indicating high genetic variability. Some diverse black rice cultivars, such as Amubi, Chedo Anal, and Chipi Buh, were identified and can be used in future black rice breeding programs to prevent genetic erosion and protect intellectual property rights.

MOLECULAR BIOLOGY REPORTS (2023)

Article Biochemistry & Molecular Biology

Exploration of seryl tRNA synthetase to identify potent inhibitors against leishmanial parasites

Bandigi Narsimulu, Rahila Qureshi, Pranay Jakkula, Priti Singh, Mohammed Arifuddin, Insaf Ahmed Qureshi

Summary: In this study, the authors purified and characterized seryl tRNA synthetase (LdSerRS) and its mutants in Leishmania donovani. The purified LdSerRS showed high enzymatic activity and a higher content of alpha helices in secondary structure. A mutation in the ATP binding residues resulted in a reduced affinity for cofactor without significant alteration in secondary structure. The researchers identified Comp 5l as a specific inhibitor for leishmanial SerRS, which showed low potency towards purified HsSerRS. Structural analysis revealed the binding of Comp 5l into the cofactor binding site of LdSerRS with high affinity. The study provides a promising approach for developing specific therapeutics targeting leishmanial SerRS.

INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES (2023)

Review Plant Sciences

The Prospects of gene introgression from crop wild relatives into cultivated lentil for climate change mitigation

Vijay Rani Rajpal, Apekshita Singh, Renu Kathpalia, Rakesh Kr. Thakur, Mohd. Kamran Khan, Anamika Pandey, Mehmet Hamurcu, Soom Nath Raina

Summary: Crop wild relatives (CWRs), landraces, and exotic germplasm are important sources of genetic variability and useful crop traits. In the pulse crop genus Lens, cultivated varieties have a narrow genetic base, while collecting and characterizing wild Lens germplasm resources have offered new avenues for genetic improvement and development of stress-tolerant lentil varieties. Advances in genetic diversity studies, genome mapping, and high-throughput sequencing technologies have identified stress-responsive adaptive genes and quantitative trait loci (QTLs) in CWRs.

FRONTIERS IN PLANT SCIENCE (2023)

Review Chemistry, Multidisciplinary

Aminoacyl tRNA Synthetases: Implications of Structural Biology in Drug Development against Trypanosomatid Parasites

Fouzia Nasim, Insaf Ahmed Qureshi

Summary: The ensemble of aminoacyl tRNA synthetases is a crucial component of the protein translation machinery and is considered an important target for the development of antimicrobial drugs. Studies on tRNA synthetase-ligand complexes have provided a detailed understanding of these enzymes, which play a critical role in decoding the genetic code. In addition to their role in antimicrobial drug development, aminoacyl tRNA synthetases have also been validated as important for the survivability of trypanosomatids, leading to the search for inhibitors that specifically target these enzymes.

ACS OMEGA (2023)

Article Biochemistry & Molecular Biology

Identification of structural fingerprints among natural inhibitors of HDAC1 to accelerate nature-inspired drug discovery in cancer epigenetics

Sourav Sardar, Jyotisha, Sk. Abdul Amin, Samima Khatun, Insaf Ahmed Qureshi, Umesh Kumar Patil, Tarun Jha, Shovanlal Gayen

Summary: HDAC1 is an important target for cancer epigenetics and different molecular modeling techniques have been used to study its interactions with natural inhibitors. By analyzing the molecular structures of these inhibitors, certain amino acid residues have been identified as potential binding sites. The stability of the HDAC1-natural inhibitors complexes has also been evaluated.

JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2023)

Article Biochemistry & Molecular Biology

Inhibition and structural insights of leishmanial glutamyl-tRNA synthetase for designing potent therapeutics

Bandigi Narsimulu, Pranay Jakkula, Rahila Qureshi, Fouzia Nasim, Insaf Ahmed Qureshi

Summary: This study explores the functional and structural aspects of Leishmania donovani glutamyl-tRNA synthetase (LdGluRS), an essential component in protein synthesis and a potential therapeutic target against parasitic diseases. The study demonstrates the competitive inhibition of LdGluRS by salicylate, which has negligible effect on human macrophages. The role of histidine as a catalytic residue is also highlighted. The findings provide insights into the molecular inhibition and structural features of glutamyl-tRNA synthetase from kinetoplastid parasites.

INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES (2024)

Article Immunology

Development of a multi-epitope vaccine candidate for leishmanial parasites applying immunoinformatics and in vitro approaches

Jyotisha, Rahila Qureshi, Insaf Ahmed Qureshi

Summary: This study aims to design and evaluate a multi-epitope vaccine against Leishmaniasis. The designed vaccine was highly antigenic, non-allergenic, and non-toxic, with suitable physicochemical properties. Molecular docking and simulation studies confirmed the high binding affinity and stable interactions between human toll-like receptors and the vaccine. In addition, the vaccine was codon optimized, cloned, and expressed in a bacterial host, showing promising potential as a vaccine candidate against Leishmania parasites.

FRONTIERS IN IMMUNOLOGY (2023)

Article Biochemistry & Molecular Biology

Multi-epitope vaccine against SARS-CoV-2 applying immunoinformatics and molecular dynamics simulation approaches

Jyotisha, Samayaditya Singh, Insaf Ahmed Qureshi

Summary: COVID-19, caused by SARS-CoV-2, has resulted in significant global deaths, emphasizing the urgent need for vaccine development. The use of immunoinformatics to design a multi-epitope vaccine may provide specific immune responses against SARS-CoV-2.

JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2022)

No Data Available