keyword
MENU ▼
Read by QxMD icon Read
search

Nudix

keyword
https://www.readbyqxmd.com/read/28498350/comparison-of-direct-sequencing-real-time-pcr-high-resolution-melt-pcr-hrm-and-pcr-restriction-fragment-length-polymorphism-pcr-rflp-analysis-for-genotyping-of-common-thiopurine-intolerant-variant-alleles-nudt15-c-415c-t-and-tpmt-c-719a-g-tpmt-3c
#1
Wai-Ying Fong, Chi-Chun Ho, Wing-Tat Poon
Thiopurine intolerance and treatment-related toxicity, such as fatal myelosuppression, is related to non-function genetic variants encoding thiopurine S-methyltransferase (TPMT) and Nudix hydrolase 15 (NUDT15). Genetic testing of the common variants NUDT15:NM_018283.2:c.415C>T (Arg139Cys, dbSNP rs116855232 T allele) and TPMT: NM_000367.4:c.719A>G (TPMT*3C, dbSNP rs1142345 G allele) in East Asians including Chinese can potentially prevent treatment-related complications. Two complementary genotyping approaches, real-time PCR-high resolution melt (PCR-HRM) and PCR-restriction fragment length morphism (PCR-RFLP) analysis were evaluated using conventional PCR and Sanger sequencing genotyping as the gold standard...
May 12, 2017: Diagnostics
https://www.readbyqxmd.com/read/28391009/the-promise-of-pharmacogenomics-in-reducing-toxicity-during-acute-lymphoblastic-leukemia-maintenance-treatment
#2
REVIEW
Shoshana Rudin, Marcus Marable, R Stephanie Huang
Pediatric acute lymphoblastic leukemia (ALL) affects a substantial number of children every year and requires a long and rigorous course of chemotherapy treatments in three stages, with the longest phase, the maintenance phase, lasting 2-3years. While the primary drugs used in the maintenance phase, 6-mercaptopurine (6-MP) and methotrexate (MTX), are necessary for decreasing risk of relapse, they also have potentially serious toxicities, including myelosuppression, which may be life-threatening, and gastrointestinal toxicity...
April 2017: Genomics, Proteomics & Bioinformatics
https://www.readbyqxmd.com/read/28375146/biochemical-and-structural-studies-of-mycobacterium-smegmatis-mutt1-a-sanitization-enzyme-with-unusual-modes-of-association
#3
S M Arif, A G Patil, U Varshney, M Vijayan
Mycobacterium smegmatis MutT1, which is made up of a Nudix domain (domain 1) and a histidine phosphatase domain (domain 2), efficiently hydrolyses 8-oxo-GTP and 8-oxo-dGTP to the corresponding nucleoside diphosphates and phosphate in the presence of magnesium ions. Domain 1 alone hydrolyses nucleoside triphosphates less efficiently. Under high concentrations and over long periods, the full-length enzyme as well as domain 1 catalyses the hydrolysis of the nucleoside triphosphates to the respective nucleoside monophosphates and pyrophosphate...
April 1, 2017: Acta Crystallographica. Section D, Structural Biology
https://www.readbyqxmd.com/read/28336669/a-conserved-nad-binding-pocket-that-regulates-protein-protein-interactions-during-aging
#4
Jun Li, Michael S Bonkowski, Sébastien Moniot, Dapeng Zhang, Basil P Hubbard, Alvin J Y Ling, Luis A Rajman, Bo Qin, Zhenkun Lou, Vera Gorbunova, L Aravind, Clemens Steegborn, David A Sinclair
DNA repair is essential for life, yet its efficiency declines with age for reasons that are unclear. Numerous proteins possess Nudix homology domains (NHDs) that have no known function. We show that NHDs are NAD(+) (oxidized form of nicotinamide adenine dinucleotide) binding domains that regulate protein-protein interactions. The binding of NAD(+) to the NHD domain of DBC1 (deleted in breast cancer 1) prevents it from inhibiting PARP1 [poly(adenosine diphosphate-ribose) polymerase], a critical DNA repair protein...
March 24, 2017: Science
https://www.readbyqxmd.com/read/28302504/mitochondrial-nudix-hydrolases-a-metabolic-link-between-nad-catabolism-gtp-and-mitochondrial-dynamics
#5
Aaron Long, Nina Klimova, Tibor Kristian
NAD(+) catabolism and mitochondrial dynamics are important parts of normal mitochondrial function and are both reported to be disrupted in aging, neurodegenerative diseases, and acute brain injury. While both processes have been extensively studied there has been little reported on how the mechanisms of these two processes are linked. This review focuses on how downstream NAD(+) catabolism via NUDIX hydrolases affects mitochondrial dynamics under pathologic conditions. Additionally, several potential targets in mitochondrial dysfunction and fragmentation are discussed, including the roles of mitochondrial poly(ADP-ribose) polymerase 1(mtPARP1), AMPK, AMP, and intra-mitochondrial GTP metabolism...
March 14, 2017: Neurochemistry International
https://www.readbyqxmd.com/read/28258148/biosynthesis-of-2-chloropentostatin-and-2-amino-2-deoxyadenosine-highlights-a-single-gene-cluster-responsible-for-two-independent-pathways-in-actinomadura-sp-strain-atcc-39365
#6
Yaojie Gao, Gudan Xu, Pan Wu, Jin Liu, You-Sheng Cai, Zixin Deng, Wenqing Chen
2'-Chloropentostatin (2'-Cl PTN, 2'-chloro-2'-deoxycoformycin) and 2'-amino-2'-deoxyadenosine (2'-amino dA) are two adenosine-derived nucleoside antibiotics coproduced by Actinomadura sp. strain ATCC 39365. 2'-Cl PTN is a potent adenosine deaminase (ADA) inhibitor featuring an intriguing 1,3-diazepine ring, as well as a chlorination at C-2' of ribose, and 2'-amino dA is an adenosine analog showing bioactivity against RNA-type virus infection. However, the biosynthetic logic of them has remained poorly understood...
May 15, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28167526/vibrio-phage-kvp40-encodes-a-functional-nad-salvage-pathway
#7
Jae Yun Lee, Zhiqun Li, Eric S Miller
The genome of T4-type Vibrio bacteriophage KVP40 has five genes predicted to encode proteins of pyridine nucleotide metabolism, of which two, nadV and natV, would suffice for an NAD(+) salvage pathway. NadV is an apparent nicotinamide phosphoribosyltransferase (NAmPRTase), and NatV is an apparent bifunctional nicotinamide mononucleotide adenylyltransferase (NMNATase) and nicotinamide-adenine dinucleotide pyrophosphatase (Nudix hydrolase). Genes encoding the predicted salvage pathway were cloned and expressed in Escherichia coli, the proteins were purified, and their enzymatic properties were examined...
May 1, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28089905/nudix-type-motif-2-contributes-to-cancer-proliferation-through-the-regulation-of-rag-gtpase-mediated-mammalian-target-of-rapamycin-complex-1-localization
#8
Ohman Kwon, Dongoh Kwak, Sang Hoon Ha, Hyeona Jeon, Mangeun Park, Yeonho Chang, Pann-Ghill Suh, Sung Ho Ryu
Lysosomal localization of mammalian target of rapamycin complex 1 (mTORC1) is a critical step for activation of the molecule. Rag GTPases are essential for this translocation. Here, we demonstrate that Nudix-type motif 2 (NUDT2) is a novel positive regulator of mTORC1 activation. Activation of mTORC1 is impaired in NUDT2-silenced cells. Mechanistically, NUDT2 binds to Rag GTPase and controls mTORC1 translocation to the lysosomal membrane. Furthermore, NUDT2-dependent mTORC1 regulation is critical for proliferation of breast cancer cells, as NUDT2-silenced cells arrest in G0/G1 phases...
January 13, 2017: Cellular Signalling
https://www.readbyqxmd.com/read/28035004/structural-and-kinetic-studies-of-the-human-nudix-hydrolase-mth1-reveal-the-mechanism-for-its-broad-substrate-specificity
#9
Shaimaa Waz, Teruya Nakamura, Keisuke Hirata, Yukari Koga-Ogawa, Mami Chirifu, Takao Arimori, Taro Tamada, Shinji Ikemizu, Yusaku Nakabeppu, Yuriko Yamagata
The human MutT homolog 1 (hMTH1, human NUDT1) hydrolyzes oxidatively damaged nucleoside triphosphates and is the main enzyme responsible for nucleotide sanitization. hMTH1 recently has received attention as an anticancer target because hMTH1 blockade leads to accumulation of oxidized nucleotides in the cell, resulting in mutations and death of cancer cells. Unlike Escherichia coli MutT, which shows high substrate specificity for 8-oxoguanine nucleotides, hMTH1 has broad substrate specificity for oxidized nucleotides, including 8-oxo-dGTP and 2-oxo-dATP...
February 17, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27974459/identification-of-the-rna-pyrophosphohydrolase-rpph-of-helicobacter-pylori-and-global-analysis-of-its-rna-targets
#10
Thorsten Bischler, Ping-Kun Hsieh, Marcus Resch, Quansheng Liu, Hock Siew Tan, Patricia L Foley, Anika Hartleib, Cynthia M Sharma, Joel G Belasco
RNA degradation is crucial for regulating gene expression in all organisms. Like the decapping of eukaryotic mRNAs, the conversion of the 5'-terminal triphosphate of bacterial transcripts to a monophosphate can trigger RNA decay by exposing the transcript to attack by 5'-monophosphate-dependent ribonucleases. In both biological realms, this deprotection step is catalyzed by members of the Nudix hydrolase family. The genome of the gastric pathogen Helicobacter pylori, a Gram-negative epsilonproteobacterium, encodes two proteins resembling Nudix enzymes...
February 3, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27936487/the-evolution-of-function-within-the-nudix-homology-clan
#11
John R Srouji, Anting Xu, Annsea Park, Jack F Kirsch, Steven E Brenner
The Nudix homology clan encompasses over 80,000 protein domains from all three domains of life, defined by homology to each other. Proteins with a domain from this clan fall into four general functional classes: pyrophosphohydrolases, isopentenyl diphosphate isomerases (IDIs), adenine/guanine mismatch-specific adenine glycosylases (A/G-specific adenine glycosylases), and nonenzymatic activities such as protein/protein interaction and transcriptional regulation. The largest group, pyrophosphohydrolases, encompasses more than 100 distinct hydrolase specificities...
May 2017: Proteins
https://www.readbyqxmd.com/read/27874073/loss-of-function-of-an-arabidopsis-nadph-pyrophosphohydrolase-atnudx19-impacts-on-the-pyridine-nucleotides-status-and-confers-photooxidative-stress-tolerance
#12
Takanori Maruta, Takahisa Ogawa, Masaki Tsujimura, Keisuke Ikemoto, Tomofumi Yoshida, Hiro Takahashi, Kazuya Yoshimura, Shigeru Shigeoka
The levels and redox states of pyridine nucleotides, such as NADP(H), regulate the cellular redox homeostasis, which is crucial for photooxidative stress response in plants. However, how they are controlled is poorly understood. An Arabidopsis Nudix hydrolase, AtNUDX19, was previously identified to have NADPH hydrolytic activity in vitro, suggesting this enzyme to be a regulator of the NADPH status. We herein examined the physiological role of AtNUDX19 using its loss-of-function mutants. NADPH levels were increased in nudx19 mutants under both normal and high light conditions, while NADP(+) and NAD(+) levels were decreased...
November 22, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27865623/key-role-of-an-adp-ribose-dependent-transcriptional-regulator-of-nad-metabolism-for-fitness-and-virulence-of-pseudomonas-aeruginosa
#13
Elza Okon, Sarah Dethlefsen, Anna Pelnikevich, Andrea van Barneveld, Antje Munder, Burkhard Tümmler
NAD is an essential co-factor of redox reactions and metabolic conversions of NAD-dependent enzymes. NAD biosynthesis in the opportunistic pathogen Pseudomonas aeruginosa has yet not been experimentally explored. The in silico search for orthologs in the P. aeruginosa PAO1 genome identified the operon pncA - pncB1-nadE (PA4918-PA4920) to encode the nicotinamidase, nicotinate phosporibosyltransferase and Nad synthase of salvage pathway I. The functional role of the preceding genes PA4917 and PA4916 was resolved by the characterization of recombinant protein...
January 2017: International Journal of Medical Microbiology: IJMM
https://www.readbyqxmd.com/read/27778111/alr2954-of-anabaena-sp-pcc-7120-with-adp-ribose-pyrophosphatase-activity-bestows-abiotic-stress-tolerance-in-escherichia-coli
#14
Prashant Kumar Singh, Alok Kumar Shrivastava, Shilpi Singh, Ruchi Rai, Antra Chatterjee, L C Rai
In silico derived properties on experimental validation revealed that hypothetical protein Alr2954 of Anabaena sp. PCC7120 is ADP-ribose pyrophosphatase, which belongs to nudix hydrolase superfamily. Presence of ADP-ribose binding site was attested by ADP-ribose pyrophosphatase activity (K m 44.71 ± 8.043 mM, V max 7.128 ± 0.417 μmol min(-1) mg protein(-1), and K cat/K m 9.438 × 10(4) μM(-)1 min(-1)). Besides ADP-ribose, the enzyme efficiently hydrolyzed various nucleoside phosphatases such as 8-oxo-dGDP, 8-oxo-dADP, 8-oxo-dGTP, 8-oxo-dATP, GDP-mannose, ADP-glucose, and NADH...
January 2017: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/27737001/correction-nudix-effectors-a-common-weapon-in-the-arsenal-of-plant-pathogens
#15
Suomeng Dong, Yuanchao Wang
[This corrects the article DOI: 10.1371/journal.ppat.1005704.].
October 2016: PLoS Pathogens
https://www.readbyqxmd.com/read/27683242/kinetic-and-mutational-studies-of-the-adenosine-diphosphate-ribose-hydrolase-from-mycobacterium-tuberculosis
#16
Suzanne F O'Handley, Puchong Thirawatananond, Lin-Woo Kang, Jennifer E Cunningham, J Alfonso Leyva, L Mario Amzel, Sandra B Gabelli
Mycobacterium tuberculosis represents one of the world's most devastating infectious agents - with one third of the world's population infected and 1.5 million people dying each year from this deadly pathogen. As part of an effort to identify targets for therapeutic intervention, we carried out the kinetic characterization of the product of gene rv1700 of M. tuberculosis. Based on its sequence and its structure, the protein had been tentatively identified as a pyrophosphohydrolase specific for adenosine diphosphate ribose (ADPR), a compound involved in various pathways including oxidative stress response and tellurite resistance...
December 2016: Journal of Bioenergetics and Biomembranes
https://www.readbyqxmd.com/read/27618147/substrate-specificity-characterization-for-eight-putative-nudix-hydrolases-evaluation-of-criteria-for-substrate-identification-within-the-nudix-family
#17
Vi N Nguyen, Annsea Park, Anting Xu, John R Srouji, Steven E Brenner, Jack F Kirsch
The nearly 50,000 known Nudix proteins have a diverse array of functions, of which the most extensively studied is the catalyzed hydrolysis of aberrant nucleotide triphosphates. The functions of 171 Nudix proteins have been characterized to some degree, although physiological relevance of the assayed activities has not always been conclusively demonstrated. We investigated substrate specificity for eight structurally characterized Nudix proteins, whose functions were unknown. These proteins were screened for hydrolase activity against a 74-compound library of known Nudix enzyme substrates...
December 2016: Proteins
https://www.readbyqxmd.com/read/27550217/genome-analysis-and-avirulence-gene-cloning-using-a-high-density-radseq-linkage-map-of-the-flax-rust-fungus-melampsora-lini
#18
Claire Anderson, Muhammad Adil Khan, Ann-Maree Catanzariti, Cameron A Jack, Adnane Nemri, Gregory J Lawrence, Narayana M Upadhyaya, Adrienne R Hardham, Jeffrey G Ellis, Peter N Dodds, David A Jones
BACKGROUND: Rust fungi are an important group of plant pathogens that cause devastating losses in agricultural, silvicultural and natural ecosystems. Plants can be protected from rust disease by resistance genes encoding receptors that trigger a highly effective defence response upon recognition of specific pathogen avirulence proteins. Identifying avirulence genes is crucial for understanding how virulence evolves in the field. RESULTS: To facilitate avirulence gene cloning in the flax rust fungus, Melampsora lini, we constructed a high-density genetic linkage map using single nucleotide polymorphisms detected in restriction site-associated DNA sequencing (RADseq) data...
2016: BMC Genomics
https://www.readbyqxmd.com/read/27513453/nudix-effectors-a-common-weapon-in-the-arsenal-of-plant-pathogens
#19
Suomeng Dong, Yuanchao Wang
No abstract text is available yet for this article.
August 2016: PLoS Pathogens
https://www.readbyqxmd.com/read/27467751/a-novel-plant-enzyme-with-dual-activity-an-atypical-nudix-hydrolase-and-a-dipeptidyl-peptidase-iii
#20
Zrinka Karačić, Bojana Vukelić, Gabrielle H Ho, Iva Jozić, Iva Sučec, Branka Salopek-Sondi, Marija Kozlović, Steven E Brenner, Jutta Ludwig-Müller, Marija Abramić
In a search for plant homologues of dipeptidyl peptidase III (DPP III) family, we found a predicted protein from the moss Physcomitrella patens (UniProt entry: A9TLP4), which shared 61% sequence identity with the Arabidopsis thaliana uncharacterized protein, designated Nudix hydrolase 3. Both proteins contained all conserved regions of the DPP III family, but instead of the characteristic hexapeptide HEXXGH zinc-binding motif, they possessed a pentapeptide HEXXH, and at the N-terminus, a Nudix box, a hallmark of Nudix hydrolases, known to act upon a variety of nucleoside diphosphate derivatives...
January 1, 2017: Biological Chemistry
keyword
keyword
44468
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"