@article{MTMT:34851953,
	title = {LoCoHD: a metric for comparing local environments of proteins},
	url = {https://m2.mtmt.hu/api/publication/34851953},
	author = {Fazekas, Zsolt and Karancsiné Menyhárd, Dóra and Perczel, András},
	doi = {10.1038/s41467-024-48225-0},
	journal-iso = {NAT COMMUN},
	journal = {NATURE COMMUNICATIONS},
	volume = {15},
	unique-id = {34851953},
	issn = {2041-1723},
	abstract = {Protein folds and the local environments they create can be compared using a variety of differently designed measures, such as the root mean squared deviation, the global distance test, the template modeling score or the local distance difference test. Although these measures have proven to be useful for a variety of tasks, each fails to fully incorporate the valuable chemical information inherent to atoms and residues, and considers these only partially and indirectly. Here, we develop the highly flexible local composition Hellinger distance (LoCoHD) metric, which is based on the chemical composition of local residue environments. Using LoCoHD, we analyze the chemical heterogeneity of amino acid environments and identify valines having the most conserved-, and arginines having the most variable chemical environments. We use LoCoHD to investigate structural ensembles, to evaluate critical assessment of structure prediction (CASP) competitors, to compare the results with the local distance difference test (lDDT) scoring system, and to evaluate a molecular dynamics simulation. We show that LoCoHD measurements provide unique information about protein structures that is distinct from, for example, those derived using the alignment-based RMSD metric, or the similarly distance matrix-based but alignment-free lDDT metric.},
	year = {2024},
	eissn = {2041-1723},
	orcid-numbers = {Karancsiné Menyhárd, Dóra/0000-0002-0095-5531; Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34781847,
	title = {Unveiling the Oxazolidine Character of Pseudoproline Derivatives by Automated Flow Peptide Chemistry},
	url = {https://m2.mtmt.hu/api/publication/34781847},
	author = {Szaniszló, Szebasztián and Csámpai, Antal and Horváth, Dániel and Tomecz, Richárd and Farkas, Viktor and Perczel, András},
	doi = {10.3390/ijms25084150},
	journal-iso = {INT J MOL SCI},
	journal = {INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES},
	volume = {25},
	unique-id = {34781847},
	issn = {1661-6596},
	abstract = {Pseudoproline derivatives such as Thr(ΨPro)-OH are commonly used in peptide synthesis to reduce the likelihood of peptide aggregation and to prevent aspartimide (Asi) formation during the synthesis process. In this study, we investigate notable by-products such as aspartimide formation and an imine derivative of the Thr(ΨPro) moiety observed in flow peptide chemistry synthesis. To gain insight into the formation of these unexpected by-products, we design a series of experiments. Furthermore, we demonstrate the oxazolidine character of the pseudoproline moiety and provide plausible mechanisms for the two-way ring opening of oxazolidine leading to these by-products. In addition, we present evidence that Asi formation appears to be catalyzed by the presence of the pseudoproline moiety. These observed side reactions are attributed to elevated temperature and pressure; therefore, caution is advised when using ΨPro derivatives under such harsh conditions. In addition, we propose a solution whereby thermodynamically controlled Asi formation can be kinetically prevented.},
	year = {2024},
	eissn = {1422-0067},
	orcid-numbers = {Szaniszló, Szebasztián/0000-0002-8929-0635; Csámpai, Antal/0000-0003-2107-7309; Horváth, Dániel/0000-0001-8239-3933; Farkas, Viktor/0000-0002-8815-2783; Perczel, András/0000-0003-1252-6416}
}

@book{MTMT:34720994,
	title = {Farnesyl-transferase inhibitors and kras inhibitors for treating kras mutant cancers},
	url = {https://m2.mtmt.hu/api/publication/34720994},
	author = {Tímár, József and Hegedus, Balázs and Baranyi, Marcell and Molnár, Eszter and Tóvári, József and Randelovic, Ivan and Perczel, András and Keseru, György and Buday, László},
	unique-id = {34720994},
	abstract = {The invention relates to cancer biology, more specifically to the treatment of KRAS mutant cancers. A potent cancer therapy is provided by the combination of a farnesyl transferase inhibitor compound and a KRAS inhibitor compound.},
	year = {2024},
	orcid-numbers = {Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34398184,
	title = {Synthesis of small protein domains by automated flow chemistry},
	url = {https://m2.mtmt.hu/api/publication/34398184},
	author = {Ferentzi, Kristóf and Nagy-Fazekas, Dóra and Farkas, Viktor and Perczel, András},
	doi = {10.1039/D3RE00324H},
	journal-iso = {REACT CHEM ENG},
	journal = {REACTION CHEMISTRY & ENGINEERING},
	volume = {9},
	unique-id = {34398184},
	issn = {2058-9883},
	abstract = {The most fundamental topological units of proteins are their autonomously folded domains. The rapid and reliable chemical synthesis of domains in the range of 5-10 kDa in size, remains a...},
	year = {2024},
	eissn = {2058-9883},
	pages = {58-69},
	orcid-numbers = {Farkas, Viktor/0000-0002-8815-2783; Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34728408,
	title = {Válogatás},
	url = {https://m2.mtmt.hu/api/publication/34728408},
	author = {Perczel, András},
	journal-iso = {MAGY KEM LAP},
	journal = {MAGYAR KÉMIKUSOK LAPJA},
	volume = {78},
	unique-id = {34728408},
	issn = {0025-0163},
	year = {2023},
	eissn = {1588-1199},
	pages = {383-384},
	orcid-numbers = {Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34724949,
	title = {Válogatás},
	url = {https://m2.mtmt.hu/api/publication/34724949},
	author = {Perczel, András},
	journal-iso = {MAGY KEM LAP},
	journal = {MAGYAR KÉMIKUSOK LAPJA},
	volume = {78},
	unique-id = {34724949},
	issn = {0025-0163},
	year = {2023},
	eissn = {1588-1199},
	pages = {342-342},
	orcid-numbers = {Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34722558,
	title = {Válogatás},
	url = {https://m2.mtmt.hu/api/publication/34722558},
	author = {Perczel, András},
	journal-iso = {MAGY KEM LAP},
	journal = {MAGYAR KÉMIKUSOK LAPJA},
	volume = {78},
	unique-id = {34722558},
	issn = {0025-0163},
	year = {2023},
	eissn = {1588-1199},
	pages = {312-312},
	orcid-numbers = {Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34714230,
	title = {Válogatás},
	url = {https://m2.mtmt.hu/api/publication/34714230},
	author = {Perczel, András},
	journal-iso = {MAGY KEM LAP},
	journal = {MAGYAR KÉMIKUSOK LAPJA},
	volume = {78},
	unique-id = {34714230},
	issn = {0025-0163},
	year = {2023},
	eissn = {1588-1199},
	pages = {277-277},
	orcid-numbers = {Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34689781,
	title = {Válogatás},
	url = {https://m2.mtmt.hu/api/publication/34689781},
	author = {Perczel, András},
	journal-iso = {MAGY KEM LAP},
	journal = {MAGYAR KÉMIKUSOK LAPJA},
	volume = {78},
	unique-id = {34689781},
	issn = {0025-0163},
	year = {2023},
	eissn = {1588-1199},
	pages = {246-247},
	orcid-numbers = {Perczel, András/0000-0003-1252-6416}
}

@article{MTMT:34226053,
	title = {N6-Methyladenine Progressively Accumulates in Mitochondrial DNA during Aging},
	url = {https://m2.mtmt.hu/api/publication/34226053},
	author = {Sturm, Ádám and HERNER SHARMA, HIMANI and Bodnár, Ferenc and Aslam, Maryam and Kovács, Tibor and Németh, Ákos and Hotzi, Bernadette and Billes, Viktor András and Kovácsné Sigmond, Tímea Ilona and Tátrai, Kitti and Egyed, Balázs and Téglás-Huszár, Blanka and Schlosser, Gitta (Vácziné) and Charmpilas, Nikolaos and Ploumi, Christina and Perczel, András and Tavernarakis, Nektarios and Vellai, Tibor},
	doi = {10.3390/ijms241914858},
	journal-iso = {INT J MOL SCI},
	journal = {INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES},
	volume = {24},
	unique-id = {34226053},
	issn = {1661-6596},
	abstract = {N6-methyladenine (6mA) in the DNA is a conserved epigenetic mark with various cellular, physiological and developmental functions. Although the presence of 6mA was discovered a few years ago in the nuclear genome of distantly related animal taxa and just recently in mammalian mitochondrial DNA (mtDNA), accumulating evidence at present seriously questions the presence of N6-adenine methylation in these genetic systems, attributing it to methodological errors. In this paper, we present a reliable, PCR-based method to determine accurately the relative 6mA levels in the mtDNA of Caenorhabditis elegans, Drosophila melanogaster and dogs, and show that these levels gradually increase with age. Furthermore, daf-2(−)-mutant worms, which are defective for insulin/IGF-1 (insulin-like growth factor) signaling and live twice as long as the wild type, display a half rate at which 6mA progressively accumulates in the mtDNA as compared to normal values. Together, these results suggest a fundamental role for mtDNA N6-adenine methylation in aging and reveal an efficient diagnostic technique to determine age using DNA.},
	year = {2023},
	eissn = {1422-0067},
	orcid-numbers = {Sturm, Ádám/0000-0002-9515-8761; HERNER SHARMA, HIMANI/0000-0001-6947-9281; Kovács, Tibor/0000-0002-0632-9128; Hotzi, Bernadette/0000-0003-1433-6843; Billes, Viktor András/0000-0003-0030-6221; Kovácsné Sigmond, Tímea Ilona/0000-0002-1985-428X; Egyed, Balázs/0000-0003-3960-2052; Schlosser, Gitta (Vácziné)/0000-0002-7637-7133; Ploumi, Christina/0000-0002-2389-5471; Perczel, András/0000-0003-1252-6416; Tavernarakis, Nektarios/0000-0002-5253-1466; Vellai, Tibor/0000-0002-3520-2572}
}