Pyrimidine (BioDeep_00000004159)
Secondary id: BioDeep_00000405558
natural product human metabolite PANOMIX_OTCML-2023 Endogenous BioNovoGene_Lab2019 Volatile Flavor Compounds
代谢物信息卡片
化学式: C4H4N2 (80.0374464)
中文名称: 嘧啶
谱图信息:
最多检出来源 Homo sapiens(blood) 2.1%
分子结构信息
SMILES: C1=CN=CN=C1
InChI: InChI=1/C4H4N2/c1-2-5-4-6-3-1/h1-4H
描述信息
Pyrimidine is a heterocyclic aromatic organic compound similar to benzene and pyridine, containing two nitrogen atoms at positions 1 and 3 of the six-member ring. Pyrimidines are heterocyclic, six-membered, nitrogen-containing carbon ring structures, with uracil, cytosine and thymine being the basal structures of ribose-containing nucleosides (uridine, cytidine and thymidine respectively), or deoxyribose-containing deoxynucleosides, and their corresponding ribonucleotides or deoxyribonucleotides. Pyrimidines serve essential functions in human metabolism as ribonucleotide bases in RNA (uracil and cytosine), and as deoxyribonucleotide bases in DNA (cytosine and thymine), and are linked by phosphodiester bridges to purine nucleotides in double-stranded DNA, in both the nucleus and the mitochondria. Pyrimidine activated sugars are also involved in polysaccharide and phospholipid synthesis, glucuronidation in detoxification processes, glycosylation of proteins and lipids and in the recently identified novel endothelium-derived vasoactive dinucleotides. Pyrimidines are synthesized de novo from simple precursors. Synthesis occurs in six steps, with cellular compartmentalization of specific steps in the cytosol or mitochondria, enabling changes in metabolic rate with need. Pyrimidine synthesis differs from purine synthesis, in that the single pyrimidine ring is assembled first and is then linked to ribose phosphate to form UMP. The enzymes that catalyse UMP synthesis, CAD [carbamoylphosphate synthetase II (CPSII), aspartate transcarbamoylase (ATCasea) and dihydroorotase (DHOase)], dihydroorotate dehydrogenase (DHODH) and uridine monophosphate synthase (UMPS), are encoded by only three genes - CAD, DHODH and UMPS (chromosomal locations 2p21, 16q22 and 3q13, respectively). (PMID:16098809).
Pyrimidine is a heterocyclic aromatic organic compound similar to benzene and pyridine, containing two nitrogen atoms at positions 1 and 3 of the six-member ring. Pyrimidines are heterocyclic, six-membered, nitrogen-containing carbon ring structures, with uracil, cytosine and thymine being the basal structures of ribose-containing nucleosides (uridine, cytidine and thymidine respectively), or deoxyribose-containing deoxynucleosides, and their corresponding ribonucleotides or deoxyribonucleotides. Pyrimidines serve essential functions in human metabolism as ribonucleotide bases in RNA (uracil and cytosine), and as deoxyribonucleotide bases in DNA (cytosine and thymine), and are linked by phosphodiester bridges to purine nucleotides in double-stranded DNA, in both the nucleus and the mitochondria. Pyrimidine activated sugars are also involved in polysaccharide and phospholipid synthesis, glucuronidation in detoxification processes, glycosylation of proteins and lipids and in the recently identified novel endothelium-derived vasoactive dinucleotides.
Pyrimidine is an endogenous metabolite.
同义名列表
13 个代谢物同义名
Pyrimidine dimer; 1,3-Diazabenzene; Pyrimidine base; Metadiazine; 1,3-Diazine; 1,3-Diazin; PYRIMIDINE; m-Diazine; Pyrimidin; Miazine; PYR; py; Pyrimidine
数据库引用编号
22 个数据库交叉引用编号
- ChEBI: CHEBI:16898
- KEGG: C00396
- PubChem: 9260
- HMDB: HMDB0003361
- Metlin: METLIN58148
- ChEMBL: CHEMBL15562
- Wikipedia: Pyrimidine
- foodb: FDB023153
- chemspider: 8903
- CAS: 25247-63-6
- CAS: 289-95-2
- MoNA: PS063102
- MoNA: PS063101
- PMhub: MS000015933
- PubChem: 3686
- PDB-CCD: P1R
- 3DMET: B00103
- RefMet: Pyrimidine
- medchemexpress: HY-Y0519
- LOTUS: LTS0089124
- BioNovoGene_Lab2019: BioNovoGene_Lab2019-7
- BioNovoGene_Lab2019: BioNovoGene_Lab2019-10
分类词条
相关代谢途径
Reactome(0)
BioCyc(0)
PlantCyc(0)
代谢反应
0 个相关的代谢反应过程信息。
Reactome(0)
BioCyc(0)
WikiPathways(0)
Plant Reactome(0)
INOH(0)
PlantCyc(0)
COVID-19 Disease Map(0)
PathBank(0)
PharmGKB(0)
16 个相关的物种来源信息
- 6656 - Arthropoda: LTS0089124
- 6658 - Branchiopoda: LTS0089124
- 7711 - Chordata: LTS0089124
- 6668 - Daphnia: LTS0089124
- 35525 - Daphnia magna: 10.1016/J.ENVINT.2009.12.006
- 35525 - Daphnia magna: LTS0089124
- 77658 - Daphniidae: LTS0089124
- 3039 - Euglena gracilis: 10.3389/FBIOE.2021.662655
- 2759 - Eukaryota: LTS0089124
- 9604 - Hominidae: LTS0089124
- 9605 - Homo: LTS0089124
- 9606 - Homo sapiens: -
- 9606 - Homo sapiens: 10.1007/S11306-015-0840-5
- 9606 - Homo sapiens: LTS0089124
- 40674 - Mammalia: LTS0089124
- 33208 - Metazoa: LTS0089124
在这里通过桑基图来展示出与当前的这个代谢物在我们的BioDeep知识库中具有相关联信息的其他代谢物。在这里进行关联的信息来源主要有:
- PubMed: 来源于PubMed文献库中的文献信息,我们通过自然语言数据挖掘得到的在同一篇文献中被同时提及的相关代谢物列表,这个列表按照代谢物同时出现的文献数量降序排序,取前10个代谢物作为相关研究中关联性很高的代谢物集合展示在桑基图中。
- NCBI Taxonomy: 通过文献数据挖掘,得到的代谢物物种来源信息关联。这个关联信息同样按照出现的次数降序排序,取前10个代谢物作为高关联度的代谢物集合展示在桑吉图上。
- Chemical Taxonomy: 在物质分类上处于同一个分类集合中的其他代谢物
- Chemical Reaction: 在化学反应过程中,存在为当前代谢物相关联的生化反应过程中的反应底物或者反应产物的关联代谢物信息。
点击图上的相关代谢物的名称,可以跳转到相关代谢物的信息页面。
文献列表
- Zichen Feng, Zixuan Wu, Yongchen Zhang. Integration of bioinformatics and machine learning approaches for the validation of pyrimidine metabolism-related genes and their implications in immunotherapy for osteoporosis.
BMC musculoskeletal disorders.
2024 May; 25(1):402. doi:
10.1186/s12891-024-07512-z
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Journal of chemical information and modeling.
2023 04; 63(8):2331-2344. doi:
10.1021/acs.jcim.2c01315
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Bioorganic & medicinal chemistry letters.
2022 06; 65(?):128697. doi:
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Nature.
2022 04; 604(7904):134-140. doi:
10.1038/s41586-022-04482-x
. [PMID: 35130559] - Feng Xu, Yuanyuan Pang, Qixing Nie, Zhipeng Zhang, Chuan Ye, Changtao Jiang, Yuan Wang, Huiying Liu. Development and evaluation of a simultaneous strategy for pyrimidine metabolome quantification in multiple biological samples.
Food chemistry.
2022 Mar; 373(Pt A):131405. doi:
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Cancer letters.
2021 08; 513(?):36-49. doi:
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2021 01; 64(1):481-515. doi:
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Journal of agricultural and food chemistry.
2021 Jan; 69(1):45-54. doi:
10.1021/acs.jafc.0c04436
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PloS one.
2021; 16(7):e0253852. doi:
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2020 Dec; 22(12):2206-2212. doi:
10.1007/s12094-020-02379-7
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Bioorganic chemistry.
2020 11; 104(?):104282. doi:
10.1016/j.bioorg.2020.104282
. [PMID: 33010624] - Zhen Xiao, Zhihui Zhou, Cilong Chu, Qian Zhang, Lingjia Zhou, Zunhua Yang, Xin Li, Liying Yu, Pengwu Zheng, Shan Xu, Wufu Zhu. Design, synthesis and antitumor activity of novel thiophene-pyrimidine derivatives as EGFR inhibitors overcoming T790M and L858R/T790M mutations.
European journal of medicinal chemistry.
2020 Oct; 203(?):112511. doi:
10.1016/j.ejmech.2020.112511
. [PMID: 32679450] - Zhen Xiao, Cilong Chu, Lingjia Zhou, Zhihui Zhou, Qian Zhang, Feiyi Yang, Zunhua Yang, Pengwu Zheng, Shan Xu, Wufu Zhu. Discovery of thiapyran-pyrimidine derivatives as potential EGFR inhibitors.
Bioorganic & medicinal chemistry.
2020 10; 28(19):115669. doi:
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Clinical biochemistry.
2020 Aug; 82(?):40-50. doi:
10.1016/j.clinbiochem.2020.03.007
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Autism research : official journal of the International Society for Autism Research.
2020 08; 13(8):1258-1269. doi:
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Chemical research in toxicology.
2020 07; 33(7):1897-1906. doi:
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Journal of agricultural and food chemistry.
2020 Jun; 68(23):6280-6285. doi:
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Scientific reports.
2020 06; 10(1):8859. doi:
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International journal of molecular sciences.
2020 Feb; 21(4):. doi:
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2019 Nov; 10(11):7204-7215. doi:
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Journal of experimental botany.
2019 10; 70(19):5173-5187. doi:
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Antimicrobial agents and chemotherapy.
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Biochimica et biophysica acta. Biomembranes.
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Molecular neurobiology.
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Medicina (Kaunas, Lithuania).
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Organic & biomolecular chemistry.
2019 06; 17(22):5633-5638. doi:
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Bioorganic chemistry.
2019 05; 86(?):103-111. doi:
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Chemical biology & drug design.
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Medicine.
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