Urobilin (BioDeep_00000005954)

 

Secondary id: BioDeep_00001870775

human metabolite Endogenous


代谢物信息卡片


3-(2-{[3-(2-carboxyethyl)-5-[(4-ethyl-3-methyl-5-oxo-2,5-dihydro-1H-pyrrol-2-yl)methyl]-4-methyl-2H-pyrrol-2-ylidene]methyl}-5-[(3-ethyl-4-methyl-5-oxo-2,5-dihydro-1H-pyrrol-2-yl)methyl]-4-methyl-1H-pyrrol-3-yl)propanoic acid

化学式: C33H42N4O6 (590.3104)
中文名称: 尿膽素
谱图信息: 最多检出来源 Homo sapiens(feces) 16.88%

分子结构信息

SMILES: CCC1=C(C(=O)NC1CC2=C(C(=C(N2)C=C3C(=C(C(=N3)CC4C(=C(C(=O)N4)CC)C)C)CCC(=O)O)CCC(=O)O)C)C
InChI: InChI=1S/C33H42N4O6/c1-7-20-19(6)32(42)37-27(20)14-25-18(5)23(10-12-31(40)41)29(35-25)15-28-22(9-11-30(38)39)17(4)24(34-28)13-26-16(3)21(8-2)33(43)36-26/h15,26-27,35H,7-14H2,1-6H3,(H,36,43)(H,37,42)(H,38,39)(H,40,41)/b28-15+

描述信息

Urobilin, also known as urochrome, is the tetrapyrrole chemical compound that is primarily responsible for the yellow color of urine. Urobilin is formed through the oxidation of its parent compound uroblinogen. Urobilin is actually generated through the degradation of heme, the red pigment in haemoglobin and red blood cells (RBCs). RBCs have a life span of about 120 days. When the RBCs have reached the end of their useful lifespan, the cells are engulfed by macrophages and their constituents recycled or disposed of. Heme is broken down when the heme ring is opened by the enzyme known as heme oxygenase, which is found in the endoplasmic reticulum of the macrophages. The oxidation process produces the linear tetrapyrrole known as biliverdin along with ferric iron (Fe3+), and carbon monoxide (CO). In the next reaction, a second methylene group (located between rings III and IV of the porphyrin ring) is reduced by the enzyme known as biliverdin reductase, producing bilirubin. Bilirubin is significantly less extensively conjugated than biliverdin. This reduction causes a change in the color of the biliverdin molecule from blue-green (vert or verd for green) to yellow-red, which is the color of bilirubin (ruby or rubi for red). In plasma virtually all the bilirubin is tightly bound to plasma proteins, largely albumin, because it is only sparingly soluble in aqueous solutions at physiological pH. In the sinusoids unconjugated bilirubin dissociates from albumin, enters the liver cells across the cell membrane through non-ionic diffusion to the smooth endoplasmatic reticulum. In hepatocytes, bilirubin-UDP-glucuronyltransferase (bilirubin-UGT) adds 2 additional glucuronic acid molecules to bilirubin to produce the more water-soluble version of the molecule known as bilirubin diglucuronide. The bilirubin diglucuronide is transferred rapidly across the canalicular membrane into the bile canaliculi where it is then excreted as bile into the large intestine. The bilirubin is further degraded (reduced) by microbes present in the large intestine to form a colorless product known as urobilinogen. Some of the urobilinogen produced by the gut bacteria is reabsorbed and re-enters the enterohepatic circulation. These urobilinogens are oxidized and converted to urobilin. The urobilin is processed through the kidneys and then excreted in the urine, which causes the yellowish color in urine. Many urine tests monitor the amount of urobilin in urine, as this provides some useful insight into urinary tract function. Normally, urine would appear as either light yellow or colorless. A lack of water intake, for example following sleep or dehydration, reduces the water content of urine, thereby concentrating urobilin and producing a darker color of urine. Obstructive jaundice reduces biliary bilirubin excretion, which is then excreted directly from the blood stream into the urine, giving a dark-colored urine. This dark colored urine has a paradoxically low urobilin concentration.

同义名列表

16 个代谢物同义名

3-(2-{[3-(2-carboxyethyl)-5-[(4-ethyl-3-methyl-5-oxo-2,5-dihydro-1H-pyrrol-2-yl)methyl]-4-methyl-2H-pyrrol-2-ylidene]methyl}-5-[(3-ethyl-4-methyl-5-oxo-2,5-dihydro-1H-pyrrol-2-yl)methyl]-4-methyl-1H-pyrrol-3-yl)propanoic acid; 3-[(2E)-2-[[3-(2-carboxyethyl)-5-[(3-ethyl-4-methyl-5-oxo-1,2-dihydropyrrol-2-yl)methyl]-4-methyl-1H-pyrrol-2-yl]methylene]-5-[(4-ethyl-3-methyl-5-oxo-1,2-dihydropyrrol-2-yl)methyl]-4-methyl-pyrrol-3-yl]propanoic acid; 21H-Biline-8,12-dipropanoic acid, 3,18-diethyl-1,4,5,15,16,19,22,24-octahydro-2,7,13,17-tetramethyl-1,19-dioxo-; 3,18-Diethyl-1,4,5,15,16,19,22,24-octahydro-2,7,13,17-tetramethyl-1,19-dioxo-21H-biline-8,12-dipropanoic acid; 3,18-diethyl-1,4,5,15,16,19,22,24-octahydro-2,7,13,17-tetramethyl-1,19-dioxo-21H-biline-8,12-dipropionic acid; 3,18-Diethyl-1,4,5,15,16,19,22,24-octahydro-2,7,13,17-tetramethyl-1,19-dioxo-21H-biline-8,12-dipropionate; 3,18-Diethyl-1,4,5,15,16,19,22,24-octahydro-2,7,13,17-tetramethyl-1,19-dioxo-21H-biline-8,12-dipropanoate; 3,18-Diethyl-1,4,5,15,16,19,22,24-octahydro-2,7,13,17-tetramethyl-1,19-dioxo-biline-8,12-dipropionic acid; 8,12-Bis(2-carboxyethyl)-3,18-diethyl-2,7,13,17-tetramethylbilene-b-1,19(4H,16H)-dione; Urobilin ixalpha; (-)-Urobilin; Urobilin IXa; Urobilin ixα; I-urobilin; Urobilin; Urobilin



数据库引用编号

16 个数据库交叉引用编号

分类词条

相关代谢途径

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代谢反应

0 个相关的代谢反应过程信息。

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BioCyc(0)

WikiPathways(0)

Plant Reactome(0)

INOH(0)

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PharmGKB(0)

1 个相关的物种来源信息

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。

亚细胞结构定位 关联基因列表
Cytoplasm 3 ALB, CPOX, ITPR3
Endoplasmic reticulum membrane 2 ITPR3, UGT1A1
Nucleus 1 ALB
cytosol 2 ALB, CPOX
centrosome 1 ALB
nucleoplasm 1 ITPR3
Multi-pass membrane protein 1 ITPR3
Golgi apparatus 1 ALB
Golgi membrane 1 INS
neuronal cell body 1 ITPR3
plasma membrane 2 ITPR3, UGT1A1
Membrane 3 CPOX, ITPR3, UGT1A1
brush border 1 ITPR3
extracellular exosome 1 ALB
endoplasmic reticulum 3 ALB, ITPR3, UGT1A1
extracellular space 2 ALB, INS
perinuclear region of cytoplasm 1 UGT1A1
mitochondrion 1 CPOX
protein-containing complex 1 ALB
Secreted 2 ALB, INS
extracellular region 2 ALB, INS
Single-pass membrane protein 1 UGT1A1
anchoring junction 1 ALB
nucleolus 1 ITPR3
apical part of cell 1 ITPR3
Cytoplasm, perinuclear region 1 UGT1A1
sarcoplasmic reticulum 1 ITPR3
mitochondrial intermembrane space 1 CPOX
nuclear outer membrane 1 ITPR3
receptor complex 1 ITPR3
ciliary basal body 1 ALB
centriole 1 ALB
spindle pole 1 ALB
blood microparticle 1 ALB
endosome lumen 1 INS
secretory granule lumen 1 INS
secretory granule membrane 1 ITPR3
Golgi lumen 1 INS
endoplasmic reticulum lumen 2 ALB, INS
platelet alpha granule lumen 1 ALB
transport vesicle 1 INS
Endoplasmic reticulum-Golgi intermediate compartment membrane 1 INS
platelet dense tubular network membrane 1 ITPR3
Cytoplasmic vesicle, secretory vesicle membrane 1 ITPR3
transport vesicle membrane 1 ITPR3
endoplasmic reticulum chaperone complex 1 UGT1A1
cytoplasmic side of endoplasmic reticulum membrane 1 ITPR3
cytochrome complex 1 UGT1A1
ciliary transition fiber 1 ALB


文献列表

  • Evelyn A Bates, Zachary A Kipp, Genesee J Martinez, Olufunto O Badmus, Mangala M Soundarapandian, Donald Foster, Mei Xu, Justin F Creeden, Jennifer R Greer, Andrew J Morris, David E Stec, Terry D Hinds. Suppressing Hepatic UGT1A1 Increases Plasma Bilirubin, Lowers Plasma Urobilin, Reorganizes Kinase Signaling Pathways and Lipid Species and Improves Fatty Liver Disease. Biomolecules. 2023 Jan; 13(2):. doi: 10.3390/biom13020252. [PMID: 36830621]
  • Patrick B Kyle, Jaswinder Kaur. Evaluating Novel Markers for Specimen Validity Testing. Archives of pathology & laboratory medicine. 2020 02; 144(2):168-171. doi: 10.5858/arpa.2019-0197-oa. [PMID: 31755779]
  • Markus Stenemo, Andrea Ganna, Samira Salihovic, Christoph Nowak, Johan Sundström, Vilmantas Giedraitis, Corey D Broeckling, Jessica E Prenni, Per Svensson, Patrik K E Magnusson, Lars Lind, Erik Ingelsson, Johan Ärnlöv, Tove Fall. The metabolites urobilin and sphingomyelin (30:1) are associated with incident heart failure in the general population. ESC heart failure. 2019 08; 6(4):764-773. doi: 10.1002/ehf2.12453. [PMID: 31148414]
  • Charity G Owings, Christine Skaggs, Winyu Sheriff, Nicholas Manicke, Christine J Picard. Chemical Assay for the Detection of Vertebrate Fecal Metabolites in Adult Blow Flies (Diptera: Calliphoridae). Environmental entomology. 2018 06; 47(3):586-593. doi: 10.1093/ee/nvy027. [PMID: 29534166]
  • Aleikar Vásquez-Suárez, Francisco Lobos-González, Andrew Cronshaw, José Sepúlveda-Ugarte, Maximiliano Figueroa, Jorge Dagnino-Leone, Marta Bunster, José Martínez-Oyanedel. The γ33 subunit of R-phycoerythrin from Gracilaria chilensis has a typical double linked phycourobilin similar to β subunit. PloS one. 2018; 13(4):e0195656. doi: 10.1371/journal.pone.0195656. [PMID: 29634783]
  • Joel N Bixler, Michael T Cone, Brett H Hokr, John D Mason, Eleonora Figueroa, Edward S Fry, Vladislav V Yakovlev, Marlan O Scully. Ultrasensitive detection of waste products in water using fluorescence emission cavity-enhanced spectroscopy. Proceedings of the National Academy of Sciences of the United States of America. 2014 May; 111(20):7208-11. doi: 10.1073/pnas.1403175111. [PMID: 24799690]
  • D L Sampson, Y L Chng, Z Upton, C P Hurst, A W Parker, T J Parker. The highly abundant urinary metabolite urobilin interferes with the bicinchoninic acid assay. Analytical biochemistry. 2013 Nov; 442(1):110-7. doi: 10.1016/j.ab.2013.07.027. [PMID: 23911526]
  • Yu-Rong Chen, Yi-shin Su, Shih-Long Tu. Distinct phytochrome actions in nonvascular plants revealed by targeted inactivation of phytobilin biosynthesis. Proceedings of the National Academy of Sciences of the United States of America. 2012 May; 109(21):8310-5. doi: 10.1073/pnas.1201744109. [PMID: 22566621]
  • Hailong Chen, Wei Dang, Jie Xie, Jingquan Zhao, Yuxiang Weng. Ultrafast energy transfer pathways in R-phycoerythrin from Polysiphonia urceolata. Photosynthesis research. 2012 Mar; 111(1-2):81-6. doi: 10.1007/s11120-011-9708-3. [PMID: 22083175]
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