Hydroxymethylbilane (BioDeep_00000004542)

 

Secondary id: BioDeep_00001868989

human metabolite PANOMIX_OTCML-2023 Endogenous PANOMIX_OTCML-2025


Metabolite Card


3-[2-[[4-(2-Carboxyethyl)-5-[[4-(2-carboxyethyl)-5-[[4-(2-carboxyethyl)-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-4-(carboxymethyl)-5-(hydroxymethyl)-1H-pyrrol-3-yl]propanoic acid

  Formula: C40H46N4O17 (854.2858)
Chinese Names: 羟甲基胆色烷
  Spectrum Hits: Top Source Homo sapiens(otcml) 6.8%

Reviewed

Last reviewed on 2025-06-19.

Cite this Page

Hydroxymethylbilane. BioDeep Database v3. PANOMIX ltd, a top metabolomics service provider from China. https://query.biodeep.cn/s/hydroxymethylbilane (retrieved 2025-11-16) (BioDeep RN: BioDeep_00000004542). Licensed under the Attribution-Noncommercial 4.0 International License (CC BY-NC 4.0).

Molecular Structure

SMILES: c1(c(c([nH]c1)Cc1c(c(c([nH]1)Cc1c(c(c([nH]1)Cc1c(c(c([nH]1)CO)CC(=O)O)CCC(=O)O)CC(=O)O)CCC(=O)O)CC(=O)O)CCC(=O)O)CC(=O)O)CCC(=O)O
InChI: InChI=1S/C40H46N4O17/c45-17-32-25(12-40(60)61)21(4-8-36(52)53)29(44-32)15-31-24(11-39(58)59)20(3-7-35(50)51)28(43-31)14-30-23(10-38(56)57)19(2-6-34(48)49)27(42-30)13-26-22(9-37(54)55)18(16-41-26)1-5-33(46)47/h16,41-45H,1-15,17H2,(H,46,47)(H,48,49)(H,50,51)(H,52,53)(H,54,55)(H,56,57)(H,58,59)(H,60,61)


Description

Hydroxymethylbilane is a molecule involved in the metabolism of porphyrin. In the third step, it is generated by the enzyme porphobilinogen deaminase , and in the next step the enzyme uroporphyrinogen III synthase converts it into uroporphyrinogen III. -- Wikipedia [HMDB]. Hydroxymethylbilane is found in many foods, some of which are alpine sweetvetch, elliotts blueberry, chinese broccoli, and new zealand spinach.
Hydroxymethylbilane is a molecule involved in the metabolism of porphyrin. In the third step, it is generated by the enzyme porphobilinogen deaminase , and in the next step the enzyme uroporphyrinogen III synthase converts it into uroporphyrinogen III. -- Wikipedia.

Synonyms

12 synonym names

3-[2-[[4-(2-Carboxyethyl)-5-[[4-(2-carboxyethyl)-5-[[4-(2-carboxyethyl)-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-4-(carboxymethyl)-5-(hydroxymethyl)-1H-pyrrol-3-yl]propanoic acid; 3-(5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-(hydroxymethyl)-1H-pyrrol-2-yl]methyl}-2-{[4-(2-carboxyethyl)-5-{[4-(2-carboxyethyl)-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl}-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl)propanoic acid; 3-[2-[[4-(2-Carboxyethyl)-5-[[4-(2-carboxyethyl)-5-[[4-(2-carboxyethyl)-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-3-(carboxymethyl)-1H-pyrrol-2-yl]methyl]-4-(carboxymethyl)-5-(hydroxymethyl)-1H-pyrrol-3-yl]propanoate; 3,8,13,18-Tetrakis(carboxymethyl)-5,10,15,22,23,24-hexahydro-19-(hydroxymethyl)-21H-biline-2,7,12,17-tetrapropionic acid; 3,8,13,18-Tetrakis(carboxymethyl)-5,10,15,22,23,24-hexahydro-19-(hydroxymethyl)-21H-biline-2,7,12,17-tetrapropanoic acid; 3,8,13,18-Tetrakis(carboxymethyl)-5,10,15,22,23,24-hexahydro-19-(hydroxymethyl)-21H-biline-2,7,12,17-tetrapropanoate; 3,8,13,18-Tetrakis(carboxymethyl)-19-(hydroxymethyl)bilane-2,7,12,17-tetrapropanoic acid; 3,8,13,18-Tetrakis(carboxymethyl)-19-(hydroxymethyl)bilane-2,7,12,17-tetrapropanoate; (Hydroxymethyl)bilane; Hydroxymethylbilane; Preuroporphyrinogen; Hydroxymethylbilane



Cross Reference

17 cross reference id

Classification Terms

Related Pathways

Reactome()

BioCyc()

PlantCyc()

Biological Process

32 related biological process reactions.

Reactome(10)

BioCyc(1)

WikiPathways()

Plant Reactome()

INOH(1)

PlantCyc()

COVID-19 Disease Map()

PathBank(20)

PharmGKB()

2 organism taxonomy source information

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。

Sub-cellular location Genes
Cytoplasm 4 AHSP, AIMP2, CPOX, HMBS
Peripheral membrane protein 1 CYP1B1
Endoplasmic reticulum membrane 3 CYP1B1, HMOX1, HMOX2
Nucleus 3 AIMP2, GATA1, HMOX1
cytosol 7 AIMP2, CPOX, HMBS, HMOX1, MB, UROD, UROS
nucleoplasm 4 CD2, GATA1, HMOX1, UROD
Cell membrane 3 CD2, EPOR, TNF
Cytoplasmic side 2 HMOX1, HMOX2
cell surface 3 CD2, EPO, TNF
Golgi apparatus 1 CD2
Golgi membrane 2 C1GALT1, INS
mitochondrial inner membrane 1 FECH
neuronal cell body 1 TNF
Cytoplasm, cytosol 1 AIMP2
plasma membrane 5 CD2, EPOR, GCG, HMOX2, TNF
Membrane 7 AIMP2, C1GALT1, CPOX, CYP1B1, EPOR, HMOX1, HMOX2
extracellular exosome 2 EPO, MB
endoplasmic reticulum 1 HMOX1
extracellular space 5 EPO, GCG, HMOX1, INS, TNF
perinuclear region of cytoplasm 1 HMOX1
mitochondrion 4 CPOX, CYP1B1, FECH, UROS
protein-containing complex 1 CD2
intracellular membrane-bounded organelle 1 CYP1B1
Microsome membrane 2 CYP1B1, HMOX2
Single-pass type I membrane protein 2 CD2, EPOR
Secreted 3 EPO, GCG, INS
extracellular region 6 CD2, EPO, EPOR, GCG, INS, TNF
cytoplasmic side of plasma membrane 1 CD2
Single-pass membrane protein 1 EPOR
mitochondrial outer membrane 1 HMOX1
mitochondrial matrix 1 FECH
transcription regulator complex 1 GATA1
external side of plasma membrane 3 CD2, EPOR, TNF
sarcoplasm 1 MB
cell-cell junction 1 CD2
recycling endosome 1 TNF
Single-pass type II membrane protein 2 C1GALT1, TNF
Mitochondrion inner membrane 1 FECH
Membrane raft 1 TNF
mitochondrial intermembrane space 1 CPOX
nuclear speck 1 EPOR
chromatin 1 GATA1
phagocytic cup 1 TNF
endosome lumen 1 INS
specific granule membrane 1 HMOX2
cell body 1 EPO
secretory granule lumen 3 EPO, GCG, INS
Golgi lumen 1 INS
endoplasmic reticulum lumen 2 GCG, INS
transcription repressor complex 1 GATA1
transport vesicle 1 INS
Endoplasmic reticulum-Golgi intermediate compartment membrane 1 INS
Single-pass type IV membrane protein 2 HMOX1, HMOX2
protein-DNA complex 1 GATA1
aminoacyl-tRNA synthetase multienzyme complex 1 AIMP2
hemoglobin complex 1 AHSP
[Glucagon-like peptide 1]: Secreted 1 GCG
[Tumor necrosis factor, soluble form]: Secreted 1 TNF
Cytoplasm, sarcoplasm 1 MB
[Isoform EPOR-S]: Secreted 1 EPOR
[C-domain 2]: Secreted 1 TNF
[Tumor necrosis factor, membrane form]: Membrane 1 TNF
[C-domain 1]: Secreted 1 TNF


Literature Reference

  • Marina Gálvez-Peralta, Lei He, Lucia F Jorge-Nebert, Bin Wang, Marian L Miller, Bryan L Eppert, Scott Afton, Daniel W Nebert. ZIP8 zinc transporter: indispensable role for both multiple-organ organogenesis and hematopoiesis in utero. PloS one. 2012; 7(5):e36055. doi: 10.1371/journal.pone.0036055. [PMID: 22563477]
  • Jian Wang, Kostas Pantopoulos. Regulation of cellular iron metabolism. The Biochemical journal. 2011 Mar; 434(3):365-81. doi: 10.1042/bj20101825. [PMID: 21348856]
  • G Urata. [The chemistry of porphyrins and their precursors on the heme biosynthetic chain]. Nihon rinsho. Japanese journal of clinical medicine. 1995 Jun; 53(6):1319-28. doi: . [PMID: 7616643]