MiMeDB: Showing metabocard for CDP (MMDBc0029668)

Plant

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-17 23:36:47 UTC

Update Date

2022-08-31 17:11:26 UTC

Metabolite ID

MMDBc0029668

Metabolite Identification

Common Name

CDP

Description

Cytidine 5'-(trihydrogen diphosphate) is cytosine nucleotide containing two phosphate groups esterified to the sugar (ribose) moiety.

Structure

MOL SDF PDB SMILES InChI

Synonyms

Not Available

Molecular Formula

C₉H₁₅N₃O₁₁P₂

Average Mass

403.1764

Monoisotopic Mass

403.018181361

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

63-38-7

SMILES

Not Available

InChI Identifier

InChI=1S/C9H15N3O11P2/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(22-8)3-21-25(19,20)23-24(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,19,20)(H2,10,11,15)(H2,16,17,18)/t4-,6-,7-,8-/m1/s1

InChI Key

ZWIADYZPOWUWEW-XVFCMESISA-N

Chemical Taxonomy

Functional Ontology

Not Available

Physical Properties

State

Solid

Predicted Properties

Not Available

Spectra

Chromatographic Retention Times and Retention Indices

Retention Times

Not Available

Retention Indices

Not Available

Chromatographic Retention Times and Retention Indices

Retention Times

Not Available

Retention Indices

Not Available

Biological Properties

Cellular Locations

Mitochondria
Nucleus

Biospecimen Locations

Blood
Feces

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species
MMDBp0191679	UMP-CMP kinase	Unknown	P30085	Homo_sapiens
MMDBp0191757	Ectonucleoside triphosphate diphosphohydrolase 1	Unknown	P49961	Homo_sapiens
MMDBp0191758	Soluble calcium-activated nucleotidase 1	Unknown	Q8WVQ1	Homo_sapiens
MMDBp0191759	Ectonucleoside triphosphate diphosphohydrolase 3	Unknown	O75355	Homo_sapiens
MMDBp0191779	Nucleoside diphosphate kinase, mitochondrial	Unknown	O00746	Homo_sapiens
MMDBp0191780	Ribonucleoside-diphosphate reductase large subunit	Enzyme	P23921	Homo_sapiens
MMDBp0191781	Nucleoside diphosphate kinase A	Unknown	P15531	Homo_sapiens
MMDBp0191782	Nucleoside diphosphate kinase 7	Unknown	Q9Y5B8	Homo_sapiens
MMDBp0191783	Ribonucleoside-diphosphate reductase subunit M2	Unknown	P31350	Homo_sapiens
MMDBp0191784	Nucleoside diphosphate kinase B	Unknown	P22392	Homo_sapiens
MMDBp0191785	Nucleoside diphosphate kinase 3	Unknown	Q13232	Homo_sapiens
MMDBp0191786	Nucleoside diphosphate kinase 6	Unknown	O75414	Homo_sapiens
MMDBp0192369	6-phosphofructokinase type C	Unknown	Q01813	Homo_sapiens
MMDBp0192381	6-phosphofructokinase, liver type	Unknown	P17858	Homo_sapiens
MMDBp0192384	6-phosphofructokinase, muscle type	Unknown	P08237	Homo_sapiens
MMDBp0192385	Pyruvate kinase isozymes M1/M2	Unknown	P14618	Homo_sapiens
MMDBp0192387	Pyruvate kinase isozymes R/L	Unknown	P30613	Homo_sapiens
MMDBp0192495	Ectonucleoside triphosphate diphosphohydrolase 4	Unknown	Q9Y227	Homo_sapiens
MMDBp0192496	Ectonucleoside triphosphate diphosphohydrolase 6	Unknown	O75354	Homo_sapiens
MMDBp0192497	Ectonucleoside triphosphate diphosphohydrolase 5	Unknown	O75356	Homo_sapiens
MMDBp0192881	Polyribonucleotide nucleotidyltransferase 1, mitochondrial	Enzyme	Q8TCS8	Homo_sapiens
MMDBp0194182	Ribonucleoside-diphosphate reductase subunit M2 B	Unknown	Q7LG56	Homo_sapiens
MMDBp0194184	UMP-CMP kinase 2, mitochondrial	Enzyme	Q5EBM0	Homo_sapiens
MMDBp0194442	Ectonucleoside triphosphate diphosphohydrolase 8	Unknown	Q5MY95	Homo_sapiens
MMDBp0195533	Putative nucleoside diphosphate kinase	Unknown	O60361	Homo_sapiens
MMDBp0195544	Probable 8-oxo-dGTP diphosphatase NUDT15	Unknown	Q9NV35	Homo_sapiens
MMDBp0195545	Nucleoside diphosphate-linked moiety X motif 17	Unknown	P0C025	Homo_sapiens
MMDBp0195546	8-oxo-dGDP phosphatase NUDT18	Unknown	Q6ZVK8	Homo_sapiens
MMDBp0195551	Nucleoside diphosphate-linked moiety X motif 8, mitochondrial	Unknown	Q8WV74	Homo_sapiens
MMDBp0195872	Dolichol kinase	Enzyme	Q9UPQ8	Homo_sapiens
MMDBp0196531	Nucleoside diphosphate kinase	Enzyme	A2IDD0	Homo_sapiens
MMDBp0196906	Nucleoside diphosphate kinase homolog 5	Unknown	P56597

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria	Proteobacteria	417	Human feces; Human sputum; Human ; Human unknown; Pig ; Human pleural fluid plaque; Human dental plaque; Human nasal swab; Human feces; pleural fluid plaque; bal; Cattle ; River trout ; Rat ; Sheep ; Chicken ; American dog tick	Unknown; Metabolic reconstruction
Bacteria	Firmicutes	487	Human feces; Human pleural fluid plaque; Pig ; Human ; Cattle ; Catfish	Metabolic reconstruction
Bacteria	Actinobacteria	156	Human feces; Human sputum; Human bronchial brush; Human nasopharyngeal swab; Human pleural fluid plaque; Human dental plaque; Human ; Cattle	Metabolic reconstruction
Bacteria	Verrucomicrobia	1	Human ; Human feces	Metabolic reconstruction
Bacteria	Bacteroidetes	131	Human feces; Human appendix biopsy; Human	Metabolic reconstruction
Bacteria	Synergistetes	4	Human feces	Metabolic reconstruction
Bacteria	Spirochaetes	13	Human feces; Human ; Relapsing fever tick	Metabolic reconstruction
Archaea	Thaumarchaeota	1	Human feces	Metabolic reconstruction
Bacteria	Fusobacteria	20	Human feces; Human	Metabolic reconstruction
Archaea	Euryarchaeota	5	Human feces; Cattle ; Human	Metabolic reconstruction
Bacteria	Candidatus Melainabacteria	1	Human feces	Metabolic reconstruction
Bacteria	Tenericutes	23	Human feces; Goat ; Human ; Pig	Metabolic reconstruction
Bacteria	Planctomycetes	2	Human feces	Metabolic reconstruction
Archaea	Crenarchaeota	1	Human feces	Metabolic reconstruction
Archaea/Archaea	Crenarchaeota	21	Human feces	Metabolic reconstruction
Bacteria	Aquificae	2
Archaea/Archaea	Euryarchaeota	35	Human feces; Cattle ; Human	Metabolic reconstruction
Bacteria	Chlamydiae	10	Human ; Sheep ; Cat
Bacteria	Chloroflexi	3
Bacteria	Chlorobi	3
Bacteria	Deinococcus-Thermus	5
Eukaryota/Fungi	Microsporidia	3
Bacteria	Thermotogae	8
Bacteria/NULL	Tenericutes	1	Human feces; Goat ; Human ; Pig	Metabolic reconstruction
Bacteria	Acidobacteria	1
Bacteria	Nitrospirae	1
Bacteria/NULL	Proteobacteria	1	Human feces; Human sputum; Human ; Human unknown; Pig ; Human pleural fluid plaque; Human dental plaque; Human nasal swab; Human feces; pleural fluid plaque; bal; Cattle ; River trout ; Rat ; Sheep ; Chicken ; American dog tick	Unknown; Metabolic reconstruction
Bacteria	Cyanobacteria	26
Bacteria	nah	1
Archaea/Archaea	Thaumarchaeota	1	Human feces	Metabolic reconstruction
Eukaryota/Fungi	Ascomycota	2	Human feces	Unknown

Exposure Sources

Food Exposures

Other Exposures

Source Type	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference
Human Feces	Detected but not Quantified									HMDB
Human	Detected and Quantified	36.0	12.0				Adult (>18 years old)	Both	Normal	HMDB	Geigy Scientific Tables, 8th Rev edition, pp. 130. Edited by C. Lentner, West Cadwell, N.J.: Medical education Div., Ciba-Geigy Corp. Basel, Switzerland c1981-1992.

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

Lindblad L, Schersten T: Incorporation rate in vitro of choline and methyl-methionine into human hepatic lecithins. Scand J Gastroenterol. 1976;11(6):587-91. [PubMed:981963 ]
George TP, Cook HW, Byers DM, Palmer FB, Spence MW: Inhibition of phosphatidylcholine and phosphatidylethanolamine biosynthesis by cytochalasin B in cultured glioma cells: potential regulation of biosynthesis by Ca(2+)-dependent mechanisms. Biochim Biophys Acta. 1991 Jul 9;1084(2):185-93. doi: 10.1016/0005-2760(91)90219-8. [PubMed:1854804 ]
George TP, Morash SC, Cook HW, Byers DM, Palmer FB, Spence MW: Phosphatidylcholine biosynthesis in cultured glioma cells: evidence for channeling of intermediates. Biochim Biophys Acta. 1989 Aug 22;1004(3):283-91. doi: 10.1016/0005-2760(89)90075-1. [PubMed:2758024 ]
Tsitolovskii LE, Kraevskii AA: [Possible relation between learning and non-template RNA synthesis in neurons]. Zh Vyssh Nerv Deiat Im I P Pavlova. 1982 Mar-Apr;32(2):284-91. [PubMed:6178232 ]
Carstensen S, Pliska-Matyshak G, Bhuvarahamurthy N, Robbins KM, Murthy PP: Biosynthesis and localization of phosphatidyl-scyllo-inositol in barley aleurone cells. Lipids. 1999 Jan;34(1):67-73. doi: 10.1007/s11745-999-339-y. [PubMed:10188599 ]
Nowicki M, Muller F, Frentzen M: Cardiolipin synthase of Arabidopsis thaliana. FEBS Lett. 2005 Apr 11;579(10):2161-5. doi: 10.1016/j.febslet.2005.03.007. [PubMed:15811335 ]
Houtkooper RH, Akbari H, van Lenthe H, Kulik W, Wanders RJ, Frentzen M, Vaz FM: Identification and characterization of human cardiolipin synthase. FEBS Lett. 2006 May 29;580(13):3059-64. doi: 10.1016/j.febslet.2006.04.054. Epub 2006 Apr 27. [PubMed:16678169 ]
Riekhof WR, Voelker DR: Uptake and utilization of lyso-phosphatidylethanolamine by Saccharomyces cerevisiae. J Biol Chem. 2006 Dec 1;281(48):36588-96. doi: 10.1074/jbc.M608851200. Epub 2006 Oct 2. [PubMed:17015438 ]
Houtkooper RH, Vaz FM: Cardiolipin, the heart of mitochondrial metabolism. Cell Mol Life Sci. 2008 Aug;65(16):2493-506. doi: 10.1007/s00018-008-8030-5. [PubMed:18425414 ]

Showing metabocard for CDP (MMDBc0029668)

MOL for #<Metabolite:0x00007f1220812c50>

3D MOL for #<Metabolite:0x00007f1220812c50>

3D SDF for #<Metabolite:0x00007f1220812c50>

3D-SDF for #<Metabolite:0x00007f1220812c50>

PDB for #<Metabolite:0x00007f1220812c50>

3D PDB for #<Metabolite:0x00007f1220812c50>

SMILES for #<Metabolite:0x00007f1220812c50>

INCHI for #<Metabolite:0x00007f1220812c50>

Structure for #<Metabolite:0x00007f1220812c50>

3D Structure for #<Metabolite:0x00007f1220812c50>