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Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
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MetaCyc Compound: IDP

Synonyms: riboxin, inosine diphosphate

Superclasses: a nucleic acid component a nucleotide a nucleoside diphosphate a ribonucleoside diphosphate a purine ribonucleoside 5'-diphosphate
a nucleic acid component a nucleotide a purine nucleotide a purine ribonucleotide a purine ribonucleoside 5'-diphosphate
a nucleic acid component a nucleotide a ribonucleotide a purine ribonucleotide a purine ribonucleoside 5'-diphosphate
a nucleic acid component a nucleotide a ribonucleotide a ribonucleoside diphosphate a purine ribonucleoside 5'-diphosphate
a nucleic acid component
an organic heterocyclic compound an organic heterobicyclic compound a purine a purine nucleotide a purine ribonucleotide a purine ribonucleoside 5'-diphosphate
an organic heterocyclic compound an organonitrogen heterocyclic compound a purine a purine nucleotide a purine ribonucleotide a purine ribonucleoside 5'-diphosphate

Chemical Formula: C10H11N4O11P2

Molecular Weight: 425.16 Daltons

Monoisotopic Molecular Weight: 428.0134303333 Daltons

SMILES: C(OP(=O)([O-])OP([O-])(=O)[O-])C1(OC(C(O)C(O)1)N3(C=NC2(C(=O)NC=NC=23)))

InChI: InChI=1S/C10H14N4O11P2/c15-6-4(1-23-27(21,22)25-26(18,19)20)24-10(7(6)16)14-3-13-5-8(14)11-2-12-9(5)17/h2-4,6-7,10,15-16H,1H2,(H,21,22)(H,11,12,17)(H2,18,19,20)/p-3/t4-,6-,7-,10-/m1/s1

InChIKey: InChIKey=JPXZQMKKFWMMGK-KQYNXXCUSA-K

Unification Links: CAS:86-04-4 , ChEBI:58280 , ChemSpider:3279691 , HMDB:HMDB03335 , IAF1260:33869 , KEGG:C00104 , MetaboLights:MTBLC58280 , PubChem:4064322

Standard Gibbs Free Energy of Change Formation (ΔfG in kcal/mol): -453.86523 Inferred by computational analysis [Latendresse13]

Reactions known to consume the compound:

anaerobic energy metabolism (invertebrates, cytosol) :
oxaloacetate + ITP ← CO2 + phosphoenolpyruvate + IDP

Not in pathways:
IDP + H2O → IMP + phosphate + H+


a 2'-deoxyribonucleoside 5'-diphosphate + an oxidized thioredoxin + H2O ← a ribonucleoside diphosphate + a reduced thioredoxin


ribonucleotiden + ribonucleotiden + ATP → ribonucleotidem+n + AMP + diphosphate


a nucleoside diphosphate + ATP → a nucleoside triphosphate + ADP


a nucleotide + H2O → a nucleoside + phosphate

Reactions known to produce the compound:

Not in pathways:
ITP + H2O → IDP + phosphate + H+

tRNA processing :
a tRNA precursor with a 5' extension and a short 3' extension + n phosphate → a tRNA precursor with a 5' extension + a ribonucleoside diphosphate
a tRNA precursor with a short 3' extension + n phosphate → an uncharged tRNA + n a ribonucleoside diphosphate


a tRNA precursor + H2O → a tRNA + a ribonucleotide

jadomycin biosynthesis :
a nucleotide diphosphate-L-digitoxose + jadomycin A → jadomycin B + a nucleoside diphosphate + H+

phytol salvage pathway :
phytyl monophosphate + a nucleoside triphosphate → phytyl diphosphate + a nucleoside diphosphate

pyrimidine deoxyribonucleosides salvage :
2'-deoxycytidine + a nucleoside triphosphate → dCMP + a nucleoside diphosphate + H+

staphyloxanthin biosynthesis :
4,4'-diaponeurosporenoate + a nucleoside diphosphate-glucose → glucosyl-4,4'-diaponeurosporenoate + a nucleoside diphosphate


a nucleoside 5'-monophosphate + ATP → a nucleoside diphosphate + ADP
a nucleoside triphosphate + H2O → a nucleoside diphosphate + phosphate + H+

Reactions known to both consume and produce the compound:

trehalose biosynthesis VI :
an NDP-α-D-glucose + D-glucopyranose ↔ α,α-trehalose + a nucleoside diphosphate + H+

Not in pathways:
(ribonucleotides)(n) + phosphate ↔ (ribonucleotides)(n-1) + a nucleoside diphosphate

In Reactions of unknown directionality:

Not in pathways:
succinate + ITP + coenzyme A = succinyl-CoA + IDP + phosphate
ADP + H2O + H+ = IDP + ammonium
ATP + IDP = ITP + ADP


a purine ribonucleoside 5'-triphosphate + adenosylcobinamide = adenosyl-cobinamide phosphate + a purine ribonucleoside 5'-diphosphate + H+


a nucleoside diphosphate + H2O = a nucleoside 5'-monophosphate + phosphate + H+
an α-D-aldose 1-phosphate + a nucleoside diphosphate + H+ = a nucleotide diphosphate-aldose + phosphate
D-fructofuranose + a nucleoside diphosphate-glucose = a nucleoside diphosphate + sucrose + H+
an NDP-α-D-glucose + 3-phospho-D-glycerate = 2-O-(α-D-glucopyranosyl)-3-phospho-D-glycerate + a nucleoside diphosphate + H+
RNA(n+1) + phosphate = RNA(n) + a nucleoside diphosphate
a nucleoside diphosphate-glucose + a 1,4-α-D-glucan = a nucleoside diphosphate + a 1,4-α-D-glucan
a nucleoside triphosphate + AMP = a nucleoside diphosphate + ADP


a nucleotide + a 2'-deoxynucleoside = a nucleoside + a 2'-deoxyribonucleoside 5'-monophosphate


References

Latendresse13: Latendresse M. (2013). "Computing Gibbs Free Energy of Compounds and Reactions in MetaCyc."


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of MetaCyc: Caspi et al, Nucleic Acids Research 42:D459-D471 2014
Page generated by SRI International Pathway Tools version 18.5 on Fri Nov 21, 2014, biocyc14.