DR5P – 2-Deoxy-D-ribose 5-phosphate

Name
WID	DR5P
Name	2-Deoxy-D-ribose 5-phosphate
Traditional name	(3,5-dihydroxyoxolan-2-yl)methyl phosphate
IUPAC name	(3,5-dihydroxyoxolan-2-yl)methyl phosphate
Cross references	ChEBI: 16132, BiGG: 2dr5p, PubChem: 3942, ThreeDMET: B04714, KEGG: C00673, BioCyc: DEOXY-RIBOSE-5P

Classification
Type	carbohydrate_sugar_phosphate

Structure
Empirical formula (pH 7.5)	H₉C₅O₇P₁
SMILES (pH 7.5)	OC1CC(O)C(COP([O-])([O-])=O)O1
Charge (pH 7.5)	-2
Is hydrophobic	False
Molecular weight (Da)	212.09
van der Waals volume (pH 7.5; Å³ molecule^‑1)	159.69
Δ_fG^'o (pH 7.5, 25C, I = 0; kJ mol^‑1)	-1044.40
logP	-1.53
logD (pH 7.5)	-4.88

Function
Reaction participant	5'-deoxyribophosphodiesterase; exonuclease [c]: dRibose5P_dRibose5P + H2O ⇒ (2) DR5P + H base excision (uracil) [c]: DUMP + H2O ⇒ DR5P + URA base excision (8-Oxo-guanine; 8-hydroxyguanine) [c]: H2O + oxo8dGMP ⇒ DR5P + oxo8GN deoxyribose 5'-phosphate lyase [c]: dRibose5P_dRibose5P + H2O ⇒ (2) DR5P + H Spontaneous base loss (guanine) [c]: DGMP + H2O ⇒ DR5P + GN ... 18 more DNA recombination Holliday junction resolution [c]: (2) dRibose5P_dRibose5P + (2) H2O ⇒ (4) DR5P + (2) H base excision (4,6-diamino-5-N-formamidopyrimidine) [c]: FAPydAMP + H2O ⇒ DR5P + FAPyAD deoxyribose-phosphate aldolase [c]: DR5P ⇒ ACAL + T3P1 DNA ligationi [c]: (2) DR5P + NAD ⇒ AMP + dRibose5P_dRibose5P + H + NMN Radiation (gamma-ray) induced strand break dRibose5P_dRibose5P[c] + gamma_radiation[e] + H2O[c] ⇒ (2) DR5P[c] + H[c] MunI DNA restriction/modification, DNA restriction [c]: (2) dRibose5P_dRibose5P + (2) H2O ⇒ (4) DR5P + (2) H Spontaneous abasic site strand break [c]: dRibose5P_dRibose5P + H2O ⇒ (2) DR5P + H base excision (2,6-diamino-4-hydroxy-5-formamidopyrimidine) [c]: FAPydGMP + H2O ⇒ DR5P + FAPyGN base excision (8-hydroxyadenine) [c]: H2O + oxo8dAMP ⇒ DR5P + oxo8AD DNA ligation [c]: (2) DR5P + NAD ⇒ AMP + dRibose5P_dRibose5P + H + NMN Spontaneous base loss (thymine) [c]: DTMP + H2O ⇒ DR5P + THY Spontaneous base loss (cytosine) [c]: DCMP + H2O ⇒ CSN + DR5P base excision (5-hydroxyuracil) [c]: H2O + ho5dUMP ⇒ DR5P + ho5URA 5'-apurinic/apyrimidinic endonuclease [c]: dRibose5P_dRibose5P + H2O ⇒ (2) DR5P + H DNA incision [c]: ATP + (2) dRibose5P_dRibose5P + (3) H2O ⇒ ADP + (4) DR5P + (3) H + PI EcoD DNA restriction/modification, DNA restriction [c]: ATP + (2) dRibose5P_dRibose5P + (3) H2O ⇒ ADP + (4) DR5P + (3) H + PI Spontaneous base loss (adenine) [c]: DAMP + H2O ⇒ AD + DR5P 3'-apurinic/apyrimidinic lyase [c]: dRibose5P_dRibose5P + H2O ⇒ (2) DR5P + H

Metadata
Created	2012-10-01 15:06:55
Last updated	2012-10-01 15:12:04