4.1.2.4: deoxyribose-phosphate aldolase
This is an abbreviated version!
For detailed information about deoxyribose-phosphate aldolase, go to the full flat file.
Word Map on EC 4.1.2.4
Reaction
Synonyms
2-deoxy-D-ribose 5-phosphate aldolase, 2-deoxy-D-ribose-5-phosphate aldolase, 2-deoxyribose 5-phosphate aldolase, 2-Deoxyribose-5-phosphate aldolase, aldolase, deoxyribo, CGI-26, D-2-deoxyribose-5-phosphate aldolase, d5RP aldolase, DeoC, Deoxyriboaldolase, deoxyribose 5-phosphate aldolase, deoxyribose phosphate aldolase-like protein, Deoxyribose-5-phosphate aldolase, deoxyribose-phosphate aldolase, DERA, DPA, DR aldolase, Phosphodeoxyriboaldolase, TgDERA, TgDPA, Tk-DeoC, TK2104, TtDERA
ECTree
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Reference on EC 4.1.2.4 - deoxyribose-phosphate aldolase
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REF. 
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Valentin-Hansen, P.; Boetius, F.; Hammer-Jespersen, K.; Svendsen, I.
The primary structure of Escherichia coli K12 2-deoxyribose 5-phosphate aldolase
Eur. J. Biochem.
125
561-566
1982
Escherichia coli
Wilton, D.C.
Acrolein, an irreversible active-site-directed inhibitor of deoxyribose 5-phosphate aldolase?
Biochem. J.
153
495-497
1976
Salmonella enterica subsp. enterica serovar Typhimurium
Hoffee, P.
Deoxyribose-5-phosphate aldolase from Salmonella typhimurium
Methods Enzymol.
42C
276-279
1975
Salmonella enterica subsp. enterica serovar Typhimurium
Hoffee, P.; Snyder, P.; Shushak, C.; Jargiello, P.
Deoxyribose-5-phosphate aldolase: subunit structure and composition of active site lysine region
Arch. Biochem. Biophys.
164
736-742
1974
Salmonella enterica subsp. enterica serovar Typhimurium
Jedziniak, J.A.; Lionetti, F.J.
Purification and properties of deoxyriboaldolase from human erythrocytes
Biochim. Biophys. Acta
212
478-487
1970
Homo sapiens
Hoffee, P.A.
2-Deoxyribose-5-phosphate aldolase of Salmonella typhimurium: purification and properties
Arch. Biochem. Biophys.
126
795-802
1968
Salmonella enterica subsp. enterica serovar Typhimurium
Groth, D.P.
Deoxyribose 5-phosphate aldolase. II. Purification and properties of the rat liver enzyme
J. Biol. Chem.
242
155-159
1967
Rattus norvegicus
Groth, D.P.
Deoxyribose 5-phosphate aldolase
Methods Enzymol.
9
549-554
1966
Rattus norvegicus
-
Hoffee, P.; Rosen, O.M.; Horecker, B.L.
Deoxyribose 5-phosphate aldolase. I. Lactobacillus plantarum
Methods Enzymol.
9
545-549
1966
Lactiplantibacillus plantarum
-
Rosen, O.M.; Hoffee, P.; Horecker, B.L.
The mechanism of action of aldolases. VII. Formation of a 2-methyl-2-deoxypentose catalyzed by deoxyribose 5-phosphate aldolase
J. Biol. Chem.
240
1517-1524
1965
Lactiplantibacillus plantarum
Racker, E.
Enzymatic synthesis and breakdown of desoxyribose phosphate
J. Biol. Chem.
196
347-365
1951
Escherichia coli, Escherichia coli 4157
Cocks, B.G.; Brake, F.A.; Mitchell, A.; Finch, L.R.
Enzymes of intermediary carbohydrate metabolism in Ureaplasma urealyticum and Mycoplasma mycoides subsp. mycoides
J. Gen. Microbiol.
131
2129-2135
1985
Mycoplasma mycoides, Ureaplasma urealyticum
Odelson, D.A.; Patterson, M.A.; Hespell, R.B.
Periplasmic enzymes in Bdellovibrio bacteriovorus and Bdellovibrio stolpii
J. Bacteriol.
151
756-763
1982
Bdellovibrio bacteriovorus, Bacteriovorax stolpii, Bacteriovorax stolpii UKi2, Bdellovibrio bacteriovorus 109J
Lincoln, D.W.; Hoffee, P.
Deoxyribose 5-phosphate aldolase: an enzyme that peaks in the G2 phase of rat hepatoma cells
Arch. Biochem. Biophys.
193
392-397
1979
Rattus norvegicus
Hespell, R.B.; Odelson, D.A.
Metabolism of RNA-ribose by Bdellovibrio bacteriovorus during intraperiplasmic growth on Escherichia coli
J. Bacteriol.
136
936-946
1978
Bdellovibrio bacteriovorus, Escherichia coli, Bdellovibrio bacteriovorus 109J
Jargiello, P.; Sushak, C.; Hoffee, P.
2-Deoxyribose-5-phosphate aldolase: isolation and characterization of proteins genetically modified in the active site region
Arch. Biochem. Biophys.
177
630-641
1976
Salmonella enterica subsp. enterica serovar Typhimurium
Corina, D.L.; Wilton, D.C.
An apparent lack of stereospecificity in the reaction catalyzed by deoxyribose 5-phosphate aldolase due to methyl-group rotation and enolization before product release
Biochem. J.
157
573-576
1976
Salmonella enterica subsp. enterica serovar Typhimurium
Jargiello, P.; Stern, M.D.; Hoffee, P.
2-Deoxyribose 5-phosphate aldolase: genetic analyses of structure
J. Mol. Biol.
88
671-691
1974
Salmonella enterica subsp. enterica serovar Typhimurium
Sgarella, F.; del Corso, A.; Tozzi, M.G.; Camici, M.
Deoxyribose 5-phosphate aldolase of Bacillus cereus: purification and properties
Biochim. Biophys. Acta
1118
130-133
1992
Bacillus cereus
Sgarella, F.; Poddie, F.P.A.; Meloni, M.A.; Sciola, L.; Pippia, P.; Tozzi, M.G.
Chanelling of deoxyribose moiety of exogenous DNA into carbohydrate metabolism: role of deoxyriboaldolase
Comp. Biochem. Physiol. B
117
253-257
1997
Bacillus cereus, Bos taurus, Gallus gallus, Oryctolagus cuniculus, Equus asinus, Equus caballus, Ovis aries, Homo sapiens, Rattus norvegicus, Sus scrofa
Stura, E.A.; Ghosh, S.; Garcia-Junceda, E.; Chen, L.; Wong, C.H.; Wilson, I.A.
Crystallization and preliminary crystallographic data for class I deoxyribose-5-phosphate aldolase from Escherichia coli: an application of reverse screening
Proteins Struct. Funct. Genet.
22
67-72
1995
Escherichia coli
Tozzi, M.G.; Sgarrella, F.; Barsacchi, D.; Ipata, P.L.
Induction of deoxyribose-5-phosphate aldolase of Bacillus cereus by deoxyribonucleosides
Biochem. Int.
9
319-325
1984
Bacillus cereus
Barbas, C.F.; Wang, Y.F.; Wong, C.H.
Deoxyribose-5-phosphate aldolase as a synthetic catalyst
J. Am. Chem. Soc.
112
2013-2014
1990
Escherichia coli
-
Chen, L.; Dumas, D.P.; Wong, C.H.
Deoxyribose-5-phosphate aldolase as a catalyst in asymetric aldol condensation
J. Am. Chem. Soc.
114
741-748
1992
Escherichia coli
-
Wong, C.H.; Garcia-Junceda, E.; Chen, L.; Blanco, O.; Gijsen, H.J.M.; Steensma, D.H.
Recombinant 2-deoxyribose-5-phosphate aldolase in organic synthesis: use of sequential two-substrate and three-substrate aldol reactions
J. Am. Chem. Soc.
117
3333-3339
1995
Escherichia coli, Escherichia coli DH5-alpha
-
Horinouchi, N.; Ogawa, J.; Sakai, T.; Kawano, T.; Matsumoto, S.; Sasaki, M.; Mikami, Y.; Shimizu, S.
Construction of deoxyriboaldolase-overexpressing Escherichia coli and its application to 2-deoxyribose 5-phosphate synthesis from glucose and acetaldehyde for 2'-deoxyribonucleoside production
Appl. Environ. Microbiol.
69
3791-3797
2003
Klebsiella pneumoniae (Q7WT44), Klebsiella pneumoniae, Klebsiella pneumoniae B-4-4 (Q7WT44), Klebsiella pneumoniae B-4-4
DeSantis, G.; Liu, J.; Clark, D.P.; Heine, A.; Wilson, I.A.; Wong, C.H.
Structure-based mutagenesis approaches toward expanding the substrate specificity of D-2-deoxyribose-5-phosphate aldolase
Bioorg. Med. Chem.
11
43-52
2003
Escherichia coli
Sasaki, M.; Mikami, Y.; Shimizu, S.
Microbial production of 2-deoxyribose 5-phosphate from acetaldehyde and triosephosphate for the synthesis of 2'-deoxyribonucleosides
Biosci. Biotechnol. Biochem.
67
933-936
2003
Klebsiella pneumoniae, Klebsiella pneumoniae B-4-4
Han, T.K.; Zhu, Z.; Dao, M.L.
Identification, molecular cloning, and sequence analysis of a deoxyribose aldolase in Streptococcus mutans GS-5
Curr. Microbiol.
48
230-236
2004
Streptococcus mutans (Q9AIP7), Streptococcus mutans GS-5 (Q9AIP7)
Sakuraba, H.; Tsuge, H.; Shimoya, I.; Kawakami, R.; Goda, S.; Kawarabayasi, Y.; Katunuma, N.; Ago, H.; Miyano, M.; Ohshima, T.
The first crystal structure of archaeal aldolase. Unique tetrameric structure of 2-deoxy-D-ribose-5-phosphate aldolase from the hyperthermophilic archaea Aeropyrum pernix
J. Biol. Chem.
278
10799-10806
2003
Aeropyrum pernix (Q9Y948), Aeropyrum pernix
Rashid, N.; Imanaka, H.; Fukui, T.; Atomi, H.; Imanaka, T.
Presence of a novel phosphopentomutase and a 2-deoxyribose 5-phosphate aldolase reveals a metabolic link between pentoses and central carbon metabolism in the hyperthermophilic archaeon Thermococcus kodakaraensis
J. Bacteriol.
186
4185-4191
2004
Thermococcus kodakarensis (Q877I0), Thermococcus kodakarensis
Lokanath, N.K.; Shiromizu, I.; Ohshima, N.; Nodake, Y.; Sugahara, M.; Yokoyama, S.; Kuramitsu, S.; Miyano, M.; Kunishima, N.
Structure of aldolase from Thermus thermophilus HB8 showing the contribution of oligomeric state to thermostability
Acta Crystallogr. Sect. D
60
1816-1823
2004
Thermus thermophilus, Thermus thermophilus HB8 / ATCC 27634 / DSM 579
Heine, A.; Luz, J.G.; Wong, C.H.; Wilson, I.A.
Analysis of the class I aldolase binding site architecture based on the crystal structure of 2-deoxyribose-5-phosphate aldolase at 0.99A resolution
J. Mol. Biol.
343
1019-1034
2004
Escherichia coli (P0A6L0)
Liu, J.; Hsu, C.C.; Wong, C.H.
Sequential aldol condensation catalyzed by DERA mutant Ser238Asp and a formal total synthesis of atorvastatin
Tetrahedron Lett.
45
2439-2441
2004
Escherichia coli
-
Sakuraba, H.; Yoneda, K.; Yoshihara, K.; Satoh, K.; Kawakami, R.; Uto, Y.; Tsuge, H.; Takahashi, K.; Hori, H.; Ohshima, T.
Sequential aldol condensation catalyzed by hyperthermophilic 2-deoxy-D-ribose-5-phosphate aldolase
Appl. Environ. Microbiol.
73
7427-7434
2007
Pyrobaculum aerophilum, Thermotoga maritima
Horinouchi, N.; Ogawa, J.; Kawano, T.; Sakai, T.; Saito, K.; Matsumoto, S.; Sasaki, M.; Mikami, Y.; Shimizu, S.
Efficient production of 2-deoxyribose 5-phosphate from glucose and acetaldehyde by coupling of the alcoholic fermentation system of Bakers yeast and deoxyriboaldolase-expressing Escherichia coli
Biosci. Biotechnol. Biochem.
70
1371-1378
2006
Escherichia coli, Escherichia coli 10B5/pTS8
Jennewein, S.; Schuermann, M.; Wolberg, M.; Hilker, I.; Luiten, R.; Wubbolts, M.; Mink, D.
Directed evolution of an industrial biocatalyst: 2-deoxy-D-ribose 5-phosphate aldolase
Biotechnol. J.
1
537-548
2006
Escherichia coli
Horinouchi, N.; Ogawa, J.; Kawano, T.; Sakai, T.; Saito, K.; Matsumoto, S.; Sasaki, M.; Mikami, Y.; Shimizu, S.
One-pot microbial synthesis of 2-deoxyribonucleoside from glucose, acetaldehyde, and a nucleobase
Biotechnol. Lett.
28
877-881
2006
Escherichia coli, Escherichia coli 10B5/pTS8
Feron, G.; Mauvais, G.; Martin, F.; Semon, E.; Blin-Perrin, C.
Microbial production of 4-hydroxybenzylidene acetone, the direct precursor of raspberry ketone
Lett. Appl. Microbiol.
45
29-35
2007
Bacillus cereus, Bacillus subtilis, Escherichia coli
Ueno, A.; Dautu, G.; Munyaka, B.; Carmen, G.; Kobayashi, Y.; Igarashi, M.
Toxoplasma gondii: Identification and characterization of bradyzoite-specific deoxyribose phosphate aldolase-like gene (TgDPA)
Exp. Parasitol.
121
55-63
2009
Toxoplasma gondii
Rashid, N.; Imanaka, H.; Imanaka, T.
An archaeal 2-deoxyribose 5-phosphate aldolase that exhibits closer homology to bacteria rather than archaea
J. Chem. Soc. Pak.
30
740-749
2008
Thermococcus kodakarensis (Q877I0)
-
Stanton, C.L.; Houk, K.N.
Benchmarking pKa prediction methods for residues in proteins
J. Chem. Theory Comput.
4
951-966
2008
Escherichia coli (P0A6L0)
Pei, X.; Wang, Q.; Qiu, X.; Ying, L.; Tao, J.; Xie, T.
The fed-batch production of a thermophilic 2-deoxyribose-5-phosphate aldolase (DERA) in Escherichia coli by exponential feeding strategy control
Appl. Biochem. Biotechnol.
162
1423-1434
2010
Hyperthermus butylicus
Poutanen, M.; Varhimo, E.; Kalkkinen, N.; Sukura, A.; Varmanen, P.; Savijoki, K.
Two-dimensional difference gel electrophoresis analysis of Streptococcus uberis in response to mutagenesis-inducing ciprofloxacin challenge
J. Proteome Res.
8
246-255
2009
Streptococcus uberis
Kim, Y.M.; Chang, Y.H.; Choi, N.S.; Kim, Y.; Song, J.J.; Kim, J.S.
Cloning, expression, and characterization of a new deoxyribose 5-phosphate aldolase from Yersinia sp. EA015
Protein Expr. Purif.
68
196-200
2009
Yersinia sp. EA015 (C0LSK9)
Wang, Q.; Chen, R.; Du, P.; Wu, H.; Pei, X.; Yang, B.; Yang, L.; Huang, L.; Liu, J.; Xie, T.
Cloning and characterization of thermostable-deoxy-D-ribose-5-phosphate aldolase from Hyperthermus butylicus
Afr. J. Biotechnol.
9
2898-2905
2010
Hyperthermus butylicus (A2BLE9)
-
Pei, X.; Wang, Q.; Li, C.; Qiu, X.; Xie, K.; Huang, L.; Wang, A.; Zeng, Z.; Xie, T.
Efficient production of a thermophilic 2-deoxyribose-5-phosphate aldolase in glucose-limited fed-batch cultivations of Escherichia coli by continuous lactose induction strategy
Appl. Biochem. Biotechnol.
165
416-425
2011
Hyperthermus butylicus
Kim, Y.M.; Choi, N.S.; Kim, Y.O.; Son, D.H.; Chang, Y.H.; Song, J.J.; Kim, J.S.
Expression and characterization of a novel deoxyribose 5-phosphate aldolase from Paenibacillus sp. EA001
J. Microbiol. Biotechnol.
20
995-1000
2010
Paenibacillus sp. (C7E719), Paenibacillus sp. EA001 (C7E719)
Ueno, A.; Dautu, G.; Saiki, E.; Haga, K.; Igarashi, M.
Toxoplasma gondii deoxyribose phosphate aldolase-like protein (TgDPA) interacts with actin depolymerizing factor (TgADF) to enhance the actin filament dynamics in the bradyzoite stage
Mol. Biochem. Parasitol.
173
39-42
2010
Toxoplasma gondii, Toxoplasma gondii RH
Yin, X.; Wang, Q.; Zhao, S.; Du, P.; Xie, K.; Jin, P.; Xie, T.
Cloning and characterization of a thermostable 2-deoxy-D-ribose-5-phosphate aldolase from Aciduliprofundum boonei
Afr. J. Biotechnol.
10
16260-16266
2011
Aciduliprofundum boonei (B5IEU6)
-
Kullartz, I.; Pietruszka, J.
Cloning and characterisation of a new 2-deoxy-D-ribose-5-phosphate aldolase from Rhodococcus erythropolis
J. Biotechnol.
161
174-180
2012
Rhodococcus erythropolis (JN665070), Rhodococcus erythropolis, Rhodococcus erythropolis DSM 311 (JN665070)
Reinicke, S.; Rees, H.C.; Espeel, P.; Vanparijs, N.; Bisterfeld, C.; Dick, M.; Rosencrantz, R.R.; Brezesinski, G.; de Geest, B.G.; Du Prez, F.E.; Pietruszka, J.; Boeker, A.
Immobilization of 2-deoxy-D-ribose-5-phosphate aldolase in polymeric thin films via the Langmuir-Schaefer Technique
ACS Appl. Mater. Interfaces
9
8317-8326
2017
Escherichia coli
Subrizi, F.; Crucianelli, M.; Grossi, V.; Passacantando, M.; Botta, G.; Antiochia, R.; Saladino, R.
Versatile and efficient immobilization of 2-deoxyribose-5-phosphate aldolase (DERA) on multiwalled carbon nanotubes
ACS Catal.
4
3059-3068
2014
Escherichia coli (P0A6L0)
-
Li, J.; Yang, J.; Men, Y.; Zeng, Y.; Zhu, Y.; Dong, C.; Sun, Y.; Ma, Y.
Biosynthesis of 2-deoxysugars using whole-cell catalyst expressing 2-deoxy-D-ribose 5-phosphate aldolase
Appl. Microbiol. Biotechnol.
99
7963-7972
2015
Klebsiella pneumoniae
Salleron, L.; Magistrelli, G.; Mary, C.; Fischer, N.; Bairoch, A.; Lane, L.
DERA is the human deoxyribose phosphate aldolase and is involved in stress response
Biochim. Biophys. Acta
1843
2913-2925
2014
Homo sapiens (Q9Y315), Homo sapiens
Zhang, S.; Bisterfeld, C.; Bramski, J.; Vanparijs, N.; De Geest, B.G.; Pietruszka, J.; Boeker, A.; Reinicke, S.
Biocatalytically active thin films via self-assembly of 2-deoxy-D-ribose-5-phosphate aldolase-poly(N-isopropylacrylamide) conjugates
Bioconjug. Chem.
29
104-116
2018
Escherichia coli
Ma, H.; Szeler, K.; Kamerlin, S.C.L.; Widersten, M.
Linking coupled motions and entropic effects to the catalytic activity of 2-deoxyribose-5-phosphate aldolase (DERA)
Chem. Sci.
7
1415-1421
2016
Escherichia coli (P0A6L0)
Bramski, J.; Dick, M.; Pietruszka, J.; Classen, T.
Probing the acetaldehyde-sensitivity of 2-deoxy-ribose-5-phosphate aldolase (DERA) leads to resistant variants
J. Biotechnol.
258
56-58
2017
Rhodococcus erythropolis (C0ZUQ6), Rhodococcus erythropolis NBRC 100887 (C0ZUQ6)
Woo, M.; Kim, M.; Chung, N.; Kim, J.
Expression and characterization of a novel 2-deoxyribose-5-phosphate aldolase from Haemophilus influenzae Rd KW20
J. Korean Soc. Appl. Biol. Chem.
57
655-660
2014
Haemophilus influenzae (P44430), Haemophilus influenzae DSM 11121 (P44430)
-
Cao, T.P.; Kim, J.S.; Woo, M.H.; Choi, J.M.; Jun, Y.; Lee, K.H.; Lee, S.H.
Structural insight for substrate tolerance to 2-deoxyribose-5-phosphate aldolase from the pathogen Streptococcus suis
J. Microbiol.
54
311-321
2016
Streptococcus suis (D5AHU8), Streptococcus suis, Streptococcus suis GZ1 (D5AHU8)
Tonkin, M.L.; Halavaty, A.S.; Ramaswamy, R.; Ruan, J.; Igarashi, M.; Ngo, H.M.; Boulanger, M.J.
Structural and functional divergence of the aldolase fold in Toxoplasma gondii
J. Mol. Biol.
427
840-852
2015
Toxoplasma gondii (A0A125YLW2), Toxoplasma gondii, Toxoplasma gondii ATCC 50611 (A0A125YLW2)
Fei, H.; Xu, G.; Wu, J.; Yang, L.
Improvement of the thermal stability and aldehyde tolerance of deoxyriboaldolase via immobilization on nano-magnet material
J. Mol. Catal. B
101
87-91
2014
Escherichia coli
-
Hassan, I.A.; Wang, S.; Xu, L.; Yan, R.; Song, X.; Li, X.
DNA vaccination with a gene encoding Toxoplasma gondii deoxyribose phosphate aldolase (TgDPA) induces partial protective immunity against lethal challenge in mice
Parasit. Vectors
7
431
2014
Toxoplasma gondii, Toxoplasma gondii RH
Ohshida, T.; Hayashi, J.; Satomura, T.; Kawakami, R.; Ohshima, T.; Sakuraba, H.
First characterization of extremely halophilic 2-deoxy-D-ribose-5-phosphate aldolase
Protein Expr. Purif.
126
62-68
2016
Haloarcula japonica (A0A1Q2T258), Haloarcula japonica
Bisterfeld, C.; Küberl, I.; Dick, M.; Pietruszka, J.
A fluorogenic screening for enantio- and diastereoselectivity of 2-deoxy-D-ribose-5-phosphate aldolases
Synlett
27
11-16
2016
Escherichia coli, Pyrobaculum aerophilum, Rhodococcus erythropolis, Thermotoga maritima, Colwellia psychrerythraea, Shewanella halifaxensis
-
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