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Ligand 5'-phosphomononucleotides

Basic Ligand Information

Molecular Structure

Related pathways

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Roles as Enzyme Ligand

In Vivo Substrate in Enzyme-catalyzed Reactions (1 result)

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Show Natural Substrate (1 entry)

EC NUMBER

PROVEN IN VIVO REACTION

REACTION DIAGRAM

LITERATURE

ENZYME 3D STRUCTURE

3.1.3.5

a 5'-ribonucleotide + H2O = a ribonucleoside + phosphate

751960, 752251, 752280, 749534, 750020

-

In Vivo Product in Enzyme-catalyzed Reactions (19 results)

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Show Natural Product (19 entries)

EC NUMBER

PROVEN IN VIVO REACTION

REACTION DIAGRAM

LITERATURE

ENZYME 3D STRUCTURE

3.1.11.1

3'-sticky-ended double-strand DNA + H2O = 3'-blunt-ended double-strand DNA + nucleoside 5'-monophosphate

133940

-

3.1.11.1

single-stranded oligodeoxyribonucleotide + H2O = single-stranded oligodeoxyribonucleotide + nucleoside 5'-monophosphate

133941, 133942, 133945, 133939, 133944, 133946, 133943, 133940, -

-

3.1.11.1

single-stranded polydeoxyribonucleotide + H2O = single-stranded oligodeoxynucleotide + nucleoside 5'-monophosphate

133947, 133948, 133949, 133950, 133951, 133952

-

3.1.11.1

3 entries

3.1.11.3

single-stranded DNA + H2O = 5'-phosphomononucleotides

-

-

3.1.13.1

mRNA + H2O = 5'-phosphomononucleotides

134060, 134065, 134064

-

3.1.13.1

precursor tRNA + H2O = mature tRNA + 5'-phosphomononucleotides

134051, 134062

-

3.1.13.1

RNA = 5'-phosphomononucleotides

-

-

3.1.13.1

ss RNA + H2O = 5'-phosphomononucleotides

134049, 134050, 134052, 134066, 134053, 134057, 134055, 134056, 134051, 134059, 134060, 134061, 134062, 134065, 134063, 134058, 134054, 134064

-

3.1.13.1

RNA = nucleoside 5'-monophosphate

-

-

3.1.13.1

RNA + H2O = nucleoside 5'-phosphates + ?

-

-

3.1.13.1

single-stranded RNA + H2O = nucleoside 5'-phosphates + ?

-

-

3.1.13.1

7 entries

3.1.13.3

oligonucleotides + H2O = nucleoside 5'-phosphates

-

-

3.1.26.1

RNA + H2O = nucleoside 5'-monophosphates

134332

-

3.1.26.4

RNA-DNA*DNA hybrid + H2O = DNA*DNA + 5'-phosphomononucleotides

-

-

3.1.30.1

DNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134969, 134971, 134973, 134987, 134997, 134990, 134991, 135004, 134996, 134989, 134968, 134984, 134985, 134986, 95076, 134992, 134994, 134999, 134993, 134998, 134959, 134960, 134961, 134962, 134963, 134965, 134966, 134967, 134970, 134972, 134974, 134975, 134976, 134977, 134978, 134979, 134980, 134981, 134982, 134983, 135000, 135001, 135002, 134988, 134128, 134964

-

3.1.30.1

RNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134969, 134971, 134991, 134989, 134984, 134986, 134999, 134961, 134966, 134967, 134978, 134979, 134983, 135000, 135001, 135002, 134988, 134985, 134965

-

3.1.30.1

2 entries

3.1.4.17

nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate

-

-

3.6.1.24

p-nitrophenyl 5'-nucleotides + H2O = p-nitrophenol + nucleoside phosphate

209999

-

3.6.1.9

polynucleotide + H2O = nucleoside 5'-phosphate + ?

208391

-

Substrate in Enzyme-catalyzed Reactions (4 results)

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Show Substrate (4 entries)

EC NUMBER

REACTION

REACTION DIAGRAM

LITERATURE

ENZYME 3D STRUCTURE

2.1.1.57

S-adenosyl-L-methionine + mononucleotide = ?

639479

-

2.7.7.19

ATP + nucleotide = ?

642936

-

2.7.7.7

nucleotide + DNAn = ?

643590

-

3.1.3.5

a 5'-ribonucleotide + H2O = a ribonucleoside + phosphate

751960, 752251, 752280, 749534, 750020

-

Product in Enzyme-catalyzed Reactions (57 results)

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Show Product (57 entries)

EC NUMBER

REACTION

REACTION DIAGRAM

LITERATURE

ENZYME 3D STRUCTURE

2.7.7.53

NDP + arsenate = NMP + phosphate + ?

643510, 643513

-

3.1.11.1

3'-sticky-ended double-strand DNA + H2O = 3'-blunt-ended double-strand DNA + nucleoside 5'-monophosphate

133940

-

3.1.11.1

single-stranded oligodeoxyribonucleotide + H2O = single-stranded oligodeoxyribonucleotide + nucleoside 5'-monophosphate

133940, 133941, 133944, 133952, 133939, 133942, 133945, 133946, 133943, -

-

3.1.11.1

single-stranded polydeoxyribonucleotide + H2O = single-stranded oligodeoxynucleotide + nucleoside 5'-monophosphate

133947, 133948, 133949, 133950, 133951, 133952

-

3.1.11.1

single-stranded DNA + H2O = single-stranded DNA + nucleoside 5'-monophosphates

-

-

3.1.11.3

oligonucleotides + H2O = 5'-phosphomononucleotides

-

-

3.1.11.3

single-stranded DNA + H2O = 5'-phosphomononucleotides

-

-

3.1.11.3

double-stranded DNA + H2O = single-stranded DNA + mononucleotides

-

-

3.1.13.1

mRNA + H2O = 5'-phosphomononucleotide

-

-

3.1.13.1

mRNA + H2O = 5'-phosphomononucleotides

134060, 134053, 134063, 134066, 134064, 134065, -

-

3.1.13.1

petD3 RNA + H2O = 5'-phosphomononucleotides

-

-

3.1.13.1

precursor tRNA + H2O = mature tRNA + 5'-phosphomononucleotides

134051, 134062

-

3.1.13.1

RNA = 5'-phosphomononucleotides

-

-

3.1.13.1

rRNA = 5'-phosphomononucleotides

-

-

3.1.13.1

ss RNA + H2O = 5'-phosphomononucleotides

134049, 134050, 134052, 134066, 134053, 134057, 134055, 134056, 134051, 134059, 134060, 134061, 134062, 134065, 134063, 134058, 134054, 134064

-

3.1.13.1

ss RNA oligonucleotides with chain lengths less than seven + H2O = 5'-phosphomononucleotides

134050

-

3.1.13.1

T4 mRNA + H2O = 5'-phosphomononucleotides

134052

-

3.1.13.1

RNA = nucleoside 5'-monophosphate

-

-

3.1.13.1

RNA + H2O = nucleoside 5'-phosphates + ?

-

-

3.1.13.1

single-stranded RNA + H2O = nucleoside 5'-phosphates + ?

-

-

3.1.13.3

18mer RNA + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.3

19mer RNA + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.3

34mer RNA + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.3

RNA + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.3

24mer RNA + H2O = nucleoside 5'-phosphates

-

-

3.1.13.3

7mer RNA + H2O = nucleoside 5'-phosphates

-

-

3.1.13.3

DNA + H2O = nucleoside 5'-phosphates

-

-

3.1.13.3

mRNA + H2O = nucleoside 5'-phosphates

-

-

3.1.13.3

oligonucleotides + H2O = nucleoside 5'-phosphates

-

-

3.1.13.3

RNA + H2O = nucleoside 5'-phosphates

-

-

3.1.13.B1

5'-pC-sR47 + H2O = 5'-phosphomononucleotides

-

-

3.1.13.B1

FAD-capped RNA+ H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.B1

miR-382 + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.B1

piR-48164 + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.B1

piR-58320 + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.13.B1

piwi-interacting RNA + H2O = nucleoside 5'-phosphate + ?

-

-

3.1.11.1

4 entries

3.1.11.3

3 entries

3.1.13.1

12 entries

3.1.13.3

10 entries

3.1.13.B1

6 entries

3.1.15.1

dinucleotide monophosphates + H2O = nucleoside + nucleoside 5'-monophosphate

134127

-

3.1.26.1

RNA + H2O = mononucleotides

-

-

3.1.26.1

DNA + H2O = nucleoside 5'-monophosphates

134332

-

3.1.26.1

RNA + H2O = nucleoside 5'-monophosphates

134332

-

3.1.26.1

3 entries

3.1.26.4

RNA-DNA*DNA hybrid + H2O = DNA*DNA + 5'-phosphomononucleotides

-

-

3.1.30.1

DNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134969, 134971, 134973, 134987, 134997, 134990, 134991, 135004, 134996, 134989, 134968, 134984, 134985, 134986, 95076, 134992, 134994, 134999, 134993, 134998, 134959, 134960, 134961, 134962, 134963, 134965, 134966, 134967, 134970, 134972, 134974, 134975, 134976, 134977, 134978, 134979, 134980, 134981, 134982, 134983, 135000, 135001, 135002, 134988, 134128, 134964, -

-

3.1.30.1

dsDNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134971, 134991, 134996, 134999, 134967, 134977, 134988, 134987, 95076, 134962, 134992, 134128, 134980, 134994, 134998, 134963, 134964, 134986

-

3.1.30.1

platinum-DNA complexes + H2O = 5'-phosphomononucleotides + platinum

134977

-

3.1.30.1

RNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134969, 134971, 134991, 134989, 134984, 134986, 134999, 134961, 134966, 134967, 134978, 134979, 134983, 135000, 135001, 135002, 134988, 134985, 134965

-

3.1.30.1

ssDNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134969, 134973, 134987, 134971, 134997, 134990, 135004, 134989, 134984, 134986, 95076, 134992, 134999, 134998, 134962, 134966, 134967, 134972, 134974, 134975, 134976, 134977, 134978, 134979, 134981, 134982, 134983, 135000, 135001, 135002, 134988, 134996, 134960, 134991, 134994, 134959, 134961, 134968, -

-

3.1.30.1

tRNA + H2O = 5'-phosphomononucleotides + 5'-phosphooligonucleotides

134969, 134985, 134965

-

3.1.30.2

DNA + H2O = 5'-phosphonucleotides + 5'-phosphomononucleotides

-

-

3.1.30.2

RNA + H2O = 5'-phosphooligonucleotides + 5'-phosphomononucleotides

-

-

3.1.4.1

5'-p-nitrophenylnucleoside 5'-monophosphate + H2O = nucleoside 5'-monophosphate + p-nitrophenol

134081, 208363, -

-

3.1.4.1

RNA + H2O = RNA(n-1) + nucleoside 5'-phosphate

-

-

3.1.30.1

6 entries

3.1.30.2

2 entries

3.1.4.1

2 entries

3.1.4.17

nucleoside 3',5'-cyclic phosphate + H2O = nucleoside 5'-phosphate

135235, 135217, 135219, 135268, 135271, 135273, 135233, 135236, 135265, 135276, 135279, 135225, 135234, 135240, 135254, 135266, 135214, 135216, 135230, 135228, 135274, 135218, 135213, 135232, 135272, -

-

3.6.1.15

NDP + H2O = NMP + phosphate

-

-

3.6.1.24

p-nitrophenyl 5'-nucleotides + H2O = p-nitrophenol + nucleoside phosphate

209999

-

3.6.1.45

NDP + H2O = NMP + phosphate

-

-

3.6.1.7

nucleoside diphosphate + H2O = nucleoside phosphate + phosphate

-

-

3.6.1.9

polynucleotide + H2O = nucleoside 5'-phosphate + ?

208391

-

Activator in Enzyme-catalyzed Reactions (1 result)

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Show Activating Compound (1 entry)

EC NUMBER

COMMENTARY

LITERATURE

ENZYME 3D STRUCTURE

4.6.1.24

-

683904

-

Inhibitor in Enzyme-catalyzed Reactions (9 results)

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Show Inhibitors (9 entries)

EC NUMBER

COMMENTARY

LITERATURE

ENZYME 3D STRUCTURE

2.4.1.11

overview

488425

-

2.4.1.12

degree of inhibition in decreasing order: nucleoside-triphosphate, nucleoside-diphosphate, nucleoside-monophosphate

637169

-

2.7.2.3

-

642251

-

2.7.2.3

purine nucleotide monophosphates

642257

-

2.7.2.3

2 entries

3.1.31.1

with 5'-phosphate end group

135028

-

3.1.4.1

-

134081

-

3.2.2.2

slight inhibition or no effect

137052

-

3.6.1.9

-

246804

-

4.6.1.24

e.g. 2'-GMP, 3'-GMP, 5'-GMP, 3'-CMP, 2'(3')-UMP

24191

-

Enzyme Kinetic Parameters

k_cat Value (Turnover Number) (4 results)

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Show Turnover Number (4 entries)

EC NUMBER

TURNOVER NUMBER [1/S]

TURNOVER NUMBER MAXIMUM [1/S]

COMMENTARY

LITERATURE

2.7.7.19

3.33

-

-

642936

2.7.7.7

4.17

-

pol II

643590

2.7.7.7

16.7

-

pol I

643590

2.7.7.7

250

-

pol III

643590

2.7.7.7

3 entries

References & Links

Literature References (131)

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Show Reference (131 entries)

BRENDA REFERENCE ID

PUBMED ID

TITLE

YEAR

AUTHORS

JOURNAL

VOLUME

PAGES

24191

-

Microbial ribonucleases with special reference to RNases T1, T2, N1, and U2

1971

Uchida, T.; Egami, F.

The Enzymes, 3rd Ed. (Boyer, P. D. , ed. )

4

205-250

95076

3036008

Single-strand-specific nuclease of pea seeds: glycoprotein nature and associated nucleotidase activity

1987

Naseem, I.; Hadi, S.M.

Arch. Biochem. Biophys.

255

437-445

133939

1854721

Nucleotide positions responsible for the processivity of the reaction of exonuclease I with oligodeoxyribonucleotides

1991

Brody, R.S.

Biochemistry

30

7072-7080

133940

2834321

Physical and biochemical characterization of cloned sbcB and xonA mutations from Escherichia coli K-12

1988

Phillips, G.J.; Prasher, D.C.; Kushner, S.R.

J. Bacteriol.

170

2089-2094

133941

3539937

Determination of the nucleotide sequence for the exonuclease I structural gene (sbcB) of Escherichia coli K12

1987

Phillips, G.J.; Kushner, S.R.

J. Biol. Chem.

262

455-459

133942

10782989

Interaction of E. coli single-stranded DNA binding protein (SSB) with exonuclease I. The carboxy-terminus of SSB is the recognition site for the nuclease

2000

Genschel, J.; Curth, U.; Urbanke, C.

Biol. Chem.

381

183-192

133943

3298213

Synthesis of linear multimers of OriC and pBR322 derivatives in Escherichia coli K-12: Role of recombination and replication functions

1987

Silberstein, Z.; Cohen, A.

J. Bacteriol.

169

3131-3137

133944

3519606

Processivity and kinetics of the reaction of exonuclease I from Escherichia coli with polydeoxyribonucleotides

1986

Brody, R.S.; Doherty, K.G.; Zimmermann, P.D.

J. Biol. Chem.

261

7136-7143

133945

3893543

Stereochemical course of hydrolysis of DNA by exonuclease I from Escherichia coli

1985

Brody, R.S.; Doherty, K.G.

Biochemistry

24

2072-2076

133946

6363393

Exonucleases I, III, and V are required for stability of ColE1-related plasmids in Escherichia coli

1984

Bassett, C.L.; Kushner, S.R.

J. Bacteriol.

157

661-664

133947

6343375

Amplification and purification of exonuclease I from Escherichia coli

1983

Prasher, D.C.; Conarro L.; Kushner, S.R.

J. Biol. Chem.

2558

6340-6343

133948

11400432

Molecular structure of exonuclease I from Escherichia coli B

1974

Mackay, V.; Linn, S.

Biochim. Biophys. Acta

349

131-134

133949

4607228

The purification of exonuclease I from Escherichia coli by affinity chromatography

1974

Ray, R.K.; Reuben, R.; Molineux, I.; Gefter, M.

J. Biol. Chem.

249

5379-5381

133950

4600144

Mutants of Escherichia coli with altered deoxyribonucleases. II. Isolation and characterization of mutants for exonuclease I

1974

Yajko, D.M.; Valentine, M.C.; Weiss, B.

J. Mol. Biol.

85

323-342

133951

-

Exonuclease I (phosphodiesterase) (I) from Escherichia coli

1966

Lehman, I.R.

Procedures in Nucleic Acid Research (Cantoni, G. L. , Davies, D. R. , eds. )

-

203-211

133952

14235546

The deoxyribonucleases of Escherichia coli. V. On the specificity of exonuclease I (phosphodiesterase)

1964

Lehman, I.R.; Nussbaum, A.L.

J. Biol. Chem.

239

2628-2636

134049

14257598

Purification and properties of ribonuclease II from Escherichia coli

1964

Spahr, P.F.

J. Biol. Chem.

239

3716-3726

134050

4867942

The processive degradation of individual polyribonucleotide chains. I. Escherichia coli ribonuclease II

1968

Nossal, N.G.; Singer, M.F.

J. Biol. Chem.

243

913-922

134051

364422

An Escherichia coli ribonuclease which removes an extra nucleotide from a biosynthetic intermediate of bacteriophage T4 proline transfer RNA

1978

Schmidt, F.J.; McClain, W.H.

Nucleic Acids Res.

5

4129-4139

134052

336625

Purification and some novel properties of Escherichia coli RNase II

1977

Gupta, R.S.; Kasai, T.; Schlessinger, D.

J. Biol. Chem.

252

8945-8949

134053

922003

A cytoplasmic exoribonuclease from HeLa cells

1977

Ning Kwan, C.

Biochim. Biophys. Acta

479

322-331

134054

352351

An exoribonuclease from Saccharomyces cerevisiae: effect of modifications of 5'-end groups on the hydrolysis of substrates to 5'-mononucleotides

1978

Stevens, A.

Biochem. Biophys. Res. Commun.

81

656-661

134055

14229658

Purification of a potassium ion-activated RNA, 5'-phosphodiesterase from Lactobacillus casei

1964

Keir, H.M.; Mathog, R.H.; Carter, C.E.

Biochemistry

3

1188-1193

134056

5805304

Studies on nuclear exoribonucleases. 3. Isolation and properties of the enzyme from normal and malignant tissues of the mouse

1969

Sporn, M.B.; Lazarus, H.M.; Smith, J.M.; Henderson, W.R.

Biochemistry

8

1698-1706

134057

758956

A microsomal exoribonuclease from rat liver

1979

Kumagai, H.; Igarshi, K.; Tanaka, K.; Nakao, H.; Hirose, S.

Biochim. Biophys. Acta

566

192-199

134058

2982411

Purification and mode of action of a microsomal exoribonuclease from rat liver

1985

Kumagai, H.; Nakamura, M.; Ozaki, N.; Igarashi, K.; Hirose, S.

Biochim. Biophys. Acta

827

431-438

134059

10446370

The reaction mechanism of ribonuclease II and its interaction with nucleic acid secondary structures

1999

Cannistraro, V.J.; Kennell, D.

Biochim. Biophys. Acta

1433

170-187

134060

7758932

Construction and characterisation of an absolute deletion mutant of Escherichia coli ribonuclease II

1995

Piedade, J.; Zilhao, R.; Arraiano, C.M.

FEMS Microbiol. Lett.

127

187-194

134061

8557629

Overexpression, purification, and properties of Escherichia coli ribonuclease II

1996

Coburn, G.A.; Mackie, G.A.

J. Biol. Chem.

271

1048-1053

134062

7509797

The role of individual exoribonucleases in processing at the 3¦end of Escherichia coli tRNA precursors

1994

Li, Z.; Deutscher, M.P.

J. Biol. Chem.

269

6064-6071

134063

7989354

Purification of a human polyribosome-associated 3'-5'exoribonuclease

1994

Caruccio, N.; Ross, J.

J. Biol. Chem.

269

31814-31821

134064

1721067

Specific ribonuclease activities in spinach chloroplasts promote mRNA maturation and degradation

1991

Hsu-Ching, C.; Stern, D.B.

J. Biol. Chem.

266

24205-24211

134065

1764498

Different specificities of ribonuclease II and polynucleotide phosphorylase in 3'-mRNA decay

1991

Guarneros, G.; Portier, C.

Biochimie

73

543-549

134066

9390555

The exosome: A conserved eukaryotic RNA processing complex containing multiple 3'- to 5'-exoribonucleases

1997

Mitchell, P.; Petfalski, E.; Shevchenko, A.; Mann, M.; Tollervey, D.

Cell

91

457-466

134081

4294333

A new phosphodiesterase forming nucleoside 5'-monophosphate from rat liver. Its partial purification and substrate specificity for nicotinamide adenine dinucleotide and oligonucleotides

1967

Futai, M.; Mizuno, D.

J. Biol. Chem.

242

5301-5307

134127

4293396

Hydrolysis of dinucleoside monophosphates containing arabinose in various internucleotide linkages by exonuclease from the venom of Crotalus adamanteus

1967

Richards, G.M.; Tutas, D.J.; Wechter, W.J.; Laskowski, M.Sr.

Biochemistry

6

2908-2914

134128

9202136

Single-strand-specific DNase activity is an inherent property of the 140-kDa protein of the snake venom exonuclease

1997

Stoynov, S.S.; Bakalova, A.T.; Dimov, S.I.; Mitkova, A.V.; Dolapchiev, L.B.

FEBS Lett.

409

151-154

134332

5817397

Studies on two nucleases and a ribonuclease from Physarum polycephalum. Purification and mode of action

1969

Hiramaru, M.; Uchida, T.; Egami, F.

J. Biochem.

65

701-708

134959

4287053

A nuclease specific for heat denaturated DNA isolated from a product of Aspergillus oryzae

1966

Ando, T.

Biochim. Biophys. Acta

114

158-168

134960

5123563

A crude nuclease preparation suitable for use in DNA reassociation experiments

1971

Sutton, W.D.

Biochim. Biophys. Acta

240

522-531

134961

4691350

Purification and further properties of single-strand-specific nuclease from Aspergillus oryzae

1973

Vogt, V.M.

Eur. J. Biochem.

33

192-200

134962

4722909

Action of the single-stranded DNA specific nuclease S1 on double-stranded DNA

1973

Godson, G.N.

Biochim. Biophys. Acta

308

59-67

134963

-

Action of single-strand-specific S1 endonuclease on locally altered structures in double-stranded DNA

1975

Shishido, K.; Ando, T.

Agric. Biol. Chem.

39

673-681

134964

171268

Specificity of the S1 nuclease from Aspergillus oryzae

1975

Wiegand, R.C.; Godson, G.N.; Radding, C.M.

J. Biol. Chem.

250

8848-8855

134965

1096085

Specific cleavage of tRNA by nuclease S1

1975

Harada, F.; Dahlberg, J.E.

Nucleic Acids Res.

2

865-871

134966

908332

Degradation of nucleic acids in cell lysates by S1 nuclease in the presence of 9 M urea and sodium dodecylsulfate

1977

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eaal2434

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752280

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