Ligand (ribonucleotide)n+m

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Basic Ligand Information

Molecular Structure

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Molecular Formula

BRENDA Name

InChIKey

C₅₀H₁₀₂N₁₀O₆₁P₁₀

(ribonucleotide)n+m

METAFPMPXCSMBQ-BRHYBXGJSA-N

Pathway Source

Pathways

KEGG

Amyotrophic lateral sclerosis, Coronavirus disease - COVID-19, Purine metabolism, Pyrimidine metabolism

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Roles as Enzyme Ligand

In Vivo Product in Enzyme-catalyzed Reactions (4 results)

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EC NUMBER

PROVEN IN VIVO REACTION

REACTION DIAGRAM

LITERATURE

ENZYME 3D STRUCTURE

6.5.1.3

ATP + (ribonucleotide)n + (ribonucleotide)m = AMP + diphosphate + (ribonucleotide)n+m

650653, 651061, 652429, 653234, 653369, 654015, 652246, 650172, 653368, 653882, 653392, 653915, 651051, 653679, 653889, 651858, 653869, 650982, 653217, 652387,

6.5.1.3

ATP + (ribonucleotide)n-3'-hydroxyl + 5'-phospho-(ribonucleotide)m = (ribonucleotide)n+m + AMP + diphosphate

6.5.1.8

(ribonucleotide)n-2',3'-cyclophosphate + 5'-hydroxy-(ribonucleotide)m + GTP + H2O = (ribonucleotide)n+m + GMP + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + GTP = (ribonucleotide)n+m + GMP + diphosphate

Product in Enzyme-catalyzed Reactions (22 results)

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EC NUMBER

REACTION

REACTION DIAGRAM

LITERATURE

ENZYME 3D STRUCTURE

6.5.1.3

8-Bromoadenosine 5'-triphosphate + (ribonucleotide)n + (ribonucleotide)m = 8-Bromoadenosine monophosphate + (ribonucleotide)n+m

6.5.1.3

8-Sulfoadenosine 5'-triphosphate + (ribonucleotide)n + (ribonucleotide)m = 8-Sulfoadenosinemonophosphate + phosphate + (ribonucleotide)n+m

6.5.1.3

ATP + (ribonucleotide)n + (ribonucleotide)m = AMP + diphosphate + (ribonucleotide)n+m

1985, 1983, 1999, , 1996, 650982, 651858, 653217, 653869, 653889, 1910, 1986, 1989, 1990, 1992, 1998, 2000, 2001, 650653, 651051, 651061, 652387, 652429, 653234, 653369, 653679, 654015, 652246, 1997, 650172, 653368, 653882, 653392, 653915, 1984, 1987, 1988, 1991, 1995, 1994, 1993, 649963

6.5.1.3

ATP + (ribonucleotide)n-3'-hydroxyl + 5'-phospho-(ribonucleotide)m = (ribonucleotide)n+m + AMP + diphosphate

6.5.1.3

dATP + (ribonucleotide)n + (ribonucleotide)m = dAMP + phosphate + (ribonucleotide)n+m

6.5.1.3

ITP + (ribonucleotide)n + (ribonucleotide)m = IMP + phosphate + (ribonucleotide)n+m

6.5.1.8

(ribonucleotide)n-2',3'-cyclophosphate + 5'-hydroxy-(ribonucleotide)m + ATP + H2O = (ribonucleotide)n+m + AMP + diphosphate

6.5.1.8

(ribonucleotide)n-2',3'-cyclophosphate + 5'-hydroxy-(ribonucleotide)m + CTP + H2O = (ribonucleotide)n+m + CMP + diphosphate

6.5.1.8

(ribonucleotide)n-2',3'-cyclophosphate + 5'-hydroxy-(ribonucleotide)m + GTP + H2O = (ribonucleotide)n+m + GMP + diphosphate

6.5.1.8

(ribonucleotide)n-2',3'-cyclophosphate + 5'-hydroxy-(ribonucleotide)m + UTP + H2O = (ribonucleotide)n+m + UMP + diphosphate

6.5.1.8

(ribonucleotide)n-2',3'-cyclophosphate + 5'-hydroxy-(ribonucleotide)m = (ribonucleotide)n+m

6.5.1.8

(ribonucleotide)n-3'-(5'-diphosphoguanosine) + 5'-hydroxy-(ribonucleotide)m = (ribonucleotide)n+m + GMP

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + 2-aminopurine-riboside-5'-triphosphate = (ribonucleotide)n+m + 2-aminopurine-riboside-5'-monophosphate + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + 2-mercaptopurine-riboside-5'-triphosphate = (ribonucleotide)n+m + 2-mercaptopurine-riboside-5'-monophosphate + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + 6-chloropurine-riboside-5'-triphosphate = (ribonucleotide)n+m + 6-chloropurine-riboside-5'-monophosphate + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + 6-O-methylguanosine triphosphate = (ribonucleotide)n+m + 6-O-methylguanosine phosphate + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + ATP = (ribonucleotide)n+m + AMP + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + CTP = (ribonucleotide)n+m + CMP + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + GTP = (ribonucleotide)n+m + GMP + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + ITP = (ribonucleotide)n+m + IMP + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-hydroxy-(ribonucleotide)m + UTP = (ribonucleotide)n+m + UMP + diphosphate

6.5.1.8

(ribonucleotide)n-3'-phosphate + 5'-phospho-(ribonucleotide)m + GTP = (ribonucleotide)n+m + GMP + diphosphate

Enzyme Kinetic Parameters

k_cat Value (Turnover Number) (2 results)

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EC NUMBER

TURNOVER NUMBER [1/S]

TURNOVER NUMBER MAXIMUM [1/S]

COMMENTARY

LITERATURE

6.5.1.3

1.66

pH 8.0, 22°C

653882

6.5.1.3

2.94

pH 8.0, 22°C

653882

6.5.1.3

2 entries

K_M Value (1 result)

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EC NUMBER

KM VALUE [MM]

KM VALUE MAXIMUM [MM]

COMMENTARY

LITERATURE

6.5.1.3

0.009

pH 8.0, 22°C

653882

References & Links

Literature References (41)

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BRENDA REFERENCE ID

PUBMED ID

TITLE

YEAR

AUTHORS

JOURNAL

VOLUME

PAGES

1910

19082974

DNA and RNA ligases (EC 6.5.1.1, EC 6.5.1.2, and EC 6.5.1.3)

1993

Maunders, M.J.

Methods Mol. Biol.

213-230

1983

3009470

Purification of wheat germ RNA ligase. I. Characterization of a ligase-associated 5'-hydroxyl polynucleotide kinase activity

1986

Pick, L.; Hurwitz, J.

J. Biol. Chem.

261

6684-6693

1984

3009471

Purification of wheat germ RNA ligase. II. Mechanism of action of wheat germ RNA ligase

1986

Pick, L.; Furneaux, H.; Hurwitz, J.

J. Biol. Chem.

261

6694-6704

1985

3856222

Isolation and characterization of an RNA ligase from HeLa cells

1985

Perkins, K.K.; Furneaux, H.; Hurwitz, J.

Proc. Natl. Acad. Sci. USA

684-688

1986

6370680

Sequence and cloning of bacteriophage T4 gene 63 encoding RNA ligase and tail fibre attachment activities

1984

Rand, K.N.; Gait, M.J.

EMBO J.

397-402

1987

6306652

Isolation and characterization of RNA ligase from wheat germ

1983

Furneaux, H.; Pick, L.; Hurwitz, J.

Proc. Natl. Acad. Sci. USA

3933-3937

1988

6863293

An RNA ligase from wheat germ which participates in transfer RNA splicing in vitro

1983

Gegenheimer, P.; Gabius, H.J.; Peebles, C.L.; Abelson, J.

J. Biol. Chem.

258

8365-8373

1989

7149245

Purification of T4 RNA ligase by dextran blue-Sepharose 4B affinity chromatography

1982

Mei-Hao, H.; Wang, A.; Hui-Fen, H.

Anal. Biochem.

125

1-5

1990

6260493

A new procedure for the simultaneous large-scale purification of bacteriophage-T4-induced polynucleotide kinase, DNA ligase, RNA ligase and DNA polymerase

1981

Dolganov, G.M.; Chestukhin, A.V.; Shemyakin, M.

Eur. J. Biochem.

114

247-254

1991

7266664

Formation of a 2'-phosphomonoester, 3',5'-phosphodiester linkage by a novel RNA ligase in wheat germ

1981

Konarska, M.; Filipowicz, W.; Domdey, H.; Gross, H.J.

Nature

293

112-116

1992

219895

The Purification of nuclease-free T4-RNA ligase

1979

Moseman McCoy, M.I.; Lubben, T.H.; Gumport, R.I.

Biochim. Biophys. Acta

562

149-161

1993

761619

Purification of T4 RNA ligase by 2',5'-ADP Sepharose chromatography

1979

Sugiura, M.; Suzuki, M.; Ohtsuka, E.; Nishikawa, S.; Uemura, H.; Ikehara, M.

FEBS Lett.

73-76

1994

938049

Purification and properties of bacteriophage T4-induced RNA ligase

1976

Last, J.A.; Anderson, W.F.

Arch. Biochem. Biophys.

174

167-176

1995

4342972

Purification and properties of bacteriophage T4-induced RNA ligase

1972

Silber, R.; Malathi, V.G.; Hurwitz, J.

Proc. Natl. Acad. Sci. USA

3009-3013

1996

9233816

Purification of a functional enzymatic editing complex from Trypanosoma brucei mitochondria

1997

Rusche, L.N.; Cruz-Reyes, J.; Piller, K.J.; Sollner-Webb, B.

EMBO J.

4069-4081

1997

2478548

The Leishmania kinetoplast-mitochondrion contains terminal uridylyltransferase and RNA ligase activities

1989

Bakalara, N.; Simpson, A.M.; Simpson, L.

J. Biol. Chem.

264

18679-18686

1998

Inhibition of the first stage of RNA ligase reaction by ATP analogues

1991

Juodka, B.; Labeikyte, D.

Nucleosides Nucleotides

367-370

1999

2166219

Purification and characterization of wheat germ RNA ligase and associated activities

1990

Pick, L.; Furneaux, H.M.; Hurwitz, J.

Methods Enzymol.

181

480-499

2000

8434020

In vitro selection of optimal substrates for T4 RNA ligase

1993

Harada, K.; Orgel, L.E.

Proc. Natl. Acad. Sci. USA

1576-1579

2001

8364109

Substrate specificity of T4 RNA-ligase: the role of a purine nucleotide base in forming a covalent AMP-RNA ligase complex

1993

Iuoda, B.A.; Labeikite, D.; Sasnauskene, S.I.

Biokhimiia

857-865

649963

10715133

Kinetic framework for ligation by an efficient RNA ligase ribozyme

2000

Bergman, N.H.; Johnston, W.K.; Bartel, D.P.

Biochemistry

3115-3123

650172

12069603

Metal ion requirements for structure and catalysis of an RNA ligase ribozyme

2002

Glasner, M.E.; Bergman, N.H.; Bartel, D.P.

Biochemistry

8103-8112

650653

12503310

Purification of histidine-tagged T4 RNA ligase from E. coli

2002

Wang, Q.S.; Unrau, P.J.

Biotechniques

1256-1260

650982

11532934

Roles for ligases in the RNA editing complex of Trypanosoma brucei: band IV is needed for U-deletion and RNA repair

2001

Huang, C.E.; Cruz-Reyes, J.; Zhelonkina, A.G.; O'Hearn, S.; Wirtz, E.; Sollner-Webb, B.

EMBO J.

4694-4703

651051

10215898

T4 RNA ligase catalyzes the synthesis of dinucleoside polyphosphates

1999

Atencia, E.A.; Madrid, O.; Gunther Sillero, M.A.; Sillero, A.

Eur. J. Biochem.

261

802-811

651061

10712602

Several dinucleoside polyphosphates are acceptor substrates in the T4 RNA ligase catalyzed reaction

2000

Atencia, E.A.; Montes, M.; Gunther Sillero, M.A.; Sillero, A.

Eur. J. Biochem.

267

1707-1714

651858

8617722

Trypanosoma brucei RNA editing. A full round of uridylate insertional editing in vitro mediated by endonuclease and RNA ligase

1996

Piller, K.J.; Rusche, L.N.; Sollner-Webb, B.

J. Biol. Chem.

271

4613-4619

652246

11687591

Kinetic mechanism of the Mg2+-dependent nucleotidyl transfer catalyzed by T4 DNA and RNA ligases

2002

Cherepanov, A.V.; de Vries, S.

J. Biol. Chem.

277

1695-1704

652387

12611899

Structure-function analysis of T4 RNA ligase 2

2003

Yin, S.; Ho, C.K.; Shuman, S.

J. Biol. Chem.

278

17601-17608

652429

12766156

Mutational analysis of bacteriophage T4 RNA ligase 1. Different functional groups are required for the nucleotidyl transfer and phosphodiester bond formation steps of the ligation reaction

2003

Wang, L.K.; Ho, C.K.; Pei, Y.; Shuman, S.

J. Biol. Chem.

278

29454-29462

653217

12052873

Distinct functions of two RNA ligases in active Trypanosoma brucei RNA editing complexes

2002

Cruz-Reyes, J.; Zhelonkina, A.G.; Huang, C.E.; Sollner-Webb, B.

Mol. Cell. Biol.

4652-4660

653234

10729904

Y-ligation: an efficient method for ligating single-stranded DNAs and RNAs with T4 RNA ligase

1998

Nishigaki, K.; Taguchi, K.; Kinoshita, Y.; Aita, T.; Husimi, Y.

Mol. Divers.

187-190

653368

7667099

The secondary structure and sequence optimization of an RNA ligase ribozyme

1995

Ekland, E.H.; Bartel, D.P.

Nucleic Acids Res.

3231-3238

653369

9580707

Oligoribonucleotide circularization by 'template-mediated' ligation with T4 RNA ligase: synthesis of circular hammerhead ribozymes

1998

Wang, L.; Ruffner, D.E.

Nucleic Acids Res.

2502-2504

653392

14654700

Discovery and characterization of a thermostable bacteriophage RNA ligase homologous to T4 RNA ligase 1

2003

Blondal, T.; Hjorleifsdottir, S.H.; Fridjonsson, O.F.; Aevarsson, A.; Skirnisdottir, S.; Hermannsdottir, A.G.; Hreggvidsson, G.O.; Smith, A.V.; Kristjansson, J.K.

Nucleic Acids Res.

7247-7254

653679

12228725

Bacteriophage T4 RNA ligase 2 (gp24.1) exemplifies a family of RNA ligases found in all phylogenetic domains

2002

Ho, C.K.; Shuman, S.

Proc. Natl. Acad. Sci. USA

12709-12714

653869

11233974

Identification of candidate mitochondrial RNA editing ligases from Trypanosoma brucei