ECMDB

Identification

Name:

Nucleoside-triphosphatase rdgB

Synonyms:

Nucleoside triphosphate phosphohydrolase
NTPase

Gene Name:

rdgB

Enzyme Class:

Biological Properties

General Function:

Involved in hydrolase activity

Specific Function:

Hydrolyzes O6 atom-containing purine bases deoxyinosine triphosphate (dITP) and xanthosine triphosphate (XTP) as well as 2'-deoxy-N-6-hydroxylaminopurine triposphate (dHAPTP) to nucleotide monophosphate and pyrophosphate. Probably excludes non- standard purines from DNA precursor pool, preventing thus incorporation into DNA and avoiding chromosomal lesions

Cellular Location:

Cytoplasmic

SMPDB Pathways:

Not Available

KEGG Pathways:

Metabolic pathways eco01100
Purine metabolism ec00230
Thiamine metabolism ec00730

KEGG Reactions:

1.0

→

1.0

1.0Guanosine triphosphate + 1.0Water → 1.0Guanosine monophosphate + 1.0Hydrogen ion + 1.0Pyrophosphate
ReactionCard

1.0

→

1.0

1.0dGTP + 1.0Water → 1.02'-Deoxyguanosine 5'-monophosphate + 1.0Hydrogen ion + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Deoxyuridine triphosphate + 1.0Water ↔ 1.0dUMP + 1.0Hydrogen ion + 1.0Pyrophosphate
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1.0

→

1.0

1.0Water + 1.0Uridine triphosphate → 1.0Hydrogen ion + 1.0Pyrophosphate + 1.0Uridine 5'-monophosphate
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1.0

→

1.0

1.0Water + 1.0Inosine triphosphate → 1.0Hydrogen ion + 1.0Inosinic acid + 1.0Pyrophosphate
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1.0

→

1.0

1.0Water + 1.0Xanthosine 5-triphosphate → 1.0Hydrogen ion + 1.0Pyrophosphate + 1.0Xanthylic acid
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1.0

→

1.0

1.02'-Deoxyinosine triphosphate + 1.0Water → 1.0DIMP + 1.0Hydrogen ion + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Guanosine triphosphate + 1.0Water ↔ 1.0Guanosine monophosphate + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Uridine triphosphate + 1.0Water ↔ 1.0Uridine 5'-monophosphate + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Inosine triphosphate + 1.0Water ↔ 1.0Inosinic acid + 1.0Pyrophosphate
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1.0

↔

1.0

1.0dGTP + 1.0Water ↔ 1.02'-Deoxyguanosine 5'-monophosphate + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Deoxyuridine triphosphate + 1.0Water ↔ 1.0dUMP + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Xanthosine 5-triphosphate + 1.0Water ↔ 1.0Xanthylic acid + 1.0Pyrophosphate
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1.0

↔

1.0

1.02'-Deoxyinosine triphosphate + 1.0Water ↔ 1.0DIMP + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Xanthosine 5-triphosphate + 1.0Water + 1.02'-Deoxyinosine triphosphate ↔ 1.0Xanthylic acid + 1.0Pyrophosphate + 1.0DIMP
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1.0Nucleoside triphosphate

1.0

↔

1.0NDP

1.0

1.0Nucleoside triphosphate + 1.0Water ↔ 1.0NDP + 1.0Phosphate
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EcoCyc Reactions:

1.0

→

1.0

1.0dGTP + 1.0Water → 1.02'-Deoxyguanosine 5'-monophosphate + 1.0Hydrogen ion + 1.0Pyrophosphate
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1.0

↔

1.0

1.0Deoxyuridine triphosphate + 1.0Water ↔ 1.0dUMP + 1.0Hydrogen ion + 1.0Pyrophosphate
ReactionCard

1.0

→

1.0

1.0Water + 1.0Inosine triphosphate → 1.0Hydrogen ion + 1.0Inosinic acid + 1.0Pyrophosphate
ReactionCard

1.0

→

1.0

1.0Water + 1.0Xanthosine 5-triphosphate → 1.0Hydrogen ion + 1.0Pyrophosphate + 1.0Xanthylic acid
ReactionCard

1.0

→

1.0

1.02'-Deoxyinosine triphosphate + 1.0Water → 1.0DIMP + 1.0Hydrogen ion + 1.0Pyrophosphate
ReactionCard

Complex Reactions:

1.0A nucleoside triphosphate

1.0

→

1.0a nucleotide

1.0

1.0A nucleoside triphosphate + 1.0Water → 1.0a nucleotide + 1.0Pyrophosphate
ReactionCard

Metabolites:

ECMDB ID	Name	View
ECMDB01044	2'-Deoxyguanosine 5'-monophosphate	MetaboCard
ECMDB04063	2'-Deoxyinosine triphosphate	MetaboCard
ECMDB01191	Deoxyuridine triphosphate	MetaboCard
ECMDB01440	dGTP	MetaboCard
ECMDB06555	DIMP	MetaboCard
ECMDB01409	dUMP	MetaboCard
ECMDB01397	Guanosine monophosphate	MetaboCard
ECMDB01273	Guanosine triphosphate	MetaboCard
ECMDB21225	Hydrogen ion	MetaboCard
ECMDB00189	Inosine triphosphate	MetaboCard
ECMDB04085	Inosinic acid	MetaboCard
ECMDB04142	Pyrophosphate	MetaboCard
ECMDB00288	Uridine 5'-monophosphate	MetaboCard
ECMDB00285	Uridine triphosphate	MetaboCard
ECMDB00494	Water	MetaboCard
ECMDB00293	Xanthosine 5-triphosphate	MetaboCard
ECMDB01554	Xanthylic acid	MetaboCard

GO Classification:

Function
catalytic activity
hydrolase activity
hydrolase activity, acting on acid anhydrides
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
nucleoside-triphosphatase activity
pyrophosphatase activity

Gene Properties

Blattner:

b2954

Gene Orientation

Clockwise

Centisome Percentage:

66.70

Left Sequence End

3094703

Right Sequence End

3095296

Gene Sequence:

>594 bp
ATGATCATTCGTGACGAAAACTATTTTACTGATAAATATGAATTAACCCGCACACACTCT
GAAGTACTGGAAGCGGTGAAAGTGGTTAAACCGGGTAAAACGCTGGATCTGGGCTGTGGC
AATGGTCGTAACAGTCTTTACCTGGCAGCCAATGGTTATGATGTTGACGCATGGGATAAA
AATGCCATGAGTATCGCCAACGTCGAGCGCATTAAATCCATTGAAAATCTGGATAATTTA
CACACCCGAGTCGTTGATCTGAATAACCTCACATTTGATAGACAGTACGATTTTATTCTT
TCGACTGTGGTGCTGATGTTCCTTGAGGCTAAAACCATCCCCGGGTTGATTGCCAATATG
CAACGTTGCACTAAACCTGGTGGTTACAACCTGATTGTGGCGGCGATGGATACCGCTGAT
TATCCATGTACCGTCGGCTTCCCGTTTGCCTTCAAAGAGGGAGAATTACGTCGATATTAC
GAAGGCTGGGAGAGGGTGAAATACAATGAAGACGTCGGCGAGCTGCACCGCACCGACGCC
AACGGTAATCGTATTAAACTGCGTTTCGCCACGATGCTGGCACGTAAAAAATGA

Protein Properties

Pfam Domain Function:

Ham1p_like (PF01725 )

Protein Residues:

197

Protein Molecular Weight:

21039

Protein Theoretical pI:

PDB File:

1K7K

Signaling Regions:

None

Transmembrane Regions:

None

Protein Sequence:

>Nucleoside-triphosphatase rdgB
MQKVVLATGNVGKVRELASLLSDFGLDIVAQTDLGVDSAEETGLTFIENAILKARHAAKV
TALPAIADDSGLAVDVLGGAPGIYSARYSGEDATDQKNLQKLLETMKDVPDDQRQARFHC
VLVYLRHAEDPTPLVCHGSWPGVITREPAGTGGFGYDPIFFVPSEGKTAAELTREEKSAI
SHRGQALKLLLDALRNG

References

External Links:

Resource	Link
Uniprot ID:	P52061
Uniprot Name:	RDGB_ECOLI
GenBank Gene ID:	AP009048
Genebank Protein ID:	1742337
PDB ID:	1K7K
Ecogene ID:	EG12982
Ecocyc:	EG12982
ColiBase:	b2954
Kegg Gene:	b2954
EchoBASE ID:	EB2807
CCDB:	RDGB_ECOLI
BacMap:	16130855

General Reference:

Blattner, F. R., Plunkett, G. 3rd, Bloch, C. A., Perna, N. T., Burland, V., Riley, M., Collado-Vides, J., Glasner, J. D., Rode, C. K., Mayhew, G. F., Gregor, J., Davis, N. W., Kirkpatrick, H. A., Goeden, M. A., Rose, D. J., Mau, B., Shao, Y. (1997). "The complete genome sequence of Escherichia coli K-12." Science 277:1453-1462. Pubmed: 9278503
Burgis, N. E., Cunningham, R. P. (2007). "Substrate specificity of RdgB protein, a deoxyribonucleoside triphosphate pyrophosphohydrolase." J Biol Chem 282:3531-3538. Pubmed: 17090528
Chung, J. H., Park, H. Y., Lee, J. H., Jang, Y. (2002). "Identification of the dITP- and XTP-hydrolyzing protein from Escherichia coli." J Biochem Mol Biol 35:403-408. Pubmed: 12297000
Hayashi, K., Morooka, N., Yamamoto, Y., Fujita, K., Isono, K., Choi, S., Ohtsubo, E., Baba, T., Wanner, B. L., Mori, H., Horiuchi, T. (2006). "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Mol Syst Biol 2:2006.0007. Pubmed: 16738553

Nucleoside-triphosphatase rdgB (P52061)