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Enzyme Nomenclature
Information on EC 2.4.1.27 - DNA beta-glucosyltransferase
for references in articles please use BRENDA:EC2.4.1.27
Word Map on EC 2.4.1.27
- 2.4.1.27
- glycosyltransferases
- glycogen
-
glucosylate
-
bacteriophage
- cytosine
-
duplex
-
interdomain
-
base-flipping
-
substrate-free
- tdp
- maltodextrin
-
flipped-out
-
glycosylases
-
sialyltransferases
-
co-crystal
-
transition-state
- vancomycin
-
5-hydroxymethyl
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abasic
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bidomain
- udp-glcnac
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dna-modifying
- medicine
- analysis
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The expected taxonomic range for this enzyme is: Escherichia virus T4
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EC NUMBER 
COMMENTARY 
2.4.1.27
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RECOMMENDED NAME
GeneOntology No.
DNA beta-glucosyltransferase
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REACTION
REACTION DIAGRAM
COMMENTARY
ORGANISM
UNIPROT
LITERATURE
Transfers a beta-D-glucosyl residue from UDP-glucose to an hydroxymethylcytosine residue in DNA
Transfers a beta-D-glucosyl residue from UDP-glucose to an hydroxymethylcytosine residue in DNA
catalytic mechanism
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Transfers a beta-D-glucosyl residue from UDP-glucose to an hydroxymethylcytosine residue in DNA
base-flipping mechanism
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Transfers a beta-D-glucosyl residue from UDP-glucose to an hydroxymethylcytosine residue in DNA
catalytic mechanism, substrate binding structures, overview
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Transfers a beta-D-glucosyl residue from UDP-glucose to an hydroxymethylcytosine residue in DNA
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-
-
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REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
hexosyl group transfer
-
-
-
-
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SYSTEMATIC NAME
IUBMB Comments
UDP-glucose:DNA beta-D-glucosyltransferase
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CAS REGISTRY NUMBER
COMMENTARY
9030-14-2
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ORGANISM
COMMENTARY
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
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SUBSTRATE
PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate)
(Substrate)
LITERATURE
(Substrate)
(Substrate)
COMMENTARY
(Product)
(Product)
LITERATURE
(Product)
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
r=reversible
ir=irreversible
?=not specified
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
UDP-D-glucose + 5-hydroxymethyl cytosine
UDP + 5-hydroxymethyl cytosine beta-D-glucoside
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5-hydroxymethyl cytosine residues of duplex DNA
-
-
?
UDP-D-glucose + 5-hydroxymethyl cytosine containing DNA
UDP + 5-hydroxymethyl cytosine beta-D-glucoside containing DNA
-
-
recombinant enzyme glucosylates 5-hydroxymethyl cytosine containing DNA in a nonprocessive manner, and binding to either 5-hydroxymethyl cytosine containing DNA or uridine diphosphoglucose substrates is random, with both binary complexes being catalytically competent. The numbers of 5-hydroxymethyl cytosine on target sequences influence the turnover numbers for the recombinant enzyme
-
?
UDP-D-glucose + 5-hydroxymethyl cytosine containing phage T4 DNA
UDP + 5-hydroxymethyl cytosine beta-D-glucoside containing phage T4 DNA
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-
-
-
?
UDP-D-glucose + DNA containing 12 5-hydroxymethyl cytosine residues
UDP + ?
-
-
-
-
?
UDP-D-glucose + DNA containing 2 5-hydroxymethyl cytosine residues
UDP + ?
-
-
-
-
?
UDP-D-glucose + DNA containing 24 5-hydroxymethyl cytosine residues
UDP + ?
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-
-
-
?
UDP-D-glucose + DNA containing 6 5-hydroxymethyl cytosine residues
UDP + ?
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-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
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DNA-modifying enzyme
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-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
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the enzyme forms part of a phage DNA protection system
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?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
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the enzyme is part of a system by which T-even bacteriophages glycosylate their genomic DNA in order to protect it against nuclease attack
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-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
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the enzyme modifies T4-DNA
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-
?
additional information
?
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the AGT with GT-B glycosyltransferase fold is responsible for DNA base flipping and substrate recognition, mechanism, overview
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-
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additional information
?
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the alpha-linkage forming enzyme AGT is also able to adopt the fold of a GT-B glycosyltransferase keeping the sugar donor binding mechanism typical for GT-B glycosyltransferases, but showing a unique sugar acceptor binding mode, both substrates are bound to the C-terminal domain, detailed substrate binding structures, catalytic mechanism of both enzyme types, overview
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-
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additional information
?
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enzyme shows strong preference for the glucosylation of DNA containing symmetrical 5-hydroxymethyl cytosine resiudes over hemi-5-hydroxymethyl cytosine. The enzyme is capable of saturation glucosylation on all conformations of 5-hydroxymethyl cytosine.The numbers of 5-hydroxymethyl cytosine residues on DNA can influence catalysis, especially the rate of catalysis, and hemihydroxymethylated DNA is not the preferred substrate of the enzyme
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NATURAL SUBSTRATES
NATURAL PRODUCTS
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate)
(Substrate)
LITERATURE
(Substrate)
(Substrate)
COMMENTARY
(Product)
(Product)
LITERATURE
(Product)
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
r=reversible
ir=irreversible
?=not specified
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
UDP-D-glucose + 5-hydroxymethyl cytosine
UDP + 5-hydroxymethyl cytosine beta-D-glucoside
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5-hydroxymethyl cytosine residues of duplex DNA
-
-
?
additional information
?
-
-
the AGT with GT-B glycosyltransferase fold is responsible for DNA base flipping and substrate recognition, mechanism, overview
-
-
-
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
DNA-modifying enzyme
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
the enzyme forms part of a phage DNA protection system
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
the enzyme is part of a system by which T-even bacteriophages glycosylate their genomic DNA in order to protect it against nuclease attack
-
-
?
UDP-alpha-D-glucose + 5-hydroxymethylcytosine containing DNA
UDP + beta-D-glucosyl-5-hydroxymethylcytosine containing DNA
-
the enzyme modifies T4-DNA
-
-
?
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METALS and IONS
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
Ca2+
-
four of the six X-ray structures of the enzyme contain metal ions which activate the enzyme, including Mg2+ in forms 1 and 2 and Mn2+ or Ca2+. Mg2+, Mn2+ and Ca2+ bind near the beta-phosphate of the nucleotide, but they occupy slightly different positions
Mg2+
-
four of the six X-ray structures of the enzyme contain metal ions which activate the enzyme, including Mg2+ in forms 1 and 2 and Mn2+ or Ca2+. Mg2+, Mn2+ and Ca2+ bind near the beta-phosphate of the nucleotide, but they occupy slightly different positions
Mn2+
-
four of the six X-ray structures of the enzyme contain metal ions which activate the enzyme, including Mg2+ in forms 1 and 2 and Mn2+ or Ca2+. Mg2+, Mn2+ and Ca2+ bind near the beta-phosphate of the nucleotide, but they occupy slightly different positions
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INHIBITORS
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
IMAGE
5-hydroxymethyl cytosine beta-D-glucoside containing DNA
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competitive inhibitor with respect to 5-hydroxymethyl cytosine containing DNA and mixed inhibitor with respect to UDP-glucose
UDP
-
competitive inhibitor with respect to UDP-glucose and mixed inhibitor with respect to 5-hydroxymethyl cytosine containing DNA
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KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
IMAGE
0.0004
5-hydroxymethyl cytosine containing phage T4 DNA
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pH 7.9, 25°C
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0.00023
DNA containing 12 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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0.003
DNA containing 2 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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0.00022
DNA containing 24 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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0.0006
DNA containing 6 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
IMAGE
1.033
DNA containing 12 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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9.66
DNA containing 24 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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1.666
DNA containing 6 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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kcat/KM VALUE [1/mMs-1]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
IMAGE
4483
DNA containing 12 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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4400
DNA containing 24 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
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2766
DNA containing 6 5-hydroxymethyl cytosine residues
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pH 7.9, 25°C
-
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Ki VALUE [mM]
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
IMAGE
0.003
5-hydroxymethyl cytosine beta-D-glucoside containing DNA
-
substrate UDP-glucose, pH 7.9, 25°C
0.004
5-hydroxymethyl cytosine beta-D-glucoside containing DNA
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substrate 5-hydroxymethyl cytosine containing DNA, pH 7.9, 25°C
0.002
UDP
-
substrate 5-hydroxymethyl cytosine containing DNA, pH 7.9, 25°C
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SOURCE TISSUE
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
SOURCE
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PDB
SCOP
CATH
UNIPROT
ORGANISM
Enterobacteria phage T4;
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SUBUNITS
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
additional information
-
structural analysis of domain folding, substrate binding, catalytic mechanism, and base flipping mechanism, overview
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Crystallization/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
crystal structure of the recombinant enzyme in the presence and absence of the substrate, UDPglucose; ternary complex between the T4 phage beta-glucosyltransferase, uridine diphosphoglucose and a DNA fragment containing an abasic site
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crystallization of the enzyme with UDPglucose and a 13mer DNA fragment containing an abasic site. Two crystal structures are obtained of a ternary complex BGT-UDP-DNA at 1.8 A and 2.5 A resolution, one with a Tris molecule and the other with a metal ion at the active site; ternary complex between the T4 phage beta-glucosyltransferase, uridine diphosphoglucose and a DNA fragment containing an abasic site
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ternary complex between the T4 phage beta-glucosyltransferase, uridine diphosphoglucose and a DNA fragment containing an abasic site
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Cloned/COMMENTARY
ORGANISM
UNIPROT
LITERATURE
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APPLICATION
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
analysis
-
use of recombinant enzyme to estimate global 5-hydroxymethyl cytosine content in a variety of genomic DNAs. Most of the genomic DNAs derived from vertebrate tissue and cell lines contain 5-hydroxymethyl cytosine. DNA from mouse, human, and bovine brains displays 0.5?0.9% of the total nucleotides as 5-hydroxymethyl cytosine, which is higher compared to the levels found in other tissues. A comparison between cancer and healthy tissue genomes suggests a lower percentage of 5-hydroxymethyl cytosine in cancer
medicine
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a comparison between cancer and healthy tissue genomes suggests a lower percentage of 5-hydroxymethyl cytosine in cancer
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