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Information on EC 2.7.7.7 - DNA-directed DNA polymerase and Organism(s) Danio rerio

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EC Tree
     2 Transferases
         2.7 Transferring phosphorus-containing groups
             2.7.7 Nucleotidyltransferases
                2.7.7.7 DNA-directed DNA polymerase
IUBMB Comments
Catalyses DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time. Cannot initiate a chain de novo. Requires a primer, which may be DNA or RNA. See also EC 2.7.7.49 RNA-directed DNA polymerase.
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Danio rerio
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The taxonomic range for the selected organisms is: Danio rerio
The enzyme appears in selected viruses and cellular organisms
Synonyms
dna polymerase alpha, dna polymerase beta, dna polymerase iii, pol beta, klenow fragment, dna polymerase delta, taq dna polymerase, pol delta, pol alpha, dna polymerase gamma, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
deoxynucleate polymerase
-
-
-
-
deoxyribonucleate nucleotidyltransferase
-
-
-
-
deoxyribonucleic acid duplicase
-
-
-
-
deoxyribonucleic acid polymerase
-
-
-
-
deoxyribonucleic duplicase
-
-
-
-
deoxyribonucleic polymerase
-
-
-
-
deoxyribonucleic polymerase I
-
-
-
-
DNA duplicase
-
-
-
-
DNA nucleotidyltransferase
-
-
-
-
DNA nucleotidyltransferase (DNA-directed)
-
-
-
-
DNA polmerase beta
-
-
-
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DNA polymerase
-
-
-
-
DNA polymerase alpha
-
-
-
-
DNA polymerase beta
-
DNA polymerase gamma
-
-
-
-
DNA polymerase I
-
-
-
-
DNA polymerase II
-
-
-
-
DNA polymerase III
-
-
-
-
DNA replicase
-
-
-
-
DNA-dependent DNA polymerase
-
-
-
-
duplicase
-
-
-
-
Klenow fragment
-
-
-
-
nucleotidyltransferase, deoxyribonucleate
-
-
-
-
Pol gamma
-
-
-
-
sequenase
-
-
-
-
Taq DNA polymerase
-
-
-
-
Taq Pol I
-
-
-
-
Tca DNA polymerase
-
-
-
-
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
nucleotidyl group transfer
-
-
-
-
SYSTEMATIC NAME
IUBMB Comments
deoxynucleoside-triphosphate:DNA deoxynucleotidyltransferase (DNA-directed)
Catalyses DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time. Cannot initiate a chain de novo. Requires a primer, which may be DNA or RNA. See also EC 2.7.7.49 RNA-directed DNA polymerase.
CAS REGISTRY NUMBER
COMMENTARY hide
9012-90-2
-
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
deoxynucleoside triphosphate + DNAn
diphosphate + DNAn+1
show the reaction diagram
-
-
-
?
dTTP + DNAn
diphosphate + DNAn+1
show the reaction diagram
-
-
-
?
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
deoxynucleoside triphosphate + DNAn
diphosphate + DNAn+1
show the reaction diagram
-
-
-
?
METALS and IONS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
KCl
activates best at 10 mM
Mg2+
activates, Mn2+ shows a 8.6fold higher catalytic efficiency than Mg2+
Mn2+
activates, Mn2+ shows a 8.6fold higher catalytic efficiency than Mg2+
NaCl
activates best at 50 mM
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.00132 - 0.01469
dTTP
TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.0096 - 0.0123
dTTP
kcat/KM VALUE [1/mMs-1]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.83 - 7.16
dTTP
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
-
UniProt
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
evolution
compared to mammalian pol betas, the Danio rerio enzyme contains a P63D amino acid substitution. This substitution lies in a hairpin sequence within an 8-kDa domain, likely to be important in DNA binding
UNIPROT
ENTRY NAME
ORGANISM
NO. OF AA
NO. OF TRANSM. HELICES
MOLECULAR WEIGHT[Da]
SOURCE
SEQUENCE
LOCALIZATION PREDICTION?
DPOLB_DANRE
336
0
38566
Swiss-Prot
other Location (Reliability: 1)
Q568P0_DANRE
710
0
79509
TrEMBL
other Location (Reliability: 1)
Q6P0S1_DANRE
566
0
62992
TrEMBL
other Location (Reliability: 3)
B0R194_DANRE
339
0
38955
TrEMBL
other Location (Reliability: 2)
Q6DRM6_DANRE
1389
0
157294
TrEMBL
other Location (Reliability: 2)
A0A0R4IPZ0_DANRE
2377
0
265260
TrEMBL
other Location (Reliability: 3)
B0V351_DANRE
2284
0
262184
TrEMBL
other Location (Reliability: 2)
Q7SXH7_DANRE
566
0
63014
TrEMBL
other Location (Reliability: 3)
B3DKJ9_DANRE
1105
0
125008
TrEMBL
other Location (Reliability: 2)
Q561Q1_DANRE
539
0
61286
TrEMBL
other Location (Reliability: 1)
E7FB68_DANRE
1468
0
166228
TrEMBL
other Location (Reliability: 1)
A0A8M1NI27_DANRE
2284
0
262184
TrEMBL
other Location (Reliability: 2)
A0A8M1P7B4_DANRE
1468
0
166228
TrEMBL
other Location (Reliability: 1)
A0A8M1P5S3_DANRE
127
0
13630
TrEMBL
other Location (Reliability: 1)
A8WFY0_DANRE
565
0
64152
TrEMBL
other Location (Reliability: 5)
B0R195_DANRE
291
1
33263
TrEMBL
Secretory Pathway (Reliability: 5)
A8E5F4_DANRE
337
0
38757
TrEMBL
other Location (Reliability: 2)
Q7ZYY7_DANRE
1392
0
160563
TrEMBL
other Location (Reliability: 2)
B8JIE9_DANRE
566
0
62979
TrEMBL
other Location (Reliability: 3)
A0A2R8PX42_DANRE
2276
0
261053
TrEMBL
other Location (Reliability: 2)
Q504E8_DANRE
339
0
38941
TrEMBL
other Location (Reliability: 2)
Q6ZM94_DANRE
2239
0
249500
TrEMBL
other Location (Reliability: 2)
Q5IBN3_DANRE
507
0
56786
TrEMBL
Mitochondrion (Reliability: 5)
Q7ZUU0_DANRE
507
0
56816
TrEMBL
Mitochondrion (Reliability: 5)
A0A8M1N1L8_DANRE
339
0
38955
TrEMBL
other Location (Reliability: 2)
F1Q4P4_DANRE
2576
0
287099
TrEMBL
Mitochondrion (Reliability: 5)
A5X572_DANRE
1146
0
129601
TrEMBL
other Location (Reliability: 5)
A0A8M1PHY0_DANRE
148
0
16800
TrEMBL
other Location (Reliability: 1)
F8W5R6_DANRE
1206
0
137854
TrEMBL
Mitochondrion (Reliability: 1)
E9QIM3_DANRE
1456
0
164854
TrEMBL
other Location (Reliability: 1)
B3DKA1_DANRE
486
0
55193
TrEMBL
other Location (Reliability: 5)
A0A8M1N8Y2_DANRE
749
0
82575
TrEMBL
other Location (Reliability: 2)
B3DGH3_DANRE
337
0
38697
TrEMBL
other Location (Reliability: 2)
Q2KNE0_DANRE
1105
0
124950
TrEMBL
other Location (Reliability: 2)
F1QSQ9_DANRE
2778
0
311409
TrEMBL
Secretory Pathway (Reliability: 2)
E7FDC5_DANRE
2964
0
332813
TrEMBL
Mitochondrion (Reliability: 5)
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
pol beta in vitro/in vivo dual expression using plasmid pIVEX, overexpression in Escherichia coli strain BL21(DE3), strain BL21(DE3)pLysS, and strain KRX, and in vitro as a C-terminal His-tagged protein. Pol beta expressed in vitro is subject to proteolysis, therefore, bacterial overexpression is used to produce the protein for kinetic analyses. KRX cells are preferred because of their reduced propensity for leaky expression of pol beta
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Ishido, T.; Yamazaki, N.; Ishikawa, M.; Hirano, K.
Characterization of DNA polymerase beta from Danio rerio by overexpression in E. coli using the in vivo/in vitro compatible pIVEX plasmid
Microb. Cell Fact.
10
84
2011
Danio rerio (Q6DRD3)
Manually annotated by BRENDA team