Enzymes, NGS, Caucasian female in wheelchair pipetting with a Black male and Asian female in background. Laboratory setting
Enzymes for Molecular Biology

Reaction Cleanup & Improving Yields

Reagents and reactants that are left behind can hinder downstream processes. Use the right enzyme preparation to clean up your samples before taking the next step. Speed up and enhance amplification and transcription with some not-so-secret additives. 

Enzymatic cleanup of DNA samples with Exonuclease I, DNase I, RNase A, Proteinase K and other nucleases and proteases removes residual primers, nucleotides and enzymes prior to SNP analysis, next-generation sequencing, Sanger DNA sequencing, bioprocessing or other downstream procedures.

Proteinase K is a broad-spectrum endopeptidase widely used for the digestion of proteins, including DNases and RNases. A digestion step with the enzyme is routinely applied during nucleic acid preparation without affecting the integrity of isolated DNA or RNA. Proteinase K is active under a wide range of reaction conditions, including elevated temperatures and the presence of SDS.

Proteinase K NGS Grade is available for the most demanding applications, including preparation of nucleic acids for next-generation sequencing. Extensive purification yields a high-quality enzyme product with increased specific activity, significantly increased solubility (2.5 fold) and remarkable purity with DNA content ≤0.1 pg/mg. Proteinase K NGS Grade is free of exonucleases, endonucleases and ribonucleases.

The TAGZyme DAPase enzyme and TAGZyme system is used for His-tag removal from proteins containing an intrinsic DAPase stop point (expressed using the TAGZyme pQE-2 vector) or from proteins that contain an engineered glutamine stop point.

A comprehensive range of housekeeping enzymes is available for cleavage and cleanup of residual reagents.

Enzyme Activity Application
RP100B, RP101B,
RP103B, RP107B
Proteinase K

(molecular biology
BLIRT Proteinase K (MB/PCR grade) is a subtilisin-related
serine protease isolated from Parengyodontium album
(Tritirachium album)
  • Extraction of DNA and RNA from different starting materials.
  • Removal of DNases and RNases during nucleic acid isolation.
  • Purification of samples contaminated with different proteins.
  • Recommended for automated isolation stations.
RP100N, RP101N,
RP102N, RP103N
Proteinase K

(NGS grade)
BLIRT Proteinase K (Ultrapure/NGS grade) is a subtilisin-related
serine protease isolated from Parengyodontium album
(Tritirachium album); extensive purification yields the highest
quality enzyme product
  • Demanding applications such as preparation of DNA for NGS libraries.
  • Extraction of DNA and RNA from different starting materials.
  • Removal of DNases and RNases during nucleic acid isolation.
  • Purification of samples contaminated with different proteins
  • Recommended for automated isolation stations
Proteinase K
QIAGEN Proteinase K is a subtilisin-type protease isolated
from the saprophytic fungus Tritirachium album
  • Protease digestion in DNA and RNA isolation procedures
  • Proteinase K possesses a high specific activity; stable over
    a wide range of temperatures and pH values; not inhibited
    by EDTA; suitable for short digestion times
QIAGEN Protease is a serine protease isolated from
a recombinant Bacillus strain; an economical alternative
to Proteinase K
Protease digestion in isolation of native DNA and RNA from
a variety of sources
Exonuclease I
Coming soon

Exonuclease I cleaves single-stranded DNA in the 3’→5’
direction, releasing 5’-mono/dinucleotides and leaving
double-stranded DNA molecules and the 5’-terminus
intact; digestion is inhibited by the presence of
a 3’-terminal phosphate

  • Removing single-stranded primers in PCR reactions prior
    to SNP analysis or Sanger DNA sequencing
  • Removing single-stranded primers for nested PCR reactions
  • Removing linear single-stranded DNA, leaving behind double-
    stranded DNA in the sample
RNase-free DNase
Endonuclease that nonspecifically cleaves DNA to release
di-, tri- and oligonucleotide products with 5’-phosphorylated
and 3’-hydroxylated ends; acts on ssDNA and dsDNA,
chromatin and RNA:DNA hybrids
  • Removing contaminating DNA from RNA solutions prior
    to RNA cleanup and concentration
  • Removing DNA from protein samples
  • Nicking DNA as a first step to incorporating labeled bases
    into DNA
  • DNA-protein interaction analysis (Footprinting assay)
Heat-labile endonuclease derived from a cold-water
eukaryote; high specific activity towards dsDNA leaving
ssDNA or RNA undamaged; easily inactivated by moderate
heat treatment 
  • Intended for thermo-sensitive applications where the
    presence of dsDNA influences results 
  • Rapid and safe purification of RNA or protein samples
    from contaminating DNA
Endonuclease derived from marine amphipods; high specific
activity towards dsDNA leaving ss DNA or RNA undamaged;
highly active in a broad spectrum of temperatures, buffer
conditions and pH
  • Extraction and purification of RNA (equivalent of DNase I)
  • Removal of contaminating genomic DNA from RNA samples
  • Degradation of DNA template in transcription reactions
  • Reduction of viscosity in biological samples
  • Removal of residual DNA during biopharma and
    bioprocessing procedures
Cold-active, heat-labile endonuclease originating from
psychrophilic bacteria; digests all DNA and RNA substrates
in different buffer conditions and a broad range of
temperatures, including low temperatures and environments
with high salt content
  • Purification of biologics from residual nucleic acids in
    biopharma manufacturing
  • Purification of recombinant proteins and enzymes for research use
  • Removal of undesired nucleic acids contamination in
    molecular biology reagents in demanding systems
  • Reduction of viscosity in biological samples (during
    production, automation)

RNase A

Endoribonuclease that degrades ssRNA at C and U residues
  • Removing contaminating RNA from plasmid and genomic
    DNA preparations
  • Removing RNA from recombinant protein preparations
  • Mapping single-base mutations in DNA or RNA
    (RNase protection assay)
TAGzyme DAPase
TAGZyme DAPase (Recombinant dipeptidyl peptidase I)
  • Removing dipeptides sequentially from N-terminal His tags
    up to the "stop point" expressed using TAGZyme pQE vectors
  • Production of His-tag-free proteins for:
    • Protein structure determination
    • Therapeutic proteins

Improved PCR yields and quality of templates may be achieved with the use of proteins that counteract PCR inhibitors and by adding specialized DNA-binding proteins to amplification and sequencing reactions. The DNA-binding protein, gene 32 protein from bacteriophage T4 (T4gp32), increases PCR amplification efficiency with a number of diverse templates. In addition, using E. coli single-stranded DNA-binding protein (SSB) in DNA sequencing reactions increases the resolution of sequencing runs.

An increased rate of in vitro transcription is made possible by treatment with inorganic pyrophosphatase, an essential component of reactions for RNA preparation. This enzyme cleaves pyrophosphate into two phosphate molecules and prevents pyrophosphate from precipitating with magnesium.

Reagent Activity Application
E. coli ssDNA Binding
Coming soon
Binds with high specificity to single-stranded DNA;
  • Useful in primer sequestering
  • Useful in enhancing the specificity of PCR
  • Useful in enabling the sequencing of problematic
    DNA templates
T4 Gene 32 Protein
Coming soon
Stabilizes ssDNA regions

Increases processivity of some DNA polymerases

RP50, RP51
PCR Anti-Inhibitor
Mixture of alkaline proteins to counteract substances that
inhibit PCR originating in DNA template isolation 
Increases PCR yields with difficult DNA templates isolated
from urine, saliva, sputum, blood, cell swabs, cerebrospinal
fluid, biopsies, etc.
E. coli pyrophosphatase
Coming soon
An inorganic pyrophosphatase that catalyzes the hydrolysis of
inorganic pyrophosphate to form orthophosphate*
  • Increases RNA yield in transcription reaction
  • Enhancing DNA replication
Coming soon
Thermostable pyrophosphatase is a recombinant enzyme
from Sulfolobus acidocaldarius that catalyzes the hydrolysis of
inorganic pyrophosphate to produce orthophosphate†

Useful for the enhancement of DNA replication in PCR

UDG-mediated strand cleavage is an important tool in molecular biotechnology, allowing for controlled and location-specific cleavage of single- and double-stranded DNA chemically or enzymatically synthesized with single or multiple incorporations of deoxyuridine. 

UDG treatments can reduce sequence artifacts, eliminate PCR carry over and generate specific gaps in DNA.
 Enzyme Activity Application

19160, G5010L, EN19
Uracil DNA
Glycosylase (UDG)
Coming soon 

Uracil DNA glycosylase (UDG) is involved in base excision
repair; UDG creates abasic sites in uracil-containing DNA;
degrades uracil-containing DNA; does not excise uracil
from RNA or oligonucleotides
  • DNA pretreatment with UDG reduces DNA artifacts during
    mutation detection by next-generation sequencing and other
    methods, without affecting capacity to detect real mutations

  • Removes uracil (deaminated cytosine) artifacts from FFPE

  • Thermolabile UDG can be used to eliminate PCR “carry over”
    contamination when dUTP is substituted for dTTP in the
    primary PCR reaction mix

  • As a probe for protein-DNA interaction studies

  • Glycosylase mediated single nucleotide polymorphism
    detection (GMPD)

Thermolabile UDG
Coming soon

Thermolabile UDG creates abasic sites in uracil-containing
DNA; degrades uracil-containing DNA; gene isolated
from a marine bacterium; inactivated by incubation
for 10 min at >50°C 
Thermolabile UDG can be used to eliminate PCR “carry over”
contamination when dUTP is substituted for dTTP in the primary
PCR reaction mix

10X Uracil Cleavage
Coming soon
The system consists of two enzyme components, Uracil
DNA Glycosylase and Endonuclease VIII. When the enzymes
are added sequentially to a reaction where a synthetic DNA
fragment contains a deoxyuracil, a single nucleotide gap
is generated at the location of the uracil residue
  • Enzymatically generates uracil nucleotide gaps in vitro
  • UDG is a DNA-specific enzyme that does not excise uracil
    from RNA substrates. Targeted incorporation of deoxyuridine
    nucleotides into oligonucleotides may be used with the
    enzyme system for the specific cleavage of sections of DNA,
    or DNA templates, from DNA:RNA hybrids.
Endonuclease VIII
Coming soon
Endonuclease VIII functions as both an N-glycosylase
(by excising oxidative base lesions) and an AP lyase (by
subsequently cleaving the phosphodiester backbone), leaving
terminal phosphates at the 5’ and 3’ ends; participates in base
excision repair of oxidatively generated DNA damage 
  • Excises damaged pyrimidines from duplex DNA
  • Used to measure DNA damage via single cell gel
    electrophoresis (Comet assay)
Looking for more enzymes?
Subscribe now and be the first to get notified of our entire portfolio, coming soon!
Do you have any questions? 
Need more detailed information about our enzymes? 
Starting a new lab?  Your nearest sales representative is waiting to hear from you.