Off-Patent DNA Polymerases
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Open DNA Polymerases
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Project Collaborators: Open Bioeconomy Lab (University of Cambridge), Kumasi Hive
Individual Contributors: Jenny Molloy (University of Cambridge), Harry Akligoh (Kumasi Hive), Chiara Gandini (University of Cambridge)
Supported by: Shuttleworth Foundation

This spreadsheet documents open DNA polymerase sequences whereby the patent covering the enzyme or sequence itself has expired.
The uses of that enzyme for molecular biology and biotechnology protocols and applications may still be covered by patents in various countries and we are compiling a list of these separately.
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Key to column headings
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DNA PolymeraseName or commonly used description of the DNA polymerase. Equivalent trademarked names are provided for reference where applicable.
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Patent ExpiredWhether the patent covering the enzyme or its sequence has expired.
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Features and ApplicationsFeatures of the polymerase and its applications in molecular biology and biotechnology
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Original PaperThe paper where the enzyme is initially described, in some cases this is the original discovery and in some cases the first characterisation of the recombinant form or where possible both cases are provided.
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Original Patent FamilyThe first patent family covering the enzyme, which may not include all subsequent modifications.
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US Filing/Application DatePriority date for the first US patent covering the enzyme. This is the date at which protection for the invention begins.
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US Issue DateIssue date for the first US patent covering the enzyme.
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US Expiration DateIn the United States, for utility patents filed on or after June 8, 1995, the term of the patent is 20 years from the earliest filing date of the application on which the patent was granted and any prior U.S. or Patent Cooperation Treaty (PCT) applications from which the patent claims priority (excluding provisional applications). For patents filed prior to June 8, 1995, the term of patent is either 20 years from the earliest filing date as above or 17 years from the issue date, whichever is longer. We have used this formula except in cases where i) an extension to term or a termination has been specified in the patent; ii) the patent is listed as expired due to lack of payment of fees.
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OrganismOrganism from which the wild-type sequence was sourced.
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DNA SequenceComplete nucleotide coding sequence from patents or public repositories
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Protein SequenceComplete amino acid sequence from patents or public repositories
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Raw sequence on BenchlingComplete nucleotide coding sequence from patents or public repositories (Benchling Link)
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Codon optimised sequence on Benchling
Complete nucleotide coding sequence from patents or public repositories, codon optimised using OPTIMIZER with the following settings:
Data from the HEG-DB: Eschirechia coli K12 MG1655
Codon usage (HEG) - Codon usage of predicted highly expressed genes
Genetic code: 11 Eubacterial
Guided random optimisation

In cases where only the amino acid sequence could be retrieved, this was reverse transcribed and codon optimized in one step using the OPTIMIZER settings above and the Eubacteria genetic code. In these cases the Raw and Codon Optimised versions of the sequences are identical.
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Domesticated sequence on BenchlingCodon optimised sequence with restriction sites for DNA assembly removed using http://trsheph.scripts.mit.edu/SyGS/
SapI sites have also been manually removed.
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NotesAny additional notes relevant to the enzyme or patents
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Purification/Affinity Tags Used
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Notes on Benchling
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Twist synthesis score
Is the score that the sequence will reach if submitted to Twist for synthesis. It could be standard, Difficult, Impossible or Too Short (impossible sequences are adjusted to standard e.g. tandem of A are broke changing codon)
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not yet in OpenEnzyme collection
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present in Open Enzyme collection
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