Uniqure Biopharma B v. v. Pfizer Inc.

CourtCourt of Appeals for the Federal Circuit
DecidedMay 22, 2025
Docket23-1404
StatusUnpublished

This text of Uniqure Biopharma B v. v. Pfizer Inc. (Uniqure Biopharma B v. v. Pfizer Inc.) is published on Counsel Stack Legal Research, covering Court of Appeals for the Federal Circuit primary law. Counsel Stack provides free access to over 12 million legal documents including statutes, case law, regulations, and constitutions.

Bluebook
Uniqure Biopharma B v. v. Pfizer Inc., (Fed. Cir. 2025).

Opinion

Case: 23-1404 Document: 65 Page: 1 Filed: 05/22/2025

NOTE: This disposition is nonprecedential.

United States Court of Appeals for the Federal Circuit ______________________

UNIQURE BIOPHARMA B.V., Appellant

v.

PFIZER INC., Appellee ______________________

2023-1404, 2023-1405, 2023-1406 ______________________

Appeals from the United States Patent and Trademark Office, Patent Trial and Appeal Board in Nos. IPR2021- 00925, IPR2021-00926, IPR2021-00928. ______________________

Decided: May 22, 2025 ______________________

MARK CHRISTOPHER FLEMING, Wilmer Cutler Pickering Hale and Dorr LLP, Boston, MA, argued for appellant. Also represented by EMILY R. WHELAN; JOSHUA LLOYD STERN, Washington, DC.

DOV PHILIP GROSSMAN, Williams & Connolly LLP, Washington, DC, argued for appellee. Also represented by DAVID I. BERL, KATHRYN SCHLECKSER KAYALI, XUN LIU, SHAUN PATRICK MAHAFFY. ______________________ Case: 23-1404 Document: 65 Page: 2 Filed: 05/22/2025

Before DYK, CHEN, and STARK, Circuit Judges. STARK, Circuit Judge. Appellant uniQure Biopharma B.V. (“uniQure”) ap- peals from Final Written Decisions (“FWD”) of the Patent Trademark and Appeal Board (“Board”) finding that all challenged claims of uniQure’s U.S. Patent Nos. 9,982,248 (“’248 patent”) and 10,465,180 (“’180 patent”) are unpatent- able. Because the Board did not commit any legal error and its factual findings are supported by substantial evi- dence, we affirm. I A Hemophilia B is a serious bleeding disorder caused by a single-gene mutation that leads to decreased or absent production of Factor IX (“FIX”), a protein critical to the body’s blood coagulation process. Traditional treatment for hemophilia B involves protein replacement therapy, by which recombinantly (artificially) made FIX is adminis- tered to a patient through frequent infusions. Given that hemophilia B is caused by a single genetic mutation, the disease is an ideal candidate for treatment via gene ther- apy. In this context, gene therapy involves dosing a patient with a viral vector containing genetic information coding for the production of FIX. Gene therapy thereby allows the patient to continuously produce her own FIX protein, re- ducing or even eliminating reliance on protein replacement therapy for treatment. Gene therapy requires the use of a viral vector to de- liver genetic material into a patient’s cells. These viral vec- tors elicit an immune response – a response that in this context is undesirable – which may be exacerbated by higher viral vector doses. This presented an obstacle to the development of successful hemophilia B gene therapy, since the high viral vector doses that may be necessary to Case: 23-1404 Document: 65 Page: 3 Filed: 05/22/2025

UNIQURE BIOPHARMA B.V. v. PFIZER INC. 3

achieve efficacious results may also cause patients to expe- rience serious adverse immune responses. uniQure’s ’248 and ’180 patents purport to tackle this problem by utilizing a mutated version of the wild-type FIX gene 1 in gene therapy. The specific mutation utilized by the uniQure process is called “FIX-R338L” and consists of an amino acid substitution of leucine for the wild-type ar- ginine at position 338 of the FIX protein. FIX-R338L is eight to nine times more active than wild-type FIX. This higher activity of the FIX protein allows for lower viral vec- tor dosing and, thus, reduced patient immune activation in the context of gene therapy. Utilizing FIX-R338L, uniQure developed HEMGENIX®, an FDA-approved gene therapy for the treatment of hemophilia B. Representative claims 1 of uniQure’s ’248 and ’180 pa- tents are reproduced below: A method of treating a coagulopathy in a human patient, comprising administering a vector to the human patient, wherein: a. the vector is an adeno-associated virus; b. the vector comprises a nucleic acid encoding a modified FIX polypeptide, the modified FIX pol- ypeptide comprising at least 70% identity to SEQ ID NO: 2 and a leucine in position 338 of SEQ ID NO:2; and c. the vector comprises promoter sequences and transcription termination and control elements; thereby treating the coagulopathy.

1 “Wild-type FIX” is also known as “non-mutant” FIX. A wild-type protein is one that is naturally occurring, commonly found in a population, and can be used as a standard against which mutations are measured. Case: 23-1404 Document: 65 Page: 4 Filed: 05/22/2025

J.A. 186. An adeno-associated virus vector comprising: a. a nucleic acid encoding a modified FIX polypep- tide, the modified FIX polypeptide comprising at least 70% identity to SEQ ID NO: 2 and a leucine in position 338 of SEQ ID NO: 2; and b. promoter sequences, transcription termination, and control elements. J.A. 212. B Pfizer, Inc. (“Pfizer”) filed three petitions for inter partes review (“IPR”) of the ’248 and ’180 patents and the Board instituted IPR for all three. As pertinent to this ap- peal, the petitions set out the following grounds for un- patentability: (i) all claims of the ’248 patent are unpatentable as obvious over Stafford and Manno or, alter- natively, over Stafford, Manno, and Schuettrumpf; and (ii) all claims of the ’180 patent are invalid as anticipated by Stafford. 2 WO 99/03496 (“Stafford”) is an international patent ap- plication published on January 28, 1999, entitled “Factor IX Antihemophilic Factor with Increased Clotting Activ- ity.” J.A. 1283. Stafford discloses a “recombinant FIX ar- ginine 338 alanine mutant” (“FIX-R338A”) “which result[s] in a gain-of-function whose activity levels are 2-3 folds

2 Specifically, IPR2021-00925 determined claims 1, 3, 7-10, 14-16, 19, and 20 of the ’248 patent unpatentable as obvious; IPR2021-00926 determined claims 2, 5, 6, 11- 13, 17, and 18 of the ’248 patent unpatentable as obvious; and IPR 2021-00928 determined claims 1-6 of the ’180 pa- tent unpatentable as anticipated and obvious. uniQure’s appeals from the three FWDs were consolidated. Case: 23-1404 Document: 65 Page: 5 Filed: 05/22/2025

UNIQURE BIOPHARMA B.V. v. PFIZER INC. 5

higher than that found in wild type FIX.” J.A. 5; see also J.A. 1286. Stafford claims all non-naturally occurring mammalian FIX proteins having an amino acid substitu- tion at position 338, including dependent claims directed to preferred embodiments: “said substitution is a substitution of an arginine residue for an amino acid residue selected from the group consisting of alanine, leucine, and valine.” J.A. 1302 ¶ 3 (emphasis added). Stafford further narrows its three preferred embodiments by specifically claiming a FIX protein in which the arginine at position 338 is substi- tuted with leucine, i.e., FIX-R338L, see J.A. 1302 ¶5, and explains that this variant had improved clotting activity, see J.A. 1286. Stafford teaches that the mutations it dis- closes “advantageously have increased clotting activity,” by as much as two to three times “as compared to the corre- sponding wild-type molecule.” J.A. 1286. Manno is an article published in Nature Medicine in 2006. See Catherine S. Manno et al., Successful Transduc- tion of Liver in Hemophilia AAV-Factor IX and Limitations Imposed by the Host Immune Response, 12 NATURE MED. 342 (2006). Manno reports the results of a clinical trial that involved treating seven patients with severe hemophilia B by delivering wild-type FIX with an adeno-associated virus vector (“AAV”). Manno reported that this “AAV-FIX-wild type” gene therapy was “[s]uccessful,” resulting in “thera- peutic levels” of FIX over a period of approximately eight weeks. J.A. 1570-1573. Manno acknowledges that “thera- peutic levels [of FIX] in humans [were] short lived,” due to immune responses triggered by and against the AAV vector she used, but nonetheless discloses short-term treatment of hemophilia B utilizing AAV-FIX-wild type. J.A. 1570. Schuettrumpf is a 2004 academic article.

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