`
`
`
`
`
`
`
`
`Paper No. 32
`
`Entered: February 4, 2015
`
`UNITED STATES PATENT AND TRADEMARK OFFICE
`____________
`
`BEFORE THE PATENT TRIAL AND APPEAL BOARD
`____________
`
`
`BUTAMAX ADVANCED BIOFUELS LLC,
`Petitioner,
`v.
`GEVO, INC.,
`Patent Owner.
`
`____________
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`____________
`
`Held: October 28, 2014
`____________
`
`
`
`
`BEFORE: RAMA G. ELLURU, CHRISTOPHER L. CRUMBLEY,
`and KERRY BEGLEY, Administrative Patent Judges.
`
`
`APPEARANCES:
`
`ON BEHALF OF THE PETITIONER:
`
`
`DEBORAH STERLING, ESQ., Ph.D.
`
`
`PETER JACKMAN, ESQ.
`
`
`Sterne, Kessler, Goldstein & Fox P.L.L.C.
`
`
`1100 New York Avenue, N.W.
`
`
`Washington, D.C. 20005
`
`
`
`
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`ON BEHALF OF PATENT OWNER:
`
`
`BRETT LUND, ESQ., MBA
`
`
`Gevo, Inc.
`
`
`345 Inverness Drive South
`
`
`Building C, Suite 310
`
`
`Englewood, Colorado 80112
`
`
`
`
`The above-entitled matter came on for hearing on Tuesday,
`October 28, 2014, commencing at 9:06 a.m., at the U.S. Patent and
`Trademark Office, 600 Dulany Street, Alexandria, Virginia.
`
`
`
`
`
`
`
`
`
` P R O C E E D I N G S
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`- - - - -
`
`JUDGE CRUMBLEY: Have a seat, everyone.
`
`Good morning, everyone. I appreciate the patience. This
`
`morning we have our final hearing in IPR2013-00539, Butamax
`
`Biofuels versus Gevo. I'm Judge Crumbley and to my right is Judge
`
`Elluru, to my left is Judge Begley.
`
`We will get appearances, for the Petitioner, please?
`
`MS. STERLING: Good morning, my name is Deborah
`
`Sterling from Sterne, Kessler, Goldstein & Fox, and this is Peter
`
`10
`
`Jackman with me, who is lead back-up counsel for Petitioner.
`
`11
`
`JUDGE CRUMBLEY: Good morning. Who do we have
`
`12
`
`from the Patent Owner?
`
`13
`
`MR. LUND: Good morning, Your Honors, Brett Lund,
`
`14
`
`lead counsel for Gevo.
`
`
`
`
`
` 2
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`11
`
`JUDGE CRUMBLEY: We put this in our trial order just
`
`so everybody is on the same page, everybody will have an hour,
`
`Petitioner may reserve time for rebuttal at the beginning of the
`
`argument. Gevo will then have an opportunity to present any
`
`argument in response, and then the rebuttal time. I'm notoriously bad
`
`at setting the clock with the lights up here, so unless either party
`
`objects, I will use the clock on the wall and I will try to give you a
`
`five-minute warning when you get close to your time. Is that all right
`
`with everyone?
`
`COUNSEL: Fine.
`
`JUDGE CRUMBLEY: So, if nothing else, you may
`
`12
`
`begin when you're ready, Ms. Sterling. Are you reserving any time?
`
`13
`
`MS. STERLING: I will, I will reserve 20 minutes,
`
`14
`
`please.
`
`15
`
`16
`
`JUDGE CRUMBLEY: Twenty?
`
`MS. STERLING: Twenty, please. I brought hard copies
`
`17
`
`of the slides. May I approach?
`
`18
`
`19
`
`JUDGE CRUMBLEY: Absolutely.
`
`MS. STERLING: May it please the Board, really there
`
`20
`
`are a few issues of contention here this morning. For start, the
`
`21
`
`contention of priority as to whether Gevo's claims in the '565 patent
`
`22
`
`are entitled to claim the benefit of priority of the provisional
`
`23
`
`applications. Secondly, whether the art used in the combination for
`
`24
`
`the 103 ground teaches away from the claims, and whether there are
`
`
`
`
`
` 3
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`secondary considerations commensurate in scope with the claims that
`
`would weigh in favor of the patentability.
`
`So, we plan to talk about the three contentious issues.
`
`We also understand that the Board has questions, and issues from our
`
`phone conference, so we're also happy to address any of the Board's
`
`questions that they have.
`
`JUDGE CRUMBLEY: We always have questions.
`
`MS. STERLING: So, if we can get started, go to slide 3,
`
`please. If we start with ground 1, and this is the anticipation ground
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`where claims 1 to 4, 6 to 8 and 11 to 19 are anticipated by the Flint
`
`11
`
`reference. And Gevo doesn't contend that Flint teaches each and
`
`12
`
`every limitation of these claims, but the contention here lies around
`
`13
`
`priority date, because if Gevo was entitled to claim the benefit of the
`
`14
`
`provisional applications, Flint is not prior art.
`
`15
`
`So, if we look at the prior art, of course, lies with the
`
`16
`
`claims, so the next slide, this is claim 1.
`
`17
`
`JUDGE BEGLEY: Before we get into the priority, just
`
`18
`
`on the anticipatory disclosure, I have a question about claim 12. I
`
`19
`
`understand that you've cited paragraph 6 of Flint for that, specifically
`
`20
`
`a disclosure that "native yeast DHAD is located in the mitochondria."
`
`21
`
`Can you explain how that discloses the recombinantly overexpressed
`
`22
`
`DHAD being localized and located in the mitochondria?
`
`23
`
`24
`
`MS. STERLING: Sure. Bear with me for a second.
`
`JUDGE BEGLEY: Page 35 of the expert declaration.
`
`25
`
`It's the claim chart where paragraph 6 of Flint is cited, and I'm just
`
`
`
`
`
` 4
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`wondering if you could elaborate on that and explain how it discloses
`
`the claim limitation.
`
`MS. STERLING: Yes, I see that, and it says that native
`
`yeast DHAD is localized in the mitochondria, and I guess your
`
`question is would that be a recombinant yeast microorganism that's
`
`recombinantly overexpressing DHAD. Is that your question?
`
`JUDGE BEGLEY: Yes.
`
`MS. STERLING: So, as cited in the petition, we also
`
`cite to other paragraphs of the Flint reference, if I can just look at
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`those. So, here, in Flint, it talks about using yeast host cells and
`
`11
`
`overexpressing a yeast DHAD enzyme. This is, for example, at
`
`12
`
`paragraph 25 in Flint, a yeast enzyme is natively targeted to the
`
`13
`
`mitochondria, so expressing a yeast DHAD within a yeast
`
`14
`
`microorganism, it would be natively or it would be expressed in the
`
`15
`
`mitochondria, unless one expressed it without a mitochondrial
`
`16
`
`targeting sequence, but there's no indication in Flint in certain of these
`
`17
`
`paragraphs, example 25, for example, that the mitochondrial targeting
`
`18
`
`sequence was removed.
`
`19
`
`20
`
`Does that answer your question?
`
`JUDGE BEGLEY: So, if there's no indication that the
`
`21
`
`mitochondrial target was removed, but that doesn't teach that -- it
`
`22
`
`doesn't teach the opposite, I guess, is what I'm --
`
`23
`
`MS. STERLING: Well, DHAD is natively localized in
`
`24
`
`the mitochondria in yeast.
`
`25
`
`JUDGE BEGLEY: Yes.
`
`
`
`
`
` 5
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`MS. STERLING: So, if a yeast is expressing a yeast
`
`DHAD, that DHAD would be targeted to the mitochondria.
`
`Does that answer your question?
`
`JUDGE BEGLEY: Yes.
`
`MS. STERLING: Thank you. So, I'll return to priority,
`
`and if we look at the claim, and we've just discussed one part of it, the
`
`claim is to recombinant yeast microorganism comprising a
`
`recombinantly overexpressed polynucleotide encoding a dihydroxy
`
`acid dehydratase, which we will call DHAD, and then a yeast enzyme,
`
`10
`
`a GRX3 protein, a GRX3 or GRX4, and inactivation, which we have
`
`11
`
`all agreed based on claim construction is an absence of activity,
`
`12
`
`results from the deletion of one or more nucleotides of a gene
`
`13
`
`encoding of the GRX3 or 4, the insertion of one or more nucleotides
`
`14
`
`into that gene, or combinations thereof.
`
`15
`
`Looking at the provisional applications to which the '565
`
`16
`
`claims priority benefit, there is no disclosure of which, if any -- I'm
`
`17
`
`sorry, go back a slide -- which, if any, nucleotides would be inserted
`
`18
`
`or deleted from the gene. At best, there's one sentence that talks
`
`19
`
`about -- discloses that GRX3 or 4 may be deleted or attenuated. Aside
`
`20
`
`from that, there's other language in the specification generally related
`
`21
`
`to engineering, and that language -- slide 4, please -- is the language
`
`22
`
`that Gevo relies upon to allege their support in provisional
`
`23
`
`applications.
`
`24
`
`And we've taken the language from their -- that they've
`
`25
`
`quoted from the provisional applications, and this is simple language
`
`
`
`
`
` 6
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`just saying that engineering is mutating polynucleotide, and those
`
`mutations include deletions or insertions of single or multiple
`
`residues, alternating disrupting or deleting or deleting all or part of a
`
`gene, but there is no indication --
`
`JUDGE CRUMBLEY: Well, counsel, I just want to
`
`make sure I'm clear on this. So, you don't dispute that they have
`
`support for inactivating GRX3/4 by deleting one or more nucleotides?
`
`MS. STERLING: The words are there.
`
`JUDGE CRUMBLEY: Right.
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`MS. STERLING: I would say that does not provide
`
`11
`
`written description support for the full breadth of that --
`
`12
`
`JUDGE CRUMBLEY: So, I thought your argument was
`
`13
`
`that they didn't support inserting or attenuating but rather deleting is
`
`14
`
`disclosed. Am I mistaken on that?
`
`15
`
`MS. STERLING: We would say at best, deletion of all
`
`16
`
`of a gene would inactivate activity. And there are the words "deleting
`
`17
`
`all or part of a gene."
`
`18
`
`19
`
`JUDGE CRUMBLEY: Right.
`
`MS. STERLING: But the claim is much broader than
`
`20
`
`that, it includes inserting one nucleotide or more.
`
`21
`
`JUDGE CRUMBLEY: Well, once I've targeted the gene
`
`22
`
`for deletion, how is a person of ordinary skill in the art not also in
`
`23
`
`possession of inserting into that gene for inactivation purposes?
`
`24
`
`You've identified the gene for deletion, so I mean, a person of
`
`25
`
`ordinary skill would know that that gene is the target for doing other
`
`
`
`
`
` 7
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`things as well. And there's disclosure in the provisionals about
`
`mutations, and viewpoint insertions, but I guess I'm trying to see why
`
`a person of ordinary skill isn't going to make that step.
`
`MS. STERLING: The -- I think maybe Eli Lilly speaks
`
`to this, where the actual words themselves, deletion or insertion, even
`
`if you know a gene or a protein, is not enough. Here there's a function
`
`related here, it's inactivation, and there's no correlation between the
`
`structure of the gene and that function that inactivation of the gene or
`
`lack of activity of the gene beyond, at best, a complete gene deletion.
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`That would, of course, delete activity and there would be an inactive
`
`11
`
`gene protein, but as to, you know, which one or two, or more,
`
`12
`
`nucleotides could be inserted, deleted or both, there's no disclosure in
`
`13
`
`the patent that would correlate a structure-function relationship.
`
`14
`
`There's no discussion of similarities between GRX3s across different
`
`15
`
`species, there's no discussion of a, you know, an active site or a
`
`16
`
`binding site that may be somewhere where a person might start to
`
`17
`
`envision possession of these species across the full breadth of the
`
`18
`
`genus. And in this case --
`
`19
`
`JUDGE ELLURU: So, is it your position that the
`
`20
`
`disclosure would have to identify the specific nucleotides that have to
`
`21
`
`be deleted or inserted into the DHAD gene?
`
`22
`
`MS. STERLING: I think it would have to give it at least
`
`23
`
`more than what it has, you know, give it some guidance towards the
`
`24
`
`structure-function correlation as to where a person might start.
`
`
`
`
`
` 8
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`JUDGE ELLURU: And you don't think a person of
`
`ordinary skill in the art would have that knowledge that if they knew
`
`they were trying to delete or insert a nucleotide to inactivate the gene,
`
`that they would be able to have the knowledge to figure that out?
`
`MS. STERLING: Well, the knowledge to figure it out, in
`
`our opinion, goes more to enablement. We're not saying that the
`
`person couldn't sit down and start screening through nucleotides at a
`
`time and working through techniques that were known in the art, but
`
`just because someone can take this teaching and go and then start
`
`10
`
`screening and may be able to arrive at a deleted or an attenuated
`
`11
`
`GRX3 that would involve deleting or inserting one or more
`
`12
`
`nucleotides, and maybe they could get there without undue
`
`13
`
`experimentation, but that's the point here is whether the inventors had
`
`14
`
`possession, it's a written description issue that we see here.
`
`15
`
`JUDGE ELLURU: That's my point. That is my point. I
`
`16
`
`mean, it does -- the disclosure does discuss inactivating via insertions
`
`17
`
`and deletions.
`
`18
`
`MS. STERLING: With no guidance as to where those
`
`19
`
`insertions or deletions may be, and the art of record and the art that
`
`20
`
`was available, yes, the sequence was available, but the only teachings
`
`21
`
`of attenuating GRX3 or GRX4 activity known at the time in the art
`
`22
`
`was a complete gene deletion.
`
`23
`
`JUDGE CRUMBLEY: It sounds to me, to go off my
`
`24
`
`colleague's question here, it sounds to me like you're making the
`
`25
`
`enablement argument, you're saying a person of ordinary skill doesn't
`
`
`
`
`
` 9
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`know how to implement insertion because you don't tell them, you
`
`know, what particular gene to insert it into.
`
`MS. STERLING: I'm saying that the inventors didn't
`
`know a specific insertion or deletion that could be made. If you think
`
`of the myriad combinations here, these proteins have about 750 to 800
`
`amino acids or nucleotides. So, if you think of a combination of
`
`inserting one or more is 1 to 700 or 800, deleting is 1 to 700 or 800,
`
`and a combination of both. I can't do that math on the spot, but
`
`that's -- it's a myriad combination, and it's a very broad claim with no
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`disclosure of even where the inventors thought these nucleotides
`
`11
`
`might exist or what nucleotides they thought might be inserted or
`
`12
`
`deleted or where that might be.
`
`13
`
`JUDGE BEGLEY: Are you disputing that it was well
`
`14
`
`known how to delete or insert nucleotides to inactivate a protein?
`
`15
`
`MS. STERLING: I'm not asserting that it was well
`
`16
`
`known, I'm saying with regard to these proteins in particular, the only
`
`17
`
`thing that was known at that time was a complete gene deletion.
`
`18
`
`JUDGE BEGLEY: Is there something different about
`
`19
`
`GRX3 or GRX4 that would make it harder than other proteins in the
`
`20
`
`art?
`
`21
`
`MS. STERLING: No, but again, I think that goes to
`
`22
`
`enablement as to whether a person could take this teaching and use
`
`23
`
`known techniques to start to screen. Whether that would, you know,
`
`24
`
`take undue experimentation to activate a gene by inserting one or
`
`25
`
`more nucleotides or deleting or both. I mean, we haven't argued that,
`
`
`
`
`
` 10
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`and I'm not saying those techniques weren't well known. What I'm
`
`saying is, the disclosure of the words, deletion, insertion, without
`
`more, without a structure-function correlation, and here there is a
`
`function of inactivating a gene, the case law is clear, that's not enough
`
`for a written description.
`
`JUDGE CRUMBLEY: Go ahead.
`
`MS. STERLING: You looked like you had another
`
`question, I didn't want to interrupt.
`
`JUDGE CRUMBLEY: I was thinking it through, but I
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`will have another question eventually.
`
`11
`
`MS. STERLING: So, based on the disclosure of just the
`
`12
`
`words, without more, there's no structure-function correlation, in Eli
`
`13
`
`Lilly and other cases indicated that this is not enough for written
`
`14
`
`description support. So, based on that, the '565 patent is not entitled
`
`15
`
`to a priority benefit date earlier than its own filing date and Flint does
`
`16
`
`become prior art.
`
`17
`
`And then in that case, as we mentioned, Patent Owner
`
`18
`
`has not contended that Flint teaches all the limitations of the claims.
`
`19
`
`So that's really all we had to say about ground 1, if you don't have any
`
`20
`
`other questions.
`
`21
`
`22
`
`23
`
`JUDGE CRUMBLEY: Well, before you move on.
`
`MS. STERLING: Of course.
`
`JUDGE CRUMBLEY: That's one -- one rationale that
`
`24
`
`you can get for breaking the priority chain in your petition. There
`
`
`
`
`
` 11
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`were some others, that we didn't really reach, but since I have you
`
`here.
`
`MS. STERLING: Okay.
`
`JUDGE CRUMBLEY: I can't remember how many
`
`there were, I think it might have been four and I think the last two had
`
`to do with the dependent claims, what was disclosed in the dependent
`
`claims, I think one of them was the genera and species of a particular
`
`yeast.
`
`MS. STERLING: Um-hmm.
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`JUDGE CRUMBLEY: I'm having a hard time with that
`
`11
`
`argument, because it seems to say that if you don't support the added
`
`12
`
`limitation of a dependent claim, then your broadest claim from which
`
`13
`
`it depends also lacks written description support?
`
`14
`
`MS. STERLING: For the full scope of that claim, yes,
`
`15
`
`but there may be -- I mean, I'm not saying, there's case law I know
`
`16
`
`that says that if you disclose sufficient species, you may disclose a
`
`17
`
`genus, but in this case, given that the actually claimed species, you
`
`18
`
`know, weren't supported in the specification, I think it's --
`
`19
`
`JUDGE CRUMBLEY: Yeah, I guess I'm just -- do you
`
`20
`
`have any case you can cite me where they've said -- where any court
`
`21
`
`has said that the broadest independent claim is -- lacks written
`
`22
`
`description support if any of its dependent claims lack written
`
`23
`
`description support? I mean, that just seems backwards to me.
`
`24
`
`MS. STERLING: Well, if you think about it, think of
`
`25
`
`ICU Medical, or Gentry Gallery, for example, and I think this speaks
`
`
`
`
`
` 12
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`more to the other dependent claim, which was mitochondrially
`
`localized and cytosolically localized. So, if you think of that, that
`
`depending from claim 1, you know, a dependent claim, the
`
`independent claim must always be broader than the dependent claim.
`
`That's settled law.
`
`So, if you think about claim 1, claim 1 must encompass a
`
`recombinant produced yeast where the DHAD is in the mitochondria,
`
`or in the cytosol, so it's either there in place A or place B, and if the
`
`specification only discloses it being in place A, there is basically no
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`written description for half of that claim, and that's essentially like
`
`11
`
`ICU Medical, where there was the needle, which was either spiked or
`
`12
`
`spikeless, but only disclosure for one of those -- it was like a generic
`
`13
`
`claim for a needle, but the disclosures were different.
`
`14
`
`15
`
`So, that's the case law that we think along those lines.
`
`JUDGE BEGLEY: What if there was no dependent
`
`16
`
`claim talking about DHAD localized in the cytosol or the
`
`17
`
`mitochondria? I mean, basically the way I understand your argument
`
`18
`
`is because they've included dependent claims, they need to cover --
`
`19
`
`the written description support for -- the independent claim needs to
`
`20
`
`cover all the dependent claims, but if they hadn't included those
`
`21
`
`dependent claims, the written description wouldn't have been
`
`22
`
`required?
`
`23
`
`MS. STERLING: It might have been a different story --
`
`24
`
`without having those hypothetical claims in front of me, it might have
`
`25
`
`been a different story, but here the patentee chose to claim in a way
`
`
`
`
`
` 13
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`that indicate claim 1 is broader than what it had support for, based
`
`on --
`
`JUDGE CRUMBLEY: But that doesn't make sense to
`
`me because now you're saying that if they went back and deleted the
`
`dependent claim, then they've solved their written description problem
`
`with the broader claim, which, again, I just don't logically follow that.
`
`I mean, it's almost as if you're saying -- I mean, the scope of the
`
`independent claim is not going to change; you agree with me there?
`
`MS. STERLING: I'm sorry, I'm nodding, yes, I agree
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`with you.
`
`11
`
`JUDGE CRUMBLEY: Say yes or no. So, I guess it's
`
`12
`
`baffling to me that the argument would turn on whether a dependent
`
`13
`
`claim was crafted or not.
`
`14
`
`MS. STERLING: I would agree with you, and I, too,
`
`15
`
`have had a similar issue with the same case law when the Patent
`
`16
`
`Owner has an opportunity to later change its claims, generally this
`
`17
`
`case law comes up in the Federal Circuit, we're already in District
`
`18
`
`Court and the patentee can no longer change its claims.
`
`19
`
`So, there it makes more sense, the patentee is locked in,
`
`20
`
`but I agree with you, in a position where the patentee can go back and
`
`21
`
`change claims, it does seem to lose logical sense, but we're bound by
`
`22
`
`the case law that's out there, and that's the rationale that was followed.
`
`23
`
`24
`
`JUDGE CRUMBLEY: Okay.
`
`MS. STERLING: Okay?
`
`
`
`
`
` 14
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`JUDGE BEGLEY: I have a question about the last
`
`theory of written description. So, I think that shares the same like
`
`legal premise about the dependent claims and the independent claim
`
`written description, but for that one, you've stated that the PTO has
`
`already held that the provisionals don't describe DHAD localized in
`
`the mitochondria.
`
`MS. STERLING: That's correct.
`
`JUDGE BEGLEY: So, are you affirmatively
`
`representing that the DHAD -- that the provisionals don't have that
`
`10
`
`disclosure, or just that we've -- the office has previously held that?
`
`11
`
`MS. STERLING: Both. So, to put it in context, the
`
`12
`
`parent application is in re-examination, where the same argument was
`
`13
`
`made, and there the patent office, the CRU, found no disclosure for
`
`14
`
`the DHAD.
`
`15
`
`JUDGE BEGLEY: So, I guess the problem I have with
`
`16
`
`that is that if there's a whole section in the 209 provisional that's titled
`
`17
`
`Mitochondrially Localized DHAD for Isobutanol Production. So, if
`
`18
`
`you don't have any discussion of that and how it doesn't disclose the
`
`19
`
`claim language, how can we find in your favor for that theory of lack
`
`20
`
`of written description?
`
`21
`
`MS. STERLING: I'm sorry, you said the provisionals
`
`22
`
`have?
`
`23
`
`JUDGE BEGLEY: The provisionals have disclosures of
`
`24
`
`DHAD localized in the mitochondria, and a whole section talking
`
`
`
`
`
` 15
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`about DHAD localized in the mitochondria. So, if you haven't
`
`addressed that in this proceeding, how can we find in your favor?
`
`MS. STERLING: I guess it's hard for you to do so.
`
`JUDGE BEGLEY: Okay.
`
`JUDGE CRUMBLEY: Okay.
`
`MS. STERLING: Okay? So, for ground 2, slide 7,
`
`please. I'm sorry, slide 6.
`
`Ground 2 is an obviousness ground, where claims 1 to 4,
`
`6 to 8 and 11 to 19 would have been obvious in view of Anthony,
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`Puig and Ojeda. And Gevo hasn't contested that these references are
`
`11
`
`prior art, nor has it contested some of the teachings in these
`
`12
`
`references, that Anthony teaches recombinant yeast overexpressing
`
`13
`
`DHAD and reduced activity of iron-sulfur cluster proteins. Puig
`
`14
`
`teaches that Aft induces expression of the iron regulon, including
`
`15
`
`Cth2, and the Cth2 is responsible for downregulating iron-sulfur
`
`16
`
`cluster genes. And this is not contested that Ojeda teaches that
`
`17
`
`deleting GRX3/4 decreases enzymatic activity of the iron-sulfur
`
`18
`
`cluster proteins.
`
`19
`
`What is contested, next slide, please, on slide 7, is the
`
`20
`
`first argument is that Anthony does not teach inactivating GRX3/4,
`
`21
`
`but this is a combination of prior art that renders this claim
`
`22
`
`warrantless.
`
`23
`
`The second argument is that Anthony and Puig teach
`
`24
`
`against overexpressed DHAD, but this argument ignores that Puig
`
`25
`
`teaches downregulation of endogenous DHAD, and there's a
`
`
`
`
`
` 16
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`difference there. And this similarly goes with Ojeda, Ojeda
`
`apparently teaches away from the claims, but Ojeda, again, is related
`
`to endogenous iron-sulfur proteins, not heterogeneously expressed or
`
`exogenous iron-sulfur proteins like the claim requires.
`
`So, if we go to the last slide, for example. If I can
`
`explain, this is a figure from Flint, this is really the background
`
`discussion that's presented in the petition, here's a cell, and we see, we
`
`have this complex here, so there's Aft with GRX3/4 and Fra2, and it's
`
`localized in the mitochondria, and depending on whether iron
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`conditions are high or low, this complex will stay in the mitochondria,
`
`11
`
`or in low-iron conditions, it disassociates and the Aft translates into
`
`12
`
`the nucleus. Aft is a transcription factor.
`
`13
`
`So, what activates the cell and tells the cell to make the
`
`14
`
`iron proteins that is needed, whether it's involved in iron-sulfur cluster
`
`15
`
`formation, iron uptake, scaffolding building, whatever the cell needs
`
`16
`
`the iron for, these genes are upregulated. And one of these is to make
`
`17
`
`iron-sulfur cluster proteins.
`
`18
`
`Certain enzymes and cells, DHAD being one of them,
`
`19
`
`uses iron-sulfur cluster as a cofactor, so it needs the iron-sulfur
`
`20
`
`clusters to work.
`
`21
`
`So, this was all well known in the art, and Anthony
`
`22
`
`teaches a pathway for making isobutanol from pyruvate that includes
`
`23
`
`overexpressing this DHAD enzyme, which is known to require
`
`24
`
`iron-sulfur cluster proteins. Anthony teaches deleting other proteins
`
`25
`
`in the cell that would use these iron-sulfur cluster proteins in order to
`
`
`
`
`
` 17
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`delete or get rid of the competition for the iron-sulfur clusters, and a
`
`person of ordinary skill in the art would understand that's one way of
`
`achieving more iron-sulfur clusters, as a cofactor for your DHAD, but
`
`in view of the teaching of Ojeda and Puig, and there were other ways
`
`available.
`
`So, if we go back to the slide 11. So, this is recreating
`
`basically what Puig has in words, and this is from the expert
`
`declaration in the petition. Here, again, there's the iron complex that
`
`we talked about in high-iron conditions, that's localized in the cytosol,
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`and then in low-iron conditions, there's disassociation and the Aft
`
`11
`
`translocates to the nucleus, where we start seeing these genes being
`
`12
`
`made, and these genes go to iron uptake, iron-sulfur cluster
`
`13
`
`formulation, and assembly.
`
`14
`
`There's also this Cth2 gene, and Ojeda shows that
`
`15
`
`deleting GRX3 or 4 activates Aft. The Cth2 gene, Puig identifies the
`
`16
`
`Cth2 gene downregulates endogenous iron-sulfur cluster proteins and
`
`17
`
`it does so through targeting an area in the 3' untranslated region.
`
`18
`
`So, in this case, overexpressing Aft, you would make
`
`19
`
`more iron-sulfur clusters, and get rid of the iron iron-sulfur cluster
`
`20
`
`proteins that are endogenously made in the cell. So, this would give
`
`21
`
`you like a one-two punch if you think about it, you're getting rid of
`
`22
`
`your competitors, and you're making more cofactor.
`
`23
`
`Now, the teaching away argument is that Cth2
`
`24
`
`downregulates native DHAD, but the art does not teach away from
`
`25
`
`exogenous or heterogeneously expressed or exogenous DHAD, and
`
`
`
`
`
` 18
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`that's because a person of ordinary skill in the art knowing of the
`
`teachings and where the target is in the 3' untranslated region that
`
`Cth2 targets has a reason to use a promoter, which does not have these
`
`targets in it, and those promoters were well known in the art, there's a
`
`textbook cited Sambrook in the record that gives a lot of promoters
`
`that do not have these targets that the Cth would essentially target and
`
`chew up the mRNA, so these proteins aren't being made.
`
`So, if you're overexpressing an exogenous mRNA,
`
`you've got a reason to do it with like targets, so it would not get
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`10
`
`degraded by the Cth2. So, you would have the one-two punch of
`
`11
`
`deleting the competitors, increasing your cofactor while not targeting
`
`12
`
`the overexpressed DHAD, and it's only when you think of the art in
`
`13
`
`context with Anthony, Puig and Ojeda, in the context of Anthony,
`
`14
`
`where it tells you to overexpress an exogenous DHAD that you see
`
`15
`
`this teaching away as irrelevant, because you have regulated the Cth2
`
`16
`
`regulation and indeed you've got a reason to accommodate it.
`
`17
`
`JUDGE CRUMBLEY: I want to ask you about
`
`18
`
`Sambrook, because that was submitted with your reply brief.
`
`19
`
`20
`
`MS. STERLING: Um-hmm.
`
`JUDGE CRUMBLEY: And isn't the teaching of
`
`21
`
`Sambrook necessary for your prima facie case because it's making that
`
`22
`
`step that your expert discussed in his declaration, but to actually
`
`23
`
`provide some support for that, where your expert in his declaration
`
`24
`
`just said it as his say-so. I guess I worry that we're allowing you to
`
`25
`
`make your prima facie case as part of your reply brief.
`
`
`
`
`
` 19
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`MS. STERLING: Well, we would submit that Sambrook
`
`was not required, as you know, Dr. Thiele's testimony was unrebutted
`
`by another expert, it was merely rebutted by attorney argument, and it
`
`was attorney argument that said, well, a person wouldn't have known
`
`that these, you know, you may have these 3' untranslated regions that
`
`don't have this target for Cth2, but you may not, and a person of
`
`ordinary skill in the art may not have known that, and Dr. Thiele cites
`
`nothing. Dr. Thiele is a person of ordinary skill in the art and brought
`
`his knowledge to -- of well-known promoters to the documents that he
`
`10
`
`was reading.
`
`11
`
`So, when things are well known, like promoters that don't
`
`12
`
`have, you know, there's a wealth of promoters well known in the art,
`
`13
`
`that's the sort of thing that a POSA can bring, their own knowledge,
`
`14
`
`you can't ignore the knowledge that a POSA brings to reading the art.
`
`15
`
`So, we cited Sambrook, not that we felt we needed to to
`
`16
`
`support our prima facie case, but more to refute the attorney argument
`
`17
`
`that Dr. Thiele, you know, maybe wasn't an expert or this wasn't well
`
`18
`
`known in the art.
`
`19
`
`JUDGE CRUMBLEY: Well, I guess my concern is that,
`
`20
`
`you know, the statute says that these IPRs have to be based on patents
`
`21
`
`and printed publications. So, we can't just let an expert come in and
`
`22
`
`say this was obvious and tell us to basically create the prima facie
`
`23
`
`case on his own testimony.
`
`24
`
`MS. STERLING: Um-hmm.
`
`
`
`
`
` 20
`
`
`
`Case IPR2013-00539
`Patent 8,273,565 B2
`
`
`1
`
`2
`
`3
`
`4
`
`5
`
`6
`
`7
`
`8
`
`9
`
`JUDGE CRUMBLEY: But I also know that experts are
`
`allowed to fill in gaps, and so part of my worry about this case is
`
`where do we draw that line?
`
`MS. STERLING: Um-hmm.
`
`JUDGE CRUMBLEY: And do we allow your expert to
`
`testify to this, and, I mean, I know it's not a claim element, and yet it's
`
`also very -- it's a test to the sort of logical step of combining and
`
`modifying all of these references.
`
`MS. STERLING: Um-hmm.
`
`10
`
`JUDGE CRUMBLEY: And, so, I mean, if you could just
`
`11
`
`address -- I mean, I -- dissuade me of my concern, if you can.
`
`12
`
`MS. STERLING: Yeah, I mean, I think if you think of
`
`13
`
`Sambrook, it's a standard treatise, you know, the basic material that
`
`14
`
`everyone gets in their first year of undergrad. So, I guess to take your
`
`15
`
`argument to sort of a logical extension, it would mean that a person of
`
`16
`
`ordinary skill in the art couldn't maybe generally discuss PCR an