Multi-domain CD1a antagonist/PD-1 agonist antibody molecules
The present disclosure provides multi-domain molecules comprising, (i) a first binding domain that binds to PD-1, (ii) a second binding domain that binds to CD1a, and optionally, (iii) a half-life extending domain. Such multi-domain molecules are particularly useful in the development of soluble immunotherapeutic reagents for the treatment of autoimmune diseases, such as atopic dermatitis (AD).
1 . A multi-domain molecule comprising:
(i) a first binding domain that binds to PD-1, wherein the first binding domain comprises a CDR1, a CDR2, and a CDR3 comprising the following sequences:
(SEQ ID NO: 1)
CDR1 - GFTFSSYA,
(SEQ ID NO: 2)
CDR2 - IASDGAST, and
(SEQ ID NO: 3)
CDR3 - CARGGYLTYDRY,
and
(ii) a second binding domain that binds to CD1a, wherein the second binding domain comprises a CDR1, a CDR2, and a CDR3 comprising the following sequences:
CDR1—GRTFNPGDLMG (SEQ ID NO: 4),
CDR2—AIKWGPTYYADSVKG (SEQ ID NO: 7), and
CDR3—GSGTFSSNYRDFEY (SEQ ID NO: 10),
wherein the C-terminus of the first binding domain is linked to the N-terminus of the second binding domain.
2 . The multi-domain molecule of claim 1 , wherein the first binding domain binds to an epitope in PD-1 comprising one or more or all of the following amino acids: E38, F59, P60, E61, T75, Q76, L77, P78, N79 and G80, numbered according to SEQ ID NO: 13.
3 . The multi-domain molecule of claim 1 , wherein the first binding domain comprises FR1-CDR1-FR2-CDR2-FR3-CDR3-FR4, wherein FR is a framework region, and wherein FR1, FR2, FR3 and FR4 comprise the following sequences:
FR1—AVQLVESGGGLVQPGGSLRLSCAAS (SEQ ID NO: 14), with zero, one, two or three mutations therein,
FR2—MTWVRQAPGKGPEWVSA (SEQ ID NO: 15), with zero, one, two or three mutations therein,
FR3—SYADSVKGRFTISRDNSKNTLYLQMNSLRPEDTAVYY (SEQ ID NO: 16), with zero, one, two or three mutations therein, and
FR4—YLTYDRYGQGTLVTVSS (SEQ ID NO: 17), with zero, one, two or three mutations therein.
4 . The multi-domain molecule of claim 1 , wherein the first binding domain comprises:
(a) the amino acid sequence provided in SEQ ID NO: 18 or a humanized version thereof, or an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 18; or
(b) the amino acid sequence of SEQ ID NO: 20, or an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 20.
5 . The multi-domain molecule of claim 1 , wherein the second binding domain is a humanized llama anti-CD1a VHH.
6 . The multi-domain molecule of claim 5 , wherein the humanized llama anti-CD1a VHH comprises one or more or all of the following amino acids:
(a) P24, F38, E45, R46, F48, A50, Y73, R75, V78, and G97, numbered according to SEQ ID NO: 21;
(b) P24, F38, F48, Y73, R75, and V78, numbered according to SEQ ID NO: 25;
(c) F38, E45, R46, F48, A50, Y73, K75, V78, P87 and V97, numbered according to SEQ ID NO: 28; or
(d) F38, E45, R46, F48, A50, Y73, K75, V78, and G97, numbered according to SEQ ID NO: 29.
7 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises FR1-CDR1-FR2-CDR2-FR3-CDR3-FR4, wherein FR is a framework region, and wherein FR1, FR2, FR3 and FR4 comprise the following sequences:
FR1—EVQLLESGGGLVQPGGSLRLSCAAS (SEQ ID NO: 30), with zero, one, two or three mutations therein,
FR2—WVRQAPGKGLEWVS (SEQ ID NO: 31), with zero, one, two or three mutations therein,
FR3—RFTISRDNSKNTLYLQMNSLRAEDTAVYYCAAK (SEQ ID NO: 32), with zero, one, two or three mutations therein, and
FR4—WGQGTLVTVSS (SEQ ID NO: 33), with zero, one, two or three mutations therein.
8 . The multi-domain molecule of claim 7 , wherein the mutation(s) in the second binding domain framework regions are selected from:
(a) A24P, V38F, G45E, L46R, W48F, S50A, N73Y, K75R, L78V and A97G numbered according to SEQ ID NO: 21; or
(b) A24P, V38F, W48F, N73Y, K75R, and L78V numbered according to SEQ ID NO: 25.
9 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises the amino acid sequence provided in SEQ ID NO: 34 or a humanized version thereof.
10 . The multi-domain molecule of claim 1 , further comprising (iii) a half-life extending domain, wherein the half-life extending domain comprises a first IgG Fc chain (FC1) and a second IgG Fc chain (FC2), wherein the FC1 chain and FC2 chain dimerise to form an Fc domain, and wherein the C-terminus of the second binding domain is linked to the N-terminus of FC1.
11 . The multi-domain molecule of claim 10 , wherein the half-life extending domain comprises:
(a) one or more amino acid substitutions which facilitate dimerisation of FC1 and FC2;
(b) one or more amino acid substitutions which prevent or reduce binding to FcγR;
(c) one or more amino acid substitutions which promote binding to FcRn;
(d) one or more amino acid substitutions which attenuate an effector function of the Fc domain.
12 . The multi-domain molecule of claim 1 , wherein, the first binding domain is linked to the N-terminus of the second binding domain by a linker and/or IgG hinge sequence.
13 . The multi-domain molecule of claim 1 , wherein the multi-domain molecule comprises the amino acid sequence of:
(a) (i) SEQ ID NO: 57; and (ii) SEQ ID NO: 58;
(b) (i) SEQ ID NO: 59; and (ii) SEQ ID NO: 58; or
(c) (i) SEQ ID NO: 63; and (ii) SEQ ID NO: 58.
14 . A nucleic acid encoding the multi-domain molecule of claim 1 , wherein the first and second binding domains are encoded within a single open reading frame, or within two distinct open reading frames.
15 . An expression vector comprising the nucleic acid of claim 14 .
16 . A cell comprising the expression vector of claim 15 .
17 . A purified and/or engineered cell presenting the multi-domain molecule of claim 1 .
18 . A pharmaceutical composition comprising the multi-domain molecule of claim 1 , together with one or more pharmaceutically acceptable carriers or excipients.
19 . A method of producing a multi-domain molecule, the method comprising a) maintaining a cell comprising the nucleic acid of claim 14 under optimal conditions for expression of the multi-domain molecule and b) isolating the multi-domain molecule.
20 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 21.
21 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 22.
22 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 23.
23 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 24.
24 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 25.
25 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 26.
26 . The multi-domain molecule of claim 1 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 27.
27 . A method for treating an autoimmune disease in a subject, the method comprising administering the multi-domain molecule of claim 1 .
28 . A multi-domain molecule comprising: (i) a first binding domain that binds to PD-1, wherein the first binding domain comprises a CDR1, a CDR2, and a CDR3 comprising the following sequences:
(SEQ ID NO: 1)
CDR1 - GFTFSSYA,
(SEQ ID NO: 2)
CDR2 - IASDGAST, and
(SEQ ID NO: 3)
CDR3 - CARGGYLTYDRY,
and
(ii) a second binding domain that binds to CD1a, wherein the second binding domain comprises a CDR1, a CDR2, and a CDR3 comprising the following sequences:
(SEQ ID NO: 5)
CDR1 - GRAFRPHNVMA,
(SEQ ID NO: 8)
CDR2 - AARWSGIYYAESVKG ,
and
(SEQ ID NO: 11)
CDR3 - STAQDMTLALMSDYDY,
wherein the C-terminus of the first binding domain is linked to the N-terminus of the second binding domain.
29 . The multi-domain molecule of claim 28 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 28.
30 . A method for treating an autoimmune disease in a subject, the method comprising administering the multi-domain molecule of claim 28 .
31 . A nucleic acid encoding the multi-domain molecule of claim 28 , wherein the first and second binding domains are encoded within a single open reading frame, or within two distinct open reading frames.
32 . An expression vector comprising the nucleic acid of claim 31 .
33 . A cell comprising the expression vector of claim 32 .
34 . A purified and/or engineered cell presenting the multi-domain molecule of claim 28 .
35 . A pharmaceutical composition comprising the multi-domain molecule of claim 28 , together with one or more pharmaceutically acceptable carriers or excipients.
36 . A method of producing a multi-domain molecule, the method comprising a) maintaining a cell comprising the nucleic acid of claim 31 under optimal conditions for expression of the multi-domain molecule and b) isolating the multi-domain molecule.
37 . A multi-domain molecule comprising:
(i) a first binding domain that binds to PD-1, wherein the first binding domain comprises a CDR1, a CDR2, and a CDR3 comprising the following sequences:
(SEQ ID NO: 1)
CDR1 - GFTFSSYA,
(SEQ ID NO: 2)
CDR2 - IASDGAST, and
(SEQ ID NO: 3)
CDR3 - CARGGYLTYDRY,
and
(ii) a second binding domain that binds to CD1a, wherein the second binding domain comprises a CDR1, a CDR2, and a CDR3 comprising the following sequences:
(SEQ ID NO: 6)
CDR1 - GRTFSPSDLMG,
(SEQ ID NO: 9)
CDR2 - AIKWGPTYYSDSVKG, and
(SEQ ID NO: 12)
CDR3 - GSSTFSANYRDYEY,
wherein the C-terminus of the first binding domain is linked to the N-terminus of the second binding domain.
38 . The multi-domain molecule of claim 37 , wherein the second binding domain comprises an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 27.
39 . A method for treating an autoimmune disease in a subject, the method comprising administering the multi-domain molecule of claim 37 .
40 . A nucleic acid encoding the multi-domain molecule of claim 37 , wherein the first and second binding domains are encoded within a single open reading frame, or within two distinct open reading frames.
41 . An expression vector comprising the nucleic acid of claim 40 .
42 . A cell comprising the expression vector of claim 41 .
43 . A purified and/or engineered cell presenting the multi-domain molecule of claim 37 .
44 . A pharmaceutical composition comprising the multi-domain molecule of claim 37 , together with one or more pharmaceutically acceptable carriers or excipients.
45 . A method of producing a multi-domain molecule, the method comprising a) maintaining a cell comprising the nucleic acid of claim 40 under optimal conditions for expression of the multi-domain molecule and b) isolating the multi-domain molecule.
46 . A single domain antibody that binds to CD1a, comprising a CDR1, CDR2, and CDR3, comprising the following amino acid sequences:
(SEQ ID NO: 4)
(a) CDR1 - GRTFNPGDLMG,
(SEQ ID NO: 7)
CDR2 - AIKWGPTYYADSVKG,
and
(SEQ ID NO: 10)
CDR3 - GSGTFSSNYRDFEY;
(SEQ ID NO: 5)
(b) CDR1 - GRAFRPHNVMA,
(SEQ ID NO: 8)
CDR2 - AARWSGIYYAESVKG,
and
(SEQ ID NO: 11)
CDR3 - STAQDMTLALMSDYDY;
or
(SEQ ID NO: 6)
(c) CDR1 - GRTFSPSDLMG,
(SEQ ID NO: 9)
CDR2 - AIKWGPTYYSDSVKG,
and
(SEQ ID NO: 12)
CDR3 - GSSTFSANYRDYEY.