PROTEASE-RESISTANT SYSTEMS FOR POLYPEPTIDE DISPLAY AND METHODS OF MAKING AND USING THEREOF
First Claim
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1. A composition comprising:
- a carrier polypeptide (CP) comprising at least a transmembrane polypeptide portion, wherein the CP comprises an amino acid sequence selected from the group consisting of SEQ ID NO;
1, SEQ ID NO;
56 and SEQ ID NO;
57, anda displayed moiety (DM)wherein the CP and the DM are operably linked.
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Abstract
The present invention generally relates to bacterial polypeptide display systems, libraries using these bacterial display systems, and methods of making and using these systems, including methods for improved display of polypeptides on the extracellular surface of bacteria using circularly permuted transmembrane bacterial polypeptides that have been modified to increase resistance to protease degradation and to enhance polypeptide display characteristics.
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Citations
49 Claims
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1. A composition comprising:
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a carrier polypeptide (CP) comprising at least a transmembrane polypeptide portion, wherein the CP comprises an amino acid sequence selected from the group consisting of SEQ ID NO;
1, SEQ ID NO;
56 and SEQ ID NO;
57, anda displayed moiety (DM) wherein the CP and the DM are operably linked. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23)
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24. A carrier protein comprising an amino acid sequence selected from the group consisting of SEQ ID NO:
- 1, SEQ ID NO;
56 and SEQ ID NO;
57.
- 1, SEQ ID NO;
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25. A composition comprising:
- a replicable biological entity; and
a displayed moiety (DM) displayed on the surface of the replicable biological entity, wherein the DM is fused to an extracellular terminus of a circularly permuted bacterial outer membrane carrier protein (CP) to produce a display platform (DP), wherein the CP comprises an amino acid sequence selected from the group consisting of SEQ ID NO;
1, SEQ ID NO;
56 and SEQ ID NO;
57. - View Dependent Claims (26, 27, 28, 29, 30, 31, 32, 33)
- a replicable biological entity; and
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34. A polypeptide display library comprising:
- a plurality of replicable biological entities, each member of the plurality comprising a displayed moiety (DM) displayed on the surface of the member replicable biological entity, wherein the DM is fused to an extracellular terminus of a circularly permuted bacterial outer membrane carrier protein (CP) to produce a display platform (DP), wherein the CP comprises an amino acid sequence selected from the group consisting of SEQ ID NO;
1, SEQ ID NO;
56 and SEQ ID NO;
57. - View Dependent Claims (35, 36, 37, 38, 39)
- a plurality of replicable biological entities, each member of the plurality comprising a displayed moiety (DM) displayed on the surface of the member replicable biological entity, wherein the DM is fused to an extracellular terminus of a circularly permuted bacterial outer membrane carrier protein (CP) to produce a display platform (DP), wherein the CP comprises an amino acid sequence selected from the group consisting of SEQ ID NO;
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40. A method for identifying a peptide substrate for an enzyme, comprising:
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contacting a cell or other replicable biological entity with an enzyme, the cell comprising a cell outer membrane and expressing a peptide display scaffold, the peptide display scaffold comprising a fusion protein comprising a formula selected from the group consisting of;
T1-DM-carrier protein-T2 and
(1)
T1-carrier protein-DM-T2
(2)wherein the carrier protein (CP) is a circularly permuted bacterial outer membrane protein comprising an amino acid sequence selected from the group consisting of SEQ ID NO;
1, SEQ ID NO;
56 and SEQ ID NO;
57;
wherein DM comprises a member of a library of candidate peptide substrates for the enzyme;
wherein T1 and T2 are first and second detectable moieties; and
wherein T1-DM and T2 in formula (1) or T1 and DM-T2 in formula (2) are accessible at the extracellular surface of the cell outer membrane and the N- or C-terminus of the fusion protein is accessible at the extracellular surface of the cell outer membrane; and
wherein prior to contacting the cell with the enzyme, the cell exhibits a detectable T1 signal; anddetecting the presence of a detectable T2 signal in the absence of a detectable T1 signal, identifies the member of the library of candidate peptide substrates as a peptide substrate for the enzyme. - View Dependent Claims (41, 42, 43, 44, 45, 46, 47, 48)
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49. A peptide display scaffold, comprising a fusion protein comprising a formula selected from the group consisting of:
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[T1-DM]-carrier protein-[T2] and
(1)
[T1]-carrier protein-[DM-1-T2]
(2)wherein the carrier protein is a circularly permuted bacterial outer membrane protein comprising an amino acid sequence selected from the group consisting of SEQ ID NO;
1, SEQ ID NO;
56 and SEQ ID NO;
57;DM comprises a candidate peptide; and T1 and T2 are first and second detectable moieties; and wherein, when the fusion protein is expressed in a cell comprising a cell outer membrane, T1-DM and T2 in formula (1) or T1 and DM-T2 in formula (2) are exposed at an extracellular surface of the cell outer membrane and one or both of the N- and C-termini of the fusion protein are exposed at the extracellular surface of the cell outer membrane.
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Specification