Binding polypeptides with restricted diversity sequences
AssigneeGenentech, Inc.
InventorsFrederic Fellouse, Sachdev Sidhu
Life of this patent
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Abstract
The invention provides variant CDRs comprising highly restricted amino acid sequence diversity. These polypeptides provide a flexible and simple source of sequence diversity that can be used as a source for identifying novel antigen binding polypeptides. The invention also provides these polypeptides as fusion polypeptides to heterologous polypeptides such as at least a portion of phage or viral coat proteins, tags and linkers. Libraries comprising a plurality of these polypeptides are also provided. In addition, methods of and compositions for generating and using these polypeptides and libraries are provided.
Claims51
1-97. (canceled)
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise a variant CDRH3 that comprises an amino acid sequence:
- (X1)n-A-M
- wherein X1 is an amino acid encoded by a restricted codon set that encodes 10 or fewer amino acids, and n=3 to 20.
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise a variant CDRH2 that comprises an amino acid sequence:
- X1-I-X2-P-(X3)n-G-X4-T-X5-Y-A
- (SEQ ID NO:131)
- wherein X1, X2, X3, X4 and/or X5 is an amino acid encoded by a restricted codon set that encodes 10 or fewer amino acids, and n=1 to 2.
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise a variant CDRH1 that comprises an amino acid sequence:
- G-F-X1-I-(X2)n-I
- (SEQ ID NO:132)
- wherein X1 and/or X2 is an amino acid encoded by a restricted codon set that encodes 10 or fewer amino acids, and n=2 to 4.
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise a variant CDRL3 that comprises an amino acid sequence:
- Q-X1-(X2)n-P-X3-T-F
- (SEQ ID NO:133)
- wherein X1 is Q or missing, and X2 and/or X3 is an amino acid encoded by a restricted codon set that encodes 10 or fewer amino acids, and n=2 to 4.
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise a variant CDRL2 that comprises an amino acid sequence:
- Y-X1-A-S-X2-L
- (SEQ ID NO:134)
- wherein X1 and/or X2 is an amino acid encoded by a restricted codon set that encodes 10 or fewer amino acids.
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise a variant CDRL1 that comprises an amino acid sequence:
- S-Q-(X1)n-V
- (SEQ ID NO:136)
- wherein X1 is an amino acid encoded by a restricted codon set that encodes 10 or fewer amino acids, and n=3 to 5.
A library comprising a plurality of at least 1×104 distinct polypeptide sequences, wherein the plurality of polypeptide sequences comprise at least one variant CDR selected from CDRH1, CDRH2, CDRH3, CDRL1, CDRL2 and CDRL3, wherein at least one variant CDR has a variant amino acid in at least one solvent accessible and highly diverse amino acid position, wherein the variant amino acid in the at least one solvent accessible and highly diverse amino acid position is encoded by a restricted codon set that encodes 10 or fewer amino acids.
A library comprising a plurality of polypeptides, wherein the plurality of polypeptide sequences comprise at least one variant CDR selected from CDRH1, CDRH2, CDRH3, CDRL1, CDRL2, and CDRL3, wherein at least one variant CDR has a variant amino acid in at least three solvent accessible and highly diverse amino acid positions, wherein the variant amino acid in the at least three solvent accessible and highly diverse amino acid positions is encoded by a restricted codon set that encodes no more than 4 amino acids, and wherein the library has at least 1×104 distinct antibody variable domain sequences.
Dependencies are inferred from the claim text.