Article
You have full text access to this OnlineOpen article
Random dissection to select for protein split sites and its application in protein fragment complementation
Article first published online: 29 DEC 2008
DOI: 10.1002/pro.42
Copyright © 2008 The Protein Society
Additional Information
How to Cite
Chen, Y., Li, S., Chen, T., Hua, H. and Lin, Z. (2009), Random dissection to select for protein split sites and its application in protein fragment complementation. Protein Science, 18: 399–409. doi: 10.1002/pro.42
Publication History
- Issue published online: 30 JAN 2009
- Article first published online: 29 DEC 2008
- Accepted manuscript online: 29 DEC 2008 12:00AM EST
- Manuscript Accepted: 25 NOV 2008
- Manuscript Revised: 23 OCT 2008
- Manuscript Received: 23 JUL 2008
Funded by
- National Basic Research Program of China. Grant Number: 2003CB716002
References
- 1, , , ( 1997) Complementation of peptide fragments of the single domain protein chymotrypsin inhibitor 2. J Mol Biol 273: 317–329.
- 2, , , , ( 1999) Identifying the structural boundaries of independent folding domains in the α subunit of tryptophan synthase, a β/α barrel protein. Protein Sci 8: 1200–1209.
- 3, , ( 1997) Insertion mutagenesis as a tool in the modification of protein function. J Biol Chem 272: 28833–28836.
- 4, , , , ( 2002) Protein building blocks preserved by recombination. Nat Struct Biol 9: 553–558.
- 5, , , , , ( 1998) New enzyme lineages by subdomain shuffling. Proc Natl Acad Sci USA 95: 9813–9818.
- 6, , ( 2006) Towards the creation of novel proteins by block shuffling. Comb Chem High Throughput Screening 9: 259–269.
- 7, , , ( 2007) Stabillsation of a (βα)8-barrel protein designed from ldentical half barrels. J Mol Biol 372: 114–129.
- 8, , ( 1998) Oligomerization domain-directed reassembly of active dihydrofolate reductase from rationally designed fragments. Proc Natl Acad Sci USA 95: 12141–12146.
- 9, , , ( 2002) β-Lactamase protein fragment complementation assays as in vivo and in vitro sensors of protein-protein interactions. Nat Biotechnol 20: 619–622.
- 10, , ( 2004) Mapping of unit boundaries of a protein: exhaustive search for permissive sites for duplication by complementation analysis of random fragment libraries of tryptophan synthase α subunit. J Mol Biol 335: 1093–1104.
- 11, , ( 2005) Enhanced catalytic efficiency of aminoglycoside phosphotransferase (3′)-IIa achieved through protein fragmentation and reassembly. J Mol Biol 353: 26–37.
- 12, , , , , , ( 2008) Identification of soluble protein fragments by gene fragmentation and genetic selection. Nucleic Acids Res 36: e51.
- 13, , ( 1979) An active proteolytic derivative of the α subunit of tryptophan synthase. Identification of the site of cleavage and characterization of the fragments. Biochemistry 18: 4827–4835.
- 14, , , , , ( 2001) Chemical cleavage at aspartyl residues for protein identification. Anal Chem 73: 5395–5402.
- 15, ( 2001) Random PCR-based screening for soluble domains using green fluorescent protein. Biochem Biophys Res Commun 280: 842–844.
- 16, , , , , , , , , , , ( 2006) Combinatorial domain hunting: an effective approach for the identification of soluble protein domains adaptable to high-throughput applications. Protein Sci 15: 2356–2365.
- 17, , , ( 2000) Identification of natural ligands for SH2 domains from a phage display cDNA library. J Mol Biol 297: 89–97.
- 18, , ( 2007) DNA fragmentation-based combinatorial approaches to soluble protein expression. I. Generating DNA fragment libraries. Drug Discov Today 12: 931–938.
- 19, , , ( 2006) Dissection of SARS coronavirus spike protein into discrete folded fragments. Tsinghua Sci Technol 11: 49–53.
- 20, , , Identification of viral peptide fragments for vaccine development. In: HicksBW, Ed. (in press) Methods in molecular biology series: viral applications of the green fluorescent protein.
- 21, , , ( 1999) A simple in vivo assay for increased protein solubility. Protein Sci 8: 1908–1911.
- 22, , ( 2001) Libraries of hybrid proteins from distantly related sequences. Nat Biotechnol 19: 456–460.
- 23, , ( 2002) Rapid protein domain assignment from amino acid sequence using predicted secondary structure. Protein Sci 11: 2814–2824.
- 24, , , , ( 2002) Protein–protein interactions monitored in mammalian cells via complementation of β-lactamase enzyme fragments. Proc Natl Acad Sci USA 99: 3469–3474.
- 25, , , , ( 2007). Universal strategies in research and drug discovery based on protein-fragment complementation assays. Nat Rev Drug Discov 6: 569–582.
- 26, , ( 2004) Transforming a (β/α)8-barrel enzyme into a split-protein sensor through directed evolution. Chem Biol 11: 681–689.
- 27, , ( 2000) Antiparallel leucine zipper-directed protein reassembly: Application to the green fluorescent protein. J Am Chem Soc 122: 5658–5659.
- 28, , , ( 1993) Crystal structure of Escherichia coli TEM1 β-lactamase at 1.8 Å resolution. Proteins: Struct Funct Bioinf 16: 364–383.
- 29, ( 2003) General method for sequence-independent site-directed chimeragenesis. J Mol Biol 330: 287–296.
- 30, , ( 2006) Structure-guided SCHEMA recombination of distantly related β-lactamases. Protein Eng Des Sel 19: 563–570.
- 31, , , , ( 2000) Detection of protein-protein interactions by protein fragment complementation strategies. Methods Enzymol 328: 208–230.
- 32, , , , , , ( 2003) Library analysis of SCHEMA-guided protein recombination. Protein Sci 12: 1686–1693.
- 33, , , , , , , , ( 2003) The crystal structure of aminoglycoside-3′-phospho-transferase-IIa, an enzyme responsible for antibiotic resistance. J Mol Biol 327: 491–506.
- 34, , , ( 1998) A genetic system based on split-ubiquitin for the analysis of interactions between membrane proteins in vivo. Proc Natl Acad Sci USA 95: 5187–5192.
- 35, ( 1971) Simultaneous formation of two alternative enzymology active structures by complementation of two overlapping fragments of staphylococcal nuclease. J Biol Chem 246: 2291–2301.
- 36, ( 1977) Formation of a biologically active, ordered complex from two overlapping fragments of cytochrome c. J Biol Chem 252: 1367–1374.
- 37, , ( 1990) Complementation of two overlapping fragments of SecA, a protein translocation ATPase of Escherichia coli, allows ATP binding to its amino-terminal region. J Biol Chem 265: 8760–8765.
- 38, , , ( 1999) Combinatorial protein engineering by incremental truncation. Proc Natl Acad Sci USA 96: 3562–3567.
- 39, ( 1995) Random recombination of antibody single-china FV sequences after fragmentation with DNase I in the presence of Mn2+. Nucleic Acids Res 23: 3067–3068.
- 40, , , ( 2006) STAR: predicting recombination sites from amino acid sequence. BMC Bioinf 7: 437.
- 41, ( 1996) Random circular permutation of genes and expressed polypeptide chains: application of the method to the catalytic chains of aspartate transcarbamoylase. Proc Natl Acad Sci USA 93: 11591–11596.

1469-896X/asset/olbannerleft.gif?v=1&s=d218899ae53b2862ab119790ed504b8d72122fb3)
1469-896X/asset/olbannerright.gif?v=1&s=59470eb9a1d9b7b13b1be75e9445e6c46ee2214f)
