Difference between revisions of "Team:Freiburg/Project/Surface Chemistry"

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Immobilization of proteins is a major task in the development of diagnostic devices. Though there are lots of different possibilities to bind a protein to a chemical surface it still requires a lot of testing to find the surface, that fits best to your purpose. For our approach we wanted a surface that allows the immobilization of our antigens at a distinct spot strong enough to prevent the antigens from being washed away during the iRIf measurement. For the experiments with our purified antigens we wanted a covalently binding system. For the experiments with cell-free expressed proteins a specific surface that is able to bind only the tagged proteins in the lysate was needed.
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Immobilization of proteins is a major task in the development of diagnostic devices. For our approach we needed a chemical surface on the glass slide that allowed the immobilization of our antigens at a distinct spot, strong enough to prevent the antigens from being washed away during the iRIf measurement. Therefore, we wanted to use a covalent binding system for the immobilization of the antigens. On the other hand, using cell-free expression required a surface that was able to bind the generated antigens selectively and no other protein of the expression mix. Working with tag systems fulfilled both criteria.
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Though there are many different possibilities to bind a protein to a chemical surface, a lot of testing is required in order to find the surface that fits best to your needs. Therefore we built up different types of chemical surfaces. They varied in their specificity and the layer thickness.
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Revision as of 12:49, 16 September 2015

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Surface Chemistry - Designing a Specific Surface

kurze intro, dass verschiedene Oberflächen designed werden können (NG)

könnt ihr hier eventuell solche bilder wie in der Präsi verwenden, wo die einzelnen Schichten der Chemie eingezeichnet sind? An die Chemiker, kann man eventuell noch den Reaktionsmechanismus darstellen, wie letztlich ein molekül an der Oberfläche bindet? Es wäre auch cool zu sehen, wie ein Protein oder eine DNA an die Oberflächen binden kann. Z.B. Macht doch an die Schlangenlinie des HIS tags noch ein schematisches Protein dran. Ich glaube dass ein nicht Chemiker sonnst schwierigkeiten hat es zu verstehen.(Stefan) Ich glaube, es heißt chlorOalkane.. (Luisa)

The challenge

Immobilization of proteins is a major task in the development of diagnostic devices. For our approach we needed a chemical surface on the glass slide that allowed the immobilization of our antigens at a distinct spot, strong enough to prevent the antigens from being washed away during the iRIf measurement. Therefore, we wanted to use a covalent binding system for the immobilization of the antigens. On the other hand, using cell-free expression required a surface that was able to bind the generated antigens selectively and no other protein of the expression mix. Working with tag systems fulfilled both criteria.

Though there are many different possibilities to bind a protein to a chemical surface, a lot of testing is required in order to find the surface that fits best to your needs. Therefore we built up different types of chemical surfaces. They varied in their specificity and the layer thickness.

PDITC surface

To enable a detection of an antibody-antigen-interaction in iRIf, the purified antigens can be immobilized on the surface of the iRIf slide with PDITC (p-phenyldiisothiocyanate). The two isothiocyanate groups of PDITC serve as a linker for amino groups via the binding mechanism shown in fig. 1. Therefore it is often used for the production of a surface, that is able to bind proteins covalently. To get the PDITC on the surface of the iRIf slides we first activated them with oxygen plasma. This creates very reactive hydroxyl groups on the glass. If a silane is added to the activated glass slide the hydroxyl groups bind to the silicium atoms. By using the silane APTES (3-aminopropyltriethoxysilane) an amino group that can bind the PDITC to the surface is created. With this surface (fig. 2) we weren’t only able to immobilize our purified antigens but also to establish a specific Ni-NTA surface on its basis.
Additionally the PDITC chemistry can also be used for the immobilization of DNA. We tagged our DNA for the cell-free expression to an amino group, so it can bind to PDITC on the surface of PDMS slides (polydimethylsiloxane), which build the upper part of our two-slides-system. This allows us to directly express proteins from the immobilized DNA in our flow chamber.1)

Figure 1: binding meachanism of proteins to the PDITC surface.
Figure 2: PDITC surface

GOPTS surface

The GOPTS (3-glycidoxypropyltrimethoxysilane) surface (fig. 3) is produced in a very similar manner as the PDITC surface. Through plasma activation reactive hydroxyl groups which bind to later added silanes are created on the glass surface. In contrast to the PDITC surface, however, the added silane GOPTS carries an epoxy- instead of an amino group. The epoxy group is a highly strained three atom triangle and therefore very reactive. This allows for the coupling of a variety of different ligands with different functional groups.4) For our application we need to immobilize proteins on the surface of the iRIf slide. This is achieved by the covalent binding of amines, thioles or hydroxy groups of a protein to the epoxy groups on the glass surface. Because there is no need for an additional linker between silane and protein like PDITC the GOPTS surface can be produced much faster. Furthermore, GOPTS surfaces normally exhibit less unspecific binding than other silane surfaces due to the formation of a very dense layer.5)
In our experiments the GOPTS surface was able to immobilize proteins, however, the PDITC surface showed better binding capacities and worked better as basis for the Ni-NTA/His-tag system, so that we focused on this surface type.

Figure 3: GOPTS surface

Ni-NTA - His Tag system

The Nickel-NTA (Nitrolotriacetic acid) system is very commonly used for protein purification. Here the coordination of the Imidazole-residue of Histidine to Nickel ions is utilized to bind proteins with a His-tag reversible to Ni-NTA covered columns. The proteins can be eluted with Imidazole which conquers with the Histidine-tag.2) The same coordination can be used to fuse proteins to a surface. We used this to produce specific surfaces on the glass slide of our DiaCHIP. For in our approach we are producing the antigens against which we want to test on demand by cell-free expression, we want our surface to only bind our freshly expressed antigens and not all the other proteins present in the cell-free mix. This is why we need a specific surface. All our antigens were cloned with a 10xHis-tag, so they can bind to a Ni-NTA surface.
We established our own protocol for the preparation of this Ni-NTA surface based on a PDITC surface. On the unspecific PDITC surface NTA with a Lysine-residue (AB-NTA) was immobilized and loaded with Ni-ions. The general setup of the surface is shown in fig. 4.3)

Figure 4: Ni-NTA surface

Halo surface

The Halo surface is based on the Halo Tag system developed by Promega. The system consists of a 34 kDa enzyme called the HaloTag that binds covalently to a chloroalkane ligand. The binding between this two parts is fast, highly specific and irreversible due to slight modifications of the reactive center of the HaloTag enzyme that prevent dissociation. The drawback of this system is the relatively huge tag, which has to be fused to the protein you want to study. It can interfere with folding, solubility or functionality of the targeted protein.6) 7)
To immobilize proteins specifically on a glass surface we coated the surface with the HaloTag ligand (fig. 5). The ligand is bound to the surface after oxygen plasma activation, as described for PDITC and GOPTS. The HaloTag, which is fused to the protein we want to immobilize, binds to its ligand and therefore preserves the protein of interest on the surface.
We experimented with a variety of different HaloTag ligands, which differed in length of the alkane chain and surface attachment method. The surface consisting of (3-Chloropropyl)triethoxysilane shown in fig. 5 showed the most promising results. We were able to immobilize Halo tagged proteins on the surface, but the main challenge to overcome for this surface was minimizing unspecific protein binding. The necessary optimizations, for this surface to be specific enough to be used in our project, could not be performed due to time limitations

Figure 5: Halo surface

Spy surface

The Spy surface is based on the SpyTag/Catcher system. It was created by splitting the CnaB2 domain of the FbaB-protein from Streptococcus pyogenes in two, followed by rational modifications of the fragments. The SpyTag binds to the SpyCatcher through the spontaneous formation of an isopeptide bond within minutes. Due to the covalent nature of this hybridization the binding is irreversible. 8) To immobilize proteins on a surface using the Spy system we tagged the desired protein with the SpyTag. Then the purified SpyCatcher is bound to a protein binding surface like GOPTS or PDITC. Through the binding of SpyTag and SpyCatcher the desired protein is kept at the surface and stably immobilized.
Due to troubles during the cloning and purification of the SpyCatcher we were not able to test the Spy surface.

1) J. Hoffmann et al., 2012. Universal protocol for grafting PCR primers onto various lab-on-a-chip substrates for solid-phase PCR. RCS Adv.
2) J. A. Bornhorst et al., 2000. ] Purification of Proteins Using Polyhistidine Affinity Tags. Methods Enzymol.
3) Y. Asano et al., 2006. Application of an enzyme chip to the microquantiWcation of L-phenylalanine. Anal. Biochem.
4) M. Bañuls et al., 2013. Chemical surface modifications for the development of silicon-based label-free integrated optical (IO) biosensors: A review. Analytica Chimica Acta.
5) J.Phieler et al., 2000. A high-density poly(ethylene glycol) polymer brush for immobilization on glass-type surfaces. Biosensors & Bioelectronics.
6) LP Encell et al., 2012. Development of a dehalogenase-based protein fusion tag capable of rapid, selective and covalent attachment to customizable ligands. Curr Chem Genomics.
7) C. England et al., 2015. HaloTag Technology: A Versatile Platform for Biomedical Applications. Bioconjugate Chem.
8) B. Zakeri et al., 2012. Peptide tag forming a rapid covalent bond to a protein, through engineering a bacterial adhesion. Proc Natl Acad Sci U S A.