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* Institute for Structural Biology (IBI-2), Forschungszentrum Jülich, D-52425 Jülich, Germany; and
Centre of Biophysics and Physical Chemistry of Supramolecular Structures, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
Correspondence: Address reprint requests to Valentin Gordeliy, E-mail: g.valentin{at}fz-juelich.de.
| ABSTRACT |
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| INTRODUCTION |
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![]() | (1) |
the twining ratio, a volume fraction of equally oriented domains. Equation 1 implies that the domain size is larger than the coherent length of the x-ray beam (Yeates, 1997
The shape and optical properties of twinned crystals are not necessarily different from those of nontwinned crystals; therefore inspection of a crystal by optical microscopy is not a reliable check of twinning (Yeates, 1997
). Recent examples of such crystals are reported by Contreras-Martel et al. (2001)
and Terwisscha van Scheltinga et al. (2003)
. This is one of the reasons why information on the size and organization of twinning domains in protein crystals is rather poor. In some cases, twinning can be discerned under polarized light. There were observations of crystals composed of just a few twin domains as well as composed of a great number of domains (Sieker, 1988
; McPherson, 1999
). Commonly it is supposed that the size of twin domains is at least in the order of micrometers, otherwise the domain size is smaller than the coherent length of x rays, which would violate the basis of crystallographic treatment of twinning.
A common way to detect and characterize twinning is the analysis of diffraction intensities (reviewed by Dauter, 2003
). One of the indications of twinning is the presence of peaks in the self-rotation map showing unfeasible noncrystallographic symmetry. In addition, the second-order moment of the intensity distribution should be analyzed (Stanley, 1972
). Its values for nonsymmetric reflections in the case of nontwinned and perfectly twinned crystals equal 2.0 and 1.5, respectively.
For the determination of the twinning ratio statistical methods like Yeates statistics and the Britton plot were developed. The basic principles of these methods are different, therefore they give independent estimates of
. The Britton plot (Fisher and Sweet, 1980
) is based on the assumption that the observed and crystallographic intensities are positive and reflections of a nontwinned crystal are independent. In turn, the Yeates statistics introduces a function for twin related intensities
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so that for noncentrosymmetric reflections,
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bR is a small (26 kDa) proton pump of the Halobacterium salinarium (for review, see Lanyi, 2000)
. bR contains the chromophore retinal, which gives the purple color to the protein. bR is spanning the membrane in seven transmembrane helixes connected by loops protruding into the water phase. It was the first protein crystallized in the lipidic cubic phase (Landau and Rosenbusch, 1996
). Among its different crystalline forms (Essen et al., 1998
; Takeda et al., 1998
; Faham and Bowie, 2002
) the highest resolution was obtained from platelike hexagonal crystals of space group P63. These crystals belong to class I of membrane protein crystals (Michel, 1991
) in which two dimensional crystalline protein layers are staked in a 3D crystal formed by the contacts of the water protruding protein parts.
Hexagonal bR crystals of space group P63 often exhibit a perfect hemihedral twinning (Luecke et al., 1998
). The highest resolution of the bR ground state structure and structures of some of its photocycle intermediates available at the moment (1.431.47 Å) were obtained from nearly perfectly twinned crystals (Schobert et al., 2002
; Lanyi and Schobert, 2002
). Twinning in bR crystals indicates the presence of a twofold noncrystallographic axis parallel to the a axis, which corresponds to the existence of two orientations of crystal domains with Bragg reflections hkl and kh-l, respectively. The corresponding orientations of the twin domain crystalline lattices and the putative organization of domains in the crystal are depicted in Fig. 1.
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| MATERIALS AND METHODS |
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To determine twinning ratio crystals were mounted in cryoloops and flash-cooled to 100 K. After diffraction experiments on a rotating anode x-ray generator crystals were warmed to room temperature and subjected to a splitting procedure.
This procedure is similar to the sitting drop crystallization. In a cell of Falckon crystallization plate of
18 mm a crystal was placed onto a microbridge in 10 µl 3 M Na-Pi buffer pH 5.6 and equilibrated with 2 M Na-Pi pH 5.6 well solution. Every second day the salt concentration of the reservoir solution was decreased by 0.5 units until the crystal split. After splitting, crystals were equilibrated with 3 M Na-Pi well solution for one day to bring crystals back to the conditions providing cryoprotection.
Successfully split crystals were flash-cooled again and used for diffraction measurements on rotating anode generator. Crystals which diffracted well were used to collect a complete data set on synchrotron.
Determination of twinning ratio
Diffraction data were collected on a rotating anode x-ray generator (Bruker-Nonius FR 571) at 40 kV/50 mA,
= 1.5418 Å, equipped with a Mar Image Plate detector and on beamline ID 14-1 of the European Synchrotron Radiation Facility, Grenoble, France.
To determine the twinning ratio diffraction data from three to five images, were collected on the rotating anode generator for the crystal oriented with ab plane roughly perpendicular to the x-ray beam in the resolution range 302.0 Å. The data were integrated using MOSFLM and SCALA (Collaborative Computational Project, 1994
). Integration of data measured from several diffraction images ended up with several hundred twin related pairs as summarized in Tables 1 and 2.
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The values of twinning ratios calculated from several hundred reflections were compared with values determined from the complete data set measured from the same crystal (Table 1). The congruity of twinning ratios between both sets of data suggests that there is no bias due to incompleteness of the data. All values of twinning ratios calculated for each crystal by the Britton plot and Yeates statistics are congruent within 5% accuracy and the second moments of intensities also agree with these values (Table 2).
| RESULTS |
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1 M (see materials and methods) induces splitting of agglutinated plates. Some of the split crystals diffracted well enough to determine the twin ratio which in all cases was equal to zero within the experimental error. The same technique was applied to well diffracting bR crystals which had no visible defects and gave normal diffraction images, i.e., without signs of the existence of distinct domains. Fifty-two crystals with twin ratios >35% (almost all crystals meet this condition) diffracting beyond 2.5 Å on the rotating anode generator were selected. The crystals had the shape of single hexagon plates with sizes, 150250 µm in diameter and 2040 µm in thickness, as determined with the help of optical microscopy.
As a result 17 crystals split parallel to ab plane. A majority of crystals split into two parts of roughly equal thickness (Fig. 3). Three crystals split into three and more parts, but none of them diffracted as well as the original crystal. Fig. 3 d shows the initial stage of the splitting process into three parts. Most of the split crystals lost diffraction properties.
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0.4, the split parts showed no twinning.
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| DISCUSSION |
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Nature of twinning
The hexagonal plane of bR crystals is perpendicular to the c axis, since the growth along this direction occurs most probably due to two-dimensional nucleation (McPherson, 1999
), which is in accordance with a model of in cubo crystallization proposed by Caffrey et al. (2000
; Gordeliy, unpublished). Twinning domains are in contact with each other along the same plane and hence, as we assume, appear due to two-dimensional nucleation as well.
There are two possibilities for the domains to contact each other: by cytoplasmic to cytoplasmic (CPtoCP) or by extracellular to extracellular (ECtoEC) surfaces of bR (Fig. 1 b). The hexagonal crystals of bR normally have twinning ratio exceeding 0.4 and they are composed of two twinning domains. Such organization of the crystal may originate from the difference in attraction of twin-domains for the contact of ECtoEC and CPtoCP surfaces. The difference in this interaction may arise due to the difference of charge distribution on the water-exposed surfaces of BR. The extracellular surface of BR is neutral, whereas the overall charge of the cytoplasmic surface is negative (Fig. 5). The interaction of short loops inside a crystal provides a relatively weak vdW contact between the layers (crystallographic structure reveals only vdW contacts between two amino-acid residues per molecule). Hence, even a weak electrostatic repulsion of cytoplasmic 2D crystalline surfaces may have noticeable impact on the interdomain interaction.
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Splitting of crystals
Another question is why the crystals split along the twinning domains upon change of salt molarity? We suppose that the splitting may be driven by two concurrent mechanisms.
The addition of dry salt as precipitant agent induces crystallization, hence salt creates energetically favorable conditions for bR molecules to contact. The energy of the contact between domains is lower than the energy along the corresponding plane inside a domain. Hence, a gradual reduction of salt concentration diminishes energy profit of the domain contact, and the energy of the domain contact vanishes at a higher salt concentration than that of interdomain contact. This is the reason why domains separate before the crystal is damaged.
The second possible reason for splitting is a stress in the crystal created by the salt concentration gradient during vapor diffusion. The crystal split as a result of stress relaxation by cracking along an imperfect surface which is the surface of twinning domains contact. In this case it is more difficult to control conditions necessary for splitting and this would explain poor reproducibility of the results.
Finally we would like to mention that the understanding of the origin of twinning in a crystal can result in the discovery of better procedures to grow untwinned crystals. Different approaches, which result in the modification of the properties of bR's hydrophilic surfaces, should influence interaction between layers, which might prevent the formation of twin domains. Such approaches may involve utilization of molecules which bind specifically to one of bR surfaces or, e.g., genetic modification of the protein.
Crystals of membrane proteins grown in lipidic cubic phase are quite specific with respect to their layered membranelike structure, which probably made the separation of twin domains possible. However, we believe that whenever twinning is encountered it is worth trying the separation of domains.
| ACKNOWLEDGEMENTS |
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This study was supported by the Alexander von Humboldt Foundation.
Submitted on May 27, 2004; accepted for publication August 9, 2004.
| REFERENCES |
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