International
Tables for
Crystallography
Volume B
Reciprocal space
Edited by U. Shmueli

International Tables for Crystallography (2006). Vol. B, ch. 2.2, pp. 225-227   | 1 | 2 |

Section 2.2.6. Direct methods in real and reciprocal space: Sayre's equation

C. Giacovazzoa*

aDipartimento Geomineralogico, Campus Universitario, I-70125 Bari, Italy
Correspondence e-mail: c.giacovazzo@area.ba.cnr.it

2.2.6. Direct methods in real and reciprocal space: Sayre's equation

| top | pdf |

The statistical treatment suggested by Wilson for scaling observed intensities corresponds, in direct space, to the origin peak of the Patterson function, so it is not surprising that a general correspondence exists between probabilistic formulation in reciprocal space and algebraic properties in direct space.

For a structure containing atoms which are fully resolved from one another, the operation of raising [\rho({\bf r})] to the nth power retains the condition of resolved atoms but changes the shape of each atom. Let [\rho ({\bf r}) = \textstyle\sum\limits_{j=1}^{N} \rho_{j} ({\bf r} - {\bf r}_{j}),] where [\rho_{j}({\bf r})] is an atomic function and [{\bf r}_{j}] is the coordinate of the `centre' of the atom. Then the Fourier transform of the electron density can be written as [\eqalignno{F_{\bf h} &= \textstyle\sum\limits_{j=1}^{N} \int\limits_{V} \rho_{j} ({\bf r} - {\bf r}_{j}) \exp (2\pi i {\bf h} \cdot {\bf r}) \;\hbox{d}V &\cr &= \textstyle\sum\limits_{j=1}^{N} f_{j} \exp (2\pi i {\bf h} \cdot {\bf r}_{j}). &(2.2.6.1)}] If the atoms do not overlap [\rho^{n} ({\bf r}) = \left[\textstyle\sum\limits_{j=1}^{N} \rho_{j} ({\bf r} - {\bf r}_{j})\right]^{n} \simeq \textstyle\sum\limits_{j=1}^{N} \rho_{j}^{n} ({\bf r} - {\bf r}_{j})] and its Fourier transform gives [\eqalignno{{}_{n}F_{\bf h} &= \textstyle\int\limits_{V} \rho^{n} ({\bf r}) \exp (2\pi i {\bf h} \cdot {\bf r}) \;\hbox{d}V &\cr &= \textstyle\sum\limits_{j=1}^{N} {_{n}}\;f{_{j}} \exp (2\pi i {\bf h} \cdot {\bf r}_{j}). &(2.2.6.2)}] [{}_{n}\;f_{j}] is the scattering factor for the jth peak of [\rho^{n} ({\bf r})]: [_{n}\;f_{j} ({\bf h}) = \textstyle\int\limits_{V} \rho_{j}^{n} ({\bf r}) \exp (2\pi i {\bf h} \cdot {\bf r}) \;\hbox{d}{\bf r}.]

We now introduce the condition that all atoms are equal, so that [f_{j} \equiv f] and [{}_{n}\;f_{j} \equiv {}_{n}\;f] for any j. From (2.2.6.1)[link] and (2.2.6.2)[link] we may write [F_{\bf h} = {f\over _{n}\;f} {}_{n}F_{\bf h} = \theta_{n} \ {}_{n}F_{\bf h}, \eqno(2.2.6.3)] where [\theta_{n}] is a function which corrects for the difference of shape of the atoms with electron distributions [\rho ({\bf r})] and [\rho^{n} ({\bf r})]. Since [\eqalign{\rho^{n} ({\bf r}) &= \rho ({\bf r}) \ldots \rho ({\bf r})\cr &= {1\over V^{n}} \sum\limits_{{\bf h}_{1}, \, \ldots, \,  {\bf h}_{n}\atop -\infty}^{+\infty} F_{{\bf h}_{1}} \ldots F_{{\bf h}_{n}} \exp [-2\pi i ({\bf h}_{1} + \ldots + {\bf h}_{n}) \cdot {\bf r}],}] the Fourier transform of both sides gives [\eqalign{{}_{n}F_{\bf h} &= {1\over V^{n}} \sum\limits_{{\bf h}_{1}, \,  \ldots, \,  {\bf h}_{n}\atop -\infty}^{+\infty} F_{{\bf h}_{1}} \ldots F_{{\bf h}_{n}} \int\limits_{V} \exp [2\pi i ({\bf h} - {\bf h}_{1} - \ldots - {\bf h}_{n}) \cdot {\bf r}] \;\hbox{d}V\cr &= {1\over V^{n-1}} \sum\limits_{{\bf h}_{1}, \,  \ldots, \,  {\bf h}_{n-1}\atop -\infty}^{+\infty} F_{{\bf h}_{1}} F_{{\bf h}_{2}} \ldots F_{{\bf h} - {\bf h}_{1} - {\bf h}_{2} - \ldots - {\bf h}_{n-1}},}] from which the following relation arises: [F_{\bf h} = \theta_{n} {1\over V^{n-1}} \sum\limits_{{\bf h}_{1}, \,  \ldots, \,  {\bf h}_{n-1}\atop -\infty}^{+\infty} F_{{\bf h}_{1}} F_{{\bf h}_{2}} \ldots F_{{\bf h} - {\bf h}_{1} - {\bf h}_{2} - \ldots -{\bf h}_{n-1}}. \eqno(2.2.6.4)] For [n = 2], equation (2.2.6.4)[link] reduces to Sayre's (1952[link]) equation [but see also Hughes (1953[link])] [F_{\bf h} = \theta_{2} {1\over V} \sum\limits_{\bf k} F_{\bf k} F_{{\bf h} - {\bf k}}. \eqno(2.2.6.5)] If the structure contains resolved isotropic atoms of two types, P and Q, it is impossible to find a factor [\theta_{2}] such that the relation [F_{\bf h} = \theta_{2}\;{}_{2}F_{\bf h}] holds, since this would imply values of [\theta_{2}] such that [({}_{2}\;f)_{P} = \theta_{2} (\;f)_{P}] and [({}_{2}\;f)_{Q} = \theta_{2} (\;f)_{Q}] simultaneously. However, the following relationship can be stated (Woolfson, 1958[link]): [F_{\bf h} = {A_{s}\over V} \sum\limits_{\bf k} F_{\bf k} F_{{\bf h}-{\bf k}} + {B_{s}\over V^{2}} \sum\limits_{{\bf k}, \,  {\bf l}} F_{\bf k} F_{\bf l} F_{{\bf h}-{\bf k}-{\bf l}}, \eqno(2.2.6.6)] where [A_{s}] and [B_{s}] are adjustable parameters of [(\sin \theta)/\lambda]. Equation (2.2.6.6)[link] can easily be generalized to the case of structures containing resolved atoms of more than two types (von Eller, 1973[link]).

Besides the algebraic properties of the electron density, Patterson methods also can be developed so that they provide phase indications. For example, it is possible to find the reciprocal counterpart of the function [{P_{n} ({\bf u}_{1}, {\bf u}_{2}, \ldots, {\bf u}_{n}) = \textstyle\int\limits_{V} \rho ({\bf r}) \rho ({\bf r} + {\bf u}_{1}) \ldots \rho ({\bf r} + {\bf u}_{n}) \;\hbox{d}V.} \eqno(2.2.6.7)] For [n = 1] the function (2.2.6.7)[link] coincides with the usual Patterson function [P({\bf u})]; for [n = 2], (2.2.6.7)[link] reduces to the double Patterson function [P_{2} ({\bf u}_{1}, {\bf u}_{2})] introduced by Sayre (1953[link]). Expansion of [P_{2} ({\bf u}_{1}, {\bf u}_{2})] as a Fourier series yields [{P_{2} ({\bf u}_{1}, {\bf u}_{2}) = {1\over V^{2}} \sum\limits_{{\bf h}_{1}, \, {\bf h}_{2}} E_{{\bf h}_{1}} E_{{\bf h}_{2}} E_{{\bf h}_{3}} \exp [-2\pi i ({\bf h}_{1} \cdot {\bf u}_{1} + {\bf h}_{2} \cdot {\bf u}_{2})].} \eqno(2.2.6.8)] Vice versa, the value of a triplet invariant may be considered as the Fourier transform of the double Patterson.

Among the main results relating direct- and reciprocal-space properties it may be remembered:

  • (a) from the properties of [P_{2} ({\bf u}_{1}, {\bf u}_{2})] the following relationship may be obtained (Vaughan, 1958[link]) [\eqalign{&E_{{\bf h}_{1}} E_{{\bf h}_{2}} E_{{\bf h}_{1} + {\bf h}_{2}} - N^{-3/2}\cr &\qquad \simeq A_{1} \langle (|E_{\bf k}|^{2} - 1) (|E_{{\bf h}_{1} + {\bf k}}|^{2} - 1) (|E_{-{\bf h}_{2} + {\bf k}}|^{2} - 1)\rangle_{\bf k} - B_{1},}] which is clearly related to (2.2.5.12)[link];

  • (b) the zero points in the Patterson function provide information about the value of a triplet invariant (Anzenhofer & Hoppe, 1962[link]; Allegra, 1979[link]);

  • (c) the Hoppe sections (Hoppe, 1963[link]) of the double Patterson provide useful information for determining the triplet signs (Krabbendam & Kroon, 1971[link]; Simonov & Weissberg, 1970[link]);

  • (d) one phase s.s.'s of the first rank can be estimated via the Fourier transform of single Harker sections of the Patterson (Ardito et al., 1985[link]), i.e. [F_{\bf H} \sim {1\over L} \exp (2\pi i{\bf h} \cdot {\bf T}_{n}) \int\limits_{HS({\bf I}, \,   {\bf C}_{n})} P({\bf u}) \exp (2\pi i {\bf h} \cdot {\bf u}) \;\hbox{d}{\bf u}, \eqno(2.2.6.9)] where (see Section 2.2.5.9[link]) [{\bf H} = {\bf h}({\bf I} - {\bf R}_{n})] is the s.s., u varies over the complete Harker section corresponding to the operator [{\bf C}_{n}] [in symbols [HS({{\bf I}, {\bf C}}_{n})]] and L is a constant which takes into account the dimensionality of the Harker section.

    If no spurious peak is on the Harker section, then (2.2.6.9)[link] is an exact relationship. Owing to the finiteness of experimental data and to the presence of spurious peaks, (2.2.6.9)[link] cannot be considered in practice an exact relation: it works better when heavy atoms are in the chemical formula.

    More recently (Cascarano, Giacovazzo, Luić et al., 1987[link]), a special least-squares procedure has been proposed for discriminating spurious peaks among those lying on Harker sections and for improving positional and thermal parameters of heavy atoms.

  • (e) translation and rotation functions (see Chapter 2.3[link] ), when defined in direct space, always have their counterpart in reciprocal space.

References

Allegra, G. (1979). Derivation of three-phase invariants from the Patterson function. Acta Cryst. A35, 213–220.
Anzenhofer, K. & Hoppe, W. (1962). Phys. Verh. Mosbach. 13, 119.
Ardito, G., Cascarano, G., Giacovazzo, C. & Luić, M. (1985). 1-Phase seminvariants and Harker sections. Z. Kristallogr. 172, 25–34.
Cascarano, G., Giacovazzo, C., Luić, M., Pifferi, A. & Spagna, R. (1987). 1-Phase seminvariants and Harker sections. II. A new procedure. Z. Kristallogr. 179, 113–125.
Eller, G. von (1973). Génération de formules statistiques entre facteurs de structure: la méthode du polynome. Acta Cryst. A29, 63–67.
Hoppe, W. (1963). Phase determination and zero points in the Patterson function. Acta Cryst. 16, 1056–1057.
Hughes, E. W. (1953). The signs of products of structure factors. Acta Cryst. 6, 871.
Krabbendam, H. & Kroon, J. (1971). A relation between structure factor, triple products and a single Patterson vector, and its application to sign determination. Acta Cryst. A27, 362–367.
Sayre, D. (1952). The squaring method: a new method for phase determination. Acta Cryst. 5, 60–65.
Sayre, D. (1953). Double Patterson function. Acta Cryst. 6, 430–431.
Simonov, V. I. & Weissberg, A. M. (1970). Calculation of the signs of structure amplitudes by a binary function section of interatomic vectors. Sov. Phys. Dokl. 15, 321–323. [Translated from Dokl. Akad. Nauk SSSR, 191, 1050–1052.]
Vaughan, P. A. (1958). A phase-determining procedure related to the vector-coincidence method. Acta Cryst. 11, 111–115.
Woolfson, M. M. (1958). Crystal and molecular structure of p,p′-dimethoxybenzophenone by the direct probability method. Acta Cryst. 11, 277–283.








































to end of page
to top of page