Journal of Applied Crystallography

Volume 36, Part 1 (February 2003)



[Issue Author Index][Volume Author Index]
[Cover illustration] Cover illustration: Protein crystals in a 2 µl gelled microbatch drop dispensed automatically under oil. Courtesy of A. Moreno, E. Saridakis & N. E. Chayen [J. Appl. Cryst. (2002), 35, 140-142].

research papers


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J. Appl. Cryst. (2003). 36, 1-6  [ doi:10.1107/S0021889802016291 ]

Simultaneous light and small-angle neutron scattering on aggregating concentrated colloidal suspensions

S. Romer, C. Urban, V. Lobaskin, F. Scheffold, A. Stradner, J. Kohlbrecher and P. Schurtenberger

Synopsis: The onset of aggregation and the sol-gel transition in concentrated destabilized polystyrene sphere suspensions is investigated using a combination of time-resolved small-angle neutron scattering and diffusing wave spectroscopy.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 7-13  [ doi:10.1107/S0021889802022112 ]

Single-crystal structure validation with the program PLATON

A. L. Spek

Synopsis: This paper describes the concepts of validation and the classes of checks that are carried out by the program PLATON as part of the IUCr checkCIF facility. PLATON validation can be run at any stage of the structure refinement, independent of the structure determination package used, and is recommended for use as a routine tool during or at least at the completion of every structure determination.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 14-22  [ doi:10.1107/S0021889802017399 ]

Determination of the stress orientation distribution function using pulsed neutron sources

Y. D. Wang, X.-L. Wang, A. D. Stoica, J. W. Richardson and R. Lin Peng

Synopsis: The stress orientation distribution function (SODF) was recently introduced as a mean-field representation to describe the grain-orientation dependence of intergranular stress. A method is developed for constructing the SODF from strain pole figures measured with a pulsed neutron source and demonstrated with cold-rolled interstitial-free steel.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 23-28  [ doi:10.1107/S0021889802017594 ]

New method for determining hexagonal direction indices and their relationship to crystallographic directions

D. C. Hofmann and V. A. Lubarda

Synopsis: A new method for determining the hexagonal direction indices is introduced, which is more practical than other commonly used methods. The relationship between the crystallographic directions and the hexagonal direction indices for face-centred cubic crystals is derived.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 29-33  [ doi:10.1107/S0021889802017740 ]

New five-circle [kappa] diffractometer for reference-beam diffraction studies

D. Pringle and Q. Shen

Synopsis: The design and implementation of a new five-circle [kappa] diffractometer for a reference-beam oscillation camera setup are presented.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 34-42  [ doi:10.1107/S0021889802018265 ]

Improved dihedral-angle restraints for protein structure refinement

J. P. Priestle

Synopsis: Dihedral angles from 46 ultra-high-resolution protein structures have been examined to derive dihedral-angle restraints for protein structure refinement. Many of the dihedral-angle propensities and distributions found are at variance with current dihedral-angle restraints as implemented in the programs X-PLOR and CNS, and improved values are suggested.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 43-47  [ doi:10.1107/S0021889802018319 ]

Energy-dispersive X-ray diffraction on thin films and its application to superconducting samples

V. Rossi Albertini, B. Paci, S. Meloni, R. Caminiti and L. Bencivenni

Synopsis: High-Tc YBCO superconducting thin films have been studied by energy-dispersive X-ray diffraction. Rocking curves of all the accessible diffraction peaks were measured simultaneously, preventing the problems of reproducibility of the experimental conditions during an angular scan.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 48-52  [ doi:10.1107/S0021889802018617 ]

Concentration dependence of the modulation parameter with the lock-in phase transition in the system K2MoxW1-xO4

B. Bzowski, H. Duda, J. Kusz, J. Warczewski, M. Behruzi and Th. Hahn

Synopsis: The phase diagram of K2MoxW1-xO4, both on heating and cooling, is presented. The observed nearly linear character of the concentration dependence of the modulation parameter p at 693 K (both after heating and cooling) indicates the existence of a continuous series of incommensurate structures in the concentration interval 0 [less-than or equal to] x [less-than or equal to] 1.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 53-64  [ doi:10.1107/S0021889802018708 ]

Improved measures of quality for the atomic pair distribution function

P. F. Peterson, E. S. Bozin, Th. Proffen and S. J. L. Billinge

Synopsis: A practical scheme is given for optimizing total-scattering structure functions, S(Q), for direct Fourier transform.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 65-73  [ doi:10.1107/S0021889802018691 ]

Numerical computation of critical properties and atomic basins from three-dimensional grid electron densities

C. Katan, P. Rabiller, C. Lecomte, M. Guezo, V. Oison and M. Souhassou

Synopsis: InteGriTy, a software package to compute topological properties of electron densities given on three-dimensional grids, is presented.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 74-79  [ doi:10.1107/S002188980201926X ]

Assessment of the X-ray diffraction-absorption method for quantitative analysis of largely amorphous pharmaceutical composites

P. Bergese, I. Colombo, D. Gervasoni and L. E. Depero

Synopsis: The paper deals with a challenging topic of physical pharmacy, possibly concerning other emerging research fields: the determination of the weight fraction of a crystalline phase in largely amorphous composites. A quantitative X-ray diffraction (QXRD) analysis method, based on the assessment of the classic diffraction-absorption approach, is presented and discussed.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 80-85  [ doi:10.1107/S0021889802019568 ]

A heating stage up to 1173 K for X-ray diffraction studies in the whole orientation space

R. Resel, E. Tamas, B. Sonderegger, P. Hofbauer and J. Keckes

Synopsis: A multi-purpose heating attachment designed primarily for X-ray four-circle diffractometers but applicable also for classical powder diffraction is presented. When working in reflection geometry, the air-cooled heating stage allows diffraction studies to be performed on plate-like samples up to 1173 K in the whole orientation space.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 86-95  [ doi:10.1107/S0021889802019878 ]

Indexing of powder diffraction patterns by iterative use of singular value decomposition

A. A. Coelho

Synopsis: A fast method for indexing powder diffraction patterns has been developed for large and small lattices of all symmetries. Comparison with three of the most popular indexing programs has shown that the present method is more successful at indexing simulated data.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 96-102  [ doi:10.1107/S0021889802020095 ]

Structural characterization of thin films of the SrBi2Nb2O9 ferroelectric Aurivillius phase epitaxially grown on (110)SrTiO3

J.-R. Duclère, M. Guilloux-Viry and A. Perrin

Synopsis: This paper reports on the epitaxial growth of thin films of the ferroelectric Aurivillius phase SrBi2Nb2O9 on (110)SrTiO3 single-crystal substrates and discusses the film orientation and the film-substrate interface formation. In addition, a possible misinterpretation of the growth direction, due to a specific artifact, is highlighted.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 103-108  [ doi:10.1107/S0021889802020101 ]

Identification and characterization of a novel Mn-N nitride formed in Fe-Mn-N alloy

M. Gouné, A. Redjaïmia, T. Belmonte and H. Michel

Synopsis: An unexpected metastable Mn nitride phase ([theta]'), formed throughout the ferritic matrix of an Fe-Mn (1.62 wt% Mn) alloy during a nitriding treatment at 843 K for 8 h, adopts the form of plates. Its crystal structure is established by electron microdiffraction in conjunction with group-theory analysis.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 109-116  [ doi:10.1107/S0021889802020356 ]

Model calculations for the spin-echo small-angle neutron-scattering correlation function

O. Uca, W. G. Bouwman and M. T. Rekveldt

Synopsis: Spin-echo small-angle neutron scattering (SESANS) is a new kind of SANS technique enabling measurements to be made directly in real space from a range of a few nanometres up to micrometres. In this paper it is shown that SESANS measures correlations directly.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 117-124  [ doi:10.1107/S0021889802020368 ]

Real-space interpretation of spin-echo small-angle neutron scattering

T. Krouglov, I. M. de Schepper, W. G. Bouwman and M. T. Rekveldt

Synopsis: Real-space interpretation of spin-echo small-angle neutron scattering (SESANS) is presented. The SESANS correlation function is calculated analytically for Gaussian coils, and solid and hollow spheres.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 125-128  [ doi:10.1107/S0021889802020502 ]

How root-mean-square distance (r.m.s.d.) values depend on the resolution of protein structures that are compared

O. Carugo

Synopsis: The relationship between the crystallographic resolution and the root-mean-square distance of protein structure pairs is presented. This is important to help avoid missing a similarity that could otherwise be hidden by differing accuracies of two protein structures.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 129-136  [ doi:10.1107/S0021889802020526 ]

A new approach to the solution of the Takagi-Taupin equations for X-ray optics: application to a thermally deformed crystal monochromator

V. Mocella, W.-K. Lee, G. Tajiri, D. Mills, C. Ferrero and Y. Epelboin

Synopsis: A new computational approach to the Takagi-Taupin equations for the analysis of X-ray optics is presented and applied to heat-loaded synchrotron monochromators. The new numerical approach is based on the assumption that the incoming wave is completely incoherent (incoherent point source).

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 137-140  [ doi:10.1107/S0021889802021386 ]

Orientation relationship of Widmannstätten plates in an iron meteorite measured with high-energy synchrotron radiation

H. J. Bunge, W. Weiss, H. Klein, L. Wcislak, U. Garbe and J. R. Schneider

Synopsis: The orientation relationship of the transformation from f.c.c. to b.c.c. structure, measured with high-energy synchrotron radiation in an iron meteorite, consists of a continuous range of coplanar variants extending from the Nishiyama-Wassermann to the Kurdjumov-Sachs relationship, as well as a narrow transition path between non-coplanar variants.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 141-145  [ doi:10.1107/S0021889802021878 ]

Reversible displacive phase transition in [Ni(en)3]2+(NO3-)2: a potential temperature calibrant for area-detector diffractometers

L. J. Farrugia, P. Macchi and A. Sironi

Synopsis: The coordination complex [Ni(en)3]2+(NO{}_{3}^{- })2 (en = 1,2-diaminoethane) undergoes a sharp reversible displacive phase transition at ~109 K, changing space group from P6322 above the transition temperature to P6522 below. The phase change is accompanied by a tripling of the c axis on cooling, resulting in an easy detection of the transition in images from area-detector diffractometers.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 146-153  [ doi:10.1107/S0021889802019362 ]

Modelling X-ray diffraction by lamellar structures composed of electrically charged layers

A. Plançon

Synopsis: A new modelling of mixed-layer minerals containing electrically charged layers is presented along with the mathematical formalism for the diffracted intensities of such a model.

Online 21 January 2003


short communications


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J. Appl. Cryst. (2003). 36, 154-157  [ doi:10.1107/S0021889802019866 ]

X-ray diffraction from inhomogeneous thin films of nanometre thickness: modelling and experiment

F. Bocquet, P. Gergaud and O. Thomas

Synopsis: The diffraction of X-rays by a thin layer (of the order of a few nanometres) with a gradient in interplanar spacings is considered. It is shown that optical coherence over the film thickness leads to diffraction peak positions that no longer obey Bragg's law.

Online 21 January 2003


computer programs


 

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J. Appl. Cryst. (2003). 36, 158-159  [ doi:10.1107/S0021889802021738 ]

MLMF: least-squares approximation of likelihood-based refinement criteria

P. Afonine, V. Y. Lunin and A. Urzhumtsev

Synopsis: A computer program that calculates the parameters of the quadratic approximation of the maximum-likelihood criterion is proposed. The obtained parameters can be used in conventional least-squares refinement programs in order to improve the refinement procedure.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 160-162  [ doi:10.1107/S0021889802021581 ]

Computer program ANIZC for the calculation of diffraction contrast factors of dislocations in elastically anisotropic cubic, hexagonal and trigonal crystals

A. Borbély, J. Dragomir-Cernatescu, G. Ribárik and T. Ungár

Synopsis: The computer program ANIZC calculates the diffraction contrast factors of dislocations in anisotropic cubic, hexagonal and trigonal crystals.

Online 21 January 2003


laboratory notes


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J. Appl. Cryst. (2003). 36, 163-164  [ doi:10.1107/S0021889802019209 ]

Preliminary tests on the use of an acoustic levitator for liquid X-ray diffraction experiments

Y. Cerenius, Å. Oskarsson, S. Santesson, S. Nilsson and L. Kloo

Synopsis: Some preliminary tests at the crystallography beamline I711 at the MAX II synchrotron in Lund, Sweden, have shown that it is possible to use acoustical levitation to keep a droplet of liquid and solid (powder) samples in an X-ray beam for a sufficient time for collection of the X-ray diffraction pattern.

Online 21 January 2003


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J. Appl. Cryst. (2003). 36, 165-166  [ doi:10.1107/S0021889802019623 ]

A simple and rapid method for mounting protein crystals at room temperature

A. Mac Sweeney and A. D'Arcy

Synopsis: The use of a capillary-enclosed loop to simplify room-temperature data collection is described.

Online 21 January 2003


computer program abstracts


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J. Appl. Cryst. (2003). 36, 167-168  [ doi:10.1107/S0021889802019489 ]

WAP: water analysis package - a Web-based package to calculate geometrical parameters between water oxygen and protein atoms

V. Shanthi, C. K. Rajesh, J. Jayalakshmi, V. G. Vijay and K. Sekar

Synopsis: Interactive Web-based software, Water Analysis Package (WAP), has been developed to calculate the distances between water oxygen atoms and protein atoms. The package incorporates all the three-dimensional crystal structures available in the Protein Data Bank (the atomic coordinates being updated regularly from the RCSB-PDB server), as well as offering the option to upload the atomic coordinates (PDB format) of new structures from the client system.

Online 21 January 2003


book reviews


 

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J. Appl. Cryst. (2003). 36, 169-170  [ doi:10.1107/S0021889803000979 ]

Structure determination from powder diffraction data

Online 21 January 2003


books received


 

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J. Appl. Cryst. (2003). 36, 170  [ doi:10.1107/S0021889803001420 ]

Perovskites modern and ancient

Online 21 January 2003


international union of crystallography


 

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J. Appl. Cryst. (2003). 36, 171-176  [ doi:10.1107/S0021889802023178 ]

Notes for authors 2003

Online 21 January 2003


crystallographers


 

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J. Appl. Cryst. (2003). 36, 177  [ doi:10.1107/S0021889803001468 ]

Boris Zvyagin (1921-2002)

Online 21 January 2003


 

J. Appl. Cryst. (2003). 36, 178-179

forthcoming meetings and short courses


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