Acta Crystallographica Section D

Biological Crystallography

Volume 51, Part 6 (November 1995)


Cover illustration Cover illustration: Active site of purine nucleoside phosphorylase with the electrostatic potential surface and dipole of guanine. Rendered with Ribbons++ and SPARTAN.

research papers



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Acta Cryst. (1995). D51, 859-870    [ doi:10.1107/S0907444995002988 ]

Laue diffraction studies of human rhinovirus 14 and canine parvovirus

A. Hadfield, J. Hajdu, M. S. Chapman and M. G. Rossmann

Synopsis: Laue diffraction data have been collected from canine parvovirus (CPV) and human rhinovirus 14 (HRVl4). In optimal conditions one or two images of HRVl4 were sufficient to determine the presence of a point mutation from a leucine to a valine, and to calculate interpretable electron-density maps of virus-antiviral compound complexes at 3.5 Å resolution.



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Acta Cryst. (1995). D51, 871-887    [ doi:10.1107/S0907444995002253 ]

Structure determination of coxsackievirus B3 to 3.5 Å resolution

J. K. Muckelbauer, M. Kremer, I. Minor, L. Tong, A. Zlotnick, J. E. Johnson and M. G. Rossmann

Synopsis: The structure determination of CVB3 using molecular replacement involved characterizing pseudo R32 symmetry and allowed for 120-fold non-crystallographic averaging which resulted in a high-quality electron-density map.



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Acta Cryst. (1995). D51, 888-895    [ doi:10.1107/S0907444995006743 ]

On the solution of the molecular-replacement problem at very low resolution: application to large complexes

A. Urzhumtsev and A. Podjarny

Synopsis: The applicability of the molecular-replacement method to structure solution at very low resolution is shown, both with atomic and non-atomic (envelope) models. The specific nature of the signal at this resolution required the development of a new protocol for molecular replacement.



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Acta Cryst. (1995). D51, 896-903    [ doi:10.1107/S0907444995005075 ]

On the ab initio solution of the phase problem for macromolecules at very low resolution: the few atoms model method

V. Yu Lunin, N. L. Lunina, T. E. Petrova, E. A. Vernoslova, A. G. Urzhumtsev and A. D. Podjarny

Synopsis: The phase problem is solved ab initio at very low resolution for macromolecular through the random generation of a very large amount of few atoms models, the selection of the best ones with an amplitude correlation checking, and the grouping the best models in `clusters'. Applications are described.



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Acta Cryst. (1995). D51, 904-913    [ doi:10.1107/S0907444995002964 ]

Refinement of purothionins reveals solute particles important for lattice formation and toxicity. Part 1: [alpha]1-purothionin revisited

U. Rao, B. Stec and M. M. Teeter

Synopsis: Improved re-refined structure of [alpha]1-purothionin is described. The crystal structure contains the newly found solute molecules (phosphate, acetate and glycerol). These are hyphothesized to be important in lattice assembly and toxicity.

PDB reference: 2plh



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Acta Cryst. (1995). D51, 914-924    [ doi:10.1107/S0907444995002976 ]

Refinement of purothionins reveals solute particles important for lattice formation and toxicity. Part 2: structure of [beta]-purothionin at 1.7 Å resolution

B. Stec, U. Rao and M. M. Teeter

Synopsis: The crystal structure of [beta]-purnthionin at 1.7 Å is presented. The crystal structure contains the same solute molecules as found before in [alpha]1-purothionin (phosphate, acetate and glycerol). These are hypothesized to be important in lattice assembly and toxicity.

PDB reference: 1bhp



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Acta Cryst. (1995). D51, 925-937    [ doi:10.1107/S0907444995004835 ]

Structure of native pancreatic elastase from North Atlantic salmon at 1.61 Å resolution

G. I. Berglund, N. P. Willassen, A. Hordvik and A. O. Smalås

Synopsis: The structure of salmon pancreatic elastase at 1.61 Å is the first molecular structure of an elastase from a cold-adapted species.

PDB reference: 1elt



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Acta Cryst. (1995). D51, 938-945    [ doi:10.1107/S0907444994005251 ]

Preliminary characterization of EcoRI-DNA co-crystals: incomplete factorial design of oligonucleotide sequences

P. A. Wilkosz, K. Chandrasekhar and J. M. Rosenberg

Synopsis: Incomplete factorial analysis was used to design oligonucleotide sequences for cocrystallization with EcoRI endonuclease. Presence of DNA in the co-crystals was confirmed by a dye test.



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Acta Cryst. (1995). D51, 946-961    [ doi:10.1107/S0907444995002289 ]

Human class II MHC molecule HLA-DR1: X-ray structure determined from three crystal forms

J. H. Brown, T. S. Jardetzky, L. J. Stern, J. C. Gorga, J. L. Strominger and D. C. Wiley

Synopsis: The first three-dimensional structure of class II major histocompatibility complex glycoprotein was determined by non-crystallographic averaging of dimers of HLA-DRi heterodimers from three crystal forms.



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Acta Cryst. (1995). D51, 962-978    [ doi:10.1107/S0907444995005105 ]

Crystal structures of three complexes between chito-oligosaccharides and lysozyme from the rainbow trout. How distorted is the NAG sugar in site D?

S. Karlsen and E. Hough

Synopsis: Crystal structures of three complexes between the rainbow trout lysozyme and oligomers of N-acetylglucosamine were determined. The paper describes the binding of these oligosaccharides to the A, B, C and D sites of the active-site cleft of thc lysozyme.

PDB references: 1lmo, 1lmp and 1lmq



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Acta Cryst. (1995). D51, 979-989    [ doi:10.1107/S0907444995006275 ]

On the application of anomalous scattering in oligonucleotide crystallography

S. R. Hubbard, R. J. Greenall and M. M. Woolfson

Synopsis: The P atoms in oligonucleotide crystals can be located by using anomalous-scattering differences, |[bold delta]F|, in the direct-methods program MULTAN. Success is not dependent on having high- resolution data, but the errors in the |[bold delta]F|'s must be small.



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Acta Cryst. (1995). D51, 990-1002    [ doi:10.1107/S0907444995003805 ]

Phase improvement by cross-validated density modification

A. L. U. Roberts and A. T. Brünger

Synopsis: Cross-validation has been used to optimize the performance of density-modification methods. A high correlation was found between the cross-validated R value and the model phase errors for two test cases, indicating that this method is likely to be useful when initial phase estimates are unavailable.



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Acta Cryst. (1995). D51, 1003-1012    [ doi:10.1107/S0907444995004574 ]

1.6 Å structure of semisynthetic ribonuclease crystallized from aqueous ethanol. Comparison with crystals from salt solutions and with ribonuclease A from aqueous alcohol solutions

S. J. de Mel, M. S. Doscher, P. D. Martin, F. Rodier and B. F. P. Edwards

Synopsis: The 1.6 Å structure of a semisynthetic RNase from 43% aqueous ethanol closely resembles the 1.8 Å structure obtained from crystals grown in concentrated salt solution, although a major difference is the positioning of active-site residue His119.

PDB reference: 1ssc



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Acta Cryst. (1995). D51, 1013-1019    [ doi:10.1107/S0907444995004070 ]

X-ray structure of wheat germ agglutinin isolectin 3

K. Harata, H. Nagahora and Y. Jigami

Synopsis: The structure of the title protein was determined at 1.9 Å resolution and refined to an R value of 0.19. Two independent molecules are related with a local twofold axis to form a dimer structure.

PDB reference: 1wgt



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Acta Cryst. (1995). D51, 1020-1024    [ doi:10.1107/S0907444995006044 ]

Use of 'random-atom" phasing models to determine macromolecular heavy-atom replacement positions

D. A. Langs, D. Guo and H. A. Hauptman

Synopsis: The triples invariant translation function is used to quickly determine plausible relative heavy-atom sites for SIR and SAS data. These candidate peaks may be recycled through the minimal function to obtain an origin consistent set for multisite derivatives.



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Acta Cryst. (1995). D51, 1025-1035    [ doi:10.1107/S0907444995001880 ]

Sodium ions and water molecules in the structure of poly(dA)·poly(dT)

R. Chandrasekaran, A. Radha and H.-S. Park

Synopsis: X-ray fiber diffraction analysis reveals that the poly(dA).poly(dT) double helix is stabilized by a spine of continuously hydrogen-bonded water molecules in the minor groove. Phosphate groups of adjacent DNA helices are linked via bridges formed by solution ions and water molecules.

PDB reference: 1ply



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Acta Cryst. (1995). D51, 1036-1040    [ doi:10.1107/S0907444995006469 ]

Direct-space methods in phase extension and phase determination. III. Phase refinement using Sayre"s equation

L. S. Refaat, C. Tate and M. M. Woolfson



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Acta Cryst. (1995). D51, 1041-1051    [ doi:10.1107/S0907444995006421 ]

Refined structures at 2 and 2.2 Å resolution of two forms of the H-protein, a lipoamide-containing protein of the glycine decarboxylase complex

S. Pares, C. Cohen-Addad, L. C. Sieker, M. Neuburger and R. Douce

Synopsis: The H-protein is the mechanistic heart of the multienzymatic complex of the glycine decarboxylase. Its lipoate cofactor is linked to a lysine located in a hairpin configuration and moves freely. Following binding of methylamine residue, it is locked in a cleft at the surface of the protein.

PDB references: 1hpc and 1hpt



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Acta Cryst. (1995). D51, 1052-1064    [ doi:10.1107/S0907444995007554 ]

Structure of a new azurin from the denitrifying bacterium Alcaligenes xylosoxidans at high resolution

F. E. Dodd, S. S. Hasnain, Z. H. L. Abraham, R. R. Eady and B. E. Smith

Synopsis: The structure of a new azurin from Alcaligenes xylosoxidans has been solved by the molecular-replacement method. A detailed comparison is made with the high-resolution structures of azurins from Akaligenes denitrificans and Pseudomonas aeruginosa.

PDB reference: 1arn


short communications



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Acta Cryst. (1995). D51, 1065-1070    [ doi:10.1107/S0907444995003817 ]

Crystallization and preliminary X-ray diffraction analysis of double-helical RNA octamers

M. Egli, S. Portmann, D. Tracz, C. Workman and N. Usman

Synopsis: The crystallization of chemically synthesized RNA oligonucleotides by the sparse-matrix technique is reported. Two crystal forms of the RNA octamer r(CCCCGGGG) have been obtained.



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Acta Cryst. (1995). D51, 1071-1073    [ doi:10.1107/S0907444995006652 ]

Crystallization and preliminary crystallographic investigations of cytochrome c4 from Pseudomonas stutzeri

A. Kadziola, S. Larsen, H. M. Christensen, J.-J. Karlsson and J. Ulstrup

Synopsis: The dihaem cytochrome c4 from Pseudomonas stutzeri has been crystallized in the space group P21 with unit-cell dimensions a = 49.49, b = 58.58, c = 63.51 Å and [beta] = 96.96° and two molecules per asymmetric unit. The positions of the four independent Fe atoms were determined from the anomalous Patterson map.



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Acta Cryst. (1995). D51, 1074-1076    [ doi:10.1107/S0907444995005415 ]

Crystallization and preliminary X-ray crystallographic data with Escherichia coli transketolase

J. Littlechild, N. Turner, G. Hobbs, M. Lilly, A. Rawas and Watson. H.

Synopsis: The Escherichia coli transketolase enzyme has been crystallized in a form suitable for X-ray crystallographic analysis. The structure has been solved by molecular replacement allowing the high-resolution (1.9 Å) structural determination of this important carbon~arbon bond-forming enzyme.



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Acta Cryst. (1995). D51, 1077-1079    [ doi:10.1107/S0907444995002769 ]

Properties of a crystal of the complex of methyl D-arabinofuranoside with concanavalin A

A. J. Kalb (Gilboa), F. Frolow, J. Yariv and M. Eisenstein

Synopsis: The complex of methyl [alpha]-D-arabinofuranoside with concanavalin A crystallizes in space group P21221 with cell dimensions a = 97.5, b = 87.0 and c = 61.5 Å. The crystals diffract to 2.0 Å resolution.



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Acta Cryst. (1995). D51, 1080-1081    [ doi:10.1107/S0907444995003180 ]

Preliminary X-ray studies on two new crystal forms of staphylococcal enterotoxin C2

S. Swaminathan, W. Furey, J. Pletcher and M. Sax

Synopsis: Cell dimensions and preliminary studies on two new crystal forms, a monoclinic and a tetragonal form, are reported for staphylococcal enterotoxin C2.



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Acta Cryst. (1995). D51, 1082-1083    [ doi:10.1107/S0907444995005191 ]

Crystallization and preliminary characterization of human recombinant N-acetylgalactosamine-4-sulfatase

S. J. Ashby, P. R. Clements, J. M. Guss, I. Harvey and J. J. Hopwood

Synopsis: N-Acetylgalactosamine-4-sulfatase, a lysosomal enzyme involved in the degradation of glycosaminoglycans (mucopolysaccharides), has been crystallized.



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Acta Cryst. (1995). D51, 1084-1085    [ doi:10.1107/S0907444995004197 ]

Preliminary X-ray diffraction study of a new crystal form of C-1027-AG, the apoprotein of the macromolecular antitumor antibiotic C-1027 from Streptomyces globisporus

F. Motojima, K. Inaka, Y. Minami, T. Otani and K. Miki

Synopsis: A new crystal form of C-1027-AG, the apoprotein of the macromolecular antitumor antibiotic C- 1027 isolated from Streptomyces globisporus was obtained using lithium sulfate as a precipitant.



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Acta Cryst. (1995). D51, 1086-1088    [ doi:10.1107/S0907444995003386 ]

Crystallization and preliminary X-ray crystallographic analysis of DNA polymerase from Thermus aquaticus

S. H. Eom, H. K. Song, S. W. Suh, Y. Kim, T. A. Steitz, J. H. Park, J. S. Kim, S.-T. Kwon and D.-S. Lee

Synopsis: The crystal forms of DNA polymerase from Thermus aquaticus have been grown. Trigonal crystals are suitable for structure determination.



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Acta Cryst. (1995). D51, 1089-1091    [ doi:10.1107/S0907444995001909 ]

Crystallization and preliminary X-ray analysis of pyruvate kinase type I from Escherichia coli

A. Mattevi, G. Valentini, M. L. Speranza, P. Sartori, M. Bolognesi and A. Coda

Synopsis: Pyruvate kinase from E. coli has been crystallized providing the basis for understanding the molecular mechanism for the allosteric transition.



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Acta Cryst. (1995). D51, 1092-1093    [ doi:10.1107/S0907444995005403 ]

Preliminary X-ray crystallographic study of methyltetrahydrofolate: corrinoid/iron sulfur protein methyltransferase from Clostridium thermoaceticum

T. I. Doukov, S. Zhao, C. R. Ross II, D. L. Roberts, J.-J. Kim, S. W. Ragsdale and J. J. Stezowski

Synopsis: Methyltetrahydrofolate:corrinoid/iron sulfur protein methyltransferase from Clostridiuin therinoaceticum has been crystallized and characterized by X-ray diffraction.



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Acta Cryst. (1995). D51, 1094-1096    [ doi:10.1107/S0907444995004422 ]

Purification, crystallization and preliminary X-ray crystallographic analysis of lactoperoxidase from buffalo milk

R. Kumar, K. L. Bhatia, Z. Dauter, C. H. Betzel and T. P. Singh

Synopsis: The enzyme lactoperoxidase, a glycoprotein which exhibits bactericidal and bacteriostalic effects has been isolated from buffalo milk. It has been crystallized with 10%(v/v) ethanol. The green-coloured plate-like crystals are orthorhombic in space group P212121 with unit-cell dimensions a = 116.9, b = 103.2, c = 62.3 Å.



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Acta Cryst. (1995). D51, 1097-1098    [ doi:10.1107/S0907444995006445 ]

X-ray analysis of crystals of polygalacturonase A from Pseudomonas solanacearum

M. D. Yoder and M. A. Schell

Synopsis: Crystallization report of a polygalacturonase from Pseudomonas solanacearum, a secreted plant-virulence determinant.



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Acta Cryst. (1995). D51, 1099-1102    [ doi:10.1107/S0907444995012170 ]

Improvements in lysozyme protein crystal perfection through microgravity growth

E. H. Snell, S. Weisgerber, J. R. Helliwell, E. Weckert, K. Hölzer and K. Schroer

Synopsis: The mosaicity of microgravity-grown lysozyme protein crystals is shown to have improved by a factor of three to four over earth-grown controls yielding essentially perfect crystal diffraction gratings. The peak to background of the diffraction intensities is thereby enhanced by a similar factor, illustrating the link between the geometric perfection and the resolution. The results set a benchmark for all future microgravity and earth-based procedures.


book reviews



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Acta Cryst. (1995). D51, 1103    [ doi:10.1107/S0907444995007098 ]

Crystallography made crystal clear. A guide for users of macromolecular models by G. Rhodes


books received



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Acta Cryst. (1995). D51, 1103    [ doi:10.1107/S0907444995099744 ]

Crystal structure analysis for chemists and biologists by J. P. Glusker, M. Lewis and M. Rossi


international union of crystallography



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Acta Cryst. (1995). D51, 1104-1105    [ doi:10.1107/S0907444995099732 ]

Prices of IUCr journals



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Acta Cryst. (1995). D51, 1106    [ doi:10.1107/S0907444995099720 ]

New cryocrystallography section


Acta Cryst. (1995). D51, 1107-1112

Subject index to volume D51 (1995)


Acta Cryst. (1995). D51, 1113-1120

Author index to volume D51 (1995)


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