AMoRe：古典与现代。

Trapani Stefano, Navaza Jorge

IBS, Institut de Biologie Structurale Jean-Pierre Ebel, 41 Rue Jules Horowitz, F-38027 Grenoble, CEA, France.

Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):11-6. doi: 10.1107/S0907444907044460. Epub 2007 Dec 5.

An account is given of the latest developments of the AMoRe package: new rotational search algorithms, exploitation of noncrystallographic symmetry, generation and use of ensemble models and interactive graphical molecular replacement.

本文介绍了AMoRe软件包的最新进展：新的旋转搜索算法、非晶体学对称性的利用、集合模型的生成与使用以及交互式图形分子置换。

相似文献

AMoRe: classical and modern.

Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):11-6. doi: 10.1107/S0907444907044460. Epub 2007 Dec 5.

The Fab and Fc fragments of IgA1 exhibit a different arrangement from that in IgG: a study by X-ray and neutron solution scattering and homology modelling.

J Mol Biol. 1999 Mar 12;286(5):1421-47. doi: 10.1006/jmbi.1998.2556.

Crystal structure of Fab198, an efficient protector of the acetylcholine receptor against myasthenogenic antibodies.

Eur J Biochem. 2001 Jul;268(13):3685-93. doi: 10.1046/j.1432-1327.2001.02274.x.

An approach to multi-copy search in molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2000 Dec;56(Pt 12):1622-4. doi: 10.1107/s0907444900013780.

Structure of a monoclonal 2E8 Fab antibody fragment specific for the low-density lipoprotein-receptor binding region of apolipoprotein E refined at 1.9 A.

Acta Crystallogr D Biol Crystallogr. 1999 Jan;55(Pt 1):122-8. doi: 10.1107/S090744499800938X. Epub 1999 Jan 1.

On the use of strong Patterson function signals in many-body molecular replacement.

Acta Crystallogr D Biol Crystallogr. 1998 Sep 1;54(Pt 5):817-21. doi: 10.1107/s0907444997019434.

Structure of an immunoglobulin Fab fragment specific for poly(dG).poly(dC).

J Biol Chem. 1994 Feb 4;269(5):3605-14.

Ligand-induced domain movement in an antibody Fab: molecular dynamics studies confirm the unique domain movement observed experimentally for Fab NC6.8 upon complexation and reveal its segmental flexibility.

J Mol Biol. 1998 May 1;278(2):301-6. doi: 10.1006/jmbi.1998.1684.

Elbow flexibility and ligand-induced domain rearrangements in antibody Fab NC6.8: large effects of a small hapten.

Biophys J. 2000 Aug;79(2):614-28. doi: 10.1016/S0006-3495(00)76320-X.

Crystallographic analysis of the interaction between cyclosporin A and the Fab fragment of a monoclonal antibody.

Proteins. 1993 Apr;15(4):339-48. doi: 10.1002/prot.340150402.

引用本文的文献

The CCP4 suite: integrative software for macromolecular crystallography.

Acta Crystallogr D Struct Biol. 2023 Jun 1;79(Pt 6):449-461. doi: 10.1107/S2059798323003595. Epub 2023 May 30.

Structural basis of peptidoglycan endopeptidase regulation.

Proc Natl Acad Sci U S A. 2020 May 26;117(21):11692-11702. doi: 10.1073/pnas.2001661117. Epub 2020 May 11.

Insights into the ubiquitin transfer cascade catalyzed by the effector SidC.

Elife. 2018 Jul 17;7:e36154. doi: 10.7554/eLife.36154.

Mechanism of phosphoribosyl-ubiquitination mediated by a single Legionella effector.

Nature. 2018 May;557(7707):729-733. doi: 10.1038/s41586-018-0147-6. Epub 2018 May 23.

Databases, Repositories, and Other Data Resources in Structural Biology.

Methods Mol Biol. 2017;1607:643-665. doi: 10.1007/978-1-4939-7000-1_27.

Engineering Archeal Surrogate Systems for the Development of Protein-Protein Interaction Inhibitors against Human RAD51.

J Mol Biol. 2016 Nov 20;428(23):4589-4607. doi: 10.1016/j.jmb.2016.10.009. Epub 2016 Oct 8.

ATP half-sites in RadA and RAD51 recombinases bind nucleotides.

FEBS Open Bio. 2016 Apr 6;6(5):372-85. doi: 10.1002/2211-5463.12052. eCollection 2016 May.

Structure of the Legionella Virulence Factor, SidC Reveals a Unique PI(4)P-Specific Binding Domain Essential for Its Targeting to the Bacterial Phagosome.

PLoS Pathog. 2015 Jun 12;11(6):e1004965. doi: 10.1371/journal.ppat.1004965. eCollection 2015 Jun.

Molecular basis of E. coli L-threonine aldolase catalytic inactivation at low pH.

Biochim Biophys Acta. 2015 Apr;1854(4):278-83. doi: 10.1016/j.bbapap.2014.12.023. Epub 2015 Jan 2.

Structural analysis and mutant growth properties reveal distinctive enzymatic and cellular roles for the three major L-alanine transaminases of Escherichia coli.

PLoS One. 2014 Jul 11;9(7):e102139. doi: 10.1371/journal.pone.0102139. eCollection 2014.

本文引用的文献

The concept of resolution in the domain of rotations.

Acta Crystallogr A. 2007 Mar;63(Pt 2):126-30. doi: 10.1107/S0108767306055310. Epub 2007 Feb 15.

Calculation of spherical harmonics and Wigner d functions by FFT. Applications to fast rotational matching in molecular replacement and implementation into AMoRe.

Acta Crystallogr A. 2006 Jul;62(Pt 4):262-9. doi: 10.1107/S0108767306017478. Epub 2006 Jun 21.

Combining experimental data for structure determination of flexible multimeric macromolecules by molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2006 May;62(Pt 5):467-75. doi: 10.1107/S0907444906005361. Epub 2006 Apr 19.

On the computation of the fast rotation function.

Acta Crystallogr D Biol Crystallogr. 1993 Nov 1;49(Pt 6):588-91. doi: 10.1107/S0907444993005141.

The importance of alignment accuracy for molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2004 Jul;60(Pt 7):1229-36. doi: 10.1107/S0907444904010145. Epub 2004 Jun 22.

Structural genomics of highly conserved microbial genes of unknown function in search of new antibacterial targets.

J Struct Funct Genomics. 2003;4(2-3):141-57. doi: 10.1023/a:1026177202925.

On the fitting of model electron densities into EM reconstructions: a reciprocal-space formulation.

Acta Crystallogr D Biol Crystallogr. 2002 Oct;58(Pt 10 Pt 2):1820-5. doi: 10.1107/s0907444902013707. Epub 2002 Sep 28.

Solution solution: using NMR models for molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2001 Oct;57(Pt 10):1457-61. doi: 10.1107/s0907444901010824. Epub 2001 Sep 21.

Spherically averaged phased translation function and its application to the search for molecules and fragments in electron-density maps.

Acta Crystallogr D Biol Crystallogr. 2001 Oct;57(Pt 10):1451-6. doi: 10.1107/s0907444901012409. Epub 2001 Sep 21.

How to take advantage of non-crystallographic symmetry in molecular replacement: 'locked' rotation and translation functions.

Acta Crystallogr D Biol Crystallogr. 2001 Oct;57(Pt 10):1383-9. doi: 10.1107/s0907444901012446. Epub 2001 Sep 21.

Suppr 超能文献

核心技术专利：CN118964589B侵权必究

Trapani Stefano, Navaza Jorge

IBS, Institut de Biologie Structurale Jean-Pierre Ebel, 41 Rue Jules Horowitz, F-38027 Grenoble, CEA, France.

Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):11-6. doi: 10.1107/S0907444907044460. Epub 2007 Dec 5.

本文介绍了AMoRe软件包的最新进展：新的旋转搜索算法、非晶体学对称性的利用、集合模型的生成与使用以及交互式图形分子置换。

相似文献

AMoRe: classical and modern.

Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):11-6. doi: 10.1107/S0907444907044460. Epub 2007 Dec 5.

The Fab and Fc fragments of IgA1 exhibit a different arrangement from that in IgG: a study by X-ray and neutron solution scattering and homology modelling.

J Mol Biol. 1999 Mar 12;286(5):1421-47. doi: 10.1006/jmbi.1998.2556.

Crystal structure of Fab198, an efficient protector of the acetylcholine receptor against myasthenogenic antibodies.

Eur J Biochem. 2001 Jul;268(13):3685-93. doi: 10.1046/j.1432-1327.2001.02274.x.

An approach to multi-copy search in molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2000 Dec;56(Pt 12):1622-4. doi: 10.1107/s0907444900013780.

Structure of a monoclonal 2E8 Fab antibody fragment specific for the low-density lipoprotein-receptor binding region of apolipoprotein E refined at 1.9 A.

Acta Crystallogr D Biol Crystallogr. 1999 Jan;55(Pt 1):122-8. doi: 10.1107/S090744499800938X. Epub 1999 Jan 1.

On the use of strong Patterson function signals in many-body molecular replacement.

Acta Crystallogr D Biol Crystallogr. 1998 Sep 1;54(Pt 5):817-21. doi: 10.1107/s0907444997019434.

Structure of an immunoglobulin Fab fragment specific for poly(dG).poly(dC).

J Biol Chem. 1994 Feb 4;269(5):3605-14.

J Mol Biol. 1998 May 1;278(2):301-6. doi: 10.1006/jmbi.1998.1684.

Elbow flexibility and ligand-induced domain rearrangements in antibody Fab NC6.8: large effects of a small hapten.

Biophys J. 2000 Aug;79(2):614-28. doi: 10.1016/S0006-3495(00)76320-X.

Crystallographic analysis of the interaction between cyclosporin A and the Fab fragment of a monoclonal antibody.

Proteins. 1993 Apr;15(4):339-48. doi: 10.1002/prot.340150402.

引用本文的文献

The CCP4 suite: integrative software for macromolecular crystallography.

Acta Crystallogr D Struct Biol. 2023 Jun 1;79(Pt 6):449-461. doi: 10.1107/S2059798323003595. Epub 2023 May 30.

Structural basis of peptidoglycan endopeptidase regulation.

Proc Natl Acad Sci U S A. 2020 May 26;117(21):11692-11702. doi: 10.1073/pnas.2001661117. Epub 2020 May 11.

Insights into the ubiquitin transfer cascade catalyzed by the effector SidC.

Elife. 2018 Jul 17;7:e36154. doi: 10.7554/eLife.36154.

Mechanism of phosphoribosyl-ubiquitination mediated by a single Legionella effector.

Nature. 2018 May;557(7707):729-733. doi: 10.1038/s41586-018-0147-6. Epub 2018 May 23.

Databases, Repositories, and Other Data Resources in Structural Biology.

Methods Mol Biol. 2017;1607:643-665. doi: 10.1007/978-1-4939-7000-1_27.

Engineering Archeal Surrogate Systems for the Development of Protein-Protein Interaction Inhibitors against Human RAD51.

J Mol Biol. 2016 Nov 20;428(23):4589-4607. doi: 10.1016/j.jmb.2016.10.009. Epub 2016 Oct 8.

ATP half-sites in RadA and RAD51 recombinases bind nucleotides.

FEBS Open Bio. 2016 Apr 6;6(5):372-85. doi: 10.1002/2211-5463.12052. eCollection 2016 May.

Structure of the Legionella Virulence Factor, SidC Reveals a Unique PI(4)P-Specific Binding Domain Essential for Its Targeting to the Bacterial Phagosome.

PLoS Pathog. 2015 Jun 12;11(6):e1004965. doi: 10.1371/journal.ppat.1004965. eCollection 2015 Jun.

Molecular basis of E. coli L-threonine aldolase catalytic inactivation at low pH.

Biochim Biophys Acta. 2015 Apr;1854(4):278-83. doi: 10.1016/j.bbapap.2014.12.023. Epub 2015 Jan 2.

Structural analysis and mutant growth properties reveal distinctive enzymatic and cellular roles for the three major L-alanine transaminases of Escherichia coli.

PLoS One. 2014 Jul 11;9(7):e102139. doi: 10.1371/journal.pone.0102139. eCollection 2014.

本文引用的文献

The concept of resolution in the domain of rotations.

Acta Crystallogr A. 2007 Mar;63(Pt 2):126-30. doi: 10.1107/S0108767306055310. Epub 2007 Feb 15.

Calculation of spherical harmonics and Wigner d functions by FFT. Applications to fast rotational matching in molecular replacement and implementation into AMoRe.

Acta Crystallogr A. 2006 Jul;62(Pt 4):262-9. doi: 10.1107/S0108767306017478. Epub 2006 Jun 21.

Combining experimental data for structure determination of flexible multimeric macromolecules by molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2006 May;62(Pt 5):467-75. doi: 10.1107/S0907444906005361. Epub 2006 Apr 19.

On the computation of the fast rotation function.

Acta Crystallogr D Biol Crystallogr. 1993 Nov 1;49(Pt 6):588-91. doi: 10.1107/S0907444993005141.

The importance of alignment accuracy for molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2004 Jul;60(Pt 7):1229-36. doi: 10.1107/S0907444904010145. Epub 2004 Jun 22.

Structural genomics of highly conserved microbial genes of unknown function in search of new antibacterial targets.

J Struct Funct Genomics. 2003;4(2-3):141-57. doi: 10.1023/a:1026177202925.

On the fitting of model electron densities into EM reconstructions: a reciprocal-space formulation.

Acta Crystallogr D Biol Crystallogr. 2002 Oct;58(Pt 10 Pt 2):1820-5. doi: 10.1107/s0907444902013707. Epub 2002 Sep 28.

Solution solution: using NMR models for molecular replacement.

Acta Crystallogr D Biol Crystallogr. 2001 Oct;57(Pt 10):1457-61. doi: 10.1107/s0907444901010824. Epub 2001 Sep 21.

Spherically averaged phased translation function and its application to the search for molecules and fragments in electron-density maps.

Acta Crystallogr D Biol Crystallogr. 2001 Oct;57(Pt 10):1451-6. doi: 10.1107/s0907444901012409. Epub 2001 Sep 21.

How to take advantage of non-crystallographic symmetry in molecular replacement: 'locked' rotation and translation functions.

Acta Crystallogr D Biol Crystallogr. 2001 Oct;57(Pt 10):1383-9. doi: 10.1107/s0907444901012446. Epub 2001 Sep 21.

AMoRe: classical and modern.

作者信息

机构信息

出版信息

相似文献

引用本文的文献

本文引用的文献

文献AI研究员

用中文搜PubMed

文档翻译

Suppr 超能文献

AMoRe：古典与现代。

AMoRe: classical and modern.

作者信息

机构信息

出版信息

相似文献

引用本文的文献

本文引用的文献