List of works - Randy Read

A critical examination of the recently reported crystal structures of the human SMN protein.

scientific article published on 29 August 2016

A log-likelihood-gain intensity target for crystallographic phasing that accounts for experimental error

scientific article published on March 2016

A mosquitocidal toxin with a ricin-like cell-binding domain.

scientific article published in May 1995

A multiple-start Monte Carlo docking method.

scientific article

A new generation of crystallographic validation tools for the protein data bank

scientific article

A new pentameric structure of rotavirus NSP4 revealed by molecular replacement

scientific article

A redox switch in angiotensinogen modulates angiotensin release

scientific article

AMPylation targets the rate-limiting step of BiP's ATPase cycle for its functional inactivation.

scientific article published on 24 October 2017

ANS complex of St John's wort PR-10 protein with 28 copies in the asymmetric unit: a fiendish combination of pseudosymmetry with tetartohedral twinning

scientific article

Ab initio solution of macromolecular crystal structures without direct methods

scientific article

Accumulating Evidence Suggests That Several AB-Toxins Subvert the Endoplasmic Reticulum-Associated Protein Degradation Pathway To Enter Target Cells ⬇️

scientific article published on September 16, 1997

Accurate prediction of protein structures and interactions using a three-track neural network

scientific article

Advances, interactions, and future developments in the CNS, Phenix, and Rosetta structural biology software systems

scientific article published on 28 February 2013

Aerolysin and pertussis toxin share a common receptor-binding domain

scientific article

Allosteric Modulation of Hormone Release from Thyroxine and Corticosteroid-binding Globulins

scientific article

An oligomeric state-dependent switch in the ER enzyme FICD regulates AMPylation and deAMPylation of BiP

scientific article published on 18 September 2019

Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum

scientific article

Application of the complex multivariate normal distribution to crystallographic methods with insights into multiple isomorphous replacement phasing

scientific article published on 19 September 2003

Assessing the utility of <scp>CASP14</scp> models for molecular replacement

scientific article published in 2021

Assessment of CASP7 predictions in the high accuracy template-based modeling category

scientific article

Automated identification of elemental ions in macromolecular crystal structures

scientific article published on 20 March 2014

Automated server predictions in CASP7

scientific article

Automated structure determination with phenix

Automated structure solution with the PHENIX suite

scientific article (publication date: 2008)

Automating crystallographic structure solution and refinement of protein-ligand complexes.

scientific article published on 25 December 2013

Azasugar inhibitors as pharmacological chaperones for Krabbe disease

scientific article published on 30 March 2015

Biophysical methods: Bigger, better, faster and automatically too?

Book Review

Case-controlled structure validation

scientific article

Combining Crystallographic and Structure-Modeling Approaches in Macromolecular Crystallography

scholarly article by Thomas C. Terwilliger et al published January 2014 in Biophysical Journal

Coping with strong translational noncrystallographic symmetry and extreme anisotropy in molecular replacement with Phaser: human Rab27a

scientific article published on 28 February 2019

Critical evaluation of comparative model building of Streptomyces griseus trypsin.

scientific article

Crystal structure of double helical hexitol nucleic acids

scientific article

Crystal structure of rab11 in complex with rab11 family interacting protein 2

scientific article

Crystal structures of BMPRII extracellular domain in binary and ternary receptor complexes with BMP10

scientific article published on 03 May 2022

Crystallization and preliminary X-ray crystallographic analysis of verotoxin-1 B-subunit

scientific article published on 01 October 1991

Crystallography: crystallographic evidence for deviating C3b structure

scientific article published on August 2007

Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard

scientific article (publication date: June 2009)

Density modification of cryo-EM maps

scientific article published on 22 September 2020

Detecting outliers in non-redundant diffraction data.

scientific article

Detection of translational noncrystallographic symmetry in Patterson functions

scientific article published on 05 February 2021

Domain definition and target classification for CASP7

scholarly article by Neil D. Clarke published in January 2007

Erratum: Corrigendum: Mutations in FRMD7, a newly identified member of the FERM family, cause X-linked idiopathic congenital nystagmus

scholarly article published in Nature Genetics

Evaluation of model refinement in CASP13

scientific article published on 20 August 2019

Evaluation of template-based modeling in CASP13

scientific article published on 20 August 2019

Exome sequencing identifies NBEAL2 as the causative gene for gray platelet syndrome

scientific article

Expanding beyond biological crystallography

scientific article published in January 2016

Experimental phasing: best practice and pitfalls

scientific article

Exploiting distant homologues for phasing through the generation of compact fragments, local fold refinement and partial solution combination

scientific article published on 3 April 2018

Factors influencing estimates of coordinate error for molecular replacement

scientific article published on 01 January 2020

Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography

scientific article published on 29 April 2019

Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography

scientific article published on 30 April 2019

Fitting electron density by systematic search.

scientific article published in March 1992

Fragment-based modeling of NAD binding to the catalytic subunits of diphtheria and pertussis toxins

scientific article published on 01 May 1998

From poor resolution to rich insight

scientific article published on 01 June 2010

G-actin provides substrate-specificity to eukaryotic initiation factor 2α holophosphatases

scientific article

Graphical tools for macromolecular crystallography in PHENIX

scientific article

Gyre and gimble: a maximum-likelihood replacement for Patterson correlation refinement.

scientific article published on 3 April 2018

High-resolution structure prediction and the crystallographic phase problem

scientific article

How changes in affinity of corticosteroid-binding globulin modulate free cortisol concentration

scientific article

How serpins transport hormones and regulate their release

scientific article published on 24 December 2016

How vitronectin binds PAI-1 to modulate fibrinolysis and cell migration

scientific article

Immunoprophylactic potential of cloned Shiga toxin 2 B subunit

scientific article

Improved AlphaFold modeling with implicit experimental information

scientific article published in 2022

Improved crystallographic models through iterated local density-guided model deformation and reciprocal-space refinement

scientific article

Improved estimates of coordinate error for molecular replacement.

scientific article published on 12 October 2013

Improved molecular replacement by density- and energy-guided protein structure optimization

scientific article (publication date: 26 May 2011)

Improvement of cryo-EM maps by density modification

scientific article published on 17 August 2020

Improvement of molecular-replacement models with Sculptor

scientific article published on 18 March 2011

Improving experimental phases for strong reflections prior to density modification

scientific article published on 20 September 2013

Incorporation of prior phase information strengthens maximum-likelihood structure refinement

scientific article (publication date: November 1998)

Insights into Hunter syndrome from the structure of iduronate-2-sulfatase

scientific article

Insights into Krabbe disease from structures of galactocerebrosidase

scientific article

Intensity statistics in the presence of translational noncrystallographic symmetry

scientific article published on 16 January 2013

Interpretation of ensembles created by multiple iterative rebuilding of macromolecular models

scientific article published on 21 April 2007

Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard

scientific article (publication date: 2008)

Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias

scientific article published on 19 April 2008

Liberating crystallographers

scientific article published on 01 September 2005

Likelihood-based experimental phasing in phaser

scholarly article published 2007

Likelihood-based molecular replacement in phaser

scholarly article published 2007

Likelihood-based molecular-replacement solution for a highly pathological crystal with tetartohedral twinning and sevenfold translational noncrystallographic symmetry

scientific article

Likelihood-enhanced fast rotation functions

scientific article (publication date: March 2004)

Likelihood-enhanced fast translation functions

scientific article (publication date: April 2005)

Local error estimates dramatically improve the utility of homology models for solving crystal structures by molecular replacement

scientific article published on 22 January 2015

Macromolecular X-ray structure determination using weak, single-wavelength anomalous data

scientific article

Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix

scientific article published on 02 October 2019

Maximum-likelihood determination of anomalous substructures

scientific article published in February 2018

Measuring and using information gained by observing diffraction data

scientific article published on 25 February 2020

Methylation-state-specific recognition of histones by the MBT repeat protein L3MBTL2

scientific article

Model morphing and sequence assignment after molecular replacement

scientific article published on 18 October 2013

Modeling the Carbohydrate-Binding Specificity of Pig Edema Toxin†

scientific article published in 1998

Molecular Mechanism of Z α1-Antitrypsin Deficiency

scientific article published on 31 May 2016

Molecular pathology of X linked retinoschisis: mutations interfere with retinoschisin secretion and oligomerisation

scientific article

Mutations in FRMD7, a newly identified member of the FERM family, cause X-linked idiopathic congenital nystagmus

scientific article

New Section Editor of Acta Cryst. D

scientific article published on 30 July 2020

New ways of looking at experimental phasing.

scientific article published on 23 October 2003

Noncrystallographic symmetry averaging in phase refinement and extension

scientific article published on 01 January 1997

Not your average density.

scientific article

Novel pentameric structure of the diarrhea-inducing region of the rotavirus enterotoxigenic protein NSP4.

scientific article published on 14 September 2011

On the application of the expected log-likelihood gain to decision making in molecular replacement.

scientific article published on 4 April 2018

Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop

scientific article published on 18 June 2015

Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop

scientific article

Overview of the CCP4 suite and current developments

scientific article (publication date: April 2011)

PHENIX: a comprehensive Python-based system for macromolecular structure solution

scientific article

PHENIX: building new software for automated crystallographic structure determination

scientific article (publication date: November 2002)

Phaser.MRage: automated molecular replacement

scientific article (publication date: November 2013)

Phasercrystallographic software

scientific article (publication date: August 2007)

Phasertng: directed acyclic graphs for crystallographic phasing

scientific article published on 01 January 2021

Preliminary crystallographic studies of glycosomal glyceraldehyde phosphate dehydrogenase from Trypanosoma brucei brucei

scientific article published on 01 April 1987

Purification, crystallization and preliminary X-ray analysis of murine interleukin-5

scientific article published on 01 August 1994

Real-space refinement in PHENIX for cryo-EM and crystallography

scientific article published on 30 May 2018

Recent developments in phasing and structure refinement for macromolecular crystallography

scientific article published on 21 August 2009

Refined crystal structure of the molecular complex of Streptomyces griseus protease B, a serine protease, with the third domain of the ovomucoid inhibitor from turkey

scientific article

Responses to `Atomic resolution': a badly abused term in structural biology.

scientific article

Severe diffraction anisotropy, rotational pseudosymmetry and twinning complicate the refinement of a pentameric coiled-coil structure of NSP4 of rotavirus

scientific article published on 18 October 2012

Simple algorithm for a maximum-likelihood SAD function

scientific article published on 22 June 2004

Solution structure of the Kaposi's sarcoma-associated herpesvirus K3 N-terminal domain reveals a Novel E2-binding C4HC3-type RING domain.

scientific article published on 30 September 2004

Solving serpin crystal structures

scientific article published in January 2011

Strengthening molecular replacement with maximum likelihood in Beast

article by Randy Read published January 2003 in Crystallography Reviews

Structural Basis for Benzothiazinone-Mediated Killing of Mycobacterium tuberculosis

scientific article

Structural basis for the specificity of renin-mediated angiotensinogen cleavage.

scientific article

Structural basis of GM-CSF and IL-2 sequestration by the viral decoy receptor GIF.

scientific article

Structural biology. Crystal structure of the CRISPR RNA-guided surveillance complex from Escherichia coli

scientific article

Structural insights into the redox-switch mechanism of the MarR/DUF24-type regulator HypR

scientific article

Structural mechanism for the carriage and release of thyroxine in the blood

scientific article

Structural snapshots illustrate the catalytic cycle of β-galactocerebrosidase, the defective enzyme in Krabbe disease

scientific article

Structure and oligomerization of the periplasmic domain of GspL from the type II secretion system of Pseudomonas aeruginosa

scientific article published in Scientific Reports

Structure of Gremlin-2 in Complex with GDF5 Gives Insight into DAN-Family-Mediated BMP Antagonism

scientific article published on 11 August 2016

Structure of a serpin-protease complex shows inhibition by deformation

scientific article

Structure of human saposin A at lysosomal pH.

scientific article

Structure of the Shiga-like Toxin I B-Pentamer Complexed with an Analogue of Its Receptor Gb3, ⬇️

scientific article published on February 17, 1998

Swiveling domain mechanism in pyruvate phosphate dikinase

scientific article

Temperature-responsive release of thyroxine and its environmental adaptation in Australians

article

The <i>CCP</i>4 suite: integrative software for macromolecular crystallography

scientific article published in 2023

The Phenix software for automated determination of macromolecular structures

scientific article (publication date: September 2011)

The S-to-R transition of corticosteroid-binding globulin and the mechanism of hormone release

scientific article

The active conformation of plasminogen activator inhibitor 1, a target for drugs to control fibrinolysis and cell adhesion

scientific article

The application of multivariate statistical techniques improves single-wavelength anomalous diffraction phasing.

scientific article published on 18 December 2003

The identification of three biologically relevant globotriaosyl ceramide receptor binding sites on the Verotoxin 1 B subunit

scientific article published on June 1999

Three new Co-editors appointed to Acta Crystallographica Section D, Structural Biology

scientific article published on 02 July 2020

Towards engineering hormone-binding globulins as drug delivery agents

scientific article

Transcriptional diversity during lineage commitment of human blood progenitors

scientific article

Using SAD data in Phaser

scientific article

X-ray diffraction reveals the intrinsic difference in the physical properties of membrane and soluble proteins.

scientific article published on 5 December 2017

X-ray structure determination using low-resolution electron microscopy maps for molecular replacement

scientific article

X-ray structure of lipoamide dehydrogenase from Azotobacter vinelandii determined by a combination of molecular and isomorphous replacement techniques

scientific article published on 01 March 1989

[7] Model phases: Probabilities and bias

article

phenix.mr_rosetta: molecular replacement and model rebuilding with Phenix and Rosetta

scientific article

List of works by Randy Read

A critical examination of the recently reported crystal structures of the human SMN protein.

A log-likelihood-gain intensity target for crystallographic phasing that accounts for experimental error

A mosquitocidal toxin with a ricin-like cell-binding domain.

A multiple-start Monte Carlo docking method.

A new generation of crystallographic validation tools for the protein data bank

A new pentameric structure of rotavirus NSP4 revealed by molecular replacement

A redox switch in angiotensinogen modulates angiotensin release

AMPylation targets the rate-limiting step of BiP's ATPase cycle for its functional inactivation.

ANS complex of St John's wort PR-10 protein with 28 copies in the asymmetric unit: a fiendish combination of pseudosymmetry with tetartohedral twinning

Ab initio solution of macromolecular crystal structures without direct methods

Accumulating Evidence Suggests That Several AB-Toxins Subvert the Endoplasmic Reticulum-Associated Protein Degradation Pathway To Enter Target Cells ⬇️

Accurate prediction of protein structures and interactions using a three-track neural network

Advances, interactions, and future developments in the CNS, Phenix, and Rosetta structural biology software systems

Aerolysin and pertussis toxin share a common receptor-binding domain

Allosteric Modulation of Hormone Release from Thyroxine and Corticosteroid-binding Globulins

An oligomeric state-dependent switch in the ER enzyme FICD regulates AMPylation and deAMPylation of BiP

Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum

Application of the complex multivariate normal distribution to crystallographic methods with insights into multiple isomorphous replacement phasing

Assessing the utility of <scp>CASP14</scp> models for molecular replacement

Assessment of CASP7 predictions in the high accuracy template-based modeling category

Automated identification of elemental ions in macromolecular crystal structures

Automated server predictions in CASP7

Automated structure determination with phenix

Automated structure solution with the PHENIX suite

Automating crystallographic structure solution and refinement of protein-ligand complexes.

Azasugar inhibitors as pharmacological chaperones for Krabbe disease

Biophysical methods: Bigger, better, faster and automatically too?

Book Review

Case-controlled structure validation

Combining Crystallographic and Structure-Modeling Approaches in Macromolecular Crystallography

Coping with strong translational noncrystallographic symmetry and extreme anisotropy in molecular replacement with Phaser: human Rab27a

Critical evaluation of comparative model building of Streptomyces griseus trypsin.

Crystal structure of double helical hexitol nucleic acids

Crystal structure of rab11 in complex with rab11 family interacting protein 2

Crystal structures of BMPRII extracellular domain in binary and ternary receptor complexes with BMP10

Crystallization and preliminary X-ray crystallographic analysis of verotoxin-1 B-subunit

Crystallography: crystallographic evidence for deviating C3b structure

Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard

Density modification of cryo-EM maps

Detecting outliers in non-redundant diffraction data.

Detection of translational noncrystallographic symmetry in Patterson functions

Domain definition and target classification for CASP7

Erratum: Corrigendum: Mutations in FRMD7, a newly identified member of the FERM family, cause X-linked idiopathic congenital nystagmus

Evaluation of model refinement in CASP13

Evaluation of template-based modeling in CASP13

Exome sequencing identifies NBEAL2 as the causative gene for gray platelet syndrome

Expanding beyond biological crystallography

Experimental phasing: best practice and pitfalls

Exploiting distant homologues for phasing through the generation of compact fragments, local fold refinement and partial solution combination

Factors influencing estimates of coordinate error for molecular replacement

Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography

Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography

Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography

Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography

Fitting electron density by systematic search.

Fragment-based modeling of NAD binding to the catalytic subunits of diphtheria and pertussis toxins

From poor resolution to rich insight

G-actin provides substrate-specificity to eukaryotic initiation factor 2α holophosphatases

Graphical tools for macromolecular crystallography in PHENIX

Gyre and gimble: a maximum-likelihood replacement for Patterson correlation refinement.

High-resolution structure prediction and the crystallographic phase problem

How changes in affinity of corticosteroid-binding globulin modulate free cortisol concentration

How serpins transport hormones and regulate their release

How vitronectin binds PAI-1 to modulate fibrinolysis and cell migration

Immunoprophylactic potential of cloned Shiga toxin 2 B subunit

Improved AlphaFold modeling with implicit experimental information

Improved crystallographic models through iterated local density-guided model deformation and reciprocal-space refinement

Improved estimates of coordinate error for molecular replacement.

Improved molecular replacement by density- and energy-guided protein structure optimization

Improvement of cryo-EM maps by density modification

Improvement of molecular-replacement models with Sculptor

Improving experimental phases for strong reflections prior to density modification

Incorporation of prior phase information strengthens maximum-likelihood structure refinement

Insights into Hunter syndrome from the structure of iduronate-2-sulfatase

Insights into Krabbe disease from structures of galactocerebrosidase

Intensity statistics in the presence of translational noncrystallographic symmetry

Interpretation of ensembles created by multiple iterative rebuilding of macromolecular models

Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard

Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias