Acta Crystallographica Section D-Structural Biology

Papers
(The TQCC of Acta Crystallographica Section D-Structural Biology is 7. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-06-01 to 2024-06-01.)
ArticleCitations
The CCP4 suite: integrative software for macromolecular crystallography148
Cryo-EM single-particle structure refinement and map calculation usingServalcat133
Implications of AlphaFold2 for crystallographic phasing by molecular replacement67
Crystal structures of the selenoprotein glutathione peroxidase 4 in its apo form and in complex with the covalently bound inhibitor ML16262
Two particle-picking procedures for filamentous proteins: SPHIRE-crYOLO filament mode and SPHIRE-STRIPER47
Combining high throughput and high quality for cryo-electron microscopy data collection46
Using photocaging for fast time-resolved structural biology studies43
Protein structure prediction by AlphaFold2: are attention and symmetries all you need?34
Putting AlphaFold models to work with phenix.process_predicted_model and ISOLDE34
Through-grid wicking enables high-speed cryoEM specimen preparation31
TEMPy2: a Python library with improved 3D electron microscopy density-fitting and validation workflows31
Density modification of cryo-EM maps29
xia2.multiplex: a multi-crystal data-analysis pipeline28
FragMAX: the fragment-screening platform at the MAX IV Laboratory28
eSPC: an online data-analysis platform for molecular biophysics27
Best practices for time-resolved serial synchrotron crystallography25
The X-ray crystallography phase problem solved thanks to AlphaFold and RoseTTAFold models: a case-study report24
Crystal structures of human ENPP1 in apo and bound forms24
CCP4 Cloud for structure determination and project management in macromolecular crystallography23
New system for archiving integrative structures23
Optimized cryo-EM data-acquisition workflow by sample-thickness determination23
Coma-corrected rapid single-particle cryo-EM data collection on the CRYO ARM 30022
Improving sampling of crystallographic disorder in ensemble refinement21
Adaptive Cartesian and torsional restraints for interactive model rebuilding20
The low-cost Shifter microscope stage transforms the speed and robustness of protein crystal harvesting20
Accelerating crystal structure determination with iterative AlphaFold prediction20
Structural dynamics: review of time-resolved cryo-EM19
Pre-clustering data sets using cluster4x improves the signal-to-noise ratio of high-throughput crystallography drug-screening analysis19
On bias, variance, overfitting, gold standard and consensus in single-particle analysis by cryo-electron microscopy18
Moving toward generalizable NZ-1 labeling for 3D structure determination with optimized epitope-tag insertion18
Predicting protein model correctness in Coot using machine learning17
Substrate binding in the bile acid transporter ASBTYffromYersinia frederiksenii16
Making a difference in multi-data-set crystallography: simple and deterministic data-scaling/selection methods16
On-grid and in-flow mixing for time-resolved cryo-EM16
UnityMol prototype for FAIR sharing of molecular-visualization experiences: from pictures in the cloud to collaborative virtual reality exploration in immersive 3D environments15
Homogeneous batch micro-crystallization of proteins from ammonium sulfate15
Validation, analysis and annotation of cryo-EM structures15
IceBear: an intuitive and versatile web application for research-data tracking from crystallization experiment to PDB deposition15
A round-robin approach provides a detailed assessment of biomolecular small-angle scattering data reproducibility and yields consensus curves for benchmarking14
Determination of intracellular protein–ligand binding affinity by competition binding in-cell NMR14
ModelCraft: an advanced automated model-building pipeline using Buccaneer14
CERES: a cryo-EM re-refinement system for continuous improvement of deposited models14
Molecular-dynamics simulation methods for macromolecular crystallography14
MrParse: finding homologues in the PDB and the EBI AlphaFold database for molecular replacement and more13
Low-resolution structures of modular nanotransporters shed light on their functional activity13
Structural alphabets for conformational analysis of nucleic acids available at dnatco.datmos.org13
Ambiguities in and completeness of SAS data analysis of membrane proteins: the case of the sensory rhodopsin II–transducer complex13
The accuracy of protein models automatically built into cryo-EM maps with ARP/wARP13
A new inactive conformation of SARS-CoV-2 main protease13
Insight into the potential factors influencing the catalytic direction in cellobiose 2-epimerase by crystallization and mutagenesis12
Fragment-based determination of a proteinase K structure from MicroED data using ARCIMBOLDO_SHREDDER12
Targeting the innate immune receptor TLR8 using small-molecule agents12
Influence of the presence of the heme cofactor on the JK-loop structure in indoleamine 2,3-dioxygenase 112
Validation analysis of EMDB entries12
Structure of CYRI-B (FAM49B), a key regulator of cellular actin assembly12
Evaluating the impact of X-ray damage on conformational heterogeneity in room-temperature (277 K) and cryo-cooled protein crystals12
Fast fragment- and compound-screening pipeline at the Swiss Light Source12
Cryo-EM reveals binding of linoleic acid to SARS-CoV-2 spike glycoprotein, suggesting an antiviral treatment strategy11
The structure of natively iodinated bovine thyroglobulin11
Vagabond: bond-based parametrization reduces overfitting for refinement of proteins11
Determining biomolecular structures near room temperature using X-ray crystallography: concepts, methods and future optimization11
Identification of Mg2+ ions next to nucleotides in cryo-EM maps using electrostatic potential maps11
Phasertng: directed acyclic graphs for crystallographic phasing11
High-resolution structures of the bound effectors avadomide (CC-122) and iberdomide (CC-220) highlight advantages and limitations of the MsCI4 soaking system11
B-factor accuracy in protein crystal structures11
Frag4Lead: growing crystallographic fragment hits by catalog using fragment-guided template docking11
The missing link: covalent linkages in structural models11
Statistically correcting dynamical electron scattering improves the refinement of protein nanocrystals, including charge refinement of coordinated metals11
Crystal structure of human brain-type fatty acid-binding protein FABP7 complexed with palmitic acid10
Monomodular Pseudomonas aeruginosa phage JG004 lysozyme (Pae87) contains a bacterial surface-active antimicrobial peptide-like region and a possible substrate-binding subdomain10
Principal component analysis is limited to low-resolution analysis in cryoEM10
Crystal structure of the middle and C-terminal domains of Hsp90α labeled with a coumarin derivative reveals a potential allosteric binding site as a drug target10
Metalloprotein catalysis: structural and mechanistic insights into oxidoreductases from neutron protein crystallography10
Local and global analysis of macromolecular atomic displacement parameters10
Shift-field refinement of macromolecular atomic models10
Structures of full-length VanR from Streptomyces coelicolor in both the inactive and activated states10
A GH13 α-glucosidase from Weissella cibaria uncommonly acts on short-chain maltooligosaccharides10
Integrated sample-handling and mounting system for fixed-target serial synchrotron crystallography10
Modelling covalent linkages in CCP410
Native SAD phasing at room temperature9
Inhibition of Schistosoma mansoni carbonic anhydrase by the antiparasitic drug clorsulon: X-ray crystallographic and in vitro studies9
The structure of Prp2 bound to RNA and ADP-BeF3reveals structural features important for RNA unwinding by DEAH-box ATPases9
Protein identification from electron cryomicroscopy maps by automated model building and side-chain matching9
Recent structural insights into the mechanism of lysozyme hydrolysis9
Structural evidence for the binding of monocarboxylates and dicarboxylates at pharmacologically relevant extracellular sites of a pentameric ligand-gated ion channel9
Microsecond melting and revitrification of cryo samples: protein structure and beam-induced motion9
The RING domain of TRIM69 promotes higher-order assembly9
Attaining atomic resolution from in situ data collection at room temperature using counter-diffusion-based low-cost microchips9
Probing ligand binding of endothiapepsin by `temperature-resolved' macromolecular crystallography9
Verification: model-free phasing with enhanced predicted models in ARCIMBOLDO_SHREDDER9
A simple vapor-diffusion method enables protein crystallization inside the HARE serial crystallography chip9
FragMAXapp: crystallographic fragment-screening data-analysis and project-management system9
Macromolecular crystallography using microcrystal electron diffraction9
Novel structure of the N-terminal helical domain of BibA, a group B streptococcus immunogenic bacterial adhesin8
Ice in biomolecular cryocrystallography8
Expression and analysis of the SAM-dependent RNA methyltransferase Rsm22 from Saccharomyces cerevisiae8
Protein dynamics developments for the large scale and cryoEM: case study of ProDy 2.08
Structural and biochemical characterization of the novel serpin Iripin-5 from Ixodes ricinus8
HomogeneouslyN-glycosylated proteins derived from the GlycoDelete HEK293 cell line enable diffraction-quality crystallogenesis8
Real-space quantum-based refinement for cryo-EM: Q|R#38
Structural biology of coronavirus ion channels8
Structure of a GH51 α-L-arabinofuranosidase from Meripilus giganteus: conserved substrate recognition from bacteria to fungi8
Versatile microporous polymer-based supports for serial macromolecular crystallography7
High-resolution structure determination using high-throughput electron cryo-tomography7
Atomic model validation using the CCP-EM software suite7
Updated restraint dictionaries for carbohydrates in the pyranose form7
New restraints and validation approaches for nucleic acid structures in PDB-REDO7
Structural visualization of transient interactions between the cis-acting acyltransferase and acyl carrier protein of the salinomycin modular polyketide synthase7
FLEXR: automated multi-conformer model building using electron-density map sampling7
Crystal structure of fungal tannase from Aspergillus niger7
20 years of crystal hits: progress and promise in ultrahigh-throughput crystallization screening7
Using RELION software within the Scipion framework7
Evaluation of the data-collection strategy for room-temperature micro-crystallography studied by serial synchrotron rotation crystallography combined with the humid air and glue-coating method7
A solution-free crystal-mounting platform for native SAD7
Arginine off-kilter: guanidinium is not as planar as restraints denote7
How do I get the most out of my protein sequence using bioinformatics tools?7
Lipidic cubic phase serial femtosecond crystallography structure of a photosynthetic reaction centre7
Quantum refinement with multiple conformations: application to the P-cluster in nitrogenase7
The three-dimensional structure of Drosophila melanogaster (6–4) photolyase at room temperature7
Improving data quality and expanding BioSAXS experiments to low-molecular-weight and low-concentration protein samples7
Structural insights into the interaction of papain-like protease 2 from the alphacoronavirus porcine epidemic diarrhea virus and ubiquitin7
CSSR: assignment of secondary structure to coarse-grained RNA tertiary structures7
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