MolProbity: More and better reference data for improved all‐atom structure validation

By Christopher J. Williams, J. Headd, Nigel W. Moriarty, Michael G. Prisant, Lizbeth L. Videau, L. Deis, Vishal Verma, Daniel A. Keedy, B. Hintze, Vincent B. Chen and 8 more. 2018

4,020 citations recorded by the source corpus.

Subfields: Materials Chemistry, Molecular Biology, Computational Biology & Bioinformatics, Computational Chemistry & Drug Discovery

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Materials Chemistry

1. David Baker
2. Rhiju Das
3. David E. Kim
4. Hahnbeom Park
5. Ivan V. Anishchenko
6. N. V. Dokholyan
7. Yang Zhang
8. Minkyung Baek

In Molecular Biology

1. Rhiju Das
2. David Baker
3. Hahnbeom Park
4. David E. Kim
5. Ivan V. Anishchenko
6. Andrew M. Watkins
7. Janusz M. Bujnicki
8. N. V. Dokholyan

In Computational Biology & Bioinformatics

1. David Baker
2. David E. Kim
3. Hahnbeom Park
4. Ivan V. Anishchenko
5. J. Dauparas
6. Rhiju Das
7. Minkyung Baek
8. John L. Rubinstein

In Computational Chemistry & Drug Discovery

1. Hahnbeom Park
2. David Baker
3. David E. Kim
4. Ivan V. Anishchenko
5. Minkyung Baek
6. J. Dauparas
7. Eric Westhof
8. François Major

Citations in the corpus

• The RIG-I receptor adopts two different conformations for distinguishing host from viral RNA ligands (2022, neutral): “Models were validated using Comprehensive validation (cryo-EM) in phenix (Afonine et al., 2018; Williams et al., 2018).”
• Structural insights into the assembly and activation of the IL‐27 signaling complex (2022, neutral): “Molecular architecture of the IL-27 cytokine recognition complex IL-27 signals through dimerization of the cognate receptor IL-27R a and the shared receptor GP130 (Wilmes et al , 2021).”
• Integrating model simulation tools and cryo‐electron microscopy (2022, methodology): “194,233,235 This toolbox was more recently extended to specifically deal with common problems present in models derived from medium-resolution cryo-EM maps (>3 Å) with the CaBLAM (C-Alpha Based Low-Resolution Annotation Method) tool.”
• CASP15 cryo-EM protein and RNA targets: refinement and analysis using experimental maps (2023, neutral): “20”
• Cryo-EM structure of the SARS-CoV-2 3a ion channel in lipid nanodiscs (2020, background): “72 e- Å2 in the first set (1-2007) and second set (2008-6309) of movies respectively.”
• A Universal Design of Betacoronavirus Vaccines against COVID-19, MERS, and SARS (2020, positive): “REAGENT or RESOURCE SOURCE IDENTIFIER pCAGGS-SARS-CoV-2-RBD-sc-dimer-His, residues 319-537, two copies in tandem, accession number: YP_009724390 This paper N/A pCAGGS-SARS-CoV-RBD-His, residues 306-527, accession number: NP_828851 This paper N/A pCAGGS-SARS-RBD-sc-dimer-His, residues 306-523, two co”
• Anti-HCV, nucleotide inhibitors, repurposing against COVID-19 (2020, neutral): “structure analysis and verification server (SAVES) of the University of California Los Angles (UCLA) are used to test the model [36,37].”