Protein structure prediction assisted with sparse NMR data in CASP13

De novo protein design by citizen scientists

(2019) Brian Koepnick et al.   NATURE

Protein structure prediction using sparse NOE and RDC restraints with Rosetta in CASP13

(2019) Georg Kuenze et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

NMR‐assisted protein structure prediction with MELDxMD

(2019) James C. Robertson et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Small angle X-ray scattering and cross-linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy

(2018) Tadeusz L. Ogorzalek et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Comparative analysis of methods for evaluation of protein models against native structures

(2018) Kliment Olechnovič et al.   BIOINFORMATICS

Improved protein contact predictions with the MetaPSICOV2 server in CASP12

(2017) Daniel W A Buchan et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Assessment of contact predictions in CASP12: Co-evolution and deep learning coming of age

(2017) Joerg Schaarschmidt et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein structure determination using metagenome sequence data

(2017) Sergey Ovchinnikov et al.   SCIENCE

Structure prediction using sparse simulated NOE restraints with Rosetta in CASP11

(2016) Sergey Ovchinnikov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Contact-assisted protein structure modeling by global optimization in CASP11

(2016) Keehyoung Joo et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Assessment of CASP11 contact-assisted predictions

(2016) Lisa N. Kinch et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

CASP11 statistics and the prediction center evaluation system

(2016) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Analysis of the structural quality of the CASD-NMR 2013 entries

(2015) Timothy J. Ragan et al.   JOURNAL OF BIOMOLECULAR NMR

The second round of Critical Assessment of Automated Structure Determination of Proteins by NMR: CASD-NMR-2013

(2015) Antonio Rosato et al.   JOURNAL OF BIOMOLECULAR NMR

Guiding automated NMR structure determination using a global optimization metric, the NMR DP score

(2015) Yuanpeng Janet Huang et al.   JOURNAL OF BIOMOLECULAR NMR

Protein structure determination by combining sparse NMR data with evolutionary couplings

(2015) Yuefeng Tang et al.   NATURE METHODS

New encouraging developments in contact prediction: Assessment of the CASP11 results

(2015) Bohdan Monastyrskyy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Large-scale determination of previously unsolved protein structures using evolutionary information

(2015) Sergey Ovchinnikov et al.   eLife

Improvements to REDCRAFT: a software tool for simultaneous characterization of protein backbone structure and dynamics from residual dipolar couplings

(2014) Mikhail Simin et al.   JOURNAL OF BIOMOLECULAR NMR

Protein NMR Structures Refined with Rosetta Have Higher Accuracy Relative to Corresponding X-ray Crystal Structures

(2014) Binchen Mao et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Advances in the REDCAT software package

(2013) Chris Schmidt et al.   BMC BIOINFORMATICS

Quality assessment of protein NMR structures

(2013) Antonio Rosato et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

PDBStat: a universal restraint converter and restraint analysis software package for protein NMR

(2013) Roberto Tejero et al.   JOURNAL OF BIOMOLECULAR NMR

CASP prediction center infrastructure and evaluation measures in CASP10 and CASP ROLL

(2013) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Evaluation of residue-residue contact prediction in CASP10

(2013) Bohdan Monastyrskyy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Assessment of template-based protein structure predictions in CASP10

(2013) Yuanpeng J. Huang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein structure prediction from sequence variation

(2012) Debora S Marks et al.   NATURE BIOTECHNOLOGY

RPF: a quality assessment tool for protein NMR structures

(2012) Y. J. Huang et al.   NUCLEIC ACIDS RESEARCH

Determination of solution structures of proteins up to 40 kDa using CS-Rosetta with sparse NMR data from deuterated samples

(2012) O. F. Lange et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Blind Testing of Routine, Fully Automated Determination of Protein Structures from NMR Data

(2012) Antonio Rosato et al.   STRUCTURE

SHIFTX2: significantly improved protein chemical shift prediction

(2011) Beomsoo Han et al.   JOURNAL OF BIOMOLECULAR NMR

Protein 3D Structure Computed from Evolutionary Sequence Variation

(2011) Debora S. Marks et al.   PLoS One

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

(2011) F. Morcos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evaluation of residue-residue contact predictions in CASP9

(2011) Bohdan Monastyrskyy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Assessment of template based protein structure predictions in CASP9

(2011) Valerio Mariani et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

NMR Structure Determination for Larger Proteins Using Backbone-Only Data

(2010) S. Raman et al.   SCIENCE

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

CASD-NMR: critical assessment of automated structure determination by NMR

(2009) Antonio Rosato et al.   NATURE METHODS

Evaluation of template-based models in CASP8 with standard measures

(2009) Domenico Cozzetto et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

NMR: prediction of molecular alignment from structure using the PALES software

(2008) Markus Zweckstetter   Nature Protocols

Improving NMR protein structure quality by Rosetta refinement: A molecular replacement study

(2008) Theresa A. Ramelot et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS