A conformational analysis of mouse Nalp3 domain structures by molecular dynamics simulations, and binding site analysis

Biochemical and structural aspects of the ATP-binding domain in inflammasome-forming human NLRP proteins

(2015) Justin A. MacDonald et al.   IUBMB LIFE

Activation of Nucleotide-Binding Oligomerization Domain 1 (NOD1) Receptor Signaling in Labeo rohita by iE-DAP and Identification of Ligand-Binding Key Motifs in NOD1 by Molecular Modeling and Docking

(2013) Bikash Ranjan Sahoo et al.   APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY

A molecular model of the full-length human NOD-like receptor family CARD domain containing 5 (NLRC5) protein

(2013) János Mótyán et al.   BMC BIOINFORMATICS

3Drefine: Consistent protein structure refinement by optimizing hydrogen bonding network and atomic-level energy minimization

(2013) Debswapna Bhattacharya et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Elucidation of Novel Structural Scaffold in Rohu TLR2 and Its Binding Site Analysis with Peptidoglycan, Lipoteichoic Acid and Zymosan Ligands, and Downstream MyD88 Adaptor Protein

(2013) Bikash Ranjan Sahoo et al.   Biomed Research International

Identification of MDP (muramyl dipeptide)-binding key domains in NOD2 (nucleotide-binding and oligomerization domain-2) receptor of Labeo rohita

(2012) Jitendra Maharana et al.   FISH PHYSIOLOGY AND BIOCHEMISTRY

Pathogen Sensing by Nucleotide-binding Oligomerization Domain-containing Protein 2 (NOD2) Is Mediated by Direct Binding to Muramyl Dipeptide and ATP

(2012) Jinyao Mo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Exploring PHD Fingers and H3K4me0 Interactions with Molecular Dynamics Simulations and Binding Free Energy Calculations: AIRE-PHD1, a Comparative Study

(2012) Dimitrios Spiliotopoulos et al.   PLoS One

Mutational analysis of human NOD1 and NOD2 NACHT domains reveals different modes of activation

(2011) Birte Zurek et al.   Innate Immunity

The NLRP3 Inflammasome Promotes Renal Inflammation and Contributes to CKD

(2010) A. Vilaysane et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

MolProbity: all-atom structure validation for macromolecular crystallography

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

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

GeNMR: a web server for rapid NMR-based protein structure determination

(2009) M. Berjanskii et al.   NUCLEIC ACIDS RESEARCH

I-TASSER server for protein 3D structure prediction

(2008) Yang Zhang   BMC BIOINFORMATICS

The NLR Gene Family: A Standard Nomenclature

(2008) Jenny P.-Y. Ting et al.   IMMUNITY

GROMACS 4:  Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation

(2008) Berk Hess et al.   Journal of Chemical Theory and Computation

The Nod-Like Receptor (NLR) Family: A Tale of Similarities and Differences

(2008) Martina Proell et al.   PLoS One

A NOD2-NALP1 complex mediates caspase-1-dependent IL-1  secretion in response to Bacillus anthracis infection and muramyl dipeptide

(2008) L.-C. Hsu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA