Protein Structure, Secondary

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  Subject Areas on Research

  • (1)H, (15)N and (13)C backbone and side chain assignments of PSD-95 PDZ3 protein. 
  • (i, i + 4) Ion pairs stabilize helical peptides derived from smooth muscle caldesmon. 
  • 4,4'-Unsymmetrically substituted 3,3'-biphenyl alpha helical proteomimetics as potential coactivator binding inhibitors. 
  • 440-kD ankyrinB: structure of the major developmentally regulated domain and selective localization in unmyelinated axons. 
  • A GH3-like domain in reaper is required for mitochondrial localization and induction of IAP degradation. 
  • A bipartite interaction between Hsp70 and CHIP regulates ubiquitination of chaperoned client proteins. 
  • A colloidal Au monolayer modulates the conformation and orientation of a protein at the electrode/solution interface. 
  • A functional substitution in the L-aromatic amino acid decarboxylase enzyme worsens somatic symptoms via a serotonergic pathway. 
  • A kinesin motor in a force-producing conformation. 
  • A machine learning approach for the prediction of protein surface loop flexibility. 
  • A mutation in the intracellular loop III/IV of mosquito sodium channel synergizes the effect of mutations in helix IIS6 on pyrethroid resistance. 
  • A novel beta-globin mutation, beta Durham-NC [beta 114 Leu-->Pro], produces a dominant thalassemia-like phenotype. 
  • A structural pathway for activation of the kinesin motor ATPase. 
  • A structural pathway for signaling in the E46Q mutant of photoactive yellow protein. 
  • A synthetic peptide inhibitor of human immunodeficiency virus replication: correlation between solution structure and viral inhibition. 
  • Acentric 2-D ensembles of D-br-A electron-transfer chromophores via vectorial orientation within amphiphilic n-helix bundle peptides for photovoltaic device applications. 
  • Affinity maturation in an HIV broadly neutralizing B-cell lineage through reorientation of variable domains. 
  • Allosteric cooperation in a de novo-designed two-domain protein. 
  • Altered nucleotide-microtubule coupling and increased mechanical output by a kinesin mutant. 
  • Altered posttranslational modifications of collagen in keloid. 
  • Amino acids important in enzyme activity and dimer stability for Drosophila alcohol dehydrogenase. 
  • Amphiphilic four-helix bundle peptides designed for light-induced electron transfer across a soft interface. 
  • An Engineered Metal Sensor Tunes the Kinetics of Synaptic Transmission. 
  • An algorithm for smoothly tessellating beta-sheet structures in proteins. 
  • Analysis of protein folding and function using backbone modified proteins. 
  • Analysis of the structural properties of cAMP-responsive element-binding protein (CREB) and phosphorylated CREB. 
  • Ankyrins. 
  • Antagonism of catecholamine receptor signaling by expression of cytoplasmic domains of the receptors. 
  • Asparagine and glutamine rotamers: B-factor cutoff and correction of amide flips yield distinct clustering. 
  • Assignment of 1H, 13C and 15N backbone resonances of Escherichia coli LpxC bound to L-161,240. 
  • Assignment of aliphatic side-chain 1HN/15N resonances in perdeuterated proteins. 
  • Atomic distance estimates from disulfides and high-affinity metal-binding sites in a K+ channel pore. 
  • Autism and developmental disability caused by KCNQ3 gain-of-function variants. 
  • Autoantibodies to the alpha/beta T-cell receptors in human immunodeficiency virus infection: dysregulation and mimicry. 
  • Away from the edge II: in-house Se-SAS phasing with chromium radiation. 
  • Backbone dynamics of the monomeric lambda repressor denatured state ensemble under nondenaturing conditions. 
  • Bacterial actin homolog ParM: arguments for an apolar, antiparallel double helix. 
  • Bacteriophage inactivation by UV-A illuminated fullerenes: role of nanoparticle-virus association and biological targets. 
  • Bayesian segmentation of protein secondary structure. 
  • Betadoublet: de novo design, synthesis, and characterization of a beta-sandwich protein. 
  • Biochemistry. Exciting structures. 
  • C-terminally truncated derivatives of Escherichia coli Hfq are proficient in riboregulation. 
  • Calcineurin regulatory subunit is essential for virulence and mediates interactions with FKBP12-FK506 in Cryptococcus neoformans. 
  • Calmodulin structure refined at 1.7 A resolution. 
  • Capturing the mechanical unfolding pathway of a large protein with coiled-coil probes. 
  • Cell-autonomous adiposity through increased cell surface GLUT4 due to ankyrin-B deficiency. 
  • Chaperones rescue luciferase folding by separating its domains. 
  • Characterization and optimization of RGD-containing silk blends to support osteoblastic differentiation. 
  • Characterization of a Large Panel of Rabbit Monoclonal Antibodies against HIV-1 gp120 and Isolation of Novel Neutralizing Antibodies against the V3 Loop. 
  • Characterization of kinectin, a kinesin-binding protein: primary sequence and N-terminal topogenic signal analysis. 
  • Characterization of the adhesive plaque of the barnacle Balanus amphitrite: amyloid-like nanofibrils are a major component. 
  • Characterization of the multiple transferable resistance repressor, MtrR, from Neisseria gonorrhoeae. 
  • Characterization of the transmembrane orientation of aquaporin-1 using antibodies to recombinant fusion proteins. 
  • Characterizing the use of perdeuteration in NMR studies of large proteins: 13C, 15N and 1H assignments of human carbonic anhydrase II. 
  • Chemical shift assignments and secondary structure prediction of the phosphorelay protein VanU from Vibrio anguillarum. 
  • Chikungunya virus neutralization antigens and direct cell-to-cell transmission are revealed by human antibody-escape mutants. 
  • Co-evolving motions at protein-protein interfaces of two-component signaling systems identified by covariance analysis. 
  • Coarse-grained modeling of allosteric regulation in protein receptors. 
  • Comparative analysis of two different amide-to-ester bond mutations in the beta-sheet of 4-oxalocrotonate tautomerase. 
  • Computational de novo design and characterization of a four-helix bundle protein that selectively binds a nonbiological cofactor. 
  • Computational design and elaboration of a de novo heterotetrameric alpha-helical protein that selectively binds an emissive abiological (porphinato)zinc chromophore. 
  • Confirmation of the involvement of protein domain movement during the catalytic cycle of the cytochrome bc1 complex by the formation of an intersubunit disulfide bond between cytochrome b and the iron-sulfur protein. 
  • Conformational dynamics of amyloid beta-protein assembly probed using intrinsic fluorescence. 
  • Construction of a catalytically active iron superoxide dismutase by rational protein design. 
  • Control of innate immune signaling and membrane targeting by the Hepatitis C virus NS3/4A protease are governed by the NS3 helix α0. 
  • Control of the orientational order and nonlinear optical response of the "push-pull" chromophore RuPZn via specific incorporation into densely packed monolayer ensembles of an amphiphilic four-helix bundle peptide: characterization of the peptide-chromophore complexes. 
  • Conversion of Bcl-2 to a Bax-like death effector by caspases. 
  • Coronary artery disease and the thrombospondin single nucleotide polymorphisms. 
  • Crystal structure of LacI member, PurR, bound to DNA: minor groove binding by alpha helices. 
  • Crystal structure of MraY, an essential membrane enzyme for bacterial cell wall synthesis. 
  • Crystal structure of MtaN, a global multidrug transporter gene activator. 
  • Crystal structure of a pol alpha family DNA polymerase from the hyperthermophilic archaeon Thermococcus sp. 9 degrees N-7. 
  • Crystal structure of a thermostable Bacillus DNA polymerase I large fragment at 2.1 A resolution. 
  • Crystal structure of activated CheY. Comparison with other activated receiver domains. 
  • Crystal structure of an activated response regulator bound to its target. 
  • Crystal structure of farnesyl protein transferase complexed with a CaaX peptide and farnesyl diphosphate analogue. 
  • Crystal structure of molybdopterin synthase and its evolutionary relationship to ubiquitin activation. 
  • Crystal structure of protein farnesyltransferase at 2.25 angstrom resolution. 
  • Crystal structure of the lactose operon repressor and its complexes with DNA and inducer. 
  • Crystal structure of the ternary complex of a NaV C-terminal domain, a fibroblast growth factor homologous factor, and calmodulin. 
  • Crystal structures of T. brucei MRP1/MRP2 guide-RNA binding complex reveal RNA matchmaking mechanism. 
  • Crystal structures of Toxoplasma gondii adenosine kinase reveal a novel catalytic mechanism and prodrug binding. 
  • Crystal structures of Toxoplasma gondii adenosine kinase reveal a novel catalytic mechanism and prodrug binding. 
  • Crystal structures of adenine phosphoribosyltransferase from Leishmania donovani. 
  • Crystal structures of the fungal pathogen Aspergillus fumigatus protein farnesyltransferase complexed with substrates and inhibitors reveal features for antifungal drug design. 
  • Crystallizing thinking about the beta2-adrenergic receptor. 
  • DNA-XPA interactions: a (31)P NMR and molecular modeling study of dCCAATAACC association with the minimal DNA-binding domain (M98-F219) of the nucleotide excision repair protein XPA. 
  • De novo design of a single-chain diphenylporphyrin metalloprotein. 
  • De novo mutations in ATP1A3 cause alternating hemiplegia of childhood. 
  • Defining a second epitope for heparin-induced thrombocytopenia/thrombosis antibodies using KKO, a murine HIT-like monoclonal antibody. 
  • Definition of a metal-dependent/Li(+)-inhibited phosphomonoesterase protein family based upon a conserved three-dimensional core structure. 
  • Design of helical, oligomeric HIV-1 fusion inhibitor peptides with potent activity against enfuvirtide-resistant virus. 
  • Design, expression, and immunogenicity of a soluble HIV trimeric envelope fragment adopting a prefusion gp41 configuration. 
  • Determinants of kinesin motor polarity. 
  • Direct visualization of asymmetric adenine-nucleotide-induced conformational changes in MutL alpha. 
  • Directed evolution of a new catalytic site in 2-keto-3-deoxy-6-phosphogluconate aldolase from Escherichia coli. 
  • Directed evolution of subtilisin E in Bacillus subtilis to enhance total activity in aqueous dimethylformamide. 
  • Directed intermixing in multicomponent self-assembling biomaterials. 
  • Disruption of arterial perivascular drainage of amyloid-β from the brains of mice expressing the human APOE ε4 allele. 
  • Disruption of the toxic conformation of the expanded polyglutamine stretch leads to suppression of aggregate formation and cytotoxicity. 
  • Distinct single amino acid replacements in the control of virulence regulator protein differentially impact streptococcal pathogenesis. 
  • Downregulation of microglial activation by apolipoprotein E and apoE-mimetic peptides. 
  • Early ribbon drawings of proteins. 
  • Effect of acid predissolution on fibril size and fibril flexibility of synthetic beta-amyloid peptide. 
  • Effect of detergents on the thermal behavior of elastin-like polypeptides. 
  • Electron transfer mechanisms. 
  • Electrostatic Energetics of Bacillus subtilis Ribonuclease P Protein Determined by Nuclear Magnetic Resonance-Based Histidine pKa Measurements. 
  • Engineered leucine zippers show that hemiphosphorylated CREB complexes are transcriptionally active. 
  • Engineering synthetic TALE and CRISPR/Cas9 transcription factors for regulating gene expression. 
  • Engineering the substrate specificity of Staphylococcus aureus Sortase A. The beta6/beta7 loop from SrtB confers NPQTN recognition to SrtA. 
  • Evaluating the quality of NMR structures by local density of protons. 
  • Evaluation of ligand-dependent changes in AR structure using peptide probes. 
  • Evidence for conservation of architecture and physical properties of Omp85-like proteins throughout evolution. 
  • Exploiting a Mechanical Perturbation of a Titin Domain to Identify How Force Field Parameterization Affects Protein Refolding Pathways. 
  • Exploring the conformational preferences of 20-residue peptides in isolation: Ac-Ala19-Lys + H(+)vs. Ac-Lys-Ala19 + H(+) and the current reach of DFT. 
  • FKBP12 dimerization mutations effect FK506 binding and differentially alter calcineurin inhibition in the human pathogen Aspergillus fumigatus. 
  • FOXP2 variation in great ape populations offers insight into the evolution of communication skills. 
  • Fast and forceful refolding of stretched alpha-helical solenoid proteins. 
  • FimC is a periplasmic PapD-like chaperone that directs assembly of type 1 pili in bacteria. 
  • Framework Mutations of the 10-1074 bnAb Increase Conformational Stability, Manufacturability, and Stability While Preserving Full Neutralization Activity. 
  • Functionally active targeting domain of the beta-adrenergic receptor kinase: an inhibitor of G beta gamma-mediated stimulation of type II adenylyl cyclase. 
  • G Protein and β-arrestin signaling bias at the ghrelin receptor. 
  • G alpha t/G alpha i1 chimeras used to define structural basis of specific functions of G alpha t. 
  • GQ-16, a novel peroxisome proliferator-activated receptor γ (PPARγ) ligand, promotes insulin sensitization without weight gain. 
  • Galpha subunit Gpa2 recruits kelch repeat subunits that inhibit receptor-G protein coupling during cAMP-induced dimorphic transitions in Saccharomyces cerevisiae. 
  • Genetic, biochemical, and structural studies of biogenesis of adhesive pili in bacteria. 
  • Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape. 
  • Gpr1, a putative G-protein-coupled receptor, regulates morphogenesis and hypha formation in the pathogenic fungus Candida albicans. 
  • Gradated assembly of multiple proteins into supramolecular nanomaterials. 
  • High resolution AFM topographs of the Escherichia coli water channel aquaporin Z. 
  • High-affinity inhibitors of dihydrofolate reductase: antimicrobial and anticancer activities of 7,8-dialkyl-1,3-diaminopyrrolo[3,2-f]quinazolines with small molecular size. 
  • Human nucleotide excision repair protein XPA: NMR spectroscopic studies of an XPA fragment containing the ERCC1-binding region and the minimal DNA-binding domain (M59-F219). 
  • Hydrogen bonding of beta-turn structure is stabilized in D(2)O. 
  • Identification of a rat glomerular mesangial cell mitogenic 5-HT2A receptor. 
  • Identification of residues in alpha-macroglobulins involved in activation of the alpha 2-macroglobulin signaling receptor. 
  • Immune responses to coiled coil supramolecular biomaterials. 
  • Importance of the beta12-beta13 loop in protein phosphatase-1 catalytic subunit for inhibition by toxins and mammalian protein inhibitors. 
  • Incorporation of designed extended chromophores into amphiphilic 4-helix bundle peptides for nonlinear optical biomolecular materials. 
  • Individualization of treatments with drugs metabolized by CES1: combining genetics and metabolomics. 
  • Inhibition of G protein-coupled receptor signaling by expression of cytoplasmic domains of the receptor. 
  • Inositol 1,4,5-trisphosphate receptor localization and stability in neonatal cardiomyocytes requires interaction with ankyrin-B. 
  • Interaction of lubricin with type II collagen surfaces: adsorption, friction, and normal forces. 
  • Intra- and inter-subunit disulfide bond formation is nonessential in adeno-associated viral capsids. 
  • Introduction: protein motifs. 
  • Involvement of the beta clamp in methyl-directed mismatch repair in vitro. 
  • Is it better to combine predictions? 
  • Isoform specificity among ankyrins. An amphipathic alpha-helix in the divergent regulatory domain of ankyrin-b interacts with the molecular co-chaperone Hdj1/Hsp40. 
  • Kar3 interaction with Cik1 alters motor structure and function. 
  • Keeping G proteins at bay: a complex between G protein-coupled receptor kinase 2 and Gbetagamma. 
  • Kinesin: switch I & II and the motor mechanism. 
  • Kinetic role of helix caps in protein folding is context-dependent. 
  • LFA-1 binding site in ICAM-3 contains a conserved motif and non-contiguous amino acids. 
  • La gets its wings. 
  • Ligand-selective interactions of ER detected in living cells by fluorescence resonance energy transfer. 
  • Lipoprotein(a) and its role in atherothrombotic disease. 
  • Local encoding of computationally designed enzyme activity. 
  • Marked structural rearrangement of mannose 6-phosphate/IGF2 receptor at different pH environments. 
  • Mechanism of fast protein folding. 
  • Membrane topology mapping of vitamin K epoxide reductase by in vitro translation/cotranslocation. 
  • Methionine oxidation of monomeric lambda repressor: the denatured state ensemble under nondenaturing conditions. 
  • Methodologies for the characterization, identification and quantification of S-nitrosylated proteins. 
  • Microglassification™: a novel technique for protein dehydration. 
  • Minimal determinants for binding activated G alpha from the structure of a G alpha(i1)-peptide dimer. 
  • Modeling and superposition of multiple protein structures using affine transformations: analysis of the globins. 
  • Modulating adaptive immune responses to peptide self-assemblies. 
  • Modulating protein structure with fluorous amino acids: increased stability and native-like structure conferred on a 4-helix bundle protein by hexafluoroleucine. 
  • Modulation of calmodulin plasticity in molecular recognition on the basis of x-ray structures. 
  • Modulation of ligand binding affinity of the adipocyte lipid-binding protein by selective mutation. Analysis in vitro and in situ. 
  • Modulation of the binding of signal peptides to lipid bilayers by dipoles near the hydrocarbon-water interface. 
  • Molecular cloning of a novel member of the GLUT family of transporters, SLC2a10 (GLUT10), localized on chromosome 20q13.1: a candidate gene for NIDDM susceptibility. 
  • Molecular description of the LCST behavior of an elastin-like polypeptide. 
  • Molecular determinants in the second intracellular loop of the 5-hydroxytryptamine-1A receptor for G-protein coupling. 
  • Molecular dissection of gating in the ClC-2 chloride channel. 
  • Molecular evolution of the junctophilin gene family. 
  • Molecular mechanism of activation of human musk receptors OR5AN1 and OR1A1 by (R)-muscone and diverse other musk-smelling compounds. 
  • Molecular mechanisms of HipA-mediated multidrug tolerance and its neutralization by HipB. 
  • Molecular organization and alternative splicing in zipper, the gene that encodes the Drosophila non-muscle myosin II heavy chain. 
  • Molecular structure and function of the novel BrnT/BrnA toxin-antitoxin system of Brucella abortus. 
  • Multifaceted recognition of vertebrate Rev1 by translesion polymerases ζ and κ. 
  • Multiple conformational changes in enzyme catalysis. 
  • Mutants of the Drosophila ncd microtubule motor protein cause centrosomal and spindle pole defects in mitosis. 
  • Mutational analysis of Gbetagamma and phospholipid interaction with G protein-coupled receptor kinase 2. 
  • Mutational analysis of the fractalkine chemokine domain. Basic amino acid residues differentially contribute to CX3CR1 binding, signaling, and cell adhesion. 
  • Mutational analysis of the leucine zipper-like motif of the human immunodeficiency virus type 1 envelope transmembrane glycoprotein. 
  • Mutations in PBP2 from ceftriaxone-resistant Neisseria gonorrhoeae alter the dynamics of the β3-β4 loop to favor a low-affinity drug-binding state. 
  • Mutations near amino end of alpha1(I) collagen cause combined osteogenesis imperfecta/Ehlers-Danlos syndrome by interference with N-propeptide processing. 
  • Myosin S2 origins track evolution of strong binding on actin by azimuthal rolling of motor domain. 
  • NMR structural characterization of the CDK inhibitor p19INK4d. 
  • Native like helices in a specially designed β peptide in the gas phase. 
  • Natural beta-sheet proteins use negative design to avoid edge-to-edge aggregation. 
  • New mechanisms in heptahelical receptor signaling to mitogen activated protein kinase cascades. 
  • Nonfunctional Missense Mutants in Two Well Characterized Cytosolic Enzymes Reveal Important Information About Protein Structure and Function. 
  • Nuclear inositol signaling: a structural and functional approach. 
  • OSPREY: protein design with ensembles, flexibility, and provable algorithms. 
  • Outer membrane protein I of Pseudomonas aeruginosa is a target of cationic antimicrobial peptide/protein. 
  • Pathogenic WDFY3 variants cause neurodevelopmental disorders and opposing effects on brain size. 
  • Pathways, pathway tubes, pathway docking, and propagators in electron transfer proteins. 
  • Peptide-polymer bioconjugates: hybrid block copolymers generated via living radical polymerizations from resin-supported peptides. 
  • Peptides from second extracellular loop of C-C chemokine receptor type 5 (CCR5) inhibit diverse strains of HIV-1. 
  • Persistence of structure over fluctuations in biological electron-transfer reactions. 
  • Phosphoprotein Crh-Ser46-P displays altered binding to CcpA to effect carbon catabolite regulation. 
  • Photochemical energy conversion in a helical oligoproline assembly. 
  • Phylogenetic analyses suggest reverse splicing spread of group I introns in fungal ribosomal DNA. 
  • Piecewise All-Atom SMD Simulations Reveal Key Secondary Structures in Luciferase Unfolding Pathway. 
  • Plant "helper" immune receptors are Ca²⁺ -permeable nonselective cation channels. 
  • Point mutations alter the mechanical stability of immunoglobulin modules. 
  • Predominantly buried residues in the response regulator Spo0F influence specific sensor kinase recognition. 
  • Preorganized secondary structure as an important determinant of fast protein folding. 
  • Probing the folding and unfolding dynamics of secondary and tertiary structures in a three-helix bundle protein. 
  • Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations. 
  • Protein design and folding: template trapping of self-assembled helical bundles. 
  • Protein farnesyltransferase. 
  • Protein folding dynamics: quantitative comparison between theory and experiment. 
  • Protein kinase A and G protein-coupled receptor kinase phosphorylation mediates beta-1 adrenergic receptor endocytosis through different pathways. 
  • Protein kinase C phosphorylates nonmuscle myosin-II heavy chain from Drosophila but regulation of myosin function by this enzyme is not required for viability in flies. 
  • Protein kinases that phosphorylate activated G protein-coupled receptors. 
  • Protein secondary structure determination by constrained single-particle cryo-electron tomography. 
  • Protonation state of Glu142 differs in the green- and blue-absorbing variants of proteorhodopsin. 
  • Puzzle pieces defined: locating common packing units in tertiary protein contacts. 
  • QM/MM model of the mouse olfactory receptor MOR244-3 validated by site-directed mutagenesis experiments. 
  • QacR-cation recognition is mediated by a redundancy of residues capable of charge neutralization. 
  • Radical changes in beta-amyloid form and function. 
  • Rapid determination of protein folds using residual dipolar couplings. 
  • Recognition of β-strand motifs by RseB is required for σ(E) activity in Escherichia coli. 
  • Reinterpretation of GCN4-p1 folding kinetics: partial helix formation precedes dimerization in coiled coil folding. 
  • Removal of the pro-domain does not affect the conformation of the procaspase-3 dimer. 
  • Residual dipolar coupling derived orientational constraints on ligand geometry in a 53 kDa protein-ligand complex. 
  • Reversible unfolding of fibronectin type III and immunoglobulin domains provides the structural basis for stretch and elasticity of titin and fibronectin. 
  • Rotation of the stalk/neck and one head in a new crystal structure of the kinesin motor protein, Ncd. 
  • Rotational Symmetry of Two Pyrethroid Receptor Sites in the Mosquito Sodium Channel. 
  • SCF E3-mediated autoubiquitination negatively regulates activity of Cdc34 E2 but plays a nonessential role in the catalytic cycle in vitro and in vivo. 
  • Salicylic acid activates DNA damage responses to potentiate plant immunity. 
  • Sar1 assembly regulates membrane constriction and ER export. 
  • Sculpting proteins interactively: continual energy minimization embedded in a graphical modeling system. 
  • Secreted extracellular domains of macrophage scavenger receptors form elongated trimers which specifically bind crocidolite asbestos. 
  • Seeking truth on Monte Verita. Workshop on the molecular biology and biochemistry of septins and septin function. 
  • Selective mutations in cloned and expressed alpha-macroglobulin receptor binding fragment alter binding to either the alpha2-macroglobulin signaling receptor or the low density lipoprotein receptor-related protein/alpha2-macroglobulin receptor. 
  • Self-assembled peptide nanofibers raising durable antibody responses against a malaria epitope. 
  • Self-assembling peptide-polymer hydrogels designed from the coiled coil region of fibrin. 
  • Septin phosphorylation and coiled-coil domains function in cell and septin ring morphology in the filamentous fungus Ashbya gossypii. 
  • Sequence- or position-specific mutations in the carboxyl-terminal FL motif of the kidney sodium bicarbonate cotransporter (NBC1) disrupt its basolateral targeting and alpha-helical structure. 
  • Short-lived alpha-helical intermediates in the folding of beta-sheet proteins. 
  • Single protein misfolding events captured by atomic force microscopy. 
  • Sites of interaction between kinase-related protein and smooth muscle myosin. 
  • Six-helix bundle assembly and characterization of heptad repeat regions from the F protein of Newcastle disease virus. 
  • Sodium dodecyl sulfate-stable complexes between serpins and active or inactive proteinases contain the region COOH-terminal to the reactive site loop. 
  • Solution NMR structure of the N-terminal domain of the human DEK protein. 
  • Solution NMR studies of the A beta(1-40) and A beta(1-42) peptides establish that the Met35 oxidation state affects the mechanism of amyloid formation. 
  • Solution structure and function of YndB, an AHSA1 protein from Bacillus subtilis. 
  • Solution structure of a sweet protein single-chain monellin determined by nuclear magnetic resonance and dynamical simulated annealing calculations. 
  • Solution structure of the CIDE-N domain of CIDE-B and a model for CIDE-N/CIDE-N interactions in the DNA fragmentation pathway of apoptosis. 
  • Solution structure of the NaV1.2 C-terminal EF-hand domain. 
  • Solution structure of the Ubp-M BUZ domain, a highly specific protein module that recognizes the C-terminal tail of free ubiquitin. 
  • Solvent dependence of intramolecular electron transfer in a helical oligoproline assembly. 
  • Specific interaction of the transcription elongation regulator TCERG1 with RNA polymerase II requires simultaneous phosphorylation at Ser2, Ser5, and Ser7 within the carboxyl-terminal domain repeat. 
  • Specificity determinants in phosphoinositide dephosphorylation: crystal structure of an archetypal inositol polyphosphate 5-phosphatase. 
  • Stability of oxidized Escherichia coli thioredoxin and its dependence on protonation of the aspartic acid residue in the 26 position. 
  • Stable docking of neutralizing human immunodeficiency virus type 1 gp41 membrane-proximal external region monoclonal antibodies 2F5 and 4E10 is dependent on the membrane immersion depth of their epitope regions. 
  • Statistical estimation of statistical mechanical models: helix-coil theory and peptide helicity prediction. 
  • Statistical evaluation of the Rodin-Ohno hypothesis: sense/antisense coding of ancestral class I and II aminoacyl-tRNA synthetases. 
  • Structural Basis of WLS/Evi-Mediated Wnt Transport and Secretion. 
  • Structural adaptations that modulate monosaccharide, disaccharide, and trisaccharide specificities in periplasmic maltose-binding proteins. 
  • Structural analysis of some soluble elastins by means of FT-IR and 2D IR correlation spectroscopy. 
  • Structural analysis of the purine repressor, an Escherichia coli DNA-binding protein. 
  • Structural and Functional Analyses Reveal Insights into the Molecular Properties of the Escherichia coli Z Ring Stabilizing Protein, ZapC. 
  • Structural and biochemical characterization of MepR, a multidrug binding transcription regulator of the Staphylococcus aureus multidrug efflux pump MepA. 
  • Structural and thermodynamic characterization of a cytoplasmic dynein light chain-intermediate chain complex. 
  • Structural basis for ADP-mediated transcriptional regulation by P1 and P7 ParA. 
  • Structural basis of pilus subunit recognition by the PapD chaperone. 
  • Structural conservation of ion conduction pathways in K channels and glutamate receptors. 
  • Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. 
  • Structural genomics of Pyrococcus furiosus: X-ray crystallography reveals 3D domain swapping in rubrerythrin. 
  • Structural mechanism of ATP-induced polymerization of the partition factor ParF: implications for DNA segregation. 
  • Structural mechanism of S-adenosyl methionine binding to catechol O-methyltransferase. 
  • Structural mechanism of organic hydroperoxide induction of the transcription regulator OhrR. 
  • Structural mechanism of transcription regulation of the Staphylococcus aureus multidrug efflux operon mepRA by the MarR family repressor MepR. 
  • Structural mechanism of trimeric HIV-1 envelope glycoprotein activation. 
  • Structural mechanisms of QacR induction and multidrug recognition. 
  • Structural requirements for association of neurofascin with ankyrin. 
  • Structural studies of amphiphilic 4-helix bundle peptides incorporating designed extended chromophores for nonlinear optical biomolecular materials. 
  • Structural studies of molybdopterin synthase provide insights into its catalytic mechanism. 
  • Structural transitions accompanying the activation of peptide binding to the endoplasmic reticulum Hsp90 chaperone GRP94. 
  • Structure and Asn-Pro-Phe binding pocket of the Eps15 homology domain. 
  • Structure and DNA-binding traits of the transition state regulator AbrB. 
  • Structure and binding of the H4 histone tail and the effects of lysine 16 acetylation. 
  • Structure and stability of monomeric lambda repressor: NMR evidence for two-state folding. 
  • Structure determination of human and murine beta-defensins reveals structural conservation in the absence of significant sequence similarity. 
  • Structure of FitAB from Neisseria gonorrhoeae bound to DNA reveals a tetramer of toxin-antitoxin heterodimers containing pin domains and ribbon-helix-helix motifs. 
  • Structure of a fibronectin type III domain from tenascin phased by MAD analysis of the selenomethionyl protein. 
  • Structure of herpes simplex virus glycoprotein D bound to the human receptor nectin-1. 
  • Structure of the F-spondin domain of mindin, an integrin ligand and pattern recognition molecule. 
  • Structure of the cold- and menthol-sensing ion channel TRPM8. 
  • Structure of the human MutSalpha DNA lesion recognition complex. 
  • Structure of the hypothetical protein PF0899 from Pyrococcus furiosus at 1.85 A resolution. 
  • Structure of the outer membrane translocator domain of the Haemophilus influenzae Hia trimeric autotransporter. 
  • Structure, binding interface and hydrophobic transitions of Ca2+-loaded calbindin-D(28K). 
  • Structure-guided reprogramming of serine recombinase DNA sequence specificity. 
  • Structures of three polycystic kidney disease-like domains from Clostridium histolyticum collagenases ColG and ColH. 
  • Structures of yeast vesicle trafficking proteins. 
  • Submillisecond folding of monomeric lambda repressor. 
  • Substrate Selectivity of Lysophospholipid Transporter LplT Involved in Membrane Phospholipid Remodeling in Escherichia coli. 
  • Subunit IV of cytochrome bc1 complex from Rhodobacter sphaeroides. Localization of regions essential for interaction with the three-subunit core complex. 
  • Sulfated glycopeptide nanostructures for multipotent protein activation. 
  • Sulfite reductase structure at 1.6 A: evolution and catalysis for reduction of inorganic anions. 
  • Suppression of conformational heterogeneity at a protein-protein interface. 
  • SymROP: ROP protein with identical helices redesigned by all-atom contact analysis and molecular dynamics. 
  • Syncoilin isoform organization and differential expression in murine striated muscle. 
  • Template-based docking of a prolactin receptor proline-rich motif octapeptide to FKBP12: implications for cytokine receptor signaling. 
  • The 6.9-A structure of GlpF: a basis for homology modeling of the glycerol channel from Escherichia coli. 
  • The Alacoil: a very tight, antiparallel coiled-coil of helices. 
  • The C-terminal domain of viral IAP associated factor (cVIAF) is a structural homologue of phosducin: resonance assignments and secondary structure of the C-terminal domain of VIAF. 
  • The CD28 signaling pathway regulates glucose metabolism. 
  • The Chlamydia trachomatis Protease CPAF Contains a Cryptic PDZ-Like Domain with Similarity to Human Cell Polarity and Tight Junction PDZ-Containing Proteins. 
  • The Closing Mechanism of DNA Polymerase I at Atomic Resolution. 
  • The G185R mutation disrupts function of the iron transporter Nramp2. 
  • The Haemophilus influenzae Hia autotransporter contains an unusually short trimeric translocator domain. 
  • The T4 phage SF1B helicase Dda is structurally optimized to perform DNA strand separation. 
  • The activation domain of the MotA transcription factor from bacteriophage T4. 
  • The alpha-helical domain of Galphat determines specific interaction with regulator of G protein signaling 9. 
  • The backrub motion: how protein backbone shrugs when a sidechain dances. 
  • The betagamma subunit of heterotrimeric G proteins interacts with RACK1 and two other WD repeat proteins. 
  • The conformations of the manganese transport regulator of Bacillus subtilis in its metal-free state. 
  • The crystal structure of a collagen-like polypeptide with 3(S)-hydroxyproline residues in the Xaa position forms a standard 7/2 collagen triple helix. 
  • The crystal structure of the UvsW helicase from bacteriophage T4. 
  • The crystal structure of the collagen-like polypeptide (glycyl-4(R)-hydroxyprolyl-4(R)-hydroxyprolyl)9 at 1.55 A resolution shows up-puckering of the proline ring in the Xaa position. 
  • The membrane-binding domain of ankyrin contains four independently folded subdomains, each comprised of six ankyrin repeats. 
  • The nicotinic acetylcholine receptor gene family of the silkworm, Bombyx mori. 
  • The posttranslational modification cascade to the thiopeptide berninamycin generates linear forms and altered macrocyclic scaffolds. 
  • The products of gene I and the overlapping in-frame gene XI are required for filamentous phage assembly. 
  • The protein surface is a moving target. 
  • The role of the specificity-determining loop of the integrin beta subunit I-like domain in autonomous expression, association with the alpha subunit, and ligand binding. 
  • The smallest membrane anchoring subunit (QPs3) of bovine heart mitochondrial succinate-ubiquinone reductase. Cloning, sequencing, topology, and Q-binding domain. 
  • The structural mechanism of GTP stabilized oligomerization and catalytic activation of the Toxoplasma gondii uracil phosphoribosyltransferase. 
  • The structure of PurR mutant L54M shows an alternative route to DNA kinking. 
  • The structure of a CREB bZIP.somatostatin CRE complex reveals the basis for selective dimerization and divalent cation-enhanced DNA binding. 
  • The structure of a calmodulin mutant with a deletion in the central helix: implications for molecular recognition and protein binding. 
  • The structure of irisin reveals a novel intersubunit β-sheet fibronectin type III (FNIII) dimer: implications for receptor activation. 
  • The three-dimensional structure of H-2Db at 2.4 A resolution: implications for antigen-determinant selection. 
  • The tyrosine corner: a feature of most Greek key beta-barrel proteins. 
  • The utrophin A 5'-untranslated region confers internal ribosome entry site-mediated translational control during regeneration of skeletal muscle fibers. 
  • The winged-helix DNA-binding motif: another helix-turn-helix takeoff. 
  • Thermodynamic Analysis of the Uptake of a Protein in a Spherical Polyelectrolyte Brush. 
  • Topology of mammalian isoprenylcysteine carboxyl methyltransferase determined in live cells with a fluorescent probe. 
  • Total chemical synthesis and biophysical characterization of the minimal isoform of the KChIP2 potassium channel regulatory subunit. 
  • Ultrastructure and function of dimeric, soluble intercellular adhesion molecule-1 (ICAM-1). 
  • Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement at low resolution. 
  • Using alpha-helical coiled-coils to design nanostructured metalloporphyrin arrays. 
  • Using secondary structure to identify ribosomal numts: cautionary examples from the human genome. 
  • VSV transmembrane domain (TMD) peptide promotes PEG-mediated fusion of liposomes in a conformationally sensitive fashion. 
  • Validation challenge of density-functional theory for peptides-example of Ac-Phe-Ala5-LysH(+). 
  • Visualization of alpha-helical features in a density map constructed using 9 molecular images of the 1.8 MDa icosahedral core of pyruvate dehydrogenase. 
  • X-ray crystal structure of the yeast Kar3 motor domain complexed with Mg.ADP to 2.3 A resolution. 
  • YbiV from Escherichia coli K12 is a HAD phosphatase. 
  • ¹H, ¹³C, and ¹⁵N resonance assignments and secondary structure prediction of the full-length transition state regulator AbrB from Bacillus anthracis. 
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  Keywords of People

  • Bennett, Vann, George Barth Geller Distinguished Professor of Molecular Biology, Duke Cancer Institute
  • Erickson, Harold Paul, James B. Duke Distinguished Professor Emeritus, Cell Biology
  • Luftig, Micah Alan, Professor of Molecular Genetics and Microbiology, Cell Biology
  • McDonnell, Donald Patrick, Glaxo-Wellcome Distinguished Professor of Molecular Cancer Biology, in the School of Medicine, Cell Biology
  • Oas, Terrence Gilbert, Professor of Biochemistry, Biochemistry
  • Pitt, Geoffrey Stuart, Adjunct Professor in the Department of Medicine, Medicine, Cardiology