Mimicking the folding pathway to improve homology-free protein structure prediction.

abstract：:The androgen receptor (AR) plays an essential role in prostate cancer, and suppression of its signaling with androgen deprivation therapy (ADT) has been the mainstay of treatment for metastatic hormone-sensitive prostate cancer for more than 70 y. Chemotherapy has been reserved for metastatic castration-resistant pros...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Komura K,Jeong SH,Hinohara K,Qu F,Wang X,Hiraki M,Azuma H,Lee GS,Kantoff PW,Sweeney CJ

更新日期：2016-05-31 00:00:00

abstract：:The versatility of CRISPR-Cas endonucleases as a tool for biomedical research has led to diverse applications in gene editing, programmable transcriptional control, and nucleic acid detection. Most CRISPR-Cas systems, however, suffer from off-target effects and unpredictable nonspecific binding that negatively impact ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Specht DA,Xu Y,Lambert G

更新日期：2020-05-26 00:00:00

abstract：:Waves and patterns in living systems are often driven by biochemical reactions with enzymes as catalysts and regulators. We present a reaction-diffusion system catalyzed by the enzyme glucose oxidase that exhibits traveling wave patterns in a spatially extended medium. Fronts and pulses propagate as a result of the co...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Míguez DG,Vanag VK,Epstein IR

更新日期：2007-04-24 00:00:00

abstract：:The organization and allelic recombination of the merozoite surface protein-1 gene of Plasmodium vivax (PvMsp-1), the most widely prevalent human malaria parasite, were evaluated in complete nucleotide sequences of 40 isolates from various geographic areas. Alignment of 31 distinct alleles revealed the mosaic organiza...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Putaporntip C,Jongwutiwes S,Sakihama N,Ferreira MU,Kho WG,Kaneko A,Kanbara H,Hattori T,Tanabe K

更新日期：2002-12-10 00:00:00

abstract：:Proteolytic removal of the pre-segment from growing nascent chains of pre-human placental lactogen (hPL) occurred during in vitro translation of placental mRNA if crude membranes derived from ascites lysates, dog pancreas, or rat liver rough endoplasmic reticulum were added to the translation mixtures. The cotranslati...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Strauss AW,Zimmerman M,Boime I,Ashe B,Mumford RA,Alberts AW

更新日期：1979-09-01 00:00:00

abstract：:The X gene product encoded by the hepatitis B virus, termed pX, is a promiscuous transactivator of a variety of viral and cellular genes under the control of diverse cis-acting elements. Although pX does not appear to directly bind DNA, pX-responsive elements include the NF-kappa B, AP-1, and CRE (cAMP response elemen...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Williams JS,Andrisani OM

更新日期：1995-04-25 00:00:00

abstract：:Non-protein-coding RNA genes play an important role in various biological processes. How new RNA genes originated and whether this process is controlled by similar evolutionary mechanisms for the origin of protein-coding genes remains unclear. A young chimeric RNA gene that we term sphinx (spx) provides the first insi...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Wang W,Brunet FG,Nevo E,Long M

更新日期：2002-04-02 00:00:00

abstract：:Histone H3 lysine 4 (H3K4) methylation is catalyzed by the highly evolutionarily conserved multiprotein complex known as Set1/COMPASS or MLL/COMPASS-like complexes from yeast to human, respectively. Here we have reconstituted fully functional yeast Set1/COMPASS and human MLL/COMPASS-like complex in vitro and have iden...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Takahashi YH,Westfield GH,Oleskie AN,Trievel RC,Shilatifard A,Skiniotis G

更新日期：2011-12-20 00:00:00

abstract：:Ovulation induces cyclic rupture and regenerative repair of the ovarian coelomic epithelium. This process of repeated disruption and repair accompanied by complex remodeling typifies a somatic stem/progenitor cell-mediated process. Using BrdU incorporation and doxycycline inducible histone2B-green fluorescent protein ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Szotek PP,Chang HL,Brennand K,Fujino A,Pieretti-Vanmarcke R,Lo Celso C,Dombkowski D,Preffer F,Cohen KS,Teixeira J,Donahoe PK

更新日期：2008-08-26 00:00:00

abstract：:Fatty acid compositions of phospholipids of heart, liver, kidney, aorta, and serum from rats having streptozotocin-induced diabetes were determined and compared with those of nondiabetic controls. Linoleic and dihomo-gamma-linolenic acids were increased whereas arachidonic acid was decreased in most tissues, suggestin...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Holman RT,Johnson SB,Gerrard JM,Mauer SM,Kupcho-Sandberg S,Brown DM

更新日期：1983-04-01 00:00:00

abstract：:Chronic pancreatitis (CP) is a progressive inflammatory disease of the pancreas, leading to its fibrotic destruction. There are currently no drugs that can stop or slow the progression of the disease. The etiology of the disease is multifactorial, whereas recurrent attacks of acute pancreatitis are thought to precede ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Hao W,Komar HM,Hart PA,Conwell DL,Lesinski GB,Friedman A

更新日期：2017-05-09 00:00:00

abstract：:All science has uncertainty. Unless that uncertainty is communicated effectively, decision makers may put too much or too little faith in it. The information that needs to be communicated depends on the decisions that people face. Are they (i) looking for a signal (e.g., whether to evacuate before a hurricane), (ii) c...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Fischhoff B,Davis AL

更新日期：2014-09-16 00:00:00

abstract：:Using tunicamycin, we have investigated the role of glycoproteins in membrane transport. Tunicamycin is a glucosamine-containing antibiotic that specifically inhibits dolichol pyrophosphate-mediated glycosylation of asparaginyl residues of glycoproteins. Inhibition of protein glycosylation in chick embryo fibroblasts ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Olden K,Pratt RM,Jaworski C,Yamada KM

更新日期：1979-02-01 00:00:00

abstract：:Noncompetitive inhibitors of the nicotinic acetylcholine (ACh) receptors suppress cation flux directly by binding in and blocking the open channel or indirectly by stabilizing closed states of the receptor. The lidocaine derivative QX-314 and the acridine derivative quinacrine act directly as open channel blockers, bu...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Yu Y,Shi L,Karlin A

更新日期：2003-04-01 00:00:00

abstract：:Complex I functions as a redox-linked proton pump in the respiratory chains of mitochondria and bacteria, driven by the reduction of quinone (Q) by NADH. Remarkably, the distance between the Q reduction site and the most distant proton channels extends nearly 200 Å. To elucidate the molecular origin of this long-range...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Sharma V,Belevich G,Gamiz-Hernandez AP,Róg T,Vattulainen I,Verkhovskaya ML,Wikström M,Hummer G,Kaila VR

更新日期：2015-09-15 00:00:00

abstract：:To investigate the molecular basis of the voltage sensor that triggers excitation-contraction (EC) coupling, the four-domain pore subunit of the dihydropyridine receptor (DHPR) was cut in the cytoplasmic linker between domains II and III. cDNAs for the I-II domain (alpha1S 1-670) and the III-IV domain (alpha1S 701-187...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Ahern CA,Arikkath J,Vallejo P,Gurnett CA,Powers PA,Campbell KP,Coronado R

更新日期：2001-06-05 00:00:00

abstract：:As a dynamic property of folded proteins, protein compressibility provides important information about the forces that govern structural stability. We relate intrinsic compressibility to stability by using molecular dynamics to identify a molecular basis for the variation in compressibility among globular proteins. We...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Dadarlat VM,Post CB

更新日期：2003-12-09 00:00:00

abstract：:We have examined the role of cyclooxygenase 2 (COX-2) in a model of inflammation in vivo. Carrageenan administration to the subcutaneous rat air pouch induces a rapid inflammatory response characterized by high levels of prostaglandins (PGs) and leukotrienes in the fluid exudate. The time course of the induction of CO...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Masferrer JL,Zweifel BS,Manning PT,Hauser SD,Leahy KM,Smith WG,Isakson PC,Seibert K

更新日期：1994-04-12 00:00:00

abstract：:A central role for phenotypic plasticity in adaptive evolution is often posited yet lacks empirical support. Selection for the stable production of an induced phenotype is hypothesized to modify the regulation of preexisting developmental pathways, producing rapid adaptive change. We examined the role of plasticity in...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Scoville AG,Pfrender ME

更新日期：2010-03-02 00:00:00

abstract：:To investigate the mechanisms of asbestos-induced carcinogenesis, expression of c-fos and c-jun protooncogenes was examined in rat pleural mesothelial cells and hamster tracheal epithelial cells after exposure to crocidolite or chrysotile asbestos. In contrast to phorbol 12-myristate 13-acetate, which induces rapid an...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Heintz NH,Janssen YM,Mossman BT

更新日期：1993-04-15 00:00:00

abstract：:The superficial gray layer of the superior colliculus contains a map that represents the visual field, whereas the underlying intermediate gray layer contains a vector map of the saccades that shift the direction of gaze. These two maps are aligned so that a particular region of the visual field is represented directl...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Lee PH,Helms MC,Augustine GJ,Hall WC

更新日期：1997-11-25 00:00:00

abstract：:Engagement of high-affinity IgE receptors leads to activation of tyrosine and serine/threonine kinases and the immediate phosphorylation of receptor beta (serine and tyrosine) and gamma (threonine and tyrosine) chains. Receptor disengagement leads to dephosphorylation of beta and gamma chains via the action of undefin...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Paolini R,Numerof R,Kinet JP

更新日期：1992-11-15 00:00:00

abstract：:The M2 protein of influenza A virus forms a transmembrane proton channel important for viral infection and replication. Amantadine blocks this channel, thus inhibiting viral replication. Elucidating the high-resolution structure of the M2 protein and its change upon amantadine binding is crucial for designing antivira...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Cady SD,Hong M

更新日期：2008-02-05 00:00:00

abstract：:Although potassium channels play a variety of roles in shaping the electrical properties of neurons, little is known about how these channels are constituted in neurons. To examine the assembly and physiological function of A-type K+ channels in mature differentiated neurons, we have developed a highly efficient gene ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Kaang BK,Pfaffinger PJ,Grant SG,Kandel ER,Furukawa Y

更新日期：1992-02-01 00:00:00

abstract：:We recently developed the electron force field (eFF) method for practical nonadiabatic electron dynamics simulations of materials under extreme conditions and showed that it gave an excellent description of the shock thermodynamics of hydrogen from molecules to atoms to plasma, as well as the electron dynamics of the ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Kim H,Su JT,Goddard WA 3rd

更新日期：2011-09-13 00:00:00

abstract：:There is increasing, but largely indirect, evidence pointing to an effect of commensal gut microbiota on the central nervous system (CNS). However, it is unknown whether lactic acid bacteria such as Lactobacillus rhamnosus could have a direct effect on neurotransmitter receptors in the CNS in normal, healthy animals. ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Bravo JA,Forsythe P,Chew MV,Escaravage E,Savignac HM,Dinan TG,Bienenstock J,Cryan JF

更新日期：2011-09-20 00:00:00

abstract：:Although most experimental and theoretical studies of protein folding involve proteins in vitro, the effects of spatial confinement may complicate protein folding in vivo. In this study, we examine the folding dynamics of villin (a small fast folding protein) with explicit solvent confined to an inert nanopore. We hav...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Lucent D,Vishal V,Pande VS

更新日期：2007-06-19 00:00:00

abstract：:The nucleosomal repeat lengths of bulk chromatin and the chromatin of transcriptionally active and inactive genes were analyzed in two mouse cell lines and adult mouse spleens. The adult beta-globin gene exhibits a nucleosomal repeat length approximately 11 base pairs longer than (i) an inactive embryonic globin gene,...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Smith RD,Seale RL,Yu J

更新日期：1983-09-01 00:00:00

abstract：:Transcription factor TFIID consists of TATA binding protein (TBP) and at least eight TBP-associated factors (TAFs). As TAFs are required for activated but not basal transcription, we have proposed that TAFs act as coactivators to mediate signals between activators and the basal transcription machinery. Here we report ...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Klemm RD,Goodrich JA,Zhou S,Tjian R

更新日期：1995-06-20 00:00:00

abstract：:Palmitoylation is a common lipid modification known to regulate the functional properties of various proteins and is a vital step in the biosynthesis of voltage-activated sodium (Nav) channels. We discovered a mutation in an intracellular loop of rNav1.2a (G1079C), which results in a higher apparent affinity for exter...

journal_title：Proceedings of the National Academy of Sciences of the United States of America

authors： Bosmans F,Milescu M,Swartz KJ

更新日期：2011-12-13 00:00:00