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https://www.readbyqxmd.com/read/28105226/expression-of-epidermal-growth-factor-like-domain-7-may-be-a-predictive-marker-of-the-effect-of-neoadjuvant-chemotherapy-for-locally-advanced-uterine-cervical-cancer
#1
Makoto Yamauchi, Takeshi Fukuda, Takuma Wada, Masaru Kawanishi, Kenji Imai, Reiko Tasaka, Tomoyo Yasui, Toshiyuki Sumi
Neoadjuvant chemotherapy (NAC) followed by hysterectomy may be effective for the treatment of locally advanced uterine cervical cancer and improve patient prognosis. It is important to identify markers that are able to predict whether NAC may be successful. Epidermal growth factor-like domain 7 (EGFL7) regulates vascular sprouting in blood vessel formation. In numerous types of human cancer, EGFL7 is upregulated and inhibits endothelial cell adhesion molecules, decreasing vascular tightness and, thus, increasing vascular permeability...
December 2016: Oncology Letters
https://www.readbyqxmd.com/read/28101864/filamentous-structure-of-hard-%C3%AE-keratins-in-the-epidermal-appendages-of-birds-and-reptiles
#2
R D Bruce Fraser, David A D Parry
The structures of avian and reptilian epidermal appendages, such as feathers, claws and scales, have been modelled using X-ray diffraction and electron microscopy data, combined with sequence analyses. In most cases, a family of closely related molecules makes up the bulk of the appendage, and each of these molecules contains a central β-rich 34-residue segment, which has been identified as the principal component of the framework of the 3.4 nm diameter filaments. The N- and C-terminal segments form the matrix component of the filament/matrix complex...
2017: Sub-cellular Biochemistry
https://www.readbyqxmd.com/read/28100789/complex-evolutionary-history-of-the-mammalian-histone-h1-1-h1-5-gene-family
#3
Inma Ponte, Devani Romero, Daniel Yero, Pedro Suau, Alicia Roque
H1 is involved in chromatin higher-order structure and gene regulation. H1 has a tripartite structure. The central domain is stably folded in solution, while the N- and C-terminal domains are intrinsically disordered. The terminal domains are encoded by DNA of low sequence complexity, and are thus prone to short insertions/deletions. We have examined the evolution of the H1.1 to H1.5 gene family from 27 mammalian species. Multiple sequence alignment has revealed a strong preferential conservation of the number and position of basic residues among paralogs, suggesting that overall H1 basicity is under a strong purifying selection...
January 18, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28100105/inventing-a-co-axial-atomic-resolution-patch-clamp-to-study-a-single-resonating-protein-complex-and-ultra-low-power-communication-deep-inside-a-living-neuron-cell
#4
Subrata Ghosh, Satyajit Sahu, Lokesh Agrawal, Takashi Shiga, Anirban Bandyopadhyay
To read the signals of single molecules in vitro on a surface, or inside a living cell or organ, we introduce a coaxial atom tip (coat) and a coaxial atomic patch clamp (COAPAP). The metal-insulator-metal cavity of these probes extends to the atomic scale (0.1[Formula: see text]nm), it eliminates the cellular or environmental noise with a S/N ratio 10(5). Five ac signals are simultaneously applied during a measurement by COAT and COAPAP to shield a true signal under environmental noise in five unique ways. The electromagnetic drive in the triaxial atomic tips is specifically designed to sense anharmonic vibrational and transmission signals for any systems between 0...
January 18, 2017: Journal of Integrative Neuroscience
https://www.readbyqxmd.com/read/28094986/improving-internal-cell-colonization-of-porous-scaffolds-with-chemical-gradients-produced-by-plasma-assisted-approaches
#5
Eloisa Sardella, Rania A Salama, Gihan H Waly, A Nour Habib, Pietro Favia, Roberto Gristina
Cell colonization of the surrounding environment is a very significant process in both physiological and pathological events. In order to understand the tissue regeneration process and thereby provide guidance principles for designing new biomaterials, it is of paramount importance to study the cell colonization in the presence of physical, chemical and biological cues. Flat "gradient" materials are generally used with this purpose. Three dimensional (3D) gradient scaffolds mimicking more precisely the situation in vivo, are somewhat more complex to fabricate and characterize...
January 17, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28092672/bpgap1-spatially-integrates-jnk-erk-signaling-crosstalk-in-oncogenesis
#6
T Jiang, C Q Pan, B C Low
Simultaneous hyperactivation of stress-activated protein kinase/c-Jun N-terminal protein kinase (SAPK/JNK) and mitogen-activated protein kinase kinase/extracellular signal-regulated kinase (MEK/ERK) signaling cascades has been reported in carcinogenesis. However, how they are integrated to promote oncogenesis remains unknown. By analyzing breast invasive carcinoma database (The Cancer Genome Altas), we found that the mRNA expression levels of both JNK1 and ERK2 are positively correlated with the mRNA level of EEA1, an endosome associated protein, indicating the potential JNK/ERK crosstalk at endosome...
January 16, 2017: Oncogene
https://www.readbyqxmd.com/read/28092029/an-efficient-semi-supervised-learning-approach-to-predict-sh2-domain-mediated-interactions
#7
Kousik Kundu, Rolf Backofen
Src homology 2 (SH2) domain is an important subclass of modular protein domains that plays an indispensable role in several biological processes in eukaryotes. SH2 domains specifically bind to the phosphotyrosine residue of their binding peptides to facilitate various molecular functions. For determining the subtle binding specificities of SH2 domains, it is very important to understand the intriguing mechanisms by which these domains recognize their target peptides in a complex cellular environment. There are several attempts have been made to predict SH2-peptide interactions using high-throughput data...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28089252/practical-approaches-for-whole-genome-sequence-analysis-of-heart-and-blood-related-traits
#8
Alanna C Morrison, Zhuoyi Huang, Bing Yu, Ginger Metcalf, Xiaoming Liu, Christie Ballantyne, Josef Coresh, Fuli Yu, Donna Muzny, Elena Feofanova, Navin Rustagi, Richard Gibbs, Eric Boerwinkle
Whole-genome sequencing (WGS) allows for a comprehensive view of the sequence of the human genome. We present and apply integrated methodologic steps for interrogating WGS data to characterize the genetic architecture of 10 heart- and blood-related traits in a sample of 1,860 African Americans. In order to evaluate the contribution of regulatory and non-protein coding regions of the genome, we conducted aggregate tests of rare variation across the entire genomic landscape using a sliding window, complemented by an annotation-based assessment of the genome using predefined regulatory elements and within the first intron of all genes...
January 5, 2017: American Journal of Human Genetics
https://www.readbyqxmd.com/read/28080075/cognitive-outcomes-in-early-treated-adults-with-phenylketonuria-pku-a-comprehensive-picture-across-domains
#9
Liana Palermo, Tarekegn Geberhiwot, Anita MacDonald, Ellie Limback, S Kate Hall, Cristina Romani
OBJECTIVE: Phenylketonuria (PKU) is an inherited metabolic disease which affects cognitive functions due to an inability to metabolize phenylalanine which leads to the accumulation of toxic by-products (Phe) in the brain. PKU can be effectively treated with a low phenylalanine diet, but some cognitive deficits remain. Studies have reported impairments, especially for processing speed and executive functions, but there is a lack of comprehensive assessment across cognitive domains. Moreover, it is important to establish outcomes in early treated adults with PKU (AwPKU) who have better metabolic control than groups previously reported in the literature...
January 12, 2017: Neuropsychology
https://www.readbyqxmd.com/read/28079369/muropeptide-binding-and-the-x-ray-structure-of-the-effector-domain-of-the-transcriptional-regulator-ampr-of-pseudomonas-aeruginosa
#10
David A Dik, Teresa Domínguez-Gil, Mijoon Lee, Dusan Hesek, Byungjin Byun, Jennifer Fishovitz, Bill Boggess, Lance M Hellman, Jed F Fisher, Juan A Hermoso, Shahriar Mobashery
A complex link exists between cell-wall recycling/repair and the manifestation of resistance to β-lactam antibiotics in many Enterobacteriaceae and Pseudomonas aeruginosa. This process is mediated by specific cell-wall-derived muropeptide products. These muropeptides are internalized into the cytoplasm and bind to the transcriptional regulator AmpR, which controls the cytoplasmic events that lead to expression of β-lactamase, an antibiotic-resistance determinant. The effector-binding domain (EBD) of AmpR was purified to homogeneity...
January 17, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28076789/reduced-insulin-igf-1-signaling-restores-the-dynamic-properties-of-key-stress-granule-proteins-during-aging
#11
Marie C Lechler, Emily D Crawford, Nicole Groh, Katja Widmaier, Raimund Jung, Janine Kirstein, Jonathan C Trinidad, Alma L Burlingame, Della C David
Low-complexity "prion-like" domains in key RNA-binding proteins (RBPs) mediate the reversible assembly of RNA granules. Individual RBPs harboring these domains have been linked to specific neurodegenerative diseases. Although their aggregation in neurodegeneration has been extensively characterized, it remains unknown how the process of aging disturbs RBP dynamics. We show that a wide variety of RNA granule components, including stress granule proteins, become highly insoluble with age in C. elegans and that reduced insulin/insulin-like growth factor 1 (IGF-1) daf-2 receptor signaling efficiently prevents their aggregation...
January 10, 2017: Cell Reports
https://www.readbyqxmd.com/read/28076679/molecular-dynamics-simulations-for-deciphering-structural-basis-of-recognition-of-pre-let-7-mirnas-by-lin28
#12
Chhaya Sharma, Debasisa Mohanty
LIN28 protein inhibits biogenesis of miRNAs belonging to let-7 family by binding to precursor forms of miRNAs. Over expression of LIN28 and low levels of let-7 miRNAs are associated with several forms of cancer cells. We have performed multiple explicit solvent molecular dynamics simulations ranging from 200 to 500 ns in length on different isoforms of preE-let7 in complex with LIN28 and also in isolation to identify structural features and key specificity determining residues (SDR) important for inhibitory role of LIN28...
January 11, 2017: Biochemistry
https://www.readbyqxmd.com/read/28074573/structural-functional-and-clinical-characterization-of-a-novel-ptpn11-mutation-cluster-underlying-noonan-syndrome
#13
Luca Pannone, Gianfranco Bocchinfuso, Elisabetta Flex, Cesare Rossi, Giuseppina Baldassarre, Christina Lissewski, Francesca Pantaleoni, Federica Consoli, Francesca Lepri, Monia Magliozzi, Massimiliano Anselmi, Giovanni Sorge, Kadri Karaer, Goran Cuturilo, Alessandro Sartorio, Sigrid Tinschert, Maria Accadia, Maria C Digilio, Giuseppe Zampino, Alessandro De Luca, Hélène Cavé, Martin Zenker, Bruce D Gelb, Bruno Dallapiccola, Lorenzo Stella, Giovanni B Ferrero, Simone Martinelli, Marco Tartaglia
Germline mutations in PTPN11, the gene encoding the Src-homology 2 (SH2) domain-containing protein tyrosine phosphatase (SHP2), cause Noonan syndrome (NS), a relatively common, clinically variable, multisystem disorder. Here, we report on the identification of five different PTPN11 missense changes affecting residues Leu(261) , Leu(262) and Arg(265) in 16 unrelated individuals with clinical diagnosis of NS or with features suggestive for this disorder, specifying a novel disease-causing mutation cluster. Expression of the mutant proteins in HEK293T cells documented their activating role on MAPK signaling...
January 10, 2017: Human Mutation
https://www.readbyqxmd.com/read/28066915/crystallographic-analysis-of-murine-p24%C3%AE-2-golgi-dynamics-gold-domain
#14
Masamichi Nagae, Dorothee Liebschner, Yusuke Yamada, Kana Morita-Matsumoto, Naohiro Matsugaki, Toshiya Senda, Morihisa Fujita, Taroh Kinoshita, Yoshiki Yamaguchi
The p24 family proteins form homo- and hetero-oligomeric complexes for efficient transport of cargo proteins from the endoplasmic reticulum to the Golgi apparatus. It consists of four subfamilies (p24α, p24β, p24γ and p24δ). p24γ2 plays crucial roles in the selective transport of glycosylphosphatidylinositol-anchored proteins. Here we determined the crystal structure of mouse p24γ2 Golgi dynamics (GOLD) domain at 2.8 Å resolution by the single anomalous diffraction method using intrinsic sulfur atoms...
January 9, 2017: Proteins
https://www.readbyqxmd.com/read/28065835/nmr-investigation-of-the-isolated-second-voltage-sensing-domain-of-human-nav1-4-channel
#15
A S Paramonov, E N Lyukmanova, M Yu Myshkin, M A Shulepko, D S Kulbatskii, N S Petrosian, A O Chugunov, D A Dolgikh, M P Kirpichnikov, A S Arseniev, Z O Shenkarev
Voltage-gated Na(+) channels are essential for the functioning of cardiovascular, muscular, and nervous systems. The α-subunit of eukaryotic Na(+) channel consists of ~2000 amino acid residues and encloses 24 transmembrane (TM) helices, which form five membrane domains: four voltage-sensing (VSD) and one pore domain. The structural complexity significantly impedes recombinant production and structural studies of full-sized Na(+) channels. Modular organization of voltage-gated channels gives an idea for studying of the isolated second VSD of human skeletal muscle Nav1...
January 6, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28063451/relationship-between-the-potential-energy-landscape-and-the-dynamic-crossover-in-a-water-like-monatomic-liquid-with-a-liquid-liquid-phase-transition
#16
Gang Sun, Limei Xu, Nicolas Giovambattista
In the case of fragile liquids, dynamical properties such as the structural relaxation time evolve from Arrhenius at high-temperatures to non-Arrhenius at low temperatures. Computational studies show that (i) in the Arrhenius dynamic domain, the liquid samples regions of the potential energy landscape (PEL) that are insensitive to temperature (PEL-independent regime) and the relaxation is exponential, while (ii) in the non-Arrhenius dynamic domain, the topography of the PEL explored by the liquid varies with temperature (PEL-influenced regime) and the relaxation is non-exponential...
January 7, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28060381/kctd2-an-adaptor-of-cullin3-e3-ubiquitin-ligase-suppresses-gliomagenesis-by-destabilizing-c-myc
#17
Eun-Jung Kim, Sung-Hak Kim, Xiong Jin, Xun Jin, Hyunggee Kim
Cullin3 E3 ubiquitin ligase ubiquitinates a wide range of substrates through substrate-specific adaptors Bric-a-brac, Tramtrack, and Broad complex (BTB) domain proteins. These E3 ubiquitin ligase complexes are involved in diverse cellular functions. Our recent study demonstrated that decreased Cullin3 expression induces glioma initiation and correlates with poor prognosis of patients with malignant glioma. However, the substrate recognition mechanism associated with tumorigenesis is not completely understood...
January 6, 2017: Cell Death and Differentiation
https://www.readbyqxmd.com/read/28056069/engineering-potato-starch-with-a-higher-phosphate-content
#18
Xuan Xu, Xing-Feng Huang, Richard G F Visser, Luisa M Trindade
Phosphate esters are responsible for valuable and unique functionalities of starch for industrial applications. Also in the cell phosphate esters play a role in starch metabolism, which so far has not been well characterized in storage starch. Laforin, a human enzyme composed of a carbohydrate-binding module and a dual-specificity phosphatase domain, is involved in the dephosphorylation of glycogen. To modify phosphate content and better understand starch (de)phosphorylation in storage starch, laforin was engineered and introduced into potato (cultivar Kardal)...
2017: PloS One
https://www.readbyqxmd.com/read/28053006/co-option-and-de-novo-gene-evolution-underlie-molluscan-shell-diversity
#19
Felipe Aguilera, Carmel McDougall, Bernard M Degnan
Molluscs fabricate shells of incredible diversity and complexity by localized secretions from the dorsal epithelium of the mantle. Although distantly-related molluscs express remarkably different secreted gene products, it remains unclear if the evolution of shell structure and pattern is underpinned by the differential co-option of conserved genes or the integration of lineage-specific genes into the mantle regulatory program. To address this, we compare the mantle transcriptomes of 11 bivalves and gastropods of varying relatedness...
January 4, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28052036/angiomotin-regulates-prostate-cancer-cell-proliferation-by-signaling-through-the-hippo-yap-pathway
#20
Hao Zeng, Angelica Ortiz, Peng-Fei Shen, Chien-Jui Cheng, Yu-Chen Lee, Guoyu Yu, Song-Chang Lin, Chad J Creighton, Li-Yuan Yu-Lee, Sue-Hwa Lin
Angiomotin (AMOT) is a family of proteins found to be a component of the apical junctional complex of vertebrate epithelial cells and is recently found to play important roles in neurofibromatosis type 2 (NF-2). Whether AMOT plays a role in prostate cancer (PCa) is unknown. AMOT is expressed as two isoforms, AMOTp80 and AMOTp130, which has a 409 aa N-terminal domain that is absent in AMOTp80. Both AMOTp80 and AMOTp130 are expressed in LNCaP and C4-2B4, but at a low to undetectable level in PC3, DU145, and BPH1 cells...
December 29, 2016: Oncotarget
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