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https://www.readbyqxmd.com/read/29019075/efficient-malic-acid-production-in-escherichia-coli-using-a-synthetic-scaffold-protein-complex
#1
Sivachandiran Somasundaram, Gyeong Tae Eom, Soon Ho Hong
Recently, malic acid has gained attention due to its potential application in food, pharmaceutical, and medical industries. In this study, the synthetic scaffold complex strategy was employed between the two key enzymes pyruvate kinase (PykF) and malic enzyme (SfcA); SH3 ligand was attached to PykF, and the SH3 domain was attached to the C-terminus of ScfA. Synthetic scaffold systems can organize enzymes spatially and temporally to increase the local concentration of intermediates. In a flask culture, the recombinant strain harboring scaffold complex produced a maximum concentration of 5...
October 11, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/28992949/sh3-dependent-cell-death-signaling-of-the-avian-chb6-alloantigen
#2
Rohini Bhattacharya, Cristian Ovies, Deisi Williamson, Sarah Mitchell, Phillip E Funk
In chickens, B cells develop in the bursa of Fabricius, a unique organ for B cell development. Most B cells will die within the bursa, mirroring cell losses seen in mammalian bone marrow as central tolerance is enforced at the transition to mature cells. B cell responses are shaped by a complex interplay of signals. Signals in addition to BCR that impact central tolerance have recently been described. We have been interested in chB6, a novel alloantigen on B cells in the chicken. chB6 is found in close proximity to the BCR and can trigger apoptosis after cross-linking by antibody...
September 28, 2017: Cellular Immunology
https://www.readbyqxmd.com/read/28979184/spin90-modulates-long-term-depression-and-behavioral-flexibility-in-the-hippocampus
#3
Dae Hwan Kim, Minkyung Kang, Chong-Hyun Kim, Yun Hyun Huh, In Ha Cho, Hyun-Hee Ryu, Kyung Hwun Chung, Chul-Seung Park, Sangmyung Rhee, Yong-Seok Lee, Woo Keun Song
The importance of actin-binding proteins (ABPs) in the regulation of synapse morphology and plasticity has been well established. SH3 protein interacting with Nck, 90 kDa (SPIN90), an Nck-interacting protein highly expressed in synapses, is essential for actin remodeling and dendritic spine morphology. Synaptic targeting of SPIN90 to spine heads or dendritic shafts depends on its phosphorylation state, leading to blockage of cofilin-mediated actin depolymerization and spine shrinkage. However, the physiological role of SPIN90 in long-term plasticity, learning and memory are largely unknown...
2017: Frontiers in Molecular Neuroscience
https://www.readbyqxmd.com/read/28978740/c-elegans-sorb-1-localizes-to-integrin-adhesion-sites-and-is-required-for-organization-of-sarcomeres-and-mitochondria-in-myocytes
#4
Timothy Loveless, Hiroshi Qadota, Guy M Benian, Jeff Hardin
We have identified and characterized sorb-1, the only Sorbin and SH3 domain-containing protein family member in C. elegans SORB-1 is strongly localized to integrin adhesion complexes in larvae and adults, including adhesion plaques and dense bodies (Z-disks) of striated muscles and attachment plaques of smooth muscles. SORB-1 is recruited to the actin-binding, membrane-distal regions of dense bodies via its C-terminal SH3 domains in an ATN-1(α-actinin)- and ALP-1(ALP/Enigma)-dependent manner, where it contributes to the organization of sarcomeres...
October 4, 2017: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/28974561/crk-tyrosine-phosphorylation-regulates-pdgf-bb-inducible-src-activation-and-breast-tumorigenicity-and-metastasis
#5
Sushil Kumar, Bin Lu, Viralkumar Davra, Peter Hornbeck, Kazuya Machida, Raymond B Birge
The activity of Src family kinases (Src being the prototypical member) is tightly regulated by differential phosphorylation on Tyr416 (positive) and Tyr527 (negative), a duet that reciprocally regulates kinase activity. The latter negative regulation of Src on Tyr527 is mediated by C-terminal Src kinase (CSK) that phosphorylates Tyr527 and maintains Src in a clamped negative regulated state by promoting an intra-molecular association. Here it is demonstrated that the SH2- and SH3-domain containing adaptor protein CrkII, by virtue of its phosphorylation on Tyr239, regulates the Csk/Src signaling axis to control Src activation...
October 3, 2017: Molecular Cancer Research: MCR
https://www.readbyqxmd.com/read/28965398/new-coarse-variables-for-the-accurate-determination-of-standard-binding-free-energies
#6
Haohao Fu, Wensheng Cai, Jérôme Hénin, Benoît Roux, Christophe Chipot
To improve sampling of the configurational entropy change upon protein-ligand binding, we have introduced a new set of coarse variables describing the relative orientation and position of the ligand via a global macromolecular orientational procedure, onto which geometrical restraints are applied. Evaluating the potential of mean force for the different coarse variables, the experimental standard binding free energy for three decapeptides associated with the SH3 domain of the Abl kinase is reproduced quantitatively...
October 9, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28964849/grb2-regulates-the-proliferation-of-hematopoietic-stem-and-progenitors-cells
#7
Catherine Frelin, Yishai Ofran, Julie Ruston, Michal Hayun, Yael Derdikman, Yasmine Khier, Kinneret Rozales, Benjamin Brenner, Norman Iscove, Tony Pawson, Igal Louria-Hayon
Although Hematopoietic Stem and Progenitor Cell (HSPC) proliferation, survival and expansion have been shown to be supported by the cooperative action of different cytokines, little is known about the intracellular signaling pathways that are activated by cytokines upon binding to their receptors. Our study showed that Growth factor receptor-bound protein 2 (Grb2) mRNAs are preferentially expressed in HSC compared to progenitors and differentiated cells of the myeloid and erythroid lineages. Conditional deletion of Grb2 induced a rapid decline of erythroid and myeloid progenitors and a progressive decline of HSC numbers in steady state conditions...
September 28, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28961272/sorbin-and-sh3-domain-containing-protein-2-sorbs2-is-a-component-of-the-acto-myosin-ring-at-the-apical-junctional-complex-in-epithelial-cells
#8
Karin Fredriksson-Lidman, Christina M Van Itallie, Amber J Tietgens, James M Anderson
SORBS2 is a scaffolding protein associated with Abl/Arg non-receptor tyrosine kinase pathways and is known to interact with actin and several other cytoskeletal proteins in various cell types. Previous BioID proximity labeling of tight and adherens junction proteins suggested that SORBS2 is a component of the apical junction complex of epithelial cells. We asked whether SORBS2 plays a previously unappreciated role in controlling perijunctional actin and tight junction barrier function. Using super resolution imaging we confirmed that SORBS2 is localized at the apical junction complex but farther from the membrane than ZO-1 and located partially overlapping both the tight- and adherens junctions with a periodic concentration that alternates with myosin IIB in polarized epithelial cells...
2017: PloS One
https://www.readbyqxmd.com/read/28936620/osteoclast-stimulation-factor-1-ostf1-knockout-increases-trabecular-bone-mass-in-mice
#9
Matthieu Vermeren, Rodanthi Lyraki, Sachin Wani, Rannar Airik, Omar Albagha, Richard Mort, Friedhelm Hildebrandt, Toby Hurd
Osteoclast stimulation factor 1 (OSTF1) is an SH3-domain containing protein that was initially identified as a factor involved in the indirect activation of osteoclasts. It has been linked to spinal muscular atrophy in humans through its interaction with SMN1, and is one of six genes deleted in a human developmental microdeletion syndrome. To investigate the function of OSTF1, we generated an Ostf1 knockout mouse model, with exons 3 and 4 of Ostf1 replaced by a LacZ orf. Extensive X-Gal staining was performed to examine the developmental and adult expression pattern, followed by phenotyping...
September 21, 2017: Mammalian Genome: Official Journal of the International Mammalian Genome Society
https://www.readbyqxmd.com/read/28917202/mechanisms-of-maguk-mediated-cellular-junctional-complex-organization
#10
REVIEW
Fei Ye, Menglong Zeng, Mingjie Zhang
Membrane-associated guanylate kinases (MAGUKs) are a family of scaffold proteins that are enriched in cellular junctions and essential for tissue development and homeostasis. Mutations of MAGUKs are linked to many human diseases including cancers, psychiatric disorders, and intellectual disabilities. MAGUKs share a common PDZ-SH3-GK tandem domain organization at the C-terminal end. In this review, we summarize the mechanistic basis governing target recognition and regulations of this binding by the PDZ-SH3-GK tandem of various MAGUKs...
September 13, 2017: Current Opinion in Structural Biology
https://www.readbyqxmd.com/read/28916774/the-mechano-sensing-role-of-the-unique-sh3-insertion-in-plakin-domains-revealed-by-molecular-dynamics-simulations
#11
Csaba Daday, Katra Kolšek, Frauke Gräter
The plakin family of proteins, important actors in cross-linking force-bearing structures in the cell, contain a curious SH3 domain insertion in their chain of spectrin repeats (SRs). While SH3 domains are known to mediate protein-protein interactions, here, its canonical binding site is autoinhibited by the preceding SR. Under force, however, this SH3 domain could be released, and possibly launch a signaling cascade. We performed large-scale force-probe molecular dynamics simulations, across two orders of magnitude of loading rates, to test this hypothesis, on two prominent members of the plakin family: desmoplakin and plectin, obligate proteins at desmosomes and hemidesmosomes, respectively...
September 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28915558/domain-analysis-reveals-striking-functional-differences-between-the-regulatory-subunits-of-phosphatidylinositol-3-kinase-pi3k-p85%C3%AE-and-p85%C3%AE
#12
Yoshihiro Ito, Peter K Vogt, Jonathan R Hart
Our understanding of isoform-specific activities of phosphatidylinositol 3-kinase (PI3K) is still rudimentary, and yet, deep knowledge of these non-redundant functions in the PI3K family is essential for effective and safe control of PI3K in disease. The two major isoforms of the regulatory subunits of PI3K are p85α and p85β, encoded by the genes PIK3R1 and PIK3R2, respectively. These isoforms show distinct functional differences that affect and control cellular PI3K activity and signaling [1-4]. In this study, we have further explored the differences between p85α and p85β by genetic truncations and substitutions...
August 22, 2017: Oncotarget
https://www.readbyqxmd.com/read/28914985/cherubism-mice-also-deficient-in-c-fos-exhibit-inflammatory-bone-destruction-executed-by-macrophages-that-express-mmp14-despite-the-absence-of-trap-osteoclasts
#13
Mizuho Kittaka, Kotoe Mayahara, Tomoyuki Mukai, Tetsuya Yoshimoto, Teruhito Yoshitaka, Jeffrey P Gorski, Yasuyoshi Ueki
Currently, it is believed that osteoclasts positive for tartrate-resistant acid phosphatase (TRAP +) are the exclusive bone-resorbing cells responsible for focal bone destruction in inflammatory arthritis. Recently, a mouse model of cherubism (Sh3bp2(KI/KI) ) with a homozygous gain-of-function mutation in the SH3-domain binding protein 2 (SH3BP2) was shown to develop auto-inflammatory joint destruction. Here, we demonstrate that Sh3bp2(KI/KI) mice also deficient in the FBJ osteosarcoma oncogene (c-Fos) still exhibit noticeable bone erosion at the distal tibia even in the absence of osteoclasts at 12 weeks old...
September 15, 2017: Journal of Bone and Mineral Research: the Official Journal of the American Society for Bone and Mineral Research
https://www.readbyqxmd.com/read/28904407/syk-dependent-tyrosine-phosphorylation-of-3bp2-is-required-for-optimal-fcr%C3%AE-mediated-phagocytosis-and-chemokine-expression-in-u937-cells
#14
Kazuyasu Chihara, Yuji Kato, Hatsumi Yoshiki, Kenji Takeuchi, Shigeharu Fujieda, Kiyonao Sada
The adaptor protein c-Abl SH3 domain binding protein-2 (3BP2) is tyrosine phosphorylated by Syk in response to cross-linking of antigen receptors, which in turn activates various immune responses. Recently, a study using the mouse model of cherubism, a dominant inherited disorder caused by mutations in the gene encoding 3BP2, showed that 3BP2 is involved in the regulation of phagocytosis mediated by Fc receptor for IgG (FcγR) in macrophages. However, the molecular mechanisms underlying 3BP2-mediated regulation of phagocytosis and the physiological relevance of 3BP2 tyrosine phosphorylation remains elusive...
September 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28904204/distinct-roles-of-the-polarity-factors-boi1-and-boi2-in-the-control-of-exocytosis-and-abscission-in-budding-yeast
#15
Aina Masgrau, Andrea Battola, Trinidad Sanmartin, Leszek P Pryszcz, Toni Gabaldón, Manuel Mendoza
Boi1 and Boi2 (Boi1/2) are budding yeast plasma membrane proteins that function in polarized growth, and in cytokinesis inhibition in response to chromosome bridges via the NoCut abscission checkpoint. How Boi1/2 act in these two distinct processes is not understood. We demonstrate that Boi1/2 are required for a late step in the fusion of secretory vesicles with the plasma membrane of the growing bud. Cells lacking Boi1/2 accumulate secretory vesicles and are defective in bud growth. In contrast, Boi2 is specifically required for abscission inhibition in cells with chromatin bridges...
September 13, 2017: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/28898789/transcriptome-wide-identification-and-competitive-disruption-of-sacum-binding-partners-in-human-colorectal-cancer
#16
Yinguang Zhang, Yongwang Zhang, Yuxiang Zhang
Human sacum is regulatory adaptor protein involved in cellular signaling network of colorectal cancer. Molecular evidence suggests that the protein is integrated into oncogenic signaling network by binding to SH3-containing proteins through its proline-rich motifs. In this study, we have performed a transcriptome-wide analysis and identification of sacum-binding partners in the genome profile of human colorectal cancer. The sacum-binding potency of SH3-containing proteins found in colorectal cancer was investigated by using bioinformatics modeling and intermolecular binding analysis...
September 2, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/28890361/comprehensive-analysis-of-the-human-sh3-domain-family-reveals-a-wide-variety-of-non-canonical-specificities
#17
Joan Teyra, Haiming Huang, Shobhit Jain, Xinyu Guan, Aiping Dong, Yanli Liu, Wolfram Tempel, Jinrong Min, Yufeng Tong, Philip M Kim, Gary D Bader, Sachdev S Sidhu
SH3 domains are protein modules that mediate protein-protein interactions in many eukaryotic signal transduction pathways. The majority of SH3 domains studied thus far act by binding to proline-rich sequences in partner proteins, but a growing number of studies have revealed alternative recognition mechanisms. We have comprehensively surveyed the specificity landscape of human SH3 domains in an unbiased manner using peptide-phage display and deep sequencing. Based on ∼70,000 unique binding peptides, we obtained 154 specificity profiles for 115 SH3 domains, which reveal that roughly half of the SH3 domains exhibit non-canonical specificities and collectively recognize a wide variety of peptide motifs, most of which were previously unknown...
August 28, 2017: Structure
https://www.readbyqxmd.com/read/28883895/alterations-of-sorbin-and-sh3-domain-containing-3-sorbs3-in-human-skeletal-muscle-following-roux-en-y-gastric-bypass-surgery
#18
Samantha E Day, Luis A Garcia, Richard L Coletta, Latoya E Campbell, Tonya R Benjamin, Elena A De Filippis, James A Madura, Lawrence J Mandarino, Lori R Roust, Dawn K Coletta
BACKGROUND: Obesity is a disease that is caused by genetic and environmental factors. However, epigenetic mechanisms of obesity are less well known. DNA methylation provides a mechanism whereby environmental factors can influence gene transcription. The aim of our study was to investigate skeletal muscle DNA methylation of sorbin and SH3 domain containing 3 (SORBS3) with weight loss induced by Roux-en-Y gastric bypass (RYGB). RESULTS: Previously, we had shown increased methylation (5...
2017: Clinical Epigenetics
https://www.readbyqxmd.com/read/28864905/measurement-of-protein-backbone-13-co-and-15-n-relaxation-dispersion-at-high-resolution
#19
Maxim Mayzel, Alexandra Ahlner, Patrik Lundström, Vladislav Y Orekhov
Peak overlap in crowded regions of two-dimensional spectra prevents characterization of dynamics for many sites of interest in globular and intrinsically disordered proteins. We present new three-dimensional pulse sequences for measurement of Carr-Purcell-Meiboom-Gill relaxation dispersions at backbone nitrogen and carbonyl positions. To alleviate increase in the measurement time associated with the additional spectral dimension, we use non-uniform sampling in combination with two distinct methods of spectrum reconstruction: compressed sensing and co-processing with multi-dimensional decomposition...
September 1, 2017: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/28860193/structure-functional-insights-into-the-interaction-between-the-cas-family-scaffolding-protein-p130cas-and-the-focal-adhesion-associated-protein-paxillin
#20
Chi Zhang, Darcie J Miller, Cristina D Guibao, Dominique M Donato, Steven K Hanks, Jie J Zheng
The CAs family scaffolding 130Cas is a Src substrate localized in focal adhesions (FAs) and functions in integrin signaling to promote cell motility, invasion, proliferation, and survival. P130Cas targeting to FAs is essential for its tyrosine phosphorylation and downstream signaling. Although the N-terminal SH3 domain is important for p130Cas localization, it has also been reported that the C-terminal region is involved in p130Cas FA targeting. The Cterminal region of p130Cas or Cas family homology domain (CCHD), has been reported to adopt a structure similar to that of the focal adhesion kinase (FAK) C-terminal focal adhesion targeting (FAT) domain...
August 31, 2017: Journal of Biological Chemistry
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