In addition, machine learning has been applied to systems biology problems such as identifying transcription factor binding ... sequences of small subunits of domain bacterial and archaeal (16S); and fungal rRNA sequences of large subunits (28S). Chicco D ... The core of the pipeline is an RF classifier coupled with forwarding variable selection (RF-FVS), which selects a minimum-size ... alpha helices and beta sheets), the tertiary structure, and the quaternary structure. Protein secondary structure prediction is ...
The 20S core is composed of 4 rings of 28 non-identical subunits; 2 rings are composed of 7 alpha subunits and 2 rings are ... It also have subunits that can bind with nucleotides (e.g., ATPs) in order to facilitate the association between 19S and 20S ... Accordingly, gene expression by degradation of transcription factors, such as p53, c-jun, c-Fos, NF-κB, c-Myc, HIF-1α, MATα2, ... These subunits can be categorized into two classes based on the ATP dependence of subunits, ATP-dependent subunits and ATP- ...
These complexes have a central E2 core and the other subunits surround this core to form the complex. In the gap between these ... Lipoic acid is present in many foods in which it is bound to lysine in proteins, but slightly more so in kidney, heart, liver, ... Lipoic acid (LA), also known as α-lipoic acid, alpha-lipoic acid (ALA) and thioctic acid, is an organosulfur compound derived ... Lipoic acid serves as co-factor to the acetoin dehydrogenase complex catalyzing the conversion of acetoin (3-hydroxy-2-butanone ...
... transhydrogenase alpha subunit (pntA), dihydroorotase (pyrC) and tryptophanase (tnaA). Thus both the number and type of ... Population genetics is not the only relevant factor in an epidemic. Virulence factors are also important in causing disease, ... of multiple core metabolic enzymes. The alleles at each locus define the EM of their products, as different amino acid ... cofactor binding and cleavage of transport sequences. This also limits comparability of MLEE data obtained by different ...
AMPK undergoes a large conformational change upon ATP binding. A region on the α subunit known as the kinase domain (KD) ... it enhances the activity of transcription factors like nuclear respiratory factor 1 (NRF-1), myocyte enhancer factor 2 (MEF2), ... 2003). "Complexes between the LKB1 tumor suppressor, STRAD alpha/beta and MO25 alpha/beta are upstream kinases in the AMP- ... PRKAG3 The crystal structure of mammalian AMPK regulatory core domain (α C terminal, β C terminal, γ) has been solved in ...
The proton channel consists of three main subunits (a, b, c). This gene encodes the epsilon subunit of the catalytic core. Two ... The catalytic portion of mitochondrial ATP synthase consists of 5 different subunits (alpha, beta, gamma, delta, and epsilon) ... 8. Properties of a factor conferring oligomycin sensitivity on mitochondrial adenosine triphosphatase". The Journal of ... derives its name from being the binding fraction for oligomycin, a type of naturally-derived antibiotic that is able to inhibit ...
Leiser SC, Bowlby MR, Comery TA, Dunlop J (June 2009). "A cog in cognition: how the alpha 7 nicotinic acetylcholine receptor is ... FABP7, coding the Fatty acid-binding protein 7 (brain), one SNP of which was associated with schizophrenia in one 2008 study, ... Alderson RM, Rapport MD, Hudec KL, Sarver DE, Kofler MJ (May 2010). "Competing core processes in attention-deficit/ ... CHRNA7, coding the neuronal nicotinic acetylcholine receptor alpha7 subunit. alpha7-containing receptors are known to improve ...
central DNA-binding core domain (DBD). Contains one zinc atom and several arginine amino acids: residues 102-292. This region ... "Physical interaction of tumour suppressor p53/p73 with CCAAT-binding transcription factor 2 (CTF2) and differential regulation ... Chen D, Li M, Luo J, Gu W (April 2003). "Direct interactions between HIF-1 alpha and Mdm2 modulate p53 function". The Journal ... by a signalosome-like subunit and its role in DNA repair". Molecular Cell. 12 (5): 1087-99. doi:10.1016/S1097-2765(03)00424-6. ...
... which is initiated by ligands binding to G protein-coupled receptors activating the Gq alpha subunit. PtdIns(4,5)P2 is a ... 2004). "CAPS acts at a prefusion step in dense-core vesicle exocytosis as a PIP 2 binding protein". Neuron. 43 (4): 551-562. ... Some of the factors involved in PIP2 regulation are: Lipid kinases, Lipid Phosphatase Lipid Transfer Proteins Growth Factors, ... PIP2 has been shown to recruit G protein-coupled receptor kinase 2 (GRK2) to the membrane by binding to the large lobe of GRK2 ...
... while human influenza HA binds alpha 2-6 sialic acid receptors. Swine influenza viruses have the ability to bind both types of ... The central core of a virion contains the viral genome and other viral proteins that package and protect the genetic material. ... Genetic factors in distinguishing between "human flu viruses" and "avian influenza viruses" include: PB2: (RNA polymerase): ... The relevance or presence of alternate gene products can vary: Segment 1 encodes RNA polymerase subunit (PB2). Segment 2 ...
DNA-binding domain DNA-binding protein DNA-binding protein from starved cells Transcription factor Drlica K, Rouviere-Yaniv J ( ... The arms bind to the minor groove of DNA in low affinity states; in high affinity states, a component of the α-helical core ... It is a 20 kDa heterodimer, composed of α and β subunits that bind to the sequence 5' - WATCAANNNNTTR - 3' and bends the DNA ... Examples include the HU protein in Escherichia coli, a dimer of closely related alpha and beta chains and in other bacteria can ...
... tumor necrosis factor-alpha (TNF-alpha), tumor necrosis factor-beta (TNF-beta), interleukin-6 (IL-6 ), interleukin-8 (IL-8), ... Neuraminidase (NA), a subunit of the HN protein, binds to and cleaves sialic acid from the cell surface. NA also promotes cell ... The SeV virion also contains the nucleocapsid core, which is composed of the genomic RNA, the nucleocapsid protein (NP), the ... tumor necrosis factor-alpha (TNF-alpha), tumor necrosis factor-beta (TNF-beta), interleukin-6 (IL-6 ), interleukin-8 (IL-8), ...
Once bound to DNA, the beta subunits can freely slide along double stranded DNA. The beta subunits in turn bind the αε ... After assembly around the DNA, the beta subunits' affinity for the gamma subunit is replaced by an affinity for the alpha and ... MacNeill SA (August 2016). "PCNA-binding proteins in the archaea: novel functionality beyond the conserved core". Current ... DNA clamps also associate with other factors involved in DNA and genome homeostasis, such as nucleosome assembly factors, ...
... which modifies the GyrB subunit of DNA gyrase, the conserved tyrosine residue for ATP binding of ParE subunit at Topoisomerase ... This extra-ER pool of FICD-1s is credited with AMPylation of core histones and eEF1-A type translation factors within the ... It is mediated via a mechanism of ATP-binding-site alpha helix motif. Infectious bacteria use this domain to interrupt ... DrrA is composed of Rab1b specific guanine nucleotide exchange factor (GEF) domain, a C-terminal lipid binding domain and an N- ...
"The alpha-like RNA polymerase II core subunit 3 (RPB3) is involved in tissue-specific transcription and muscle differentiation ... cooperation with promoter-bound activator domains and binding to TFIIB". J. Mol. Biol. 261 (5): 599-606. doi:10.1006/jmbi. ... "HIV-1 Tat acts as a processivity factor in vitro in conjunction with cellular elongation factors". Genes Dev. 6 (4): 655-66. ... These two subunits form a core subassembly unit of the polymerase. A pseudogene has been identified on chromosome 21. POLR2C ...
Following Dicer cleavage, an Argonaute (Ago) protein binds to the short RNA duplexes, forming the core of a multi-subunit ... Tarassishin L, Loudig O, Bauman A, Shafit-Zagardo B, Suh HS, Lee SC (Dec 2011). "Interferon regulatory factor 3 inhibits ... "Modulation of miR-155 and miR-125b levels following lipopolysaccharide/TNF-alpha stimulation and their possible roles in ... The validated miR-155-5p binding site harbored in the SPI1 mRNA and the validated miR-155-3p binding site harbored in the IRAK3 ...
... identical MCM Subunits in DNA Replication Licensing. Mol Cell 67, 168-179, doi: 10.1016/j.molcel.2017.06.016 (2017). Tye is ... Novel DNA Binding Properties of the Mcm10 Protein from Saccharomyces cerevisiae. Journal of Biological Chemistry 284, 25412- ... Mcm10 and the MCM2-7 complex interact to initiate DNA synthesis and to release replication factors from origins. Genes Dev 14, ... which encode the catalytic core of the eukaryotic replisome. Tye also determined the first high-resolution structures of both ...
Expression of lymphoid enhancer-binding factor 1 (LEF-1) triggers the translocation of β-catenin to the nucleus, where it ... Protocadherin-alpha and protocadherin-gamma interact to form a protein complex that enhances the surface expression of each ... Davis, MA; Ireton, RC; Reynolds, AB (2003). "A core Function for p120-catenin in cadherin turnover". J. Cell Biol. 163 (3): 525 ... impaired the stabilization of GluR2 and GluR3 AMPAR subunits, respectively, at the plasma membrane. Co-localization of p120ctn ...
The subunit Rpn12 incorporated into 19S regulatory particle when 19S lid and base bind together. Among these lid subunits, ... as well as to cause conformational changes to the alpha subunit C-terminals that form the substate entrance of the 20S complex ... Accordingly, gene expression by degradation of transcription factors, such as p53, c-jun, c-Fos, NF-κB, c-Myc, HIF-1α, MATα2, ... The 26S proteasome complex usually consists of a 20S core particle (CP, or 20S proteasome) and one or two 19S regulatory ...
They bind PtdIns(4,5)P2. Discoidin domains of blood coagulation factors ENTH, VHS and ANTH domains Structural domains mediate ... The hydrophobic inner core region of typical biological membranes may have a thickness of around 27 to 32 Å, as estimated by ... The regulatory protein subunits of many ion channels and transmembrane receptors, for example, may be defined as peripheral ... PDBsum entry: Alpha Toxin "Pfam entry: Type I phosphodiesterase". Archived from the original on 2007-09-29. Retrieved 2007-01- ...
The Dr adhesins bind Dr blood group antigen (Dra) which is present on decay accelerating factor (DAF) on erythrocytes and other ... The B subunits assist in adherence and entry of the toxin into host intestinal cells, while the A subunit is cleaved and ... Uropathogenic E. coli produce alpha- and beta-hemolysins, which cause lysis of urinary tract cells.[citation needed] Another ... of amino sugars and some group I K-antigens are attached to the lipid A-core of the lipopolysaccharide (KLPS), in a similar way ...
The proton channel consists of three main subunits (a, b, c). This gene encodes the delta subunit of the catalytic core. ... The catalytic portion of mitochondrial ATP synthase consists of 5 different subunits (alpha, beta, gamma, delta, and epsilon) ... 8. Properties of a factor conferring oligomycin sensitivity on mitochondrial adenosine triphosphatase". The Journal of ... derives its name from being the binding fraction for oligomycin, a type of naturally-derived antibiotic that is able to inhibit ...
It also have subunits that can bind with nucleotides (e.g., ATPs) in order to facilitate the association between 19S and 20S ... "The RTP site shared by the HIV-1 Tat protein and the 11S regulator subunit alpha is crucial for their effects on proteasome ... Accordingly, gene expression by degradation of transcription factors, such as p53, c-jun, c-Fos, NF-κB, c-Myc, HIF-1α, MATα2, ... 26S proteasome complex is usually consisted of a 20S core particle (CP, or 20S proteasome) and one or two 19S regulatory ...
Guenther MG, Lane WS, Fischle W, Verdin E, Lazar MA, Shiekhattar R (May 2000). "A core SMRT corepressor complex containing ... Masselink H, Bernards R (2000). "The adenovirus E1A binding protein BS69 is a corepressor of transcription through recruitment ... Retinoic acid receptor alpha, Retinoic acid receptor gamma, SAP30, TBL1XR1, TBL1X, and ZBTB33. Minucci S, Pelicci PG (1999). " ... "The N-CoR-HDAC3 nuclear receptor corepressor complex inhibits the JNK pathway through the integral subunit GPS2". Mol. Cell. 9 ...
In the presence of nuclear import factor importin α, TPX2 is bound and prevented from binding Aurora A kinase, though it is ... This is made possible partially by TPX2's role in sequestering free tubulin subunits and nucleating small multi-subunit tubulin ... Schatz CA, Santarella R, Hoenger A, Karsenti E, Mattaj IW, Gruss OJ, Carazo-Salas RE (May 2003). "Importin alpha-regulated ... catalytic core and its flanking region, suggesting a recurring theme in kinase regulation. Activated Aurora A in turn ...
Walker JE, Saraste M, Runswick MJ, Gay NJ (1982). "Distantly related sequences in the alpha- and beta-subunits of ATP synthase ... The domain contains nucleotide-binding fold (nbf) at the C-terminal end of the first β-strand. The PFK-2 domain appears to be ... While the structural core that catalyzes the PFK-2/FBPase-2 reaction is highly conserved across isoforms, the major differences ... studies have confirmed that modification from multiple transcription factors in the 5' flanking region regulates the amount of ...
... mucin-1 subunit alpha (MUC1-NT; MUC1-alpha) and mucin-1 subunit beta (MUC-CT; MUC1-beta). These subunits differ in size due to ... In transcription, MUC-1 in cancer is regulated through STAT proteins, hormones, hypoxia, and growth factors. MUC-1 plays a role ... MUC-1 in cancer is underglycosylated, causing interactions to form between MUC-1 core protein, transmembrane receptors, and ... "The breast cancer-associated MUC1 gene generates both a receptor and its cognate binding protein". Cancer Research. 59 (7): ...
It also has subunits that can bind with nucleotides (e.g., ATPs) in order to facilitate the association between 19S and 20S ... as well as to cause confirmation changes of alpha subunit C-terminals that form the substate entrance of 20S complex. Rpn10 is ... Accordingly, gene expression by degradation of transcription factors, such as p53, c-jun, c-Fos, NF-κB, c-Myc, HIF-1α, MATα2, ... 26S proteasome complex is usually consisted of a 20S core particle (CP, or 20S proteasome) and one or two 19S regulatory ...
By using antibodies to bind to α6β1 integrin subunits, found on the neuroblasts, the researchers observed that the migration ... tumor necrosis factor) and IGF-1 (insulin-like growth factor), to direct migration of neuroblasts, such as in the RMS. ... A study was conducted testing a specific integrin, alpha-six-beta-one, and the role it plays in the RMS. The study researched ... Once the developing neurons reach the core of the olfactory bulb, they detach from the RMS, which is initiated by Reelin and ...
The main function of the androgen receptor is as a DNA-binding transcription factor that regulates gene expression; however, ... 5 alpha-dihydrotestosterone and [3H]cortisol binding to plasma proteins". J. Steroid Biochem. 33 (2): 251-5. doi:10.1016/0022- ... Beauchemin AM, Gottlieb B, Beitel LK, Elhaji YA, Pinsky L, Trifiro MA (2001). "Cytochrome c oxidase subunit Vb interacts with ... "Functional interactions of the AF-2 activation domain core region of the human androgen receptor with the amino-terminal domain ...
The core trans-SNARE complex is a four- α {\displaystyle \alpha } -helix bundle, where one α {\displaystyle \alpha } -helix is ... After fusion, the cis-SNARE complex is bound and disassembled by an adaptor protein, alpha-SNAP. Then, the hexameric ATPase (of ... Its protein structure is composed of two peptide subunits, a heavy chain (100kDas) and a light chain (50kDas), which are held ... The suspected energy source is N-ethylmaleimide-sensitive factor (NSF), an ATPase that is involved with membrane fusion. NSF ...
It accomplishes this by binding to Sld2 (Polε associated factor) and Sld3 (CDC45 associated factor) in a cyclin dependent ... Yan S, Michael WM (September 2009). "TopBP1 and DNA polymerase alpha-mediated recruitment of the 9-1-1 complex to stalled ... The amino acid residues that make up these core features are highly conserved, with protein specific deviations occurring in ... the loops that connect these subunits. BRCT domains canonically act in pairs, with one domain acting as the acceptor for ...
The crystal structure of cystatin C is characterized by a short alpha helix and a long alpha helix which lies across a large ... In humans, all cells with a nucleus (cell core containing the DNA) produce cystatin C as a chain of 120 amino acids. It is ... Demirtaş S, Akan O, Can M, Elmali E, Akan H (February 2006). "Cystatin C can be affected by nonrenal factors: a preliminary ... It is a potent inhibitor of lysosomal proteinases (enzymes from a special subunit of the cell that break down proteins) and ...