Efficient discovery of binding motif pairs from protein protein interactions
Efficient discovery of binding motif pairs from protein protein interactions
... of stable motif pairs derived from our starting motif pairs and those derived from 10 sets of equal size of random starting motif pairs 85 4.11 The percentage of stable and significant motif pairs ... methods for discovering binding motif pairs from different types of protein interaction data These are the discovery of binding motif pairs in the...
Ngày tải lên: 15/09/2015, 17:09
Báo cáo khoa học: Discovery of a eugenol oxidase from Rhodococcus sp. strain RHA1 ppt
... sp strain RHA1 The bacterial oxidase was found to be most active with eugenol, and hence has been named eugenol oxidase (EUGO) Results Properties and spectral characterization of EUGO EUGO can ... bound Covalent flavinylation was accompanied by an increase in oxidase activity and formation of hydrogen peroxide This confirms a mechanism of autocatalytic covalent flavinylation...
Ngày tải lên: 07/03/2014, 09:20
Tài liệu Báo cáo khoa học: The conformational stability of the Streptomyces coelicolor histidine-phosphocarrier protein Characterization of cold denaturation and urea–protein interactions doc
... (enzyme I of the PTS), the rst protein in the cascade of proteins forming the PTS, to HPr, the histidine-phosphocarrier protein HPr is the smallest protein in the protein cascade of the PTS and it ... (see above) Discussion The conformational stability and the cold- denaturation of scHPr The conformational stability of a protein, DG, i...
Ngày tải lên: 19/02/2014, 12:20
Báo cáo khoa học: Fluorescence quenching and kinetic studies of conformational changes induced by DNA and cAMP binding to cAMP receptor protein from Escherichia coli ppt
... uorescence studies of conformational changes induced by cyclic AMP and DNA binding to cyclic AMP receptor protein from Escherichia coli Eur J Biochem 270, 14131423 Yu S & Lee JC (2004) Role of residue ... changes induced by DNA and cAMP 19 20 21 22 23 24 25 26 27 28 29 30 31 cAMP -induced allosteric changes in T127I, S128A and T127I S128A mut...
Ngày tải lên: 07/03/2014, 16:20
Báo cáo khoa học: Common mode of DNA binding to cold shock domains Crystal structure of hexathymidine bound to the domain-swapped form of a major cold shock protein from Bacillus caldolyticus pot
... like a ‘C’ character All nucleobases are unstacked with respect to each other The nucleotides are in anti conformation The stereo view is from the protein surface towards DNA strand D The DNA is ... 180° rotations of their main chains at Glu36w, causing the Bc-Csp structures to open up and allowing them to re-associate as domain-swapped dimers Apart from differ...
Ngày tải lên: 23/03/2014, 09:21
Automated linear motif discovery from protein interaction network
... neither motifs can 22 Protein A Motif Discovery Algorithms Figure The One-to-Many (OTM) approach to finding motif from interaction data Dotted arrow denotes interaction between two sequences Motifs ... directly for motifs Specifically, not many motif discovery algorithms (in fact, only one algorithm to the best of our knowledge) have been designed to mine motifs directly fr...
Ngày tải lên: 30/09/2015, 14:24
Tài liệu Báo cáo khoa học: Biochemical characterization and inhibitor discovery of shikimate dehydrogenase from Helicobacter pylori docx
... s)1, Km of 0.148 ± 0.028 mm and kcat ⁄ Km of 5.2 · 104 m)1Æs)1 toward shikimate, and a kcat of 7.1 ± 0.7 s)1, Km of 0.182 ± 0.027 mm and kcat ⁄ Km of 3.9 · 104 m)1Æs)1 toward NADP Different from ... metabolism of H pylori Recently, the three-dimensional structures of AroE from several bacteria such as E coli, Methanococcus jannaschii, and H influenzae, and YdiB...
Ngày tải lên: 19/02/2014, 05:20
Báo cáo khoa học: Roles of conserved arginines in ATP-binding domains of AAA+ chaperone ClpB from Thermus thermophilus pptx
... detail the roles of these three arginines in TClpB By combining an arginine mutation with the WalkerA mutation in the other AAA+ module, we tested the roles of the arginines in ATP binding and hydrolysis ... examine the roles of the conserved arginines, Arg322 (P2) and Arg323 (P1) of AAA-1, and Arg747 (P1) of AAA-2, and determined that the arginines of TClpB...
Ngày tải lên: 06/03/2014, 00:20
Báo cáo khoa học: Protein–protein interactions and selection: generation of molecule-binding proteins on the basis of tertiary structural information potx
... or NMR structural analyses and the construction of artificial libraries allow constructive selection and functionalization not only of antibody fragments, but also of small, nonantibody proteins ... demonstrating the utility of the grafting of functional peptides with randomized edge sequences for optimizing the orientation of the grafted peptide on a scaffold p...
Ngày tải lên: 06/03/2014, 11:20
Báo cáo khoa học: NMR and molecular dynamics studies of an autoimmune myelin basic protein peptide and its antagonist Structural implications for the MHC II (I-Au)–peptide complex from docking calculations ppt
... various systems comprised 3899 and 4516 SPC molecules for the agonist and the antagonist in water, respectively, and 817 and 927 Me2SO molecules for the agonist and the antagonist, respectively, corresponding ... the binding and affinity for I-Au because of occupation of the P1 pocket Recent thermodynamic and kinetic studies of the binding of TCRs...
Ngày tải lên: 07/03/2014, 16:20
Báo cáo khoa học: Solution structure and backbone dynamics of the XPC-binding domain of the human DNA repair protein hHR23B docx
... 2A) The N-terminal part of XPCB hHR23B B C Fig NMR structure of the XPCB domain of hHR23B (A) Stereoview of the 12 superimposed structures of XPCB hHR23B All Pro residues conserved among the ... further our knowledge with respect to the mechanisms of action of these proteins, it is crucial that we define the precise boundaries of the STI1-homologous domai...
Ngày tải lên: 07/03/2014, 17:20
Báo cáo khoa học: A short proregion of trialysin, a pore-forming protein of Triatoma infestans salivary glands, controls activity by folding the N-terminal lytic motif pdf
... protrialysin by PCR amplification The template was the same as above, and the reaction included oligonucleotides BAMH15P15 1000 (5¢-CGGATCCGCTGAATATGAACTTG-3¢) and ECOR13LYS (5¢-CGAATTCTTAATCAATTTCAACTTC-3¢) ... amino acids Met89 and Asp260, NL2) was amplified by PCR using primers NDE15P15 89 (5¢-CCATATGAAGAAAGGAGCAGC-3¢) and Bam-LYS30 reverse (5¢-CGGGATCCTTAATCAATTTCAACTTC ATC-3¢), a...
Ngày tải lên: 16/03/2014, 06:20
Báo cáo khoa học: Possible involvement of an FKBP family member protein from a psychrotrophic bacterium Shewanella sp. SIB1 in cold-adaptation potx
... Luria–Bertani medium containing 50 mgÆL)1 ampicillin or 35 mgÆL)1 kanamycin Extraction of soluble proteins from SIB1 Cultures of Shewanella sp strain SIB1 were grown at or 20 °C in 200 mL of medium ... MIPlike FKBP subfamily According to the crystal structure, L pneumophila MIP is composed of a N-terminal domain, that is involved in dimerization of the protein, and...
Ngày tải lên: 16/03/2014, 16:20
Báo cáo khoa học: Isolation and characterization of a D-cysteine desulfhydrase protein from Arabidopsis thaliana pptx
... Nagasawa T, Ohkishi H, Kawakami B, Yamano H, Hosono H, Tani Y & Yamada H (1982) 3-chloro-d-alanine chloride-lyase (deaminating) of Pseudomonas putida CR 1–1 Purification and characterization of ... molecular mass of 41.7 kDa and a pI of 6.34 The YedO protein from E coli and the d-CDes from Arabidopsis showed an overall identity of 36% and a similarity of 50% T...
Ngày tải lên: 16/03/2014, 18:20
Báo cáo khoa học: Efficient synthesis of a disulfide-containing protein through a batch cell-free system from wheat germ pdf
... 5¢-CAAAAAATTGAATGGCATG AACCGCCGAGCTCCAAC-3¢ and a2 : 5¢-AGCTTCAA AAATATCATTTAAACCCGACGGGCTGCTTTT-3¢ (the sequences for the biotin tag are underlined) followed by circularization with DNA ligase ... The DNA fragment coding the scFvLH (10 pg) was amplified with 0.4 lM each of the primers s1: 5¢-CTACC AGATCTGCCATGCAGATCGTTGTTACCCAGG-3¢ and a1 : 5¢-GGCTAAGAGCTCACGGTCAGGCTCG-3¢ by using a LAT...
Ngày tải lên: 16/03/2014, 23:20