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  • monomeric
  • We obtain 0.70 three-state accuracy for solvent accessibility, 0.33 15-state accuracy and 0.74 Pearson Correlation Coefficient (PCC) for the contact number on the 5729 monomeric soluble globular protein dataset. (biomedcentral.com)
  • stable
  • Extremophiles, especially those in Archaea, have a myriad of adaptations that keep their cellular proteins stable and active under the extreme conditions in which they live. (hindawi.com)
  • GPCRs
  • The MG149 IC50 NH2-terminal residues and N loop include determinants for binding from the chemokine to G protein-coupled receptors (GPCRs) and so are accompanied by a three stranded -sheet and a COOH-terminal helix (15). (exposed-skin-care.net)
  • experimental
  • The database comprehensively collects experimental and predictive protein PTM sites. (biomedcentral.com)
  • UbiProt [ 9 ] stores experimental ubiquitylated proteins and ubiquitylation sites, which are implicated in protein degradation through an intracellular ATP-dependent proteolytic system. (biomedcentral.com)
  • However, there are many cases where appropriate homologs are not available and/or where protein structure must be predicted in environments that differ markedly from those used to obtain homolog experimental structures. (hindawi.com)
  • Purification
  • Purification and Characterization of RhoPDE, a Retinylidene/Phosphodiesterase Fusion Protein and Potential Optogenetic Tool from the Choanoflagellate Salpingoeca rosetta. (nih.gov)
  • Expression, purification, and spectral tuning of RhoGC, a retinylidene/guanylyl cyclase fusion protein and optogenetics tool from the aquatic fungus Blastocladiella emersonii . (nih.gov)
  • Approach
  • The number of confident predictions grows faster than the number of known structures, suggesting that this approach will play a key role in completing the protein-chemical interaction repertoire. (plos.org)
  • complete evolutionary
  • For a given protein, the large number of available sequences allows more complete evolutionary analyses. (biomedcentral.com)
  • 202-236, 2000) has further enabled us to reconstruct the complete evolutionary profile of these proteins and to make connections between major evolutionary events and the resulting changes in protein shape. (asm.org)
  • phylogenetic tree
  • These ancient proteins are found in all extant organisms, and their inception likely predates the root of the universal phylogenetic tree ( 57 , 62 ). (asm.org)
  • advances
  • That being said, the authors recognize the fantastic progress made in statistical and homolog based approaches and the advances these have contributed to all aspects of protein science. (hindawi.com)
  • Characterization
  • Biochemical characterization of the recombinant proteins revealed that Pp4CL1 utilized p -coumaric and ferulic acids as its two main substrates for coumarin biosynthesis in P. praeruptorum . (frontiersin.org)
  • The characterization and site-directed mutagenesis studies of Pp4CL1 lays a solid foundation for elucidating the biosynthetic mechanisms of coumarins in P. praeruptorum and provides further insights in understanding the structure-function relationships of this important family of proteins. (frontiersin.org)
  • specificity
  • We also collected literature related to PTM, protein conservations and the specificity of substrate site. (biomedcentral.com)
  • We also discuss the effect of functional specificity on protein shape over the complex evolutionary course of the tRNA synthetases. (asm.org)
  • describe
  • Furthermore, we describe the cloning of a GFP and a nonfluorescent red protein. (pnas.org)
  • We categorized the Archaea into three general groups to describe what is known about their protein adaptations: thermophilic, psychrophilic, and halophilic. (hindawi.com)
  • putative
  • By superimpositions based on the common protein and the common ligand, we obtain an additional putative complex (P 2 with L b ). (plos.org)
  • annotation
  • The curation and annotation process for the LED is supported by DWARF [ 1 ], an inhouse data warehouse system for protein families. (biomedcentral.com)
  • p>An evidence describes the source of an annotation, e.g. an experiment that has been published in the scientific literature, an orthologous protein, a record from another database, etc. (uniprot.org)
  • indicates
  • p>This indicates the type of evidence that supports the existence of the protein. (uniprot.org)
  • p>This subsection of the 'Function' section is used for enzymes and indicates the residues directly involved in catalysis. (uniprot.org)
  • thus
  • The detection of positive selection can also help identify functionally important protein regions and thus guide protein engineering. (genetics.org)
  • Its identification may point to functionally important regions of a gene and is thus of potential interest to protein engineers who alter proteins to produce new functions. (genetics.org)
  • known
  • Western blot analysis putatively identified the SH2-domain containing protein tyrosine phosphatase known as Shp-1 as increased in association with these RTKS following TIMP-2 treatment. (cancer.gov)
  • We show for a benchmark that known protein-chemical structures are reconstructed with good accuracy and sometimes via very different proteins and chemicals. (plos.org)
  • The AARSs are, in all known cases, multi-domain proteins. (asm.org)
  • found
  • While the α/β hydrolase fold is conserved in both proteins, the major difference is found in the cap region. (biomedcentral.com)
  • These essential proteins are found in all forms of life and are responsible for charging their cognate tRNAs with the correct amino acid. (asm.org)
  • 1 ], there are three amino acid residues most frequently found in Mn 2+ binding sites: His, Asp, and Glu. (hindawi.com)
  • bind
  • Recently, other proteins, able to bind Ca 2+ containing the abovementioned motif but lacking one or both helices, have been described [ 8 ]. (hindawi.com)
  • data
  • In comparison to the previous release [ 1 ] with 4322 protein and 167 structure entries this update represents a significant increase in data volume. (biomedcentral.com)
  • Current data reveal that oxidative inflammatory conditions and dietary constituents result in the PTM of proteins by electrophilic species. (pubmedcentralcanada.ca)
  • biological
  • p>This section provides any useful information about the protein, mostly biological knowledge. (uniprot.org)
  • The evolution of the tRNA synthetases is of fundamental importance with respect to the nature of the biological cell and the transition from an RNA world to the modern world dominated by protein-enzymes. (asm.org)