Keywords: تکامل پروتئین; ADP-dependent glucokinase; Non-cyclic permutation; Kinetic mechanism; Archaea; Folding topology; Protein evolution; X-ray crystallography; TlGK; Thermococcus litoralis glucokinase; PerGK; Permuted ADP dependent Glucokinase;
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Keywords: تکامل پروتئین; Protein structure; Protein evolution; Protein function; Domains; Sequence comparisons; Genomes;
Keywords: تکامل پروتئین; Last Universal Common Ancestor; LUCA; peptidyl transferase center; PTC; Ancient peptides; Protein evolution; Protein folding; Ribosome; Ribosomal protein; RNA; Secondary structure;
Keywords: تکامل پروتئین; Albumin; Positive selection; Protein evolution; Thyroid hormone; Thyroxine-binding globulin; Transthyretin;
Keywords: تکامل پروتئین; gene duplication; protein evolution; paralogue interference; selective pressure
Keywords: تکامل پروتئین; Knotted proteins; Protein folding; Molecular simulations; Kinetic stability; Protein evolution
Keywords: تکامل پروتئین; IPTG; isopropyl β-d-1-thiogalactopyranoside; CTC; 5-cyano-2,3-ditolyl tetrazolium chloride; TMAO; trimethylamine n-oxide; GFP; green fluorescent protein; wt; wild type; PDB; protein data bank; IP; propidium iodide; Protein aggregation; Protein folding; P
Keywords: تکامل پروتئین; Alpha-1 antitrypsin deficiency; Liver disease; Conformational disease; Misfolding; Protein evolution; Déficit en alpha-1 antitrypsine; Maladie hépatique; Maladies conformationnelles; Défaut de repliement; Ãvolution protéique;
Keywords: تکامل پروتئین; Protein evolution; Human bacterial pathogens; Protein-protein interactions; Phylogenetic profiling; Rosetta Stone analysis; Domain fusion; Gene fusion; Gene fission;
Keywords: تکامل پروتئین; α-Amylase; Protein evolution; Drosophila; Chloride-dependent enzyme; Digestive enzymeAmyD, α-amylase Amy from Drosophila melanogaster; melrel, Amyrel from D. melanogaster; Virrel, Amyrel from Drosophila virilis
Evaluation of sequence variability in HIV-1 gp41 C-peptide helix-grafted proteins
Keywords: تکامل پروتئین; gp41; Helix; HIV; Protein engineering; Protein evolution;
The mouse Gm853 gene encodes a novel enzyme: Leucine decarboxylase
Keywords: تکامل پروتئین; AZ; antizyme; AZIN; antizyme inhibitor; DFMO; α-difluoromethylornithine; DMEM; Dulbecco's Modified Eagle Medium; HEK; human embryonic kidney; LDC; leucine decarboxylase; ODC; ornithine decarboxylase; PLP; pyridoxal phosphate; Polyamine; Isopentylamine; A
Phylogenetic analysis predicts structural divergence for proteobacterial ClpC proteins
Keywords: تکامل پروتئین; NTD; N-terminal Domain; D1; Domain 1; D2; Domain 2; NTE; N-terminal Extension; NTP; Nucleoside triphosphate; ATP; Adenosine triphosphate; AAA+; ATPases Associated with various cellular Activities; MD; Middle Domain; PS1β; Presensor-1 β-hairpin; Phylogen
SCOPe: Manual Curation and Artifact Removal in the Structural Classification of Proteins - extended Database
Keywords: تکامل پروتئین; SCOPe; Structural Classification of Proteins-extended; SCOP; Structural Classification of Proteins; PDB; Protein Data Bank; CPE; Clostridium perfringens enterotoxin; APA; Anthrax Protective Antigen; structure classification; protein evolution; database;
Slr0006-like proteins: A TsaC/TsaC2/YciO subfamily exclusive to cyanobacteria
Keywords: تکامل پروتئین; Protein evolution; Homology modeling; tRNA modification; Sll0216; Sll1866;
Structural and evolutionary analyses reveal determinants of DNA binding specificities of nucleoid-associated proteins HU and IHF
Keywords: تکامل پروتئین; Nucleoid-associated proteins; Protein evolution; Specificity and promiscuity determinants; Evolutionary trace analysis;
Helminth secretomes reflect different lifestyles and parasitized hosts
Keywords: تکامل پروتئین; Secretome; Protein evolution; Biodiversity; Host-parasite interaction; Computational biology; Helminths;
Structural components of chemosensory protein mutations in the silkworm moth, Bombyx mori
Keywords: تکامل پروتئین; Insects; Lepidoptera; Cysteine; Glycine; α-helix; Protein evolution; A; adenine; ADAR; adenosine deaminase acting on RNA; APOB; apolipoprotein B; APOBEC; apolipoprotein B editing catalytic subunit; Bmor; Bombyx mori; C; cytosine; cDNA; complementary DNA;
ATP selection in a random peptide library consisting of prebiotic amino acids
Keywords: تکامل پروتئین; Origin of proteins; Protein evolution; Structure and function; cDNA display; In vitro selection; Next-generation sequencing;
The twisted relation between Pnu and SWEET transporters
Keywords: تکامل پروتئین; membrane transporter; Pnu; SWEET; protein topology; membrane transporter fold; protein evolution
Cladograms with Path to Event (ClaPTE): A novel algorithm to detect associations between genotypes or phenotypes using phylogenies
Keywords: تکامل پروتئین; ClaPTE; Cladogram with Path to Event; Fig. or Figs.; Figure or Figures; Eq. or Eqs.; Equation or Equations; PCA; principal components analysis; R.O.C.; receiver operating characteristic; FIC; Felsenstein's independent contrasts; Phylogenetics; Correlate
Selection against glycosylation sites in potential target proteins of the general HMWC N-glycosyltransferase in Haemophilus influenzae
Keywords: تکامل پروتئین; NTHi, non-typeable Haemophilus influenzae; HMW, high molecular weight; LPS, lipopolysaccharideGlycobiology; Metabolic engineering; Mass spectrometry; Proteomics; Protein evolution; Leloir pathway
Investigations of Ramachandran disallowed conformations in protein domain families
Keywords: تکامل پروتئین; Disallowed conformations; Protein evolution; Protein structures; Ramachandran map; Steric clash
Interspecific variability of class II hydrophobin GEO1 in the genus Geosmithia
Keywords: تکامل پروتئین; Ascomycetes; Genetic diversity; Hypocreales; Intragenic tandem repeats; Protein evolution
Contribution of the two domains of E. coli 5â²-nucleotidase to substrate specificity and catalysis
Keywords: تکامل پروتئین; 5NT; E. coli 5â²-nucleotidase; AMPCP; α,β-methylene-ADP; NDomN; terminal domain with residues 26-362 and a C-terminal hexahistidine tag; CDom; C-terminal domain with residues 363-550 and a C-terminal hexahistidine tag; pNPP; para-nitrophenyl phosph
Metamorphic protein IscU alternates conformations in the course of its role as the scaffold protein for iron-sulfur cluster biosynthesis and delivery
Keywords: تکامل پروتئین; ADP; adenosine diphosphate; ATP; adenosine triphosphate; IscU; scaffold protein for Fe-S cluster biosynthesis and delivery; HscA; DnaK-type chaperone; HscB; DnaJ-type co-chaperone; IscS; cysteine desulfurase; IscU; apo-form of the iron-sulfur scaffold
Sequence and structure space model of protein divergence driven by point mutations
Keywords: تکامل پروتئین; Protein structure; Protein evolution; Duplication–divergence models; Residue substitutions; Evolution models
Alanine racemase from Tolypocladium inflatum: A key PLP-dependent enzyme in cyclosporin biosynthesis and a model of catalytic promiscuity
Keywords: تکامل پروتئین; Cyclosporin; Nonribosomal peptide synthesis; Pyridoxal 5′-phosphate; Fold type I alanine racemase; Catalytic promiscuity; Protein evolution
Estimating intrinsic structural preferences of de novo emerging random-sequence proteins: Is aggregation the main bottleneck?
Keywords: تکامل پروتئین; Protein evolution; De novo protein; Aggregation propensity; Random sequence; Structure prediction;
Sequence-function-stability relationships in proteins from datasets of functionally annotated variants: The case of TEM β-lactamases
Keywords: تکامل پروتئین; TEM; Lactamase; Structure-function relationship; Function-stability tradeoff; Antibiotic resistance; Protein evolution;
Protein design at the interface of the pre-biotic and biotic worlds
Keywords: تکامل پروتئین; Biogenesis; Proteogenesis; Pre-biotic; Abiotic; Protein evolution; Protein folding;
Phylogenetics and enzymology of plant quiescin sulfhydryl oxidase
Keywords: تکامل پروتئین; Disulfide bond formation; Thioredoxin; Flavin adenine dinucleotide; Multi-domain; Protein evolution;
Physiological roles of ovotransferrin
Keywords: تکامل پروتئین; Ovotransferrin; Serum transferrin; Lactoferrin; Natural immunity; Iron transport; Protein evolution;
Structure and function of tripeptidyl peptidase II, a giant cytosolic protease
Keywords: تکامل پروتئین; Tripeptidyl peptidase II; Cytosolic proteolysis; Hybrid structure; Protein evolution;
Charged single alpha-helices in proteomes revealed by a consensus prediction approach
Keywords: تکامل پروتئین; Charged single alpha-helix; Structure prediction; Protein evolution;
Quantifying protein modularity and evolvability: A comparison of different techniques
Keywords: تکامل پروتئین; Protein module; Protein evolution; Modularity; Evolvability; Robustness; Coevolution;
Synthetic inter-species cooperation of host and virus for targeted genetic evolution
Keywords: تکامل پروتئین; Protein evolution; Synthetic biology; LuxR evolution; In vivo targeted evolution; Targeted genetic evolution;
The role of protein conformational fluctuations in allostery, function, and evolution
Keywords: تکامل پروتئین; Allostery; Protein functional adaptation; Spontaneous fluctuations; Protein energetics; COREX/BEST algorithm; Protein ensemble; Protein evolution;
A Polypeptide “Building Block” for the β-Trefoil Fold Identified by “Top-Down Symmetric Deconstruction”
Keywords: تکامل پروتئین; protein design; protein symmetry; protein evolution; top-down symmetric deconstruction; β-trefoilFGF-1, fibroblast growth factor-1; SD, symmetric deconstruction; SPR, surface plasmon resonance; FGFR-1c, FGF receptor-1c; FGFR, FGF receptor; GuHCl, guanidin
Folded-unfolded cross-predictions and protein evolution: The case study of coiled-coils
Keywords: تکامل پروتئین; Coiled-coil; Intrinsically disordered protein; Structure prediction; Protein evolution
Evolution of cysteine patterns in the large extracellular loop of tetraspanins from animals, fungi, plants and single-celled eukaryotes
Keywords: تکامل پروتئین; Tetraspanins; Disulfide bonds; Protein evolution
Evolutionary conservation of amino acid composition in paralogous insect vitellogenins
Keywords: تکامل پروتئین; rrec, the correlation between the frequency of each amino acid difference with that of its reciprocal amino acid difference; ruse, the correlation between the percentages of the 20 amino acidsAmino acid composition; Protein evolution; Purifying selection;
Generating artificial homologous proteins according to the representative family character in molecular mechanics properties – an attempt in validating an underlying rule of protein evolution
Keywords: تکامل پروتئین; Protein evolution; Protein design; Hydrophobic interaction; Hydration; Binding assay
On the evolutionary origins of “Fold Space Continuity”: A study of topological convergence and divergence in mixed alpha-beta domains
Keywords: تکامل پروتئین; Protein fold; Protein structure; Protein topology; Protein evolution; Protein classification; SCOP;
Multiple Global Suppressors of Protein Stability Defects Facilitate the Evolution of Extended-Spectrum TEM β-Lactamases
Keywords: تکامل پروتئین; antibiotic resistance; global suppressor; β-lactamase; protein evolution; protein stabilityESBL, extended-spectrum β-lactamase; IRT, inhibitor-resistant TEM; CFU, colony-forming units
Evolutionary Origin of a Secondary Structure: π-Helices as Cryptic but Widespread Insertional Variations of α-Helices That Enhance Protein Functionality
Keywords: تکامل پروتئین; π-helix; α-aneurism; protein evolution; ferritin-like superfamily; secondary structureH-bond, hydrogen bond; PDB, Protein Data Bank; MMOH, soluble methane monooxygenase hydroxylase; BMM, bacterial multicomponent monooxygenase; ToMO, toluene-4-monooxygenas
Comparing the Functional Roles of Nonconserved Sequence Positions in Homologous Transcription Repressors: Implications for Sequence/Function Analyses
Keywords: تکامل پروتئین; LacI, lactose repressor protein; GalR, galactose repressor protein; PurR, purine repressor proteinLacI/GalR repressor proteins; specificity determinants; protein engineering; bioinformatics; protein evolution
In vitro selection of GTP-binding proteins by block shuffling of estrogen-receptor fragments
Keywords: تکامل پروتئین; Alternative splicing; Combinatorial protein library; In vitro selection; mRNA display; Protein evolution; Synthetic biologyCD, circular dichroism; hERα LBD, human estrogen receptor ligand binding domain; RM-PCR, random multi-recombinant PCR; RT, reverse-t
Evolutionary pattern of protein architecture in mammal and fruit fly genomes
Keywords: تکامل پروتئین; Protein evolution; Divergence pattern; Mammal; Fruit fly; Protein domain
Significant residue features revealed by eigenvalue decomposition analysis of BLOSUM matrices
Keywords: تکامل پروتئین; 87.90.+y; Protein evolution; Residue feature; Eigenvalue decomposition; BLOSUM;