Natural history of S-adenosylmethionine-binding proteins

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Natural history of S-adenosylmethionine-binding proteins is …
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scholarly articleQ13442814

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P6179Dimensions Publication ID1052617965
P356DOI10.1186/1472-6807-5-19
P3181OpenCitations bibliographic resource ID4559580
P932PMC publication ID1282579
P698PubMed publication ID16225687
P5875ResearchGate publication ID7540053

P50authorArcady MushegianQ47502544
P2093author name stringPiotr Z Kozbial
P2860cites workSequence permutations in the molecular evolution of DNA methyltransferasesQ21045389
The COG database: an updated version includes eukaryotesQ21284294
Structure and catalytic mechanism of the human histone methyltransferase SET7/9Q24293093
Leukemia proto-oncoprotein MLL forms a SET1-like histone methyltransferase complex with menin to regulate Hox gene expressionQ24297027
Inosine 5'-monophosphate dehydrogenase binds nucleic acids in vitro and in vivoQ24307563
Regulation of p53 activity through lysine methylationQ24311514
Human mitochondrial transcription factor B1 interacts with the C-terminal activation region of h-mtTFA and stimulates transcription independently of its RNA methyltransferase activityQ24313359
Gene-specific modulation of TAF10 function by SET9-mediated methylationQ24337399
Comparative genomics and evolution of proteins involved in RNA metabolismQ24515041
Biochemical characterization of chloromethane emission from the wood-rotting fungus phellinus pomaceusQ24520463
Gapped BLAST and PSI-BLAST: a new generation of protein database search programsQ24545170
DNA-binding proteins and evolution of transcription regulation in the archaeaQ24548890
Topological and mutational analysis of Saccharomyces cerevisiae Ste14p, founding member of the isoprenylcysteine carboxyl methyltransferase familyQ24555709
MUSCLE: multiple sequence alignment with high accuracy and high throughputQ24613456
Bateman domains and adenosine derivatives form a binding contractQ24614437
CBS domains form energy-sensing modules whose binding of adenosine ligands is disrupted by disease mutationsQ24614590
The DNA (cytosine-5) methyltransferasesQ24614934
Radical SAM, a novel protein superfamily linking unresolved steps in familiar biosynthetic pathways with radical mechanisms: functional characterization using new analysis and information visualization methodsQ24616026
Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotesQ24797719
RNA:(guanine-N2) methyltransferases RsmC/RsmD and their homologs revisited--bioinformatic analysis and prediction of the active site based on the uncharacterized Mj0882 protein structureQ24806285
The crystal structure of human S-adenosylmethionine decarboxylase at 2.25 A resolution reveals a novel foldQ27618765
RNA methylation under heat shock controlQ27626992
X-ray crystal structure of rabbit N-acetylglucosaminyltransferase I: catalytic mechanism and a new protein superfamilyQ27627480
Structures of two natural product methyltransferases reveal the basis for substrate specificity in plant O-methyltransferasesQ27630150
Crystal structures of 1-aminocyclopropane-1-carboxylate (ACC) synthase in complex with aminoethoxyvinylglycine and pyridoxal-5'-phosphate provide new insight into catalytic mechanismsQ27632861
The crystal structure of spermidine synthase with a multisubstrate adduct inhibitorQ27636531
Domain alternation switches B(12)-dependent methionine synthase to the activation conformationQ27636537
Crystal structures of mycolic acid cyclopropane synthases from Mycobacterium tuberculosisQ27637103
Structural basis and specificity of acyl-homoserine lactone signal production in bacterial quorum sensingQ27638720
Structure and catalytic mechanism of a SET domain protein methyltransferaseQ27639757
The crystal structure of MT0146/CbiT suggests that the putative precorrin-8w decarboxylase is a methyltransferaseQ27639945
Monomeric S-adenosylmethionine decarboxylase from plants provides an alternative to putrescine stimulationQ27640088
A dimeric viral SET domain methyltransferase specific to Lys27 of histone H3Q27640431
Structure of the catalytic domain of human DOT1L, a non-SET domain nucleosomal histone methyltransferaseQ27640679
Structure of 1-aminocyclopropane-1-carboxylate synthase in complex with an amino-oxy analogue of the substrate: implications for substrate bindingQ27640949
Crystal structure of tRNA(m1G37)methyltransferase: insights into tRNA recognitionQ27641339
Crystal structure of the met repressor-operator complex at 2.8 A resolution reveals DNA recognition by beta-strandsQ27642147
CysG structure reveals tetrapyrrole-binding features and novel regulation of siroheme biosynthesisQ27642471
Crystal structure and mechanism of a bacterial fluorinating enzymeQ27643096
Crystal structure of the S-adenosylmethionine synthetase ternary complex: a novel catalytic mechanism of S-adenosylmethionine synthesis from ATP and MetQ27643147
Three-dimensional crystal structures of Escherichia coli met repressor with and without corepressorQ27703629
AdoMet radical proteins--from structure to evolution--alignment of divergent protein sequences reveals strong secondary structure element conservationQ37346412
Electrostatic activation of Escherichia coli methionine repressorQ38309153
Active site mapping and substrate channeling in the sterol methyltransferase pathwayQ38363534
SEALS: a system for easy analysis of lots of sequences.Q38457841
Mutational analysis of conserved residues in HhaI DNA methyltransferaseQ39615998
ORFeus: Detection of distant homology using sequence profiles and predicted secondary structureQ39804059
Polyamines decrease Escherichia coli outer membrane permeability.Q40024336
Probing the molecular mechanism of action of co-repressor in the E. coli methionine repressor-operator complex using surface plasmon resonance (SPR).Q40392667
TOPS: an enhanced database of protein structural topologyQ40403301
Polyamines as targets for therapeutic interventionQ40437004
Predictive motifs derived from cytosine methyltransferasesQ40448394
Structure and Function of DNA MethyltransferasesQ40475987
Detecting distant homology with Meta-BASIC.Q41010576
Comparison of sequence profiles. Strategies for structural predictions using sequence informationQ41724734
Nucleotide sequence of the yeast STE14 gene, which encodes farnesylcysteine carboxyl methyltransferase, and demonstration of its essential role in a-factor exportQ41977606
Protein content of minimal and ancestral ribosomeQ42092310
Reductive cleavage of S-adenosylmethionine by biotin synthase from Escherichia coliQ42162251
Identification of a highly diverged class of S-adenosylmethionine synthetases in the archaeaQ42618280
In silico analysis of the tRNA:m1A58 methyltransferase family: homology-based fold prediction and identification of new members from Eubacteria and ArchaeaQ42662731
Sequence and structure classification of kinasesQ42679501
Role of nicotianamine in the intracellular delivery of metals and plant reproductive developmentQ44463085
Avoiding the Road Less Traveled: How the Topology of Enzyme−Substrate Complexes Can Dictate Product SelectionQ44624225
Catalytic properties of the archaeal S-adenosylmethionine decarboxylase from Methanococcus jannaschiiQ44628486
Spermine is not essential for survival of Arabidopsis.Q44714815
Distinct origins of tRNA(m1G37) methyltransferaseQ44912617
Spermidine synthase genes are essential for survival of ArabidopsisQ44973373
Salt stress enhances xylem development and expression of S-adenosyl-L-methionine synthase in lignifying tissues of tomato plants.Q45025825
Structure/function studies on a S-adenosyl-L-methionine-dependent uroporphyrinogen III C methyltransferase (SUMT), a key regulatory enzyme of tetrapyrrole biosynthesisQ45135984
Aclacinomycin 10-hydroxylase is a novel substrate-assisted hydroxylase requiring S-adenosyl-L-methionine as cofactorQ45153443
Purification, functional reconstitution, and characterization of the Saccharomyces cerevisiae isoprenylcysteine carboxylmethyltransferase Ste14pQ45195735
Physical and functional interactions between the human DNMT3L protein and members of the de novo methyltransferase family.Q45956433
Aminotransferase activity and bioinformatic analysis of 1-aminocyclopropane-1-carboxylate synthaseQ46075086
Prebiotic methylation and the evolution of methyl transfer reactions in living cellsQ47639621
Differential expression of the S-adenosyl-L-methionine synthase genes during pea developmentQ47978244
Mechanism of stimulation of catalytic activity of Dnmt3A and Dnmt3B DNA-(cytosine-C5)-methyltransferases by Dnmt3L.Q51549058
Hybrid fold recognition: combining sequence derived properties with evolutionary information.Q52076382
In vitro evolution of the DNA binding sites of Escherichia coli methionine repressor, MetJ.Q52203008
Interactions of the Escherichia coli methionine repressor with the metF operator and with its corepressor, S-adenosylmethionine.Q54776787
Methionine synthase exists in two distinct conformations that differ in reactivity toward methyltetrahydrofolate, adenosylmethionine, and flavodoxin.Q55067463
S-adenosylmethionine decarboxylase of Bacillus subtilis is closely related to archaebacterial counterpartsQ57176995
Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaeaQ57838788
Methionine Adenosyltransferase as a Useful Molecular Systematics Tool Revealed by Phylogenetic and Structural AnalysesQ58039985
Calorimetric studies of the energetics of protein-DNA interactions in the E. coli methionine repressor (MetJ) systemQ61836116
Methyl chloride transferase: a carbocation route for biosynthesis of halometabolitesQ68856323
Comparison of protein structures reveals monophyletic origin of the AdoMet-dependent methyltransferase family and mechanistic convergence rather than recent differentiation of N4-cytosine and N6-adenine DNA methylationQ74294989
COMPASS: a tool for comparison of multiple protein alignments with assessment of statistical significanceQ78840290
The SUPERFAMILY database in 2004: additions and improvementsQ33196072
Spermidine but not spermine is essential for hypusine biosynthesis and growth in Saccharomyces cerevisiae : Spermine is converted to spermidine in vivo by the FMS1 -amine oxidaseQ33713489
In vivo evidence that S-adenosylmethionine and fatty acid synthesis intermediates are the substrates for the LuxI family of autoinducer synthasesQ33730808
Evolutionary links as revealed by the structure of Thermotoga maritima S-adenosylmethionine decarboxylaseQ33978388
NAD-binding domains of dehydrogenasesQ34063017
Is quorum sensing a side effect of diffusion sensing?Q34142545
Structure prediction and phylogenetic analysis of a functionally diverse family of proteins homologous to the MT-A70 subunit of the human mRNA:m(6)A methyltransferaseQ34152368
The evolutionary history of quorum-sensing systems in bacteriaQ34304844
Structure of the Pseudomonas aeruginosa acyl-homoserinelactone synthase LasI.Q34340396
Polyamines and cancer: old molecules, new understandingQ34362757
Structural assignments to the Mycoplasma genitalium proteins show extensive gene duplications and domain rearrangementsQ34482580
Three monophyletic superfamilies account for the majority of the known glycosyltransferasesQ34648585
Structure, catalytic activity and evolutionary relationships of 1-aminocyclopropane-1-carboxylate synthase, the key enzyme of ethylene synthesis in higher plantsQ34992197
The generation of 5′-deoxyadenosyl radicals by adenosylmethionine-dependent radical enzymesQ35114411
Natural selection of more designable folds: a mechanism for thermophilic adaptationQ35170568
S-adenosylmethionine: nothing goes to wasteQ35766375
Structural characterization of the human proteome.Q35806623
Substrate-induced conformational changes in glycosyltransferasesQ36011052
Heterodimeric interactions among the 1-amino-cyclopropane-1-carboxylate synthase polypeptides encoded by the Arabidopsis gene familyQ36601491
The structure of the C-terminal domain of methionine synthase: presenting S-adenosylmethionine for reductive methylation of B12Q27733977
Profile hidden Markov modelsQ27860536
SCOP: a structural classification of proteins database for the investigation of sequences and structuresQ27860689
The PSIPRED protein structure prediction serverQ27860953
The Gcd10p/Gcd14p complex is the essential two-subunit tRNA(1-methyladenosine) methyltransferase of Saccharomyces cerevisiaeQ27935096
Identification of the yeast gene encoding the tRNA m1G methyltransferase responsible for modification at position 9.Q27935866
Novel predicted RNA-binding domains associated with the translation machineryQ27939664
Homology among (betaalpha)(8) barrels: implications for the evolution of metabolic pathwaysQ28142401
FUGUE: sequence-structure homology recognition using environment-specific substitution tables and structure-dependent gap penaltiesQ28203085
tRNA transfers to the limelightQ28203809
Redox regulation and reaction mechanism of human cystathionine-beta-synthase: a PLP-dependent hemesensor proteinQ28296829
Elucidating the pathway for arsenic methylationQ28510405
Meiotic catastrophe and retrotransposon reactivation in male germ cells lacking Dnmt3LQ28585211
Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structureQ29547343
The PredictProtein serverQ29547578
Enhanced genome annotation using structural profiles in the program 3D-PSSMQ29547847
Regulation of gene expression by cell-to-cell communication: acyl-homoserine lactone quorum sensingQ29615256
3D-Jury: a simple approach to improve protein structure predictionsQ29615989
Molecular basis of bacterial outer membrane permeability revisitedQ29616208
Histone methylation in transcriptional controlQ29616553
Many paths to methyltransfer: a chronicle of convergenceQ29616667
SAM (dependent) I AM: the S-adenosylmethionine-dependent methyltransferase foldQ29618153
CDD: a curated Entrez database of conserved domain alignmentsQ29618556
One fold with many functions: the evolutionary relationships between TIM barrel families based on their sequences, structures and functionsQ29618872
Pcons: a neural-network-based consensus predictor that improves fold recognition.Q30328734
Molecular phylogenetics of the RrmJ/fibrillarin superfamily of ribose 2'-O-methyltransferases.Q30332409
Combining local-structure, fold-recognition, and new fold methods for protein structure prediction.Q30336231
CE-MC: a multiple protein structure alignment server.Q30341980
Searching protein structure databases has come of age.Q30419948
A structural census of genomes: comparing bacterial, eukaryotic, and archaeal genomes in terms of protein structureQ30429158
SPOUT: a class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases.Q30787418
Emergence of diverse biochemical activities in evolutionarily conserved structural scaffolds of proteinsQ30883445
S-Adenosylmethionine decarboxylase from the archaeon Methanococcus jannaschii: identification of a novel family of pyruvoyl enzymesQ30959563
Provenance of SET-domain histone methyltransferases through duplication of a simple structural unit.Q30960290
The emergence of catalytic and structural diversity within the beta-clip foldQ31061756
The structure of the protein universe and genome evolutionQ31118789
Distribution of protein folds in the three superkingdoms of life.Q31917687
P433issue1
P407language of work or nameEnglishQ1860
P921main subjectstructural biologyQ908902
P304page(s)19
P577publication date2005-01-01
P1433published inBMC Structural BiologyQ2708987
P1476titleNatural history of S-adenosylmethionine-binding proteins
P478volume5

Reverse relations

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