Group II introns: mobile ribozymes that invade DNA.

scientific article

Group II introns: mobile ribozymes that invade DNA. is …
instance of (P31):
scholarly articleQ13442814
review articleQ7318358

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P356DOI10.1101/CSHPERSPECT.A003616
P932PMC publication ID3140690
P698PubMed publication ID20463000
P5875ResearchGate publication ID44592603

P2093author name stringSteven Zimmerly
Alan M Lambowitz
P2860cites workRNA and protein catalysis in group II intron splicing and mobility reactions using purified componentsQ78021333
DNA target site requirements for homing in vivo of a bacterial group II intron encoding a protein lacking the DNA endonuclease domainQ78862316
A DEAD protein that activates intron self-splicing without unwinding RNAQ79450362
The receptor for branch-site docking within a group II intron active siteQ80263521
A second divalent metal ion in the group II intron reaction centerQ80512184
A mutation in At-nMat1a, which encodes a nuclear gene having high similarity to group II intron maturase, causes impaired splicing of mitochondrial NAD4 transcript and altered carbon metabolism in Arabidopsis thalianaQ83169600
Group II intron protein localization and insertion sites are affected by polyphosphateQ21145870
CRS1 is a novel group II intron splicing factor that was derived from a domain of ancient origin.Q24540043
A general two-metal-ion mechanism for catalytic RNAQ24562157
Evolutionary relationships among group II intron-encoded proteins and identification of a conserved domain that may be related to maturase functionQ24628951
A complex twintron is excised as four individual intronsQ24633818
Tertiary architecture of the Oceanobacillus iheyensis group II intronQ24650825
Making ends meet: repairing breaks in bacterial DNA by non-homologous end-joiningQ25255347
A novel multifunctional factor involved in trans-splicing of chloroplast introns in ChlamydomonasQ25257126
Structural insights into group II intron catalysis and branch-site selectionQ27638009
Solution structure of domain 5 of a group II intron ribozyme reveals a new RNA motifQ27643034
Crystal Structure of a Self-Spliced Group II IntronQ27650229
Structural basis for exon recognition by a group II intronQ27652671
The splicing of yeast mitochondrial group I and group II introns requires a DEAD-box protein with RNA chaperone functionQ27932450
Involvement of DEAD-box proteins in group I and group II intron splicing. Biochemical characterization of Mss116p, ATP hydrolysis-dependent and -independent mechanisms, and general RNA chaperone activityQ27933736
Reverse transcriptase activity associated with maturase-encoding group II introns in yeast mitochondriaQ27934112
Mitochondrial splicing requires a protein from a novel helicase familyQ27938735
The DIVa Maturase Binding Site in the Yeast Group II Intron aI2 Is Essential for Intron Homing but Not for In Vivo SplicingQ27938866
Retrotransposition of a yeast group II intron occurs by reverse splicing directly into ectopic DNA sitesQ27939889
A novel base-pairing interaction between U2 and U6 snRNAs suggests a mechanism for the catalytic activation of the spliceosomeQ28201291
Group II and group III introns of twintrons: potential relationships with nuclear pre-mRNA intronsQ28249708
A single active-site region for a group II intronQ28258438
Gene targeting using zinc finger nucleasesQ28265983
Comparative and functional anatomy of group II catalytic introns—a reviewQ28272931
Reverse transcription of R2Bm RNA is primed by a nick at the chromosomal target site: A mechanism for non-LTR retrotranspositionQ28297748
Mechanism of maturase-promoted group II intron splicingQ28366346
An organellar maturase associates with multiple group II intronsQ28748480
Coevolution of group II intron RNA structures with their intron-encoded reverse transcriptasesQ28768509
Origin and evolution of retroelements based upon their reverse transcriptase sequencesQ29614742
Introns and the origin of nucleus-cytosol compartmentalizationQ29618633
The generality of self-splicing RNA: relationship to nuclear mRNA splicingQ30457101
Stereochemistry of RNA cleavage by the Tetrahymena ribozyme and evidence that the chemical step is not rate-limitingQ30457783
Group II introns as controllable gene targeting vectors for genetic manipulation of bacteriaQ30773032
Retroids in archaea: phylogeny and lateral originsQ30940021
A group II intron-encoded maturase functions preferentially in cis and requires both the reverse transcriptase and X domains to promote RNA splicingQ33203803
Group II introns break new boundaries: presence in a bilaterian's genomeQ33316053
Group II intron-based gene targeting reactions in eukaryotesQ33366500
EcI5, a group IIB intron with high retrohoming frequency: DNA target site recognition and use in gene targetingQ33401171
Multiple homing pathways used by yeast mitochondrial group II intronsQ33605483
RecA-independent ectopic transposition in vivo of a bacterial group II intronQ33825991
The age and evolution of non-LTR retrotransposable elementsQ33864837
A tertiary interaction that links active-site domains to the 5' splice site of a group II intronQ33911726
Protein-free small nuclear RNAs catalyze a two-step splicing reactionQ34018172
A catalytically active group II intron domain 5 can function in the U12-dependent spliceosomeQ34131822
Phylogenetic relationships among group II intron ORFsQ34277841
Structure and activities of group II intronsQ34296736
Evidence for two active sites in the spliceosome provided by stereochemistry of pre-mRNA splicingQ34357049
A DEAD-box protein alone promotes group II intron splicing and reverse splicing by acting as an RNA chaperoneQ34574382
Branch-point attack in group II introns is a highly reversible transesterification, providing a potential proofreading mechanism for 5'-splice site selection.Q34693499
The take and give between retrotransposable elements and their hostsQ34804306
Rules for DNA target-site recognition by a lactococcal group II intron enable retargeting of the intron to specific DNA sequencesQ35187802
A bacterial group II intron encoding reverse transcriptase, maturase, and DNA endonuclease activities: biochemical demonstration of maturase activity and insertion of new genetic information within the intronQ35195250
Insertion of group II intron retroelements after intrinsic transcriptional terminatorsQ35800281
Mobile group II intronsQ35965810
Bacterial group II introns: not just splicingQ36765046
Group II intron domain 5 facilitates a trans-splicing reactionQ36790013
Cis- and trans-splicing of group II introns in plant mitochondriaQ37002206
The recent origins of intronsQ37068347
A plant-specific RNA-binding domain revealed through analysis of chloroplast group II intron splicingQ37132718
Linear group II intron RNAs can retrohome in eukaryotes and may use nonhomologous end-joining for cDNA ligation.Q37416526
The ribozyme core of group II introns: a structure in want of partnersQ37418459
AtnMat2, a nuclear-encoded maturase required for splicing of group-II introns in Arabidopsis mitochondria.Q37426601
Genome-wide analysis of RNA-protein interactions in plantsQ37545621
Trans-splicing of organelle introns--a detour to continuous RNAsQ37567604
Chloroplast RNA metabolismQ37700597
Intron phylogeny: a new hypothesisQ37778081
On the origin of RNA splicing and intronsQ38151500
Group II intron ribozymes that cleave DNA and RNA linkages with similar efficiency, and lack contacts with substrate 2'-hydroxyl groupsQ38289601
Metal ion coordination by the AGC triad in domain 5 contributes to group II intron catalysisQ38296517
Tight binding of the 5' exon to domain I of a group II self-splicing intron requires completion of the intron active siteQ38328106
The two steps of group II intron self-splicing are mechanistically distinguishable.Q38334466
Structural features in the C-terminal region of the Sinorhizobium meliloti RmInt1 group II intron-encoded protein contribute to its maturase and intron DNA-insertion function.Q38348456
Effects of Maturase Binding and Mg2+ Concentration on Group II Intron RNA Folding Investigated by UV Cross-LinkingQ38348690
The pathway for DNA recognition and RNA integration by a group II intron retrotransposonQ38356119
Characterization of the C-terminal DNA-binding/DNA endonuclease region of a group II intron-encoded proteinQ38360036
A conserved element that stabilizes the group II intron active siteQ38569049
Do DEAD-box proteins promote group II intron splicing without unwinding RNA?Q39694970
Putative proteins related to group II intron reverse transcriptase/maturases are encoded by nuclear genes in higher plantsQ39698037
Linking the group II intron catalytic domains: tertiary contacts and structural features of domain 3.Q39705177
Comparative analysis of splicing of the complete set of chloroplast group II introns in three higher plant mutantsQ39729170
Genetic identification of potential RNA-binding regions in a group II intron-encoded reverse transcriptaseQ39773403
Group II intron mobility using nascent strands at DNA replication forks to prime reverse transcriptionQ39918422
Stereochemical selectivity of group II intron splicing, reverse splicing, and hydrolysis reactionsQ40016920
Splicing defective mutants of the COXI gene of yeast mitochondrial DNA: initial definition of the maturase domain of the group II intron aI2Q40400021
A three-dimensional perspective on exon binding by a group II self-splicing intronQ40431332
Selection of cryptic 5′ splice sites by group II intron RNAsin vitroQ40554423
Group II introns designed to insert into therapeutically relevant DNA target sites in human cellsQ40867534
Trans-splicing of pre-mRNA in plants, animals, and protistsQ40870327
The RmInt1 group II intron has two different retrohoming pathways for mobility using predominantly the nascent lagging strand at DNA replication forks for priming.Q40900573
Retrohoming: cDNA-mediated mobility of group II introns requires a catalytic RNA.Q40939387
An RNA conformational change between the two chemical steps of group II self-splicing.Q41075208
Restoration of the self-splicing activity of a defective group II intron by a small trans-acting RNA.Q41172666
Self-splicing of a group IIC intron: 5' exon recognition and alternative 5' splicing events implicate the stem-loop motif of a transcriptional terminatorQ41283911
Mutations at the lariat acceptor site allow self-splicing of a group II intron without lariat formationQ41357714
The stereochemical course of group II intron self-splicing.Q41663788
Recruitment of host functions suggests a repair pathway for late steps in group II intron retrohomingQ41854959
A conserved 3' extension in unusual group II introns is important for efficient second-step splicingQ41906230
Group II intron endonucleases use both RNA and protein subunits for recognition of specific sequences in double-stranded DNA.Q41911702
The linear form of a group II intron catalyzes efficient autocatalytic reverse splicing, establishing a potential for mobilityQ41938330
A factor related to pseudouridine synthases is required for chloroplast group II intron trans-splicing in Chlamydomonas reinhardtiiQ41962191
Unwinding by local strand separation is critical for the function of DEAD-box proteins as RNA chaperonesQ42103595
Global regulators orchestrate group II intron retromobilityQ42105024
A three-dimensional model of a group II intron RNA and its interaction with the intron-encoded reverse transcriptaseQ42157990
Domain structure and three-dimensional model of a group II intron-encoded reverse transcriptaseQ42182452
Group II introns in eubacteria and archaea: ORF-less introns and new varietiesQ42208247
Trans-splicing versatility of the Ll.LtrB group II intronQ42210927
Atomic force microscopy reveals DNA bending during group II intron ribonucleoprotein particle integration into double-stranded DNAQ42419015
Multiple physical forms of excised group II intron RNAs in wheat mitochondriaQ42523713
Group IIC intron mobility into attC sites involves a bulged DNA stem-loop motifQ42566192
A reverse transcriptase/maturase promotes splicing by binding at its own coding segment in a group II intron RNA.Q42610169
A small chloroplast RNA may be required for trans-splicing in chlamydomonas reinhardtiiQ42616116
A broadscale phylogenetic analysis of group II intron RNAs and intron-encoded reverse transcriptasesQ42632009
High-affinity binding site for a group II intron-encoded reverse transcriptase/maturase within a stem-loop structure in the intron RNA.Q42632069
The reverse-transcriptase-like proteins encoded by group II introns in the mitochondrial genome of the brown alga Pylaiella littoralis belong to two different lineages which apparently coevolved with the group II ribosyme lineagesQ42648697
A tripartite group II intron in mitochondria of an angiosperm plantQ42662376
Binding of a group II intron-encoded reverse transcriptase/maturase to its high affinity intron RNA binding site involves sequence-specific recognition and autoregulates translationQ42677867
Identification of a family of group II introns encoding LAGLIDADG ORFs typical of group I intronsQ42689247
Identification and characterization of bacterial class E group II introns.Q42689303
ORF-less and reverse-transcriptase-encoding group II introns in archaebacteria, with a pattern of homing into related group II intron ORFsQ42693768
A structural analysis of the group II intron active site and implications for the spliceosomeQ42852645
Complete genome structure of the thermophilic cyanobacterium Thermosynechococcus elongatus BP-1.Q43031212
Interaction of a group II intron ribonucleoprotein endonuclease with its DNA target site investigated by DNA footprinting and modification interferenceQ43616239
Excision of group II introns as circles.Q43711760
Integration of group II intron bI1 into a foreign RNA by reversal of the self-splicing reaction in vitroQ43954197
Transposition and exon shuffling by group II intron RNA molecules in piecesQ44733602
Assembly of an active group II intron-maturase complex by protein dimerizationQ47445196
Transcription, splicing and editing of plastid RNAs in the nonphotosynthetic plant Epifagus virginianaQ48069538
Many independent origins of trans splicing of a plant mitochondrial group II intronQ48171849
Use of computer-designed group II introns to disrupt Escherichia coli DExH/D-box protein and DNA helicase genes.Q52003938
Retrotransposition of the Ll.LtrB group II intron proceeds predominantly via reverse splicing into DNA targets.Q52946056
Excision of the Sinorhizobium meliloti group II intron RmInt1 as circles in vivo.Q53607394
Group II intron mobility in yeast mitochondria: target DNA-primed reverse transcription activity of aI1 and reverse splicing into DNA transposition sites in vitro.Q53946266
An intron-encoded protein assists RNA splicing of multiple similar introns of different bacterial genes.Q54479404
Retrotransposition strategies of the Lactococcus lactis Ll.LtrB group II intron are dictated by host identity and cellular environment.Q54488321
The DEAD-box protein PMH2 is required for efficient group II intron splicing in mitochondria of Arabidopsis thaliana.Q54705833
Retrohoming of a bacterial group II intron: mobility via complete reverse splicing, independent of homologous DNA recombinationQ56902551
Group II intron splicing in vivo by first-step hydrolysisQ56902748
Catalytic site components common to both splicing steps of a group II intronQ57909426
Group II intron mobility occurs by target DNA-primed reverse transcriptionQ64389534
New reactions catalyzed by a group II intron ribozyme with RNA and DNA substratesQ67542085
"Five easy pieces"Q68053624
Group II intron self-splicing. Alternative reaction conditions yield novel productsQ69819167
An mRNA maturase is encoded by the first intron of the mitochondrial gene for the subunit I of cytochrome oxidase in S. cerevisiaeQ70179325
Two competing pathways for self-splicing by group II introns: a quantitative analysis of in vitro reaction rates and productsQ71020719
Metal ion binding sites in a group II intron coreQ73256925
Mobility of yeast mitochondrial group II introns: engineering a new site specificity and retrohoming via full reverse splicingQ73266484
Domains 2 and 3 interact to form critical elements of the group II intron active siteQ73567987
The architectural organization and mechanistic function of group II intron structural elementsQ74782086
P433issue8
P921main subjectribozymeQ205858
P304page(s)a003616
P577publication date2011-08-01
P1433published inCold Spring Harbor Perspectives in BiologyQ3927509
P1476titleGroup II introns: mobile ribozymes that invade DNA.
P478volume3

Reverse relations

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Q48289589The Reverse Transcriptase/RNA Maturase Protein MatR Is Required for the Splicing of Various Group II Introns in Brassicaceae Mitochondria
Q27684064The Role of Mg(II) in DNA Cleavage Site Recognition in Group II Intron Ribozymes
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