Mapping divalent metal ion binding sites in a group II intron by Mn2+- and Zn2+-induced site-specific RNA cleavage

European Journal of Biochemistry

Volumn 268, Issue 17, 2001, Pages 4610-4620

  Hertweck, Maren ^a   Mueller, Manfred W ^a,b  

^a Vienna Biocenter   (Austria)

^b VBC Genomics Bioscience Research GmbH   (Austria)

Author keywords

Branching A; Catalysis; Mn2+ Zn2+ structure stabilization

Indexed keywords

MANGANESE; RNA; ZINC ION;

ARTICLE; ASSAY; BINDING SITE; CATALYSIS; EXON; INTRON; PLASMID; POINT MUTATION; PRIORITY JOURNAL; RNA CLEAVAGE; RNA SPLICING; RNA STRUCTURE;

BINDING SITES; CATIONS, DIVALENT; INTRONS; MANGANESE; NUCLEIC ACID CONFORMATION; RNA; RNA SPLICE SITES; RNA SPLICING; RNA STABILITY; SACCHAROMYCES CEREVISIAE; ZINC;

EID: 0035726222     PISSN: 00142956     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1432-1327.2001.02389.x     Document Type: Article

References (52)

1. Structure and activities of group II introns
2. Self-splicing of group II introns in vitro: Lariat formation and 3′ splice site selection in mutant RNAs
3. Comparative and functional anatomy of group II catalytic introns - A review
4. Self-splicing of group I introns
5. Ribozymes: A distinct class of metalloenzymes
6. Divalent metal ions in RNA folding and catalysis
7. Chemical reactions of polynucleotides and nucleic acids
8. Specific cleavage of pure tRNAs by plumbous ions
9. Phe - Implications for lead toxicity and self-splicing RNA
10. Lead ion binding and RNA chain hydrolysis in phenylalanine tRNA
11. Crystallographic and biochemical investigation of the lead(II)-catalyzed hydrolysis of yeast phenylalanine tRNA
12. Divalent metal ion binding to a conserved wobble pair defining the upstream site of cleavage of group I self-splicing introns
13. Patterns of cleavages induced by lead ions in defined RNA secondary structure motifs
14. The environment of two metal ions surrounding the splice site of group I intron
15. Three-dimensional structure of a hammerhead ribozyme
16. The crystal structure of an all-RNA hammerhead ribozyme: A proposed mechanism for RNA catalytic cleavage
17. Identification and characterisation of a novel high affinity metal-binding site in the hammerhead ribozyme
18. Helix P4 is a divalent metal ion binding site in the conserved core of the ribonuclease P ribozyme
19. Use of lead (II) to probe the structure of large RNA's. Conformation of the 3′ terminal domain of E. coli 16S rRNA and its involvement in building the tRNA binding sites
20. Lead-catalysed specific cleavage of ribosomal RNAs
21. Metal ion probing of rRNAs: Evidence for evolutionarily conserved divalent cation binding pockets
22. Three-dimensional model of Escherichia coli ribosomal 5S RNA as deduced from structure probing in solution and computer modelling
23. Two competing pathways for self-splicing by group II introns: A quantitative analysis of in vitro reaction rates and products
24. 2+-induced hydrolysis
25. Structure of 4.5S RNA in the signal recognition particle of Escherichia coli as studied by enzymatic and chemical probing
26. Probing the structure of the Escherichia coli 10Sa RNA (tmRNA)
27. Site-specific cleavage by metal ion cofactors and inhibition of M1 RNA, the catalytic subunit of RNase P from Escherichia coli
28. Lead-catalyzed cleavage of ribonuclease P RNA as a probe for integrity of tertiary structure
29. Lead ion-induced cleavage of RNase P RNA
30. Metal ion binding sites in a group II intron core
31. Reverse self-splicing of group II intron RNAs in vitro
32. Trans-activation of group II intron splicing by nuclear U5 snRNA
33. Transposition and exon shuffling by group II intron RNA molecules in pieces
34. Efficient trans-splicing of a yeast mitochondrial RNA group II intron implicates a strong 5′-exon-intron interaction
35. The two steps of group II intron self-splicing are mechanistically distinguishable
36. Splice site selection and role of the lariat in a group II intron
37. Conversion of a group II intron into a new multiple-turnover ribozyme that selectively cleaves oligonucleotides: Elucidation of reaction mechanism and structure/function relationship
38. Lead cleavage sites in the core structure of group I intron RNA
39. Solution structure of selenocysteine - Inserting tRNA (Sec) from Escherichia coli. Comparison with canonical tRNA (Sec)
40. Exceptionally stable nucleic acid hairpins
41. Base-pairing interactions involving the 5′- and 3′-terminal nucleotides of group II introns
42. Restoration of the self-splicing activity of a defective group II intron by a small trans-acting RNA
43. The phylogenetically predicted base-pairing interaction between α and α′ is required for group II splicing in vitro
44. Stereochemical selectivity of group II intron splicing, reverse splicing, and hydrolysis reactions
45. An RNA conformational change between the two chemical steps of group II self-splicing
46. A three-dimensional perspective on exon binding by a group II self-splicing intron
47. Ribozyme catalysis from the major groove of group II intron domain 5
48. Tight binding of the 5′ exon to domain I of a group II self-splicing intron requires completion of the intron active site
49. Determination of functional domains in intron bI1 of yeast mitochondrial RNA by studies of mitochondrial mutations and a nuclear suppressor
50. Identification of splicing signals in introns of yeast mitochondrial split genes: Mutational alterations in intron bI1 and secondary structures in related introns
51. Photocrosslinking of 4-thio uracil-containing RNAs supports a side-by-side arrangement of domains 5 and 6 of a group II intron
52. Unexpected metal ion requirements specific for catalysis of the branching reaction in a group II intron