Proximity of the invariant loop of U5 snRNA to the second intron residue during pre-mRNA splicing

EMBO Journal

Volumn 20, Issue 13, 2001, Pages 3577-3586

  McConnell, T S ^a   Steitz, J A ^a  

^a YALE UNIVERSITY   (United States)

Author keywords

Azidophenacyl; Cross linking; Reconstitution; snRNP; Spliceosome

Indexed keywords

MESSENGER RNA; NUCLEOTIDE; PHOSPHATE; SMALL NUCLEAR RIBONUCLEOPROTEIN; SMALL NUCLEAR RNA;

ARTICLE; CROSS LINKING; INTRON; KINETICS; NONHUMAN; PHOTOACTIVATION; PRIORITY JOURNAL; PROTEIN RNA BINDING; RNA SPLICING; SPLICEOSOME;

ANIMALS; AZIDES; BASE SEQUENCE; CROSS-LINKING REAGENTS; ENHANCER ELEMENTS (GENETICS); GLOBINS; INTRONS; KINETICS; MAMMALS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; PLASMIDS; POLYMERASE CHAIN REACTION; RIBONUCLEASE H, CALF THYMUS; RIBONUCLEOPROTEINS, SMALL NUCLEAR; RNA PRECURSORS; RNA SPLICING; RNA, SMALL NUCLEAR; THIONUCLEOTIDES;

EID: 0035796398     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/20.13.3577     Document Type: Article

References (60)

1. The human U5-220kD protein (hPrp8) forms a stable RNA-free complex with several U5-specific proteins, including an RNA unwindase, a homologue of ribosomal elongation factor EF-2, and a novel WD-40 protein
2. The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution
3. Crystal structure of a model branchpoint-U2 snRNA duplex containing bulged adenosines
4. A tertiary interaction that links active-site domains to the 5′ splice site of a group II intron
5. Crystallography & NMR system: A new software suite for macromolecular structure determination
6. 3′-phosphatase activity in T4 polynucleotide kinase
7. Comparative photocrosslinking analysis of the tertiary structures of Escherichia coli and Bacillus subtilis RNase P RNAs
8. Evidence that U5 snRNP recognizes the 3′ splice site for catalytic step II in mammals
9. Allele-specific genetic interactions between Prp8 and RNA active site residues suggest a function for Prp8 at the catalytic core of the spliceosome
10. The question remains: Is the spliceosome a ribozyme?
11. Metals, motifs, and recognition in the crystal structure of a 5S rRNA domain
12. Mutations in the conserved loop of human U5 snRNA generate use of novel cryptic 5′ splice sites in vivo
13. Cis-acting elements distinct from the 5′ splice site promote U1-independent pre-mRNA splicing
14. Dynamic exchanges of RNA interactions leading to catalytic core formation in the U12-dependent spliceosome
15. DNA and RNA sequence determination based on phosphorothioate chemistry
16. Affinity chromatography of splicing complexes: U2, U5, and U4 + U6 small nuclear ribonucleoprotein particles in the spliceosome
17. A hammerhead ribozyme allows synthesis of a new form of the Tetrahymena ribozyme homogeneous in length with a 3′ end blocked for transesterification
18. Transactivation of group II intron splicing by nuclear U5 snRNA
19. U1 snRNP-ASF/SF2 interaction and 5′ splice site recognition: Characterization of required elements
20. Improved methods for the building of protein models in electron density maps and the location of errors in these models
21. Suppressors of a cold-sensitive mutation in yeast U4 RNA define five domains in the splicing factor prp8 that influence spliceosome activation
22. Splicing factor Prp8 governs U4/U6 RNA unwinding during activation of the spliceosome
23. The human U5-200kD DEXH-box protein unwinds U4/U6 RNA duplexes in vitro
24. Antisense probes containing 2-aminoadenosine allow efficient depletion of U5 snRNP from HeLa splicing extracts
25. Crosslinking of the U5 snRNP-specific 116-kDa protein to RNA hairpins that block step 2 of splicing
26. The human Prp8 protein is a component of both U2- and U12-dependent spliceosomes
27. A novel base-pairing interaction between U2 and U6 snRNAs suggests a mechanism for the catalytic activation of the spliceosome
28. Functional recognition of the 5′ splice site by U4/U6.U5 tri-snRNP defines a novel ATP-dependent step in early spliceosome assembly
29. Site-specific modification of pre-mRNA: The 2′-hydroxyl groups at the splice sites
30. Evidence for two active sites in the spliceosome provided by stereochemistry of pre-mRNA splicing
31. Acceptor interactions in a class II tRNA synthetase: Photoaffinity cross-linking of an RNA miniduplex substrate
32. Mutations in yeast U5 snRNA alter the specificity of 5′ splice-site cleavage
33. U5 snRNA interacts with the exon sequences at 5′ and 3′ splice sites
34. Molecular consequences of specific intron mutations on yeast mRNA splicing in vivo and in vitro
35. snRNA interactions at 5′ and 3′ splice sites monitored by photoactivated crosslinking in yeast spliceosomes
36. Functional analysis of the U5 snRNA loop 1 in the second catalytic step of yeast pre-mRNA splicing
37. The invariant U5 snRNA loop 1 sequence is dispensable for the first catalytic step of pre-mRNA splicing in yeast
38. Three recognition events at the branch-site adenine
39. RNA unwinding in U4/U6 snRNPs requires ATP hydrolysis and the DEIH-box splicing factor Brr2
40. The canonical GU dinucleotide at the 5′ splice site is recognized by p220 of the U5 snRNP within the spliceosome
41. The C-terminal region of hPrp8 interacts with the conserved GU dinucleotide at the 5′ splice site
42. In vitro reconstitution of mammalian U2 and U5 snRNPs active in splicing: Sm proteins are functionally interchangeable and are essential for the formation of functional U2 and U5 snRNPs
43. Conserved loop I of U5 small nuclear RNA is dispensable for both catalytic steps of pre-mRNA splicing in HeLa nuclear extracts
44. Functional interactions of Prp8 with both splice sites at the spliceosomal catalytic center
45. The U5 and U6 small nuclear RNAs as active site components of the spliceosome
46. Metal ion catalysis during splicing of premessenger RNA
47. Relationship between internucleotide linkage geometry and the stability of RNA
48. An RNA switch at the 5′ splice site requires ATP and the DEAD box protein Prp28p
49. A novel U2-U6 snRNA structure is necessary for mammalian mRNA splicing
50. The conformation of the sarcin/ricin loop from 28S ribosomal RNA
51. Phylogenetic conservation of modified nucleotides in the terminal loop 1 of the spliceosomal U5 snRNA
52. Pre-mRNA splicing: The discovery of a new spliceosome doubles the challenge
53. Extensive interactions of PRP8 protein with the 5′ and 3′ splice sites during splicing suggest a role in stabilization of exon alignment by U5 snRNA
54. A novel role for a U5 snRNP protein in 3′ splice site selection
55. Interactions of small nuclear RNAs with precursor messenger RNA during in vitro splicing
56. Identification of both shared and distinct proteins in the major and minor spliceosomes
57. Site-specific cross-linking of mammalian U5 snRNP to the 5′ splice site before the first step of pre-mRNA splicing
58. Functional analyses of positions across the 5′ splice site of the trypanosomatid spliced leader RNA: Implications for base-pair interaction with U5 and U6 snRNAs
59. Metal ion coordination by U6 snRNA contributes to catalysis in the spliceosome
60. A compensatory base change in U1 snRNA suppresses a 5′ splice site mutation