Exoribonuclease superfamilies: Structural analysis and phylogenetic distribution

Nucleic Acids Research

Volumn 29, Issue 5, 2001, Pages 1017-1026

  Zuo, Y ^a   Deutscher, M P ^a  

^a UNIVERSITY OF MIAMI MILLER SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; EXORIBONUCLEASE;

ARTICLE; BIOCHEMISTRY; CATALYSIS; CONTROLLED STUDY; ENZYME ANALYSIS; ENZYME STRUCTURE; GENETIC ANALYSIS; NOMENCLATURE; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; PROTEIN FAMILY; PROTEIN MOTIF; RNA METABOLISM; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; STRUCTURE ANALYSIS;

BACTERIA (MICROORGANISMS);

EID: 0035283033     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/29.5.1017     Document Type: Article

References (56)

1. Exoribonucleases and their multiple roles in RNA metabolism
2. Comparative sequence analysis of ribonucleases HII, III, II, PH and D
3. The proofreading domain of Escherichia coli DNA polymerase I and other DNA and/or RNA exonuclease domains
4. RNase I, II and IV of Escherichia coli
5. Exoribonucleases in wild type Escherichia coli and RNase II-deficient mutants
6. The yvaJ gene of Bacillus subtilis encodes a 3′-to-5′ exoribonuclease and is not essential in a strain lacking polynucleotide phosphorylase
7. The exosome: A conserved eukaryotic RNA processing complex containing multiple 3′5′ exoribonucleases
8. RNA splicing in Neurospora mitochondria: Nuclear mutants defective in both splicing and 3′ end synthesis of the large rRNA
9. Mutations in the nuclear gene cyt-4 of Neurospora crassa result in pleiotropic defects in processing and splicing of mitochondrial RNAs
10. A conditional U5 snRNA mutation affecting pre-mRNA splicing and nuclear pre-mRNA retention identifies SSD1/SRK1 as a general splicing mutant suppressor
11. The yeast nuclear gene DSS1, which codes for a putative RNAse II, is necessary for the function of the mitochondrial degradosome in processing and turnover of RNA
12. Enzymatic basis for hydrolytic versus phosphorolytic mRNA degradation in Escherichia coli and Bacillus subtilis
13. The solution structure of the S1 RNA binding domain: A member of an ancient nucleic acid-binding fold
14. Ssd1p of Saccharomyces cerevisiae associates with RNA
15. A conserved 3′-5′ exonuclease active site in prokaryotic and eukaryotic DNA polymerases
16. A general two metal-ion mechanism for catalytic RNA
17. The 3′-5′ exonuclease site of DNA polymerase III from gram-positive bacteria: Definition of a novel motif structure
18. A conserved ancient domain joins the growing superfamily of 3′-5′ exonucleases
19. The human homolog of Escherichia coli orn degrades small single-stranded RNA and DNA oligomers
20. Structures of normal single-stranded DNA and deoxyribo-3′-S-phosphorothiolates bound to the 3′-5′ exonucleolytic active site of DNA polymerase I from Escherichia coli
21. Family A and family B DNA polymerases are structurally related: Evolutionary implications
22. Sequence and transcriptional analysis of the Escherichia coli rnt gene encoding RNase T
23. Structural basis for the 3′-5′ exonuclease activity of Escherichia coli DNA polymerase I: A two metal ion mechanism
24. Escherichia coli RNase D. Purification and structural characterization of a putative processing nuclease
25. 3′ exoribonucleolytic trimming is a common feature of the maturation of small, stable RNAs in Escherichia coli
26. Escherichia coli RNase D: Catalytic properties and substrate specificity
27. A nuclear 3′-5′ exonuclease involved in mRNA degradation interacts with poly(A) polymerase and the hnRNA protein Np13p
28. Purification and characterization of Escherichia coli RNase T
29. Maturation of 23S ribosomal RNA requires the exoribonuclease RNase T
30. RNase T is responsible for the end-turnover of tRNA in Escherichia coli
31. Sequence and transcriptional analysis of the Escherichia coli rnt gene encoding RNase T
32. RNase T shares conserved sequence motifs with DNA proofreading exonucleases
33. Identification of a potent DNase activity associated with RNase T of Escherichia coli
34. The DNase activity of RNase T and its application to DNA cloning
35. A novel oligoribonuclease of Escherichia coli. I. Isolation and properties
36. Oligoribonuclease is distinct from the other known exoribonucleases of Escherichia coli
37. Oligoribonuclease is an essential component of the mRNA decay pathway
38. An oligoribonuclease gene in Streptomyces griseus
39. Oligoribonuclease is encoded by a highly conserved gene in the 3′-5′ exonuclease superfamily
40. Poly(A) tail shortening by a mammalian poly(A)-specific 3′ exoribonuclease
41. The deadenylating nuclease (DAN) is involved in poly(A) tail removal during the meiotic maturation of Xenopus oocytes
42. The yeast Pan2 protein is required for poly(A)-binding protein-stimulated poly(A)-nuclease activity
43. Three conserved members of the RNase D family have unique and overlapping functions in the processing of 5S, 5.8S, U4, U5, RNase MRP and RNase P RNAs in yeast
44. Purification and characterization of the tRNA-processing enzyme RNase BN
45. Cloning and sequencing of a Bordetella pertussis serum resistance locus
46. Chloroplast mRNA 3′-end processing by a high molecular weight protein complex is regulated by nuclear encoded RNA binding proteins
47. The mechanism of preferential degradation of polyadenylated RNA in the chloroplast. The exoribonuclease 100RNP/polynucleotide phosphorylase displays high binding affinity for poly(A) sequence
48. Polynucleotide phosphorylase is a component of a novel plant poly(A) polymerase
49. The genome sequence of Drosophila melanogaster
50. The solution structure of the first KH domain of FMR1, the protein responsible for the fragile X syndrome
51. The 3′ end of yeast 5.8S rRNA is generated by an exonuclease processing mechanism
52. Regulation and intracellular localization of Saccharomyces cerevisiae strand exchange protein 1 (Sep1/Xrn1/Kem1), a multifunctional exonuclease
53. Comparison of features of the RNase activity of 5′-exonuclease-1 and 5′-exonuclease-2 of Saccharomyces cerevisiae
54. Novel features of the XRN-family in Arabidopsis: Evidence that ATXRN4, one of several orthologs of nuclear Xrn2p/Rat1p, functions in the cytoplasm
55. Mutational analysis of exoribonuclease I from Saccharomyces cerevisiae
56. Active-site mutations in the Xrn1p exoribonuclease of Saccharomyces cerevisiae reveal a specific role in meiosis