Helicases: amino acid sequence comparisons and structure-function relationships

Current Opinion in Structural Biology

Volumn 3, Issue 3, 1993, Pages 419-429

  Gorbalenya, Alexander E ^a,c   Koonin, Eugene V ^b,c  

^a PURDUE UNIVERSITY   (United States)

^b NATIONAL INSTITUTES OF HEALTH   (United States)

^c INSTITUTE OF BIOMEDICAL CHEMISTRY   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED DNA; DOUBLE STRANDED RNA; HELICASE; NUCLEIC ACID; NUCLEOTIDE BINDING PROTEIN;

AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; CARBOXY TERMINAL SEQUENCE; COMPARATIVE STUDY; DATA BASE; ENZYME ACTIVE SITE; ENZYME STRUCTURE; ESCHERICHIA COLI; GENETIC CONSERVATION; NONHUMAN; PREDICTION; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN STRUCTURE; REVIEW; SEQUENCE HOMOLOGY; STRUCTURE ACTIVITY RELATION;

EID: 0027182114     PISSN: 0959440X     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0959-440X(05)80116-2     Document Type: Article

References (95)

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4. Helicase-Catalyzed DNA Unwinding
5. Structural and Functional Studies of the DNAB Protein Using Limited Proteolysis. Characterization of Domains for DNA-Dependent ATP Hydrolysis and for Protein Association in the Primosome
6. Transcription Termination Factor Rho Has Three Distinct Structural Domains
7. Potential Role of Proteolysis in the Control of UvrABC Incision
8. DNA and Nucleotide-Induced Conformational Changes in the Escherichia coli Rep and Helicase II (UvrD) Proteins
9. Allosteric Effects of Nucleotide Cofactors on Escherichia coli Rep Helicase-DNA Binding
10. Distantly Related Sequences in the α-and β-Subunits of ATP Synthase, Myosin, Kinases and Other ATP-Requiring Enzymes and a Common Nucleotide Binding Fold
11. Virus Proteins Containing the Purine NTP-Binding Pattern
12. Binding of Nucleotides by Proteins
13. Improved Tools for Biological Sequence Comparison
14. Basic Local Alignment Search Tool
15. A Conserved NTP-Motif in Putative Helicases
16. A New Superfamily of Replicative Proteins
17. A Novel Superfamily of Nucleoside Triphosphate Binding Motif-Containing Proteins which Are Probably Involved in Duplex Unwinding in DNA and RNA Replication and Recombination
18. Birth of the D-E-A-D Box
19. Two Related Superfamilies of Putative Helicases Involved in Replication, Recombination, Repair and Expression of DNA and RNA Genomes
20. Homologous Potyvirus and Flavivirus Proteins Belonging to a Superfamily of Helicase-Like Proteins
21. A New Superfamily of Putative NTP-Binding Domains Encoded by Genomes of Small DNA and RNA Viruses
22. Acquisition of the Human Adeno-Associated Virus Type-2 rep Gene by Human Herpesvirus Type-6
23. Organization and Evolution of Bacterial and Bacteriophage Primase-Helicase Systems
24. Expression of Minute Virus of Mice Major Nonstructural Protein in Insect Cells. Purification and Identification of ATPase and Helicase Activities
25. Transcription Termination Factor Rho Is an RNA-DNA Helicase
26. ERCC2: cDNA Cloning and Molecular Characterization of a Human Nucleotide Excision Repair Gene with High Homology to Yeast RAD3
27. The CHL1 (CTF1) Gene Product of Saccharomyces cerevisiae Is Important for Chromosome Transmission and Normal Cell Cycle Progression in G2/M
28. + Gene Required for DNA Repair and Cell Viability Is Functionally Interchangeable with the RAD3 Gene of Saccharomyces cerevisiae
29. Cloning and Characterization of the S pombe rad15 Gene a Homologue to the S cerevisiae RAD3 and Human ERCC2 Genes
30. Escherichia coli dinG Gene Encodes a Putative DNA Helicase Related to a Group of Eukaryotic Helicases Including Rad3 Protein
31. RNA Helicase: a Novel Activity Associated with a Protein Encoded by a Positive Strand RNA Virus
32. Association of DNA Helicase and Primase Activities with a Subassembly of the Herpes Simplex Virus 1 Helicase Primase Composed of the UL5 and UL52 Gene Products
33. Purification and Characterization of UL9, the Herpes Simplex Virus Type 1 Origin-Binding Protein
34. The Herpes Simplex Virus 1 Origin Binding Protein: DNA Helicase Activity
35. Bidirectional RNA Helicase Activity of Eucaryotic Translation Initiation Factors 4A and 4F
36. Characterization of the Helicase Activity of the Escherichia coli UvrAB Protein Complex
37. The RecB Subunit of the Escherichia coli RecBCD Enzyme Couples ATP Hydrolysis to DNA Unwinding
38. Photoaffinity Labeling of the RecBCD Enzyme of Escherichia coli with 8-Azidoadenosine 5′-Triphosphate
39. Alteration by Site-Specific Mutagenesis of the Conserved Lysine Residue in the Consensus ATP-Binding Sequence of the RecB Protein of Escherichia coli
40. A Mutation in the Consensus ATP-Binding Sequence of the RecD Subunit Reduces the Processivity of the RecBCD Enzyme from Escherichia coli
41. Requirement of the RNA Helicase-Like Protein PRP22 for Release of Messenger RNA from Spliceosomes
42. A New Group of Putative RNA Helicases
43. An eIF4A-Like Protein Is a Supressor of an Escherichia coli Mutant Defective in 50S Ribosomal Subunit Assembly
44. The Carboxy-Terminal Part of the NS3 Protein of the West Nile Flavivirus Can Be Isolated as a Soluble Protein after Proteolytic Cleavage and Represents an RNA-Stimulated NTPase
45. PRP16 Is an RNA-Dependent ATPase that Interacts Transiently with the Spliceosome
46. The Purified Yeast PremRNA Splicing Factor PRP2 Is an RNA-Dependent NTPase
47. Endonucleases (R) Subunits of Type-I and Type-III Restriction-Modification Enzymes Contain a Helicase-Like Domain
48. Autogenous Translation Regulation by Escherichia coli ATPase SecA May Be Mediated by an Intrinsic Helicase Activity of this Protein
49. The Yeast Nuclear Gene suv3 Affecting Mitochondrial Post-Transcriptional Processes Encodes a Putative ATP-Dependent RNA Helicase
50. The Structure and Evolution of Subtelomeric Y Repeats in Saccharomyces cerevisiae
51. An Essential Saccharomyces cerevisiae Gene Homologous to SNF2 Encodes a Helicase-Related Protein in a New Family
52. ERCC6, a Member of a Subfamily of Putative Helicases, Is Involved in Cockayne's Syndrome and Preferential Repair of Active Genes
53. Prokaryotic Members of a New Family of Putative Helicases with Similarity to Transcription Activator SNF2
54. An Expanding Family of Helicases within the ‘DEAD/H’ Superfamily
55. A Drosophila Model for Xeroderma Pigmentosum and Cockayney's Syndrome: Haywire Encodes the Fly Homolog of ERCC3, a Human Excision Repair Gene
56. Identification of Barley Stripe Mosaic Vims Genes Involved in Viral RNA Replication and Systemic Movement
57. Triple Gene Block Proteins of White Clover Mosaic Potexvirus Are Required for Transport
58. Vaccinia Virus Gene Encoding a Component of the Viral Early Transcription Factor
59. Early Transcription Factor Subunits Are Encoded by Vaccinia Virus Late Genes
60. Identification of the Point Mutations in Two Vaccinia Virus Nucleoside Triphosphate Phosphohydrolyse. I. Temperature-Sensitive Mutants and Role of this DNA-Dependent ATPase Enzyme in Virus Gene Expression
61. An NTP-Binding Motif Is the Most Conserved Sequence in a Highly Diverged Group of Proteins Involved in Positive Strand RNA Viral Replication
62. D-E-A-D Protein Family of Putative RNA Helicases
63. Mutations in the Escherichia coli UvrB ATPase Motif Compromise Excision Repair Capacity
64. Mutational Analysis of a DEAD Box RNA Helicase: the Mammalian Translation Initiation Factor eIF-4A
65. Mutation of Lysine-48 to Arginine in the Yeast RAD3 Protein Abolishes the ATPase and DNA Helicase Activities but not the Ability to Bind ATP
66. ATPase-Deficient Mutants of the Escherichia coli DNA Replication Protein PriA Are Capable of Catalyzing the Assembly of Active Primosomes
67. Alteration by Site-Specific Mutagenesis of the Conserved Lysine Residue in the ATP-Binding Consensus Sequence of the RecD Subunit of the Escherichia coli RecBCD Enzyme
68. Site-Directed Alterations in the ATP-Binding Domain of Rho Protein Affect its Activities as a Termination Factor
69. Specific Mutations of a Regulatory Site within the ATP-Binding Region of Simian Virus 40 Large T Antigen
70. The Six Conserved Helicase Motifs of the UL5 Gene Product, a Component of the Herpes Simplex Virus Type 1 Helicase-Primase, Are Important for its Function
71. The Conserved Helicase Motifs of the Herpes Simplex Virus Type1 Origin-Binding Protein UL9 Are Important for Function
72. ATP Hydrolysis by Initiation Factor 4A Is Required for Translation Initiation in Saccharomyces cerevisiae
73. Bacterial DNA Replication Initiation Factor PriA Is Related to Proteins Belonging to the ‘DEAD-Box’ Family
74. Saccharomyces cerevisiae RAD5-Encoded DNA Repair Protein Contains DNA Helicase and Zinc-Binding Sequence Motifs and Affects the Stability of Simple Repetitive Sequences in the Genome
75. Molecular Analysis of Yeast Chromosome II between CMD1 and LYS2: the Excision Repair Gene RAD 16 Located in this Region Belongs to a Novel Group of Double-Finger Proteins
76. Conserved Sequence Motifs in the Initiator Proteins for Rolling Circle DNA Replication Encoded by Diverse Replicons from Eubacteria, Eucaryotes, and Archaebacteria
77. Viral Proteases
78. Identification of Five Putative Yeast RNA Helicases
79. RhlB, a New Escherichia coli K-12 Gene with an RNA Helicase-Like Protein Sequence Motif, One of at Least Five Such Possible Genes in a Prokaryote
80. NAM7 Nuclear Gene Encodes a Novel Member of a Family of Helicases with a Zn-Ligand Motif and Is Involved in Mitochondrial Functions in Saccharomyces cerevisiae
81. Structure of r Factor: an RNA-Binding Domain and a Separate Region with Strong Similarity to Proven ATP-binding Domains
82. Pif1: a DNA Helicase in Yeast Mitochondria
83. Overexpression, Purification, and Characterization of the T4 Bacteriophage dda DNA Helicase
84. Escherichia coli RecQ Protein is a DNA Helicase
85. DNA-RNA Helicase Activity of Rad3 Protein of Saccharomyces cerevisiae
86. A New RNA Helicase Isolated from HeLa Cells that Catalytically Translocates in the 3′ to 5′ Direction
87. Vaccinia Virus Encodes Four Putative DNA and/or RNA Helicases Distantly Related to Each Other
88. Vaccinia Virus RNA Helicase: An Essential Enzyme Related to the DE-H Family of RNA-Dependent NTPases
89. Structure and Function of Simian Virus 40 Large Tumor Antigen
90. The AAV Origin Binding Protein Rep68 is an ATP-Dependent Site-Specific Endonuclease with DNA Helicase Activity
91. RuvA and RuvB Proteins of Escherichia coli Exhibit DNA Helicase Activity
92. Sequence Similarity between Cell Regulation Factors, Heart Shoock Proteins and RNA Helicases
93. Molecular Mechanism of Transcription Repair Coupling
94. DNA Repair Helicase: a Component of BTF2 (TFIIH) Basic Transcription Factor