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Literature DB >> 9541392

Comparisons between the structures of HCV and Rep helicases reveal structural similarities between SF1 and SF2 super-families of helicases.

S Korolev¹, N Yao, T M Lohman, P C Weber, G Waksman.

Abstract

Three helicase structures have been determined recently: that of the DNA helicase PcrA, that of the hepatitis C virus RNA helicase, and that of the Escherichia coli DNA helicase Rep. PcrA and Rep belong to the same super-family of helicases (SF1) and are structurally very similar. In contrast, the HCV helicase belongs to a different super-family of helicases, SF2, and shows little sequence homology with the PcrA/Rep helicases. Yet, the HCV helicase is structurally similar to Rep/PcrA, suggesting preservation of structural scaffolds and relationships between helicase motifs across these two super-families. The comparison study presented here also reveals the existence of a new helicase motif in the SF1 family of helicases.

Entities: Gene Species

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Year: 1998 PMID： 9541392 PMCID： PMC2143965 DOI： 10.1002/pro.5560070309

Source DB: PubMed Journal: Protein Sci ISSN： 0961-8368 Impact factor: 6.725

11 in total

1. Raster3D Version 2.0. A program for photorealistic molecular graphics.

Authors: E A Merritt; M E Murphy
Journal: Acta Crystallogr D Biol Crystallogr Date: 1994-11-01

2. Improved methods for building protein models in electron density maps and the location of errors in these models.

Authors: T A Jones; J Y Zou; S W Cowan; M Kjeldgaard
Journal: Acta Crystallogr A Date: 1991-03-01 Impact factor: 2.290

3. Crystal structure of the hepatitis C virus NS3 protease domain complexed with a synthetic NS4A cofactor peptide.

Authors: J L Kim; K A Morgenstern; C Lin; T Fox; M D Dwyer; J A Landro; S P Chambers; W Markland; C A Lepre; E T O'Malley; S L Harbeson; C M Rice; M A Murcko; P R Caron; J A Thomson
Journal: Cell Date: 1996-10-18 Impact factor: 41.582

4. Structure of the hepatitis C virus RNA helicase domain.

Authors: N Yao; T Hesson; M Cable; Z Hong; A D Kwong; H V Le; P C Weber
Journal: Nat Struct Biol Date: 1997-06

5. Crystal structure of a DExx box DNA helicase.

Authors: H S Subramanya; L E Bird; J A Brannigan; D B Wigley
Journal: Nature Date: 1996-11-28 Impact factor: 49.962

6. Major domain swiveling revealed by the crystal structures of complexes of E. coli Rep helicase bound to single-stranded DNA and ADP.

Authors: S Korolev; J Hsieh; G H Gauss; T M Lohman; G Waksman
Journal: Cell Date: 1997-08-22 Impact factor: 41.582

7. Structural determinants for activation of the alpha-subunit of a heterotrimeric G protein.

Authors: D G Lambright; J P Noel; H E Hamm; P B Sigler
Journal: Nature Date: 1994-06-23 Impact factor: 49.962

Review 8. Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences.

Authors: E V Koonin; V V Dolja
Journal: Crit Rev Biochem Mol Biol Date: 1993 Impact factor: 8.250

9. Finding flexible patterns in unaligned protein sequences.

Authors: I Jonassen; J F Collins; D G Higgins
Journal: Protein Sci Date: 1995-08 Impact factor: 6.725

10. The structure of the E. coli recA protein monomer and polymer.

Authors: R M Story; I T Weber; T A Steitz
Journal: Nature Date: 1992-01-23 Impact factor: 49.962

44 in total

1. Crystallographic structure of the amino terminal domain of yeast initiation factor 4A, a representative DEAD-box RNA helicase.

Authors: E R Johnson; D B McKay
Journal: RNA Date: 1999-12 Impact factor: 4.942

10. Mtt1 is a Upf1-like helicase that interacts with the translation termination factors and whose overexpression can modulate termination efficiency.

Authors: K Czaplinski; N Majlesi; T Banerjee; S W Peltz
Journal: RNA Date: 2000-05 Impact factor: 4.942

Comparisons between the structures of HCV and Rep helicases reveal structural similarities between SF1 and SF2 super-families of helicases.

1. Raster3D Version 2.0. A program for photorealistic molecular graphics.

2. Improved methods for building protein models in electron density maps and the location of errors in these models.

3. Crystal structure of the hepatitis C virus NS3 protease domain complexed with a synthetic NS4A cofactor peptide.

4. Structure of the hepatitis C virus RNA helicase domain.

5. Crystal structure of a DExx box DNA helicase.

6. Major domain swiveling revealed by the crystal structures of complexes of E. coli Rep helicase bound to single-stranded DNA and ADP.

7. Structural determinants for activation of the alpha-subunit of a heterotrimeric G protein.

Review 8. Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences.

9. Finding flexible patterns in unaligned protein sequences.

10. The structure of the E. coli recA protein monomer and polymer.

1. Crystallographic structure of the amino terminal domain of yeast initiation factor 4A, a representative DEAD-box RNA helicase.

2. Crystal structure of a DEAD box protein from the hyperthermophile Methanococcus jannaschii.

3. Cross-talk between catalytic and regulatory elements in a DEAD motor domain is essential for SecA function.

4. Crystal structure of yeast initiation factor 4A, a DEAD-box RNA helicase.

5. The human coronavirus 229E superfamily 1 helicase has RNA and DNA duplex-unwinding activities with 5'-to-3' polarity.

6. Defining the roles of individual residues in the single-stranded DNA binding site of PcrA helicase.

Review 7. Modularity and specialization in superfamily 1 and 2 helicases.

8. Comparative genomics and evolution of proteins involved in RNA metabolism.

9. The Escherichia coli DEAD protein DbpA recognizes a small RNA hairpin in 23S rRNA.

10. Mtt1 is a Upf1-like helicase that interacts with the translation termination factors and whose overexpression can modulate termination efficiency.