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1.
Br J Cancer ; 104(4): 653-63, 2011 Feb 15.
Article in English | MEDLINE | ID: mdl-21266972

ABSTRACT

AIMS: Modulation of DNA base excision repair (BER) has the potential to enhance response to chemotherapy and improve outcomes in tumours such as melanoma and glioma. APE1, a critical protein in BER that processes potentially cytotoxic abasic sites (AP sites), is a promising new target in cancer. In the current study, we aimed to develop small molecule inhibitors of APE1 for cancer therapy. METHODS: An industry-standard high throughput virtual screening strategy was adopted. The Sybyl8.0 (Tripos, St Louis, MO, USA) molecular modelling software suite was used to build inhibitor templates. Similarity searching strategies were then applied using ROCS 2.3 (Open Eye Scientific, Santa Fe, NM, USA) to extract pharmacophorically related subsets of compounds from a chemically diverse database of 2.6 million compounds. The compounds in these subsets were subjected to docking against the active site of the APE1 model, using the genetic algorithm-based programme GOLD2.7 (CCDC, Cambridge, UK). Predicted ligand poses were ranked on the basis of several scoring functions. The top virtual hits with promising pharmaceutical properties underwent detailed in vitro analyses using fluorescence-based APE1 cleavage assays and counter screened using endonuclease IV cleavage assays, fluorescence quenching assays and radiolabelled oligonucleotide assays. Biochemical APE1 inhibitors were then subjected to detailed cytotoxicity analyses. RESULTS: Several specific APE1 inhibitors were isolated by this approach. The IC(50) for APE1 inhibition ranged between 30 nM and 50 µM. We demonstrated that APE1 inhibitors lead to accumulation of AP sites in genomic DNA and potentiated the cytotoxicity of alkylating agents in melanoma and glioma cell lines. CONCLUSIONS: Our study provides evidence that APE1 is an emerging drug target and could have therapeutic application in patients with melanoma and glioma.


Subject(s)
Brain Neoplasms/drug therapy , DNA-(Apurinic or Apyrimidinic Site) Lyase/antagonists & inhibitors , Enzyme Inhibitors/chemical synthesis , Enzyme Inhibitors/therapeutic use , Glioma/drug therapy , Melanoma/drug therapy , Brain Neoplasms/pathology , Cell Line, Tumor , Drug Discovery , Drug Evaluation, Preclinical , Enzyme Inhibitors/isolation & purification , Enzyme Inhibitors/pharmacology , Glioma/pathology , HeLa Cells , High-Throughput Screening Assays/methods , Humans , Inhibitory Concentration 50 , Melanoma/pathology , Models, Biological , Models, Molecular , Structure-Activity Relationship
2.
Cytogenet Genome Res ; 125(3): 165-75, 2009.
Article in English | MEDLINE | ID: mdl-19738377

ABSTRACT

The Bloom protein (BLM) and Topoisomerase IIIalpha are found in association with proteins of the Fanconi anemia (FA) pathway, a disorder manifesting increased cellular sensitivity to DNA crosslinking agents. In order to determine if the association reflects a functional interaction for the maintenance of genome stability, we have analyzed the effects of siRNA-mediated depletion of the proteins in human cells. Depletion of Topoisomerase IIIalpha or BLM leads to increased radial formation, as is seen in FA. BLM and Topoisomerase IIIalpha are epistatic to the FA pathway for suppression of radial formation in response to DNA interstrand crosslinks since depletion of either of them in FA cells does not increase radial formation. Depletion of Topoisomerase IIIalpha or BLM also causes an increase in sister chromatid exchanges, as is seen in Bloom syndrome cells. Human Fanconi anemia cells, however, do not demonstrate increased sister chromatid exchanges, separating this response from radial formation. Primary cell lines from mice defective in both Blm and Fancd2 have the same interstrand crosslink-induced genome instability as cells from mice deficient in the Fancd2 protein alone. These observations demonstrate that the association of BLM and Topoisomerase IIIalpha with Fanconi proteins is a functional one, delineating a BLM-Topoisomerase IIIalpha-Fanconi pathway that is critical for suppression of chromosome radial formation.


Subject(s)
DNA Topoisomerases, Type I/metabolism , DNA/metabolism , Fanconi Anemia/metabolism , RecQ Helicases/metabolism , Animals , Cell Line , Cross-Linking Reagents/pharmacology , DNA Topoisomerases, Type I/genetics , Fanconi Anemia/genetics , Genomic Instability/drug effects , Humans , Mice , Mice, Inbred C57BL , Mice, Knockout , Mitomycin/pharmacology , RNA, Small Interfering/genetics , RecQ Helicases/genetics , Sister Chromatid Exchange
3.
J Cell Biol ; 136(4): 775-88, 1997 Feb 24.
Article in English | MEDLINE | ID: mdl-9049244

ABSTRACT

We visualized DNA topoisomerases in A431 cells and isolated chromosomes by isoenzyme-selective immunofluorescence microscopy. In interphase, topoisomerase I mainly had a homogeneous nuclear distribution. 10-15% of the cells exhibited granular patterns, 30% showed bright intranucleolar patches. Topoisomerase II isoenzymes showed spotted (alpha) or reticular (beta) nuclear patterns throughout interphase. In contrast to topoisomerase IIalpha, topoisomerase IIbeta was completely excluded from nucleoli. In mitosis, topoisomerase IIbeta diffused completely into the cytosol, whereas topoisomerases I and IIalpha remained chromosome bound. Chromosomal staining of topoisomerase I was homogeneous, whereas topoisomerase IIalpha accumulated in the long axes of the chromosome arms and in the centriols. Topoisomerase antigens were 2-3-fold higher in mitosis than in interphase, but specific activities of topoisomerase I and II were reduced 5- and 2.4-fold, respectively. These changes were associated with mitotic enzyme hyperphosphorylation. In interphase, topoisomerases could be completely linked to DNA by etoposide or camptothecin, whereas in mitosis, 50% of topoisomerase IIalpha escaped poisoning. Refractoriness to etoposide could be assigned to the salt-stable scaffold fraction of topoisomerase IIalpha, which increased from <2% in G1 phase to 48% in mitosis. Topoisomerases I and IIbeta remained completely extractable throughout the cell cycle. In summary, expression of topoisomerases increases towards mitosis, but specific activities decrease. Topoisomerase IIbeta is released from the heterochromatin, whereas topoisomerase I and IIalpha remain chromosome bound. Scaffold-associated topoisomerase IIalpha appears not to be involved in catalytic DNA turnover, though it may play a role in the replicational cycle of centriols, where it accumulates during M phase.


Subject(s)
Cell Cycle/genetics , DNA Topoisomerases, Type II/metabolism , DNA Topoisomerases, Type I/metabolism , Antibody Specificity , Catalysis , Cell Line , Cell Nucleus/enzymology , Chromosomes, Human/metabolism , DNA Topoisomerases, Type I/immunology , DNA Topoisomerases, Type II/immunology , DNA Topoisomerases, Type II/physiology , Enzyme Activation , Humans , Interphase , Mitosis , Phosphorylation
4.
Curr Opin Genet Dev ; 10(1): 32-8, 2000 Feb.
Article in English | MEDLINE | ID: mdl-10679384

ABSTRACT

The RecQ family of DNA helicases includes at least three members in humans that are defective in genetic disorders associated with cancer predisposition and/or premature aging. Recent studies have shed light on the roles of RecQ helicases in suppressing 'promiscuous' genetic recombination and in ensuring accurate chromosome segregation. In particular, the biochemical properties of several family members have been characterised and functional interactions with other nuclear proteins have been defined.


Subject(s)
Adenosine Triphosphatases/physiology , Aging/metabolism , DNA Helicases/physiology , Neoplasms/enzymology , Aging/genetics , Animals , DNA Replication , Escherichia coli/genetics , Humans , Mutation , Neoplasms/genetics , RecQ Helicases , Recombination, Genetic , Yeasts/genetics
5.
Oncogene ; 25(14): 2119-23, 2006 Mar 30.
Article in English | MEDLINE | ID: mdl-16288211

ABSTRACT

A subset of DNA helicases, the RecQ family, has been found to be associated with the p53-mediated apoptotic pathway and is involved in maintaining genomic integrity. This family contains the BLM and WRN helicases, in which germline mutations are responsible for Bloom and Werner syndromes, respectively. TFIIH DNA helicases, XPB and XPD, are also components in this apoptotic pathway. We hypothesized that there may be some redundancy between helicases in their ability to complement the attenuated p53-mediated apoptotic levels seen in cells from individuals with diseases associated with these defective helicase genes. The attenuated apoptotic phenotype in Bloom syndrome cells was rescued not only by ectopic expression of BLM, but also by WRN or XPB, both 3' --> 5' helicases, but not expression of the 5' --> 3' helicase XPD. Overexpression of Sgs1, a WRN/BLM yeast homolog, corrected the reduction in BS cells only, which is consistent with Sgs1 being evolutionarily most homologous to BLM. A restoration of apoptotic levels in cells from WS, XPB or XPD patients was attained only by overexpression of the specific helicase. Our data suggest a limited redundancy in the pathways of these RecQ helicases in p53-induced apoptosis.


Subject(s)
Apoptosis/physiology , DNA Helicases/metabolism , Tumor Suppressor Protein p53/physiology , Bloom Syndrome/enzymology , Germ-Line Mutation , Humans , Werner Syndrome/enzymology
6.
Curr Biol ; 6(3): 265-7, 1996 Mar 01.
Article in English | MEDLINE | ID: mdl-8805238

ABSTRACT

The recent cloning of the gene defective in individuals with Bloom's syndrome has revealed a link between DNA helicases, genetic instability and a predisposition to cancer.


Subject(s)
Adenosine Triphosphatases/metabolism , Bloom Syndrome/enzymology , DNA Helicases/metabolism , Neoplasms/enzymology , Adenosine Triphosphatases/chemistry , Bloom Syndrome/genetics , DNA Helicases/chemistry , DNA Helicases/genetics , Genetic Predisposition to Disease , Genome , Humans , Neoplasms/genetics , RecQ Helicases , Saccharomyces cerevisiae Proteins
7.
Curr Biol ; 9(14): R518-20, 1999 Jul 15.
Article in English | MEDLINE | ID: mdl-10421567

ABSTRACT

RecQ helicases and topoisomerase III are both required for genome stability, particularly to prevent 'promiscuous' genetic recombination. A recent study demonstrates that, together, these enzymes can catalyse the interlinking of plasmid DNA, and suggests a novel mechanism for the control of recombination.


Subject(s)
Adenosine Triphosphatases/genetics , DNA Helicases/genetics , DNA Topoisomerases, Type I/genetics , Recombination, Genetic , DNA-Binding Proteins/metabolism , Escherichia coli/genetics , Genes, Fungal/genetics , Humans , Models, Genetic , Nucleic Acid Conformation , Phenotype , Plasmids/genetics , RecQ Helicases
8.
Curr Biol ; 9(11): 597-600, 1999 Jun 03.
Article in English | MEDLINE | ID: mdl-10359700

ABSTRACT

Bloom's syndrome is a recessive human genetic disorder associated with an elevated incidence of many types of cancer. The Bloom's syndrome gene product, BLM, belongs to the RecQ subfamily of DNA helicases and is required for the maintenance of genomic stability in human cells - in particular, the suppression of reciprocal exchanges between sister chromatids. We have investigated the quaternary structure of BLM using a combination of size-exclusion chromatography and electron microscopy with reference-free image processing. We found that BLM forms hexameric ring structures with an overall diameter of approximately 13 nm surrounding a central hole of approximately 3.5 nm diameter. A fourfold symmetric square form with approximately 11 nm sides and a hole of approximately 4 nm diameter was also detected, which might represent a distinct oligomeric species or a side view of the hexameric form. Chromatography studies indicated that the majority of enzymatically active BLM has an apparent molecular mass of > 700 kDa, which is consistent with an oligomeric structure for BLM. This provides the first structural analysis of an oligomeric ring helicase of eukaryotic cellular origin. These results have implications for the mechanism of action of BLM and suggest that other RecQ family helicases, including the WRN protein associated with Werner's syndrome, might also adopt ring structures.


Subject(s)
Adenosine Triphosphatases/chemistry , Adenosine Triphosphatases/ultrastructure , Bloom Syndrome/enzymology , DNA Helicases/chemistry , DNA Helicases/ultrastructure , Protein Conformation , Adenosine Triphosphatases/metabolism , DNA Helicases/metabolism , Humans , RecQ Helicases
9.
Curr Biol ; 11(2): 125-9, 2001 Jan 23.
Article in English | MEDLINE | ID: mdl-11231130

ABSTRACT

In S. cerevisiae, mutations in genes that encode telomerase components, such as the genes EST1, EST2, EST3, and TLC1, result in the loss of telomerase activity in vivo. Two telomerase-independent mechanisms can overcome the resulting senescence. Type I survival is characterized by amplification of the subtelomeric Y' elements with a short telomere repeat tract at the terminus. Type II survivors arise through the abrupt addition of long tracts of telomere repeats. Both mechanisms are dependent on RAD52 and on either RAD50 or RAD51. We show here that the telomere elongation pathway in yeast (type II) is dependent on SGS1, the yeast homolog of the gene products of Werner's (WRN) and Bloom's (BLM) syndromes. Survival in the absence of SGS1 and EST2 is dependent upon RAD52 and RAD51 but not RAD50. We propose that the RecQ family helicases are required for processing a DNA structure specific to eroding telomeres.


Subject(s)
DNA Helicases/genetics , Saccharomyces cerevisiae/genetics , Telomerase/metabolism , Telomere , Cell Survival/genetics , DNA Helicases/physiology , Mutation , RecQ Helicases , Saccharomyces cerevisiae/enzymology , Saccharomyces cerevisiae Proteins
10.
Mol Cell Biol ; 13(9): 5370-6, 1993 Sep.
Article in English | MEDLINE | ID: mdl-8355688

ABSTRACT

The DNA binding activity of the c-jun proto-oncogene product is inhibited by oxidation of a specific cysteine residue (Cys-252) in the DNA binding domain. Jun protein inactivated by oxidation of this residue can be efficiently reactivated by a factor from human cell nuclei, recently identified as a DNA repair enzyme (termed HAP1 or Ref-1). The HAP1 protein consists of a core domain, which is highly conserved in a family of prokaryotic and eukaryotic DNA repair enzymes, and a 61-amino-acid N-terminal domain absent from bacterial homologs such as Escherichia coli exonuclease III. The eukaryote-specific N-terminal domain was dispensable for the DNA repair functions of the HAP1 protein but was essential for reactivation of the DNA binding activity of oxidized Jun protein. Consistent with this finding, exonuclease III protein could not reactive Jun. A minimal 26-residue region of the N-terminal domain proximal to the core of the HAP1 enzyme was required for redox activity. By site-directed mutagenesis, cysteine 65 was identified as the redox active site in the HAP1 enzyme. In addition, it is proposed that cysteine 93 interacts with the redox active site, probably via disulfide bridge formation. It is concluded that the HAP1 protein has evolved a novel redox activation domain capable of regulating the DNA binding activity of a proto-oncogene product which is not essential for its DNA repair functions. Identification of a putative active site cysteine residue should facilitate analysis of the mechanism by which the HAP1 protein may alter the redox state of a wide range of transcription factors.


Subject(s)
DNA Repair , DNA-Binding Proteins , Fungal Proteins/metabolism , Gene Expression Regulation, Enzymologic , Proto-Oncogene Proteins c-jun/metabolism , Saccharomyces cerevisiae Proteins , Trans-Activators , Base Sequence , Cloning, Molecular , Cysteine/chemistry , DNA Mutational Analysis , Humans , Molecular Sequence Data , Oligodeoxyribonucleotides/chemistry , Oxidation-Reduction , Proto-Oncogene Mas , Structure-Activity Relationship , Transcription Factors
11.
Mol Cell Biol ; 11(2): 1009-16, 1991 Feb.
Article in English | MEDLINE | ID: mdl-1990262

ABSTRACT

The effect of ionizing radiation on the expression of two DNA-damage-inducible genes, designated gadd45 and gadd153, was examined in cultured human cells. These genes have previously been shown to be strongly and coordinately induced by UV radiation and alkylating agents in human and hamster cells. We found that the gadd45 but not the gadd153 gene is strongly induced by X rays in human cells. The level of gadd45 mRNA increased rapidly after X rays at doses as low as 2 Gy. After 20 Gy of X rays, gadd45 induction, as measured by increased amounts of mRNA, was similar to that produced by the most effective dose of the alkylating agent methyl methanesulfonate. No induction was seen after treatment of either human or hamster cells with 12-O-tetradecanoylphorbol-13-acetate, a known activator of protein kinase C (PKC). Therefore, gadd45 represents the only known mammalian X-ray-responsive gene whose induction is not mediated by PKC. However, induction was blocked by the protein kinase inhibitor H7, indicating that induction is mediated by some other kinase(s). Sequence analysis of human and hamster cDNA clones demonstrated that this gene has been highly conserved and encodes a novel 165-amino-acid polypeptide which is 96% identical in the two species. This gene was localized to the short arm of human chromosome 1 between p12 and p34. When induction in lymphoblast lines from four normal individuals was compared with that in lines from four patients with ataxia telangiectasia, induction by X rays of gadd45 mRNA was less in the cell lines from this cancer-prone radiosensitive disorder. Our results provide evidence for the existence of an X-ray stress response in human cells which is independent of PKC and which is abnormal in taxia telangiectasia.


Subject(s)
Chromosomes, Human, Pair 1 , DNA Damage , DNA/radiation effects , Genes/radiation effects , Transcription, Genetic/drug effects , Ultraviolet Rays , Amino Acid Sequence , Animals , Base Sequence , Cell Line , Cloning, Molecular , Cricetinae , DNA/genetics , DNA/isolation & purification , Dose-Response Relationship, Radiation , Humans , Hybrid Cells/cytology , Kinetics , Molecular Sequence Data , RNA, Messenger/genetics , X-Rays
12.
Mol Cell Biol ; 21(21): 7150-62, 2001 Nov.
Article in English | MEDLINE | ID: mdl-11585898

ABSTRACT

Deletion of the Saccharomyces cerevisiae TOP3 gene, encoding Top3p, leads to a slow-growth phenotype characterized by an accumulation of cells with a late S/G2 content of DNA (S. Gangloff, J. P. McDonald, C. Bendixen, L. Arthur, and R. Rothstein, Mol. Cell. Biol. 14:8391-8398, 1994). We have investigated the function of TOP3 during cell cycle progression and the molecular basis for the cell cycle delay seen in top3Delta strains. We show that top3Delta mutants exhibit a RAD24-dependent delay in the G2 phase, suggesting a possible role for Top3p in the resolution of abnormal DNA structures or DNA damage arising during S phase. Consistent with this notion, top3Delta strains are sensitive to killing by a variety of DNA-damaging agents, including UV light and the alkylating agent methyl methanesulfonate, and are partially defective in the intra-S-phase checkpoint that slows the rate of S-phase progression following exposure to DNA-damaging agents. This S-phase checkpoint defect is associated with a defect in phosphorylation of Rad53p, indicating that, in the absence of Top3p, the efficiency of sensing the existence of DNA damage or signaling to the Rad53 kinase is impaired. Consistent with a role for Top3p specifically during S phase, top3Delta mutants are sensitive to the replication inhibitor hydroxyurea, expression of the TOP3 mRNA is activated in late G1 phase, and DNA damage checkpoints operating outside of S phase are unaffected by deletion of TOP3. All of these phenotypic consequences of loss of Top3p function are at least partially suppressed by deletion of SGS1, the yeast homologue of the human Bloom's and Werner's syndrome genes. These data implicate Top3p and, by inference, Sgs1p in an S-phase-specific role in the cellular response to DNA damage. A model proposing a role for these proteins in S phase is presented.


Subject(s)
Cell Cycle Proteins , DNA Damage , DNA Topoisomerases, Type I/metabolism , DNA Topoisomerases, Type I/physiology , Protein Serine-Threonine Kinases/metabolism , S Phase , Saccharomyces cerevisiae Proteins , Saccharomyces cerevisiae/genetics , Alkylating Agents/pharmacology , Blotting, Northern , Blotting, Western , Cell Cycle , Checkpoint Kinase 2 , Dose-Response Relationship, Drug , Flow Cytometry , G2 Phase , Gene Deletion , Hydroxyurea/pharmacology , Methyl Methanesulfonate/pharmacology , Mitosis , Models, Biological , Mutation , Phenotype , Phosphorylation , Saccharomyces cerevisiae/enzymology , Time Factors , Ultraviolet Rays
13.
Nucleic Acids Res ; 29(6): 1285-92, 2001 Mar 15.
Article in English | MEDLINE | ID: mdl-11238994

ABSTRACT

The generation of reactive oxygen species in the cell provokes, among other lesions, the formation of 8-oxo-7,8-dihydroguanine (8-oxoG) in DNA. Due to mispairing with adenine during replication, 8-oxoG is highly mutagenic. To minimise the mutagenic potential of this oxidised purine, human cells have a specific 8-oxoG DNA glycosylase/AP lyase (hOGG1) that initiates the base excision repair (BER) of 8-oxoG. We show here that in vitro this first enzyme of the BER pathway is relatively inefficient because of a high affinity for the product of the reaction it catalyses (half-life of the complex is >2 h), leading to a lack of hOGG1 turnover. However, the glycosylase activity of hOGG1 is stimulated by the major human AP endonuclease, HAP1 (APE1), the enzyme that performs the subsequent step in BER, as well as by a catalytically inactive mutant (HAP1-D210N). In the presence of HAP1, the AP sites generated by the hOGG1 DNA glycosylase can be occupied by the endonuclease, avoiding the re-association of hOGG1. Moreover, the glycosylase has a higher affinity for a non-cleaved AP site than for the cleaved DNA product generated by HAP1. This would shift the equilibrium towards the free glycosylase, making it available to initiate new catalytic cycles. In contrast, HAP1 does not affect the AP lyase activity of hOGG1. This stimulation of only the hOGG1 glycosylase reaction accentuates the uncoupling of its glycosylase and AP lyase activities. These data indicate that, in the presence of HAP1, the BER of 8-oxoG residues can be highly efficient by bypassing the AP lyase activity of hOGG1 and thus excluding a potentially rate limiting step.


Subject(s)
Carbon-Oxygen Lyases/metabolism , DNA Repair , Guanine/analogs & derivatives , N-Glycosyl Hydrolases/metabolism , Amino Acid Substitution , Binding Sites , Carbon-Oxygen Lyases/genetics , DNA Damage , DNA-(Apurinic or Apyrimidinic Site) Lyase , DNA-Formamidopyrimidine Glycosylase , Deoxyribonuclease IV (Phage T4-Induced) , Guanine/chemistry , Guanine/metabolism , Humans , Kinetics , Mutation , N-Glycosyl Hydrolases/chemistry , Oligonucleotides/genetics , Oligonucleotides/metabolism , Protein Binding
14.
Nucleic Acids Res ; 29(14): 2963-72, 2001 Jul 15.
Article in English | MEDLINE | ID: mdl-11452021

ABSTRACT

In the budding yeast Saccharomyces cerevisiae the Srs2/RadH DNA helicase promotes survival after ultraviolet (UV) irradiation, and has been implicated in DNA repair, recombination and checkpoint signalling following DNA damage. A second helicase, Sgs1, is the S.cerevisiae homologue of the human BLM and WRN proteins, which are defective in cancer predisposition and/or premature ageing syndromes. Saccharomyces cerevisiae cells lacking both Srs2 and Sgs1 exhibit a severe growth defect. We have identified an Srs2 orthologue in the fission yeast Schizosaccharomyces pombe, and have investigated its role in responses to UV irradiation and inhibition of DNA replication. Deletion of fission yeast srs2 caused spontaneous hyper-recombination and UV sensitivity, and simultaneous deletion of the SGS1 homologue rqh1 caused a severe growth defect reminiscent of that seen in the equivalent S.cerevisiae mutant. However, unlike in budding yeast, inactivation of the homologous recombination pathway did not suppress this growth defect. Indeed, the homologous recombination pathway was required for maintenance of normal fission yeast viability in the absence of Srs2, and loss of homologous recombination and loss of Srs2 contributed additively to UV sensitivity. We conclude that Srs2 plays related, but not identical, roles in the two yeast species.


Subject(s)
DNA Damage , DNA Helicases/metabolism , DNA-Binding Proteins , Saccharomyces cerevisiae Proteins , Schizosaccharomyces pombe Proteins , Schizosaccharomyces/genetics , Amino Acid Sequence , Cell Division/drug effects , Cell Division/genetics , Cell Division/radiation effects , DNA Helicases/genetics , DNA Repair , DNA Topoisomerases, Type I/genetics , Fungal Proteins/genetics , Gene Deletion , Gene Expression Regulation, Enzymologic , Gene Expression Regulation, Fungal , Genes, Lethal , Hydroxyurea/pharmacology , Molecular Sequence Data , Phenotype , Rad51 Recombinase , Recombination, Genetic , Schizosaccharomyces/enzymology , Sequence Homology, Amino Acid , Ultraviolet Rays
15.
Nucleic Acids Res ; 27(20): 4050-8, 1999 Oct 15.
Article in English | MEDLINE | ID: mdl-10497270

ABSTRACT

Topoisomerases catalyse changes in the topological state of DNA and are required for many aspects of DNA metabolism. While the functions of topoisomerases I and II in eukaryotes are well established, the role of topoisomerase III remains poorly defined. We have identified a gene in the fission yeast Schizosaccharomyces pombe, designated top3 (+), which shows significant sequence similarity to genes encoding topoisomerase III enzymes in other eukaryotic species. In common with murine TOP3 alpha, but in contrast to Saccharomyces cerevisiae TOP3, the S.pombe top3 (+)gene is essential for long-term cell viability. Fission yeast haploid spores containing a disrupted top3 (+)gene germinate successfully, but then undergo only a limited number of cell divisions. Analysis of these top3 mutants revealed evidence of aberrant mitotic chromosome segregation, including the 'cut' phenotype, where septation is completed prior to nuclear division. Consistent with the existence of an intimate association (originally identified in S.cerevisiae ) between topoisomerase III and DNA helicases of the RecQ family, deletion of the rqh1 (+)gene encoding the only known RecQ helicase in S.pombe suppresses lethality in top3 mutants. This conservation of genetic interaction between two widely diverged yeasts suggests that the RecQ family helicases encoded by the Bloom's and Werner's syndrome genes are likely to act in concert with topoisomerase III isozymes in human cells. Our data are consistent with a model in which the association of a RecQ helicase and topoisomerase III is important for facilitating decatenation of late stage replicons to permit faithful chromosome segregation during anaphase.


Subject(s)
Cell Nucleus/physiology , DNA Topoisomerases, Type I/physiology , Schizosaccharomyces/enzymology , Amino Acid Sequence , Cell Division , Cloning, Molecular , DNA Damage , DNA Topoisomerases, Type I/genetics , Humans , Molecular Sequence Data , Phenotype , Saccharomyces cerevisiae , Schizosaccharomyces/physiology , Sequence Alignment
16.
Nucleic Acids Res ; 28(11): 2207-13, 2000 Jun 01.
Article in English | MEDLINE | ID: mdl-10871340

ABSTRACT

HAP1, also known as APE/Ref-1, is the major apurinic/apyrimidinic (AP) endonuclease in human cells. Previous structural studies have suggested a possible role for the Asp-210 residue of HAP1 in the enzymatic function of this enzyme. Here, we demonstrate that substitution of Asp-210 by Asn or Ala eliminates the AP endonuclease activity of HAP1, while substitution by Glu reduces specific activity approximately 500-fold. Nevertheless, these mutant proteins still bind efficiently to oligonucleotides containing either AP sites or the chemically unrelated bulky p-benzoquinone (pBQ) derivatives of dC, dA and dG, all of which are substrates for HAP1. These results indicate that Asp-210 is required for catalysis, but not substrate recognition, consistent with enzyme kinetic data indicating that the HAP1-D210E protein has a 3000-fold reduced K(cat )for AP site cleavage, but an unchanged K(m). Through analysis of the binding of Asp-210 substitution mutants to oligonucleotides containing either an AP site or a pBQ adduct, we conclude that the absence of Asp-210 allows the formation of a stable HAP1-substrate complex that exists only transiently during the catalytic cycle of wild-type HAP1 protein. We interpret these data in the context of the structure of the HAP1 active site and the recently determined co-crystal structure of HAP1 bound to DNA substrates.


Subject(s)
Carbon-Oxygen Lyases/genetics , DNA-(Apurinic or Apyrimidinic Site) Lyase , Benzoquinones/metabolism , Binding Sites , Carbon-Oxygen Lyases/chemistry , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Escherichia coli , Humans , Hydrogen Bonding , Kinetics , Models, Molecular , Mutation , Oligodeoxyribonucleotides/metabolism , Protein Structure, Secondary , Substrate Specificity
17.
Nucleic Acids Res ; 29(13): 2843-9, 2001 Jul 01.
Article in English | MEDLINE | ID: mdl-11433031

ABSTRACT

BLM and WRN, the products of the Bloom's and Werner's syndrome genes, are members of the RecQ family of DNA helicases. Although both have been shown previously to unwind simple, partial duplex DNA substrates with 3'-->5' polarity, little is known about the structural features of DNA that determine the substrate specificities of these enzymes. We have compared the substrate specificities of the BLM and WRN proteins using a variety of partial duplex DNA molecules, which are based upon a common core nucleotide sequence. We show that neither BLM nor WRN is capable of unwinding duplex DNA from a blunt-ended terminus or from an internal nick. However, both enzymes efficiently unwind the same blunt-ended duplex containing a centrally located 12 nt single-stranded 'bubble', as well as a synthetic X-structure (a model for the Holliday junction recombination intermediate) in which each 'arm' of the 4-way junction is blunt-ended. Surprisingly, a 3'-tailed duplex, a standard substrate for 3'-->5' helicases, is unwound much less efficiently by BLM and WRN than are the bubble and X-structure substrates. These data show conclusively that a single-stranded 3'-tail is not a structural requirement for unwinding of standard B-form DNA by these helicases. BLM and WRN also both unwind a variety of different forms of G-quadruplex DNA, a structure that can form at guanine-rich sequences present at several genomic loci. Our data indicate that BLM and WRN are atypical helicases that are highly DNA structure specific and have similar substrate specificities. We interpret these data in the light of the genomic instability and hyper-recombination characteristics of cells from individuals with Bloom's or Werner's syndrome.


Subject(s)
Bloom Syndrome/enzymology , DNA Helicases/metabolism , DNA/chemistry , DNA/metabolism , Nucleic Acid Conformation , Werner Syndrome/enzymology , Base Sequence , Bloom Syndrome/genetics , Crossing Over, Genetic/genetics , DNA/genetics , DNA Helicases/genetics , Humans , Oligodeoxyribonucleotides/chemistry , Oligodeoxyribonucleotides/genetics , Oligodeoxyribonucleotides/metabolism , Substrate Specificity , Werner Syndrome/genetics
18.
Nucleic Acids Res ; 28(12): 2420-30, 2000 Jun 15.
Article in English | MEDLINE | ID: mdl-10871376

ABSTRACT

Maintenance of genomic integrity is vital to all organisms. A number of human genetic disorders, including Werner Syndrome, Bloom Syndrome and Rothmund-Thomson Syndrome, exhibit genomic instability with some phenotypic characteristics of premature aging and cancer predisposition. Presumably the aberrant cellular and clinical phenotypes in these disorders arise from defects in important DNA metabolic pathways such as replication, recombination or repair. These syndromes are all characterized by defects in a member of the RecQ family of DNA helicases. To obtain a better understanding of how these enzymes function in DNA metabolic pathways that directly influence chromosomal integrity, we have examined the effects of non-covalent DNA modifications on the catalytic activities of purified Werner (WRN) and Bloom (BLM) DNA helicases. A panel of DNA-binding ligands displaying unique properties for interacting with double helical DNA was tested for their effects on the unwinding activity of WRN and BLM helicases on a partial duplex DNA substrate. The levels of inhibition by a number of these compounds were distinct from previously reported values for viral, prokaryotic and eukaryotic helicases. The results demonstrate that BLM and WRN proteins exhibit similar sensitivity profiles to these DNA-binding ligands and are most potently inhibited by the structurally related minor groove binders distamycin A and netropsin (K(i)

Subject(s)
Adenosine Triphosphatases/antagonists & inhibitors , DNA Helicases/antagonists & inhibitors , Enzyme Inhibitors/pharmacology , Intercalating Agents/pharmacology , Adenosine Triphosphatases/chemistry , Bloom Syndrome/enzymology , DNA Helicases/chemistry , Distamycins/pharmacology , Enzyme Inhibitors/chemistry , Exodeoxyribonucleases , Humans , Intercalating Agents/chemistry , Kinetics , Ligands , Netropsin/pharmacology , RecQ Helicases , Recombinant Proteins/antagonists & inhibitors , Topoisomerase I Inhibitors , Werner Syndrome/enzymology , Werner Syndrome Helicase
19.
Nucleic Acids Res ; 29(21): 4378-86, 2001 Nov 01.
Article in English | MEDLINE | ID: mdl-11691925

ABSTRACT

Bloom's syndrome (BS) is a rare genetic disorder characterised by genomic instability and cancer susceptibility. BLM, the gene mutated in BS, encodes a member of the RecQ family of DNA helicases. Here, we identify hMLH1, which is involved in mismatch repair (MMR) and recombination, as a protein that directly interacts with BLM both in vivo and in vitro, and that the two proteins co-localise to discrete nuclear foci. The interaction between BLM and hMLH1 appears to have been evolutionarily conserved, as Sgs1p, the Saccharomyces cerevisiae homologue of BLM, interacts with yeast Mlh1p. However, cell extracts derived from BS patients show no obvious defects in MMR compared to wild-type- and BLM-complemented BS cell extracts. We conclude that the hMLH1-BLM interaction is not essential for post-replicative MMR, but, more likely, is required for some aspect of genetic recombination.


Subject(s)
Adenosine Triphosphatases/metabolism , Base Pair Mismatch , Bloom Syndrome , DNA Helicases/metabolism , DNA Repair , Neoplasm Proteins/metabolism , Protein Interaction Mapping , Adaptor Proteins, Signal Transducing , Adenosine Triphosphatases/chemistry , Adenosine Triphosphatases/genetics , Blotting, Far-Western , Carrier Proteins , Cell Line , Cell Nucleus/metabolism , Conserved Sequence , DNA Helicases/chemistry , DNA Helicases/genetics , Fungal Proteins/genetics , Fungal Proteins/metabolism , Humans , MutL Protein Homolog 1 , Mutation/genetics , Neoplasm Proteins/chemistry , Neoplasm Proteins/genetics , Nuclear Proteins/metabolism , Precipitin Tests , Protein Binding , Protein Structure, Tertiary , Protein Transport , RecQ Helicases , Recombination, Genetic , Saccharomyces cerevisiae/genetics , Saccharomyces cerevisiae/metabolism , Saccharomyces cerevisiae Proteins/genetics , Saccharomyces cerevisiae Proteins/metabolism , Two-Hybrid System Techniques
20.
Nucleic Acids Res ; 29(15): 3172-80, 2001 Aug 01.
Article in English | MEDLINE | ID: mdl-11470874

ABSTRACT

In higher eukaryotes, the integration of signals triggered in response to certain types of stress can result in programmed cell death. Central to these events is the sequential activation of a cascade of proteinases known as caspases. The final activated effector caspases of this cascade digest a number of cellular proteins, in some cases increasing their enzymatic activity, in others destroying their function. Of the proteins shown to be targets for caspase-mediated proteolysis, a surprisingly large proportion are proteins involved in the signalling or repair of DNA damage. Here we investigate whether BLM, the product of the gene mutated in Bloom's syndrome, a human autosomal disease characterised by cancer predisposition and sunlight sensitivity, is cleaved during apoptosis. BLM interacts with topoisomerase IIIalpha and has been proposed to play an important role in maintaining genomic integrity through its roles in DNA repair and replication. We show that BLM is cleaved during apoptosis by caspase-3 and reveal that the main cleavage site is located at the junction between the N-terminal and central helicase domains of BLM. Proteolytic cleavage by caspase-3 produces a 120 kDa fragment, which contains the intact helicase domain and three smaller fragments, the relative amounts of which depend on time of incubation with caspase-3. The 120 kDa fragment retains the helicase activity of the intact BLM protein. However, its interaction with topoisomerase IIIalpha is severely impaired. Since the BLM-topoisomerase interaction is believed to be necessary for many of the replication and recombination functions of BLM, we suggest that caspase-3 cleavage of BLM could alter the localisation and/or function of BLM and that these changes may be important in the process of apoptosis.


Subject(s)
Adenosine Triphosphatases/metabolism , Apoptosis , Caspases/metabolism , DNA Helicases/metabolism , DNA Topoisomerases, Type I/metabolism , Adenosine Triphosphatases/chemistry , Apoptosis/drug effects , Bloom Syndrome/enzymology , Caspase 3 , Cycloheximide/pharmacology , DNA Helicases/chemistry , Etoposide/pharmacology , HL-60 Cells , HeLa Cells , Humans , Models, Biological , Molecular Weight , Protein Binding , Protein Processing, Post-Translational/drug effects , Protein Structure, Tertiary , RecQ Helicases , Tumor Necrosis Factor-alpha/pharmacology
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