Research Topics
| Zvi KelmanSummaryAffiliation: University of Maryland Country: USA Publications
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Publications
Interactions between the archaeal Cdc6 and MCM proteins modulate their biochemical propertiesRajesh Kasiviswanathan
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Nucleic Acids Res 33:4940-50. 2005..The results also suggest that MCM and DNA may compete for Cdc6-1 protein binding. The implications of these observations for the initiation of archaeal DNA replication are discussed...
Multiple origins of replication in archaeaLori M Kelman
Montgomery College, 20200 Observation Drive, Germantown, MD 20876, USA
Trends Microbiol 12:399-401. 2004..solfataricus and Sulfolobus acidocaldarius have three functional origins. These are the first reports of archaea having multiple origins. This finding has implications for research on the mechanisms of DNA replication and evolution...- Archeal DNA replication: eukaryal proteins in a bacterial contextBeatrice Grabowski
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, Maryland 20850, USA
Annu Rev Microbiol 57:487-516. 2003..In this review the current knowledge of the mechanisms governing DNA replication in archaea is summarized and the similarities and differences of those of bacteria and eukarya are highlighted... - Archaeal DNA replication and repairZvi Kelman
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Curr Opin Microbiol 8:669-76. 2005..Recent biochemical and structural studies of the proteins that participate in archaeal DNA replication and repair have increased our understanding of these processes... - Archaea: an archetype for replication initiation studies?Lori M Kelman
Montgomery College, 20200 Observation Drive, Germantown, MD 20876, USA
Mol Microbiol 48:605-15. 2003..The similarities and differences of the initiation process in archea, bacteria and eukarya are also summarized... - Archaeal minichromosome maintenance (MCM) helicase can unwind DNA bound by archaeal histones and transcription factorsJae Ho Shin
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
J Biol Chem 282:4908-15. 2007..In contrast, the minichromosome maintenance helicase was unable to unwind DNA bound by this archaeal RNA polymerase in a stalled transcript-elongating complex... 
Thermococcus kodakarensis encodes three MCM homologs but only one is essentialMiao Pan
Institute for Bioscience and Biotechnology Research, University of Maryland, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Nucleic Acids Res 39:9671-80. 2011..kodakarensis. The origins and possible function(s) of the three MCM proteins are discussed...- DNA binding by the Methanothermobacter thermautotrophicus Cdc6 protein is inhibited by the minichromosome maintenance helicaseRajesh Kasiviswanathan
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
J Bacteriol 188:4577-80. 2006..Using minichromosome maintenance (MCM) helicase mutant proteins unable to bind DNA, it was found that the interaction of MCM with Cdc6 inhibits the DNA binding activity of Cdc6... - Unwinding the structure and function of the archaeal MCM helicaseNozomi Sakakibara
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, Rockville, MD 20850, USA
Mol Microbiol 72:286-96. 2009..This review summarizes recent studies on the archaeal MCM protein and discusses the implications for helicase function and DNA replication in archaea... - Novel structure and nucleotide binding properties of HI1480 from Haemophilus influenzae: a protein with no known sequence homologuesKap Lim
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
Proteins 56:564-71. 2004..Gel mobility shift assays revealed that HI1480 binds DNA and RNA molecules. Double-stranded DNA is favored over single-stranded DNA, and longer DNA molecules are bound better than shorter ones... 
ATP hydrolysis and DNA binding confer thermostability on the MCM helicaseNozomi Sakakibara
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, Rockville, Maryland 20850, USA
Biochemistry 48:2330-9. 2009..Thus, the results suggest that ATP hydrolysis proceeds through a transition state that decouples an interaction between the N-terminal DNA binding domain and the C-terminal catalytic domain in the presence of DNA...- Coupling of DNA binding and helicase activity is mediated by a conserved loop in the MCM proteinNozomi Sakakibara
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Nucleic Acids Res 36:1309-20. 2008..Since similar residues are also conserved in the eukaryotic MCM proteins, the data presented here suggest a similar coupling between the N-terminal and catalytic domain of the eukaryotic enzyme... - DNA unwinding assay using streptavidin-bound oligonucleotidesJae Ho Shin
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
BMC Mol Biol 7:43. 2006..The directionality of helicases with low activity or of those that cannot initiate duplex unwinding from a substrate that contains only one single-stranded overhang region is difficult to determine... - A novel DNA nuclease is stimulated by association with the GINS complexZhuo Li
Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Nucleic Acids Res 39:6114-23. 2011..This novel archaeal nuclease, designated GINS-associated nuclease (GAN), also forms a complex in vivo with the euryarchaeal-specific DNA polymerase D. Roles for GAN in replisome assembly and DNA replication are discussed... - How is the archaeal MCM helicase assembled at the origin? Possible mechanismsNozomi Sakakibara
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Biochem Soc Trans 37:7-11. 2009..Although much is known about the biochemical properties of the MCM helicase, the mechanism of assembly at the origin of replication is unknown. In the present paper, several possible mechanisms for the loading process are described... - Different residues on the surface of the Methanothermobacter thermautotrophicus MCM helicase interact with single- and double-stranded DNANozomi Sakakibara
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, MD 20850, USA
Archaea 2010:505693. 2010..Other mutants exhibit the opposite effect. Thus, the data suggest that these conserved surface residues may participate in MCM-DNA interactions... - The replicative helicases of bacteria, archaea, and eukarya can unwind RNA-DNA hybrid substratesJae-Ho Shin
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, Rockville, Maryland 20850, USA
J Biol Chem 281:26914-21. 2006..Thus, the results presented here may suggest a new role for the replicative helicases during chromosomal replication or in other cellular processes... - Crystal structures of two active proliferating cell nuclear antigens (PCNAs) encoded by Thermococcus kodakaraensisJane E Ladner
National Institute of Standards and Technology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 108:2711-6. 2011..The possible implications of these observations for PCNA functions are discussed... - The archaeal PCNA proteinsMiao Pan
Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Biochem Soc Trans 39:20-4. 2011..The PCNA protein interacts with a large number of cellular factors and modulates their enzymatic activities. In the present paper, we summarize the structures, functions and interactions of the archaeal PCNA proteins... - Mutational analysis of conserved aspartic acid residues in the Methanothermobacter thermautotrophicus MCM helicaseNozomi Sakakibara
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Extremophiles 15:245-52. 2011..Further investigation of the DNA binding revealed that the presence of ATP rescues the DNA binding deficiencies by these mutant proteins. Possible roles of these conserved residues in MCM function are discussed... - Biochemical characterization of the Methanothermobacter thermautotrophicus minichromosome maintenance (MCM) helicase N-terminal domainsRajesh Kasiviswanathan
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, 9600 Gudelsky Drive, Rockville, MD 20850, USA
J Biol Chem 279:28358-66. 2004..It is also shown that although oligomerization is not essential for single-stranded DNA binding and ATPase activity, the presence of domain C is essential for helicase activity... - Regulation of minichromosome maintenance helicase activity by Cdc6Jae-Ho Shin
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, Rockville, Maryland 20850, USA
J Biol Chem 278:38059-67. 2003..Analysis of Cdc6 and MCM homologues from several archaea exhibited differences in the inhibitory activity suggesting divergence in function in Cdc6 and MCM homologues among the archaea... - Use of a restriction enzyme-digested PCR product as substrate for helicase assaysJae-Ho Shin
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology 9600 Gudelsky Drive, Rockville, MD 20850, USA
Nucleic Acids Res 33:e8. 2005..Here, a PCR-based method to generate a substrate for a helicase assay is described, and its application for several archaeal, bacterial and viral enzymes is demonstrated... - Substrate requirements for duplex DNA translocation by the eukaryal and archaeal minichromosome maintenance helicasesJae-Ho Shin
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, Rockville, Maryland 20850 USA
J Biol Chem 278:49053-62. 2003..The possible roles of dsDNA translocation by the MCM proteins during the initiation and elongation phases of chromosomal replication are discussed... - Structures of p63 DNA binding domain in complexes with half-site and with spacer-containing full response elementsChen Chen
William Myron Keck Laboratory for Structural Biology, Institute for Bioscience and Biotechnology Research, University of Maryland, Rockville, MD 20850, USA
Proc Natl Acad Sci U S A 108:6456-61. 2011..Analyses of the structural consequences of p63DBD mutations that cause developmental defects show that, although some mutations affect DNA binding directly, the majority affects protein stability... - The diverse spectrum of sliding clamp interacting proteinsJonathan B Vivona
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
FEBS Lett 546:167-72. 2003..In the last several years a large number of such proteins have been identified and studied. Here the various proteins that have been shown to interact with the sliding clamps of Bacteria, Archaea and Eukarya are summarized... - A nuclear magnetic resonance based approach to accurate functional annotation of putative enzymes in the methanogen Methanosarcina acetivoransYihong Chen
Institute for Bioscience and Biotechnology Research, University of Maryland, 9600 Gudelsky Drive, Rockville, MD 20850, USA
BMC Genomics 12:S7. 2011..Here, we describe the use of nuclear magnetic resonance (NMR)-based ligand screening as a tool for testing functional assignments of putative enzymes that may be of variable reliability... - Cloning, Purification, and Partial Characterization of the Halobacterium sp. NRC-1 Minichromosome Maintenance (MCM) HelicaseNozomi Sakakibara
University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, 9600 Gudelsky Drive, Rockville, MD 20850, USA
Open Microbiol J 2:13-7. 2008..The antibodies were used to demonstrate that in vivo only the processed enzyme, without the intein, could be detected... - Crystal structure of YbaB from Haemophilus influenzae (HI0442), a protein of unknown function coexpressed with the recombinational DNA repair protein RecRKap Lim
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
Proteins 50:375-9. 2003 - The HI0073/HI0074 protein pair from Haemophilus influenzae is a member of a new nucleotidyltransferase family: structure, sequence analyses, and solution studiesChristopher Lehmann
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
Proteins 50:249-60. 2003..Double- and single-stranded DNA binding assays showed no evidence of DNA binding to HI0074 or to HI0073/HI0074 complex despite the suggestive shape of the putative binding cleft formed by the HI0074 dimer... - Archaeal MCM has separable processivity, substrate choice and helicase domainsElizabeth R Barry
MRC Cancer Cell Unit, Hutchison MRC Research Centre, Hills Road, Cambridge, CB2 2XZ, UK
Nucleic Acids Res 35:988-98. 2007..These results provide the first evidence for extensive regulatory inter-domain communication within the MCM complex... - Thermoplasma acidophilum Cdc6 protein stimulates MCM helicase activity by regulating its ATPase activityGyri Teien Haugland
Department of Biology, University of Bergen, N 5020 Bergen, Norway
Nucleic Acids Res 36:5602-9. 2008..The data suggest that binding of Cdc6 protein to MCM protein changes the structure of the helicase, enhancing the catalytic hydrolysis of ATP and helicase activity... - The Methanothermobacter thermautotrophicus Cdc6-2 protein, the putative helicase loader, dissociates the minichromosome maintenance helicaseJae Ho Shin
School of Applied Biosciences, Kyungpook National University, Daegu 702 701, Republic of Korea
J Bacteriol 190:4091-4. 2008..It is shown here that Cdc6-2 protein dissociates the MCM complex. This observation supports the hypothesis that the Cdc6-2 protein functions as a helicase loader... - Cryo-electron microscopy reveals a novel DNA-binding site on the MCM helicaseAlessandro Costa
Department of Life Sciences, Imperial College London, London, UK
EMBO J 27:2250-8. 2008..Our findings provide novel insights into the role of the MCM complex during the initiation step of DNA replication... - The Methanobacterium thermoautotrophicum MCM protein can form heptameric ringsXiong Yu
Department of Biochemistry and Molecular Genetics, University of Virginia Health Sciences Center, Charlottesville, VA 22908, USA
EMBO Rep 3:792-7. 2002..While the structure of the ring is very similar to that of hexameric replicative helicases such as bacteriophage T7 gp4, our results show that such ring structures may not be constrained to have only six subunits... - Stimulation of MCM helicase activity by a Cdc6 protein in the archaeon Thermoplasma acidophilumGyri Teien Haugland
Department of Biology, University of Bergen, PO Box 7800, N-5020 Bergen, Norway
Nucleic Acids Res 34:6337-44. 2006..acidophilum Cdc6 homologues. This is an interesting observation as it is in sharp contrast to observations made with MCM and Cdc6 homologues from other archaea in which the helicase activity is inhibited when bound to Cdc6... - Studies with the human cohesin establishment factor, ChlR1. Association of ChlR1 with Ctf18-RFC and Fen1Andrea Farina
Program of Molecular Biology, Memorial Sloan Kettering Cancer Center, 1275 York Avenue, New York, NY 10065, USA
J Biol Chem 283:20925-36. 2008..These findings are consistent with a role of hChlR1 in the establishment of sister chromatid cohesion and suggest that its action may contribute to lagging strand processing events important in cohesion... - Structural lessons in DNA replication from the third domain of lifeZvi Kelman
Nat Struct Biol 10:148-50. 2003 - Crystal structure of the chi:psi sub-assembly of the Escherichia coli DNA polymerase clamp-loader complexJacqueline M Gulbis
Laboratory of Molecular Biophysics, Howard Hughes Medical Institute, The Rockefeller University, New York, NY, USA
Eur J Biochem 271:439-49. 2004..The base of the clamp-loader complex has an open C-shaped structure, and the shape of the chi:psi complex is suggestive of a loose docking within the crevice formed by the open faces of the delta and delta' subunits of the clamp-loader... - Structural polymorphism of Methanothermobacter thermautotrophicus MCMYen Ju Chen
Department of Biochemistry and Molecular Genetics, Box 800733, University of Virginia Health Sciences Center, Charlottesville, VA 22908, USA
J Mol Biol 346:389-94. 2005..This offers new insight into the conformational dynamics of MCM and the phosphorylation-bypass phenotype in yeast... - Association between Archaeal prolyl- and leucyl-tRNA synthetases enhances tRNA(Pro) aminoacylationMette Praetorius-Ibba
Department of Microbiology, The Ohio State University, Columbus, Ohio 43210 1292, USA
J Biol Chem 280:26099-104. 2005..These findings indicate that ProRS and LeuRS associate in M. thermautotrophicus and suggest that this interaction contributes to translational fidelity by enhancing tRNA aminoacylation by ProRS...