Zvi Kelman

Summary

Affiliation: University of Maryland
Country: USA

Publications

  1. pmc Interactions between the archaeal Cdc6 and MCM proteins modulate their biochemical properties
    Rajesh 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
  2. ncbi request reprint Multiple origins of replication in archaea
    Lori M Kelman
    Montgomery College, 20200 Observation Drive, Germantown, MD 20876, USA
    Trends Microbiol 12:399-401. 2004
  3. ncbi request reprint Archaeal DNA replication and repair
    Zvi 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
  4. ncbi request reprint Archeal DNA replication: eukaryal proteins in a bacterial context
    Beatrice 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
  5. ncbi request reprint 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
  6. ncbi request reprint Archaeal minichromosome maintenance (MCM) helicase can unwind DNA bound by archaeal histones and transcription factors
    Jae Ho Shin
    Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
    J Biol Chem 282:4908-15. 2007
  7. pmc Thermococcus kodakarensis encodes three MCM homologs but only one is essential
    Miao Pan
    Institute for Bioscience and Biotechnology Research, University of Maryland, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 39:9671-80. 2011
  8. pmc DNA binding by the Methanothermobacter thermautotrophicus Cdc6 protein is inhibited by the minichromosome maintenance helicase
    Rajesh 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
  9. ncbi request reprint Unwinding the structure and function of the archaeal MCM helicase
    Nozomi Sakakibara
    University of Maryland Biotechnology Institute, Center for Advanced Research in Biotechnology, Rockville, MD 20850, USA
    Mol Microbiol 72:286-96. 2009
  10. ncbi request reprint Novel structure and nucleotide binding properties of HI1480 from Haemophilus influenzae: a protein with no known sequence homologues
    Kap Lim
    Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
    Proteins 56:564-71. 2004

Collaborators

  • Eugene Melamud
  • Nozomi Sakakibara
  • Thomas J Santangelo
  • Jae Ho Shin
  • Osnat Herzberg
  • JOHN REEVE
  • Basil J Nikolau
  • Jane E Ladner
  • Malcolm F White
  • Nicklas Bonander
  • Stephen D Bell
  • John Orban
  • James Parsons
  • A G Murzin
  • Satish Nair
  • M Ibba
  • Zhuo Li
  • Miao Pan
  • Rajesh Kasiviswanathan
  • Lori M Kelman
  • Gyri Teien Haugland
  • Kap Lim
  • Jerard Hurwitz
  • Yihong Chen
  • Chen Chen
  • Andrew Howard
  • Xiong Yu
  • Alessandro Costa
  • Andrea Farina
  • Elizabeth R Barry
  • Nils Kåre Birkeland
  • Mette Praetorius-Ibba
  • Yen Ju Chen
  • Jacqueline M Gulbis
  • Andrey Galkin
  • Edward H Egelman
  • Wojciech Krajewski
  • Beatrice Grabowski
  • Christopher Lehmann
  • Jonathan B Vivona
  • Harlette Metangmo
  • Lubomira Cubonová
  • Natalia Gorlatova
  • James L Edwards
  • Wei Yuan
  • Lucas Showman
  • Kevin Sowers
  • Ethel Apolinario
  • Libuse Brachova
  • Wiebke Chemnitz
  • Silvia Onesti
  • Angel L Pey
  • Gijs van Duinen
  • Do Hyung Kim
  • Barbara Medagli
  • Vladimir P Bermudez
  • Ardan Patwardhan
  • Yeon Soo Seo
  • Claire R Rollor
  • James Chong
  • Adam T McGeoch
  • Rachel Samson
  • Theresa E Rogers
  • Elif Sarikaya
  • John Kuriyan
  • Sadhana Pullalarevu
  • Steven L Kazmirski
  • Mike O'Donnell
  • Jeff Finkelstein
  • Vani Rao Chalamasetty
  • Prasad T Reddy
  • Aleksandra Tempczyk
  • Edward Eisenstein
  • John Toedt
  • Margaret S VanLoock
  • Bik K Tye
  • Tao Xiang
  • Andrzej Poplawski

Detail Information

Publications43

  1. pmc Interactions between the archaeal Cdc6 and MCM proteins modulate their biochemical properties
    Rajesh 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...
  2. ncbi request reprint Multiple origins of replication in archaea
    Lori 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...
  3. ncbi request reprint Archaeal DNA replication and repair
    Zvi 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...
  4. ncbi request reprint Archeal DNA replication: eukaryal proteins in a bacterial context
    Beatrice 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...
  5. ncbi request reprint 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...
  6. ncbi request reprint Archaeal minichromosome maintenance (MCM) helicase can unwind DNA bound by archaeal histones and transcription factors
    Jae 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...
  7. pmc Thermococcus kodakarensis encodes three MCM homologs but only one is essential
    Miao 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...
  8. pmc DNA binding by the Methanothermobacter thermautotrophicus Cdc6 protein is inhibited by the minichromosome maintenance helicase
    Rajesh 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...
  9. ncbi request reprint Unwinding the structure and function of the archaeal MCM helicase
    Nozomi 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...
  10. ncbi request reprint Novel structure and nucleotide binding properties of HI1480 from Haemophilus influenzae: a protein with no known sequence homologues
    Kap 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...
  11. pmc Coupling of DNA binding and helicase activity is mediated by a conserved loop in the MCM protein
    Nozomi 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...
  12. doi request reprint ATP hydrolysis and DNA binding confer thermostability on the MCM helicase
    Nozomi 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...
  13. pmc DNA unwinding assay using streptavidin-bound oligonucleotides
    Jae 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...
  14. pmc A novel DNA nuclease is stimulated by association with the GINS complex
    Zhuo 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...
  15. doi request reprint How is the archaeal MCM helicase assembled at the origin? Possible mechanisms
    Nozomi 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...
  16. ncbi request reprint The replicative helicases of bacteria, archaea, and eukarya can unwind RNA-DNA hybrid substrates
    Jae 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...
  17. pmc Different residues on the surface of the Methanothermobacter thermautotrophicus MCM helicase interact with single- and double-stranded DNA
    Nozomi 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...
  18. doi request reprint The archaeal PCNA proteins
    Miao 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...
  19. pmc Crystal structures of two active proliferating cell nuclear antigens (PCNAs) encoded by Thermococcus kodakaraensis
    Jane 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...
  20. doi request reprint Mutational analysis of conserved aspartic acid residues in the Methanothermobacter thermautotrophicus MCM helicase
    Nozomi 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...
  21. ncbi request reprint Biochemical characterization of the Methanothermobacter thermautotrophicus minichromosome maintenance (MCM) helicase N-terminal domains
    Rajesh 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...
  22. pmc Thermococcus kodakarensis has two functional PCNA homologs but only one is required for viability
    Miao Pan
    Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Extremophiles 17:453-61. 2013
    ..kodakarensis strain with TK0535 (PCNA1) deleted were unsuccessful. The implications of these observations for PCNA1 function and the origin of the two PCNA-encoding genes in T. kodakarensis are discussed...
  23. pmc Use of a restriction enzyme-digested PCR product as substrate for helicase assays
    Jae 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...
  24. ncbi request reprint Regulation of minichromosome maintenance helicase activity by Cdc6
    Jae 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...
  25. doi request reprint Thermococcus kodakarensis DNA replication
    Zhuo Li
    Institute for Bioscience and Biotechnology Research, 9600 Gudelsky Drive, Rockville, MD 20850, USA
    Biochem Soc Trans 41:332-8. 2013
    ..In the present paper, the recent developments in the biochemical, structural and genetic studies on the replication machinery of T. kodakarensis are summarized...
  26. ncbi request reprint Substrate requirements for duplex DNA translocation by the eukaryal and archaeal minichromosome maintenance helicases
    Jae 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...
  27. pmc Structures of p63 DNA binding domain in complexes with half-site and with spacer-containing full response elements
    Chen 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...
  28. ncbi request reprint The diverse spectrum of sliding clamp interacting proteins
    Jonathan 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...
  29. pmc A nuclear magnetic resonance based approach to accurate functional annotation of putative enzymes in the methanogen Methanosarcina acetivorans
    Yihong 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...
  30. pmc Cloning, Purification, and Partial Characterization of the Halobacterium sp. NRC-1 Minichromosome Maintenance (MCM) Helicase
    Nozomi 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...
  31. ncbi request reprint Crystal structure of YbaB from Haemophilus influenzae (HI0442), a protein of unknown function coexpressed with the recombinational DNA repair protein RecR
    Kap Lim
    Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Rockville, Maryland 20850, USA
    Proteins 50:375-9. 2003
  32. ncbi request reprint The HI0073/HI0074 protein pair from Haemophilus influenzae is a member of a new nucleotidyltransferase family: structure, sequence analyses, and solution studies
    Christopher 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...
  33. pmc The Methanobacterium thermoautotrophicum MCM protein can form heptameric rings
    Xiong 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...
  34. pmc Archaeal MCM has separable processivity, substrate choice and helicase domains
    Elizabeth 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...
  35. pmc Stimulation of MCM helicase activity by a Cdc6 protein in the archaeon Thermoplasma acidophilum
    Gyri 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...
  36. pmc Cryo-electron microscopy reveals a novel DNA-binding site on the MCM helicase
    Alessandro 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...
  37. pmc Studies with the human cohesin establishment factor, ChlR1. Association of ChlR1 with Ctf18-RFC and Fen1
    Andrea 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...
  38. pmc The Methanothermobacter thermautotrophicus Cdc6-2 protein, the putative helicase loader, dissociates the minichromosome maintenance helicase
    Jae 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...
  39. ncbi request reprint Structural lessons in DNA replication from the third domain of life
    Zvi Kelman
    Nat Struct Biol 10:148-50. 2003
  40. pmc Thermoplasma acidophilum Cdc6 protein stimulates MCM helicase activity by regulating its ATPase activity
    Gyri 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...
  41. ncbi request reprint Crystal structure of the chi:psi sub-assembly of the Escherichia coli DNA polymerase clamp-loader complex
    Jacqueline 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...
  42. pmc Association between Archaeal prolyl- and leucyl-tRNA synthetases enhances tRNA(Pro) aminoacylation
    Mette 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...
  43. ncbi request reprint Structural polymorphism of Methanothermobacter thermautotrophicus MCM
    Yen 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...