Satya Prakash

Summary

Affiliation: University of Texas Medical Branch
Country: USA

Publications

  1. ncbi request reprint Yeast Rev1 protein is a G template-specific DNA polymerase
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    J Biol Chem 277:15546-51. 2002
  2. ncbi request reprint Eukaryotic translesion synthesis DNA polymerases: specificity of structure and function
    Satya Prakash
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Annu Rev Biochem 74:317-53. 2005
  3. pmc Requirement of Nse1, a subunit of the Smc5-Smc6 complex, for Rad52-dependent postreplication repair of UV-damaged DNA in Saccharomyces cerevisiae
    Sergio R Santa Maria
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:8409-18. 2007
  4. pmc Efficient and error-free replication past a minor-groove N2-guanine adduct by the sequential action of yeast Rev1 and DNA polymerase zeta
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 77555 1061, USA
    Mol Cell Biol 24:6900-6. 2004
  5. pmc The stalling of transcription at abasic sites is highly mutagenic
    Sung Lim Yu
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston 77555 1061, USA
    Mol Cell Biol 23:382-8. 2003
  6. pmc A role for yeast and human translesion synthesis DNA polymerases in promoting replication through 3-methyl adenine
    Robert E Johnson
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:7198-205. 2007
  7. pmc Requirement of Rad5 for DNA polymerase zeta-dependent translesion synthesis in Saccharomyces cerevisiae
    Vincent Pages
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Genetics 180:73-82. 2008
  8. pmc Evidence for a Watson-Crick hydrogen bonding requirement in DNA synthesis by human DNA polymerase kappa
    William T Wolfle
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, TX 77555 1061, USA
    Mol Cell Biol 25:7137-43. 2005
  9. pmc Human DNA polymerase iota promotes replication through a ring-closed minor-groove adduct that adopts a syn conformation in DNA
    William T Wolfle
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 25:8748-54. 2005
  10. pmc Requirement of RAD52 group genes for postreplication repair of UV-damaged DNA in Saccharomyces cerevisiae
    Venkateswarlu Gangavarapu
    University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:7758-64. 2007

Collaborators

Detail Information

Publications75

  1. ncbi request reprint Yeast Rev1 protein is a G template-specific DNA polymerase
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    J Biol Chem 277:15546-51. 2002
    ..6 nucleotides per DNA binding event on the average. From these observations, we infer that Rev1 is a G template-specific DNA polymerase...
  2. ncbi request reprint Eukaryotic translesion synthesis DNA polymerases: specificity of structure and function
    Satya Prakash
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Annu Rev Biochem 74:317-53. 2005
    ....
  3. pmc Requirement of Nse1, a subunit of the Smc5-Smc6 complex, for Rad52-dependent postreplication repair of UV-damaged DNA in Saccharomyces cerevisiae
    Sergio R Santa Maria
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:8409-18. 2007
    ..We discuss the possible ways by which the Smc5-Smc6 complex, including its associated ubiquitin ligase and SUMO ligase activities, might contribute to the Rad52-dependent nonrecombinational and recombinational modes of PRR...
  4. pmc Efficient and error-free replication past a minor-groove N2-guanine adduct by the sequential action of yeast Rev1 and DNA polymerase zeta
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 77555 1061, USA
    Mol Cell Biol 24:6900-6. 2004
    ..Based upon these observations, we suggest that an important role of the Rev1 DNA synthetic activity in lesion bypass is to incorporate a C opposite the various N(2)-guanine DNA minor-groove adducts that form in DNA...
  5. pmc The stalling of transcription at abasic sites is highly mutagenic
    Sung Lim Yu
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston 77555 1061, USA
    Mol Cell Biol 23:382-8. 2003
    ..From the various observations presented here, we infer that the stalling of transcription at AP sites is highly mutagenic...
  6. pmc A role for yeast and human translesion synthesis DNA polymerases in promoting replication through 3-methyl adenine
    Robert E Johnson
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:7198-205. 2007
    ..We discuss these results in the context of previous observations that have been made for the roles of Pols eta, iota, and kappa in promoting replication through the minor-groove N2-dG adducts...
  7. pmc Requirement of Rad5 for DNA polymerase zeta-dependent translesion synthesis in Saccharomyces cerevisiae
    Vincent Pages
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Genetics 180:73-82. 2008
    ..Rad5 action in this role is likely to be structural, since neither the inactivation of its ubiquitin ligase activity nor the inactivation of its helicase activity impairs its role in TLS...
  8. pmc Evidence for a Watson-Crick hydrogen bonding requirement in DNA synthesis by human DNA polymerase kappa
    William T Wolfle
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, TX 77555 1061, USA
    Mol Cell Biol 25:7137-43. 2005
    ....
  9. pmc Human DNA polymerase iota promotes replication through a ring-closed minor-groove adduct that adopts a syn conformation in DNA
    William T Wolfle
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 25:8748-54. 2005
    ....
  10. pmc Requirement of RAD52 group genes for postreplication repair of UV-damaged DNA in Saccharomyces cerevisiae
    Venkateswarlu Gangavarapu
    University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:7758-64. 2007
    ..In addition, our results suggest a role for the Rad50 and Xrs2 proteins and thereby for the MRX complex in promoting PRR via both the Rad5 and Rad52 pathways...
  11. pmc Efficient and error-free replication past a minor-groove DNA adduct by the sequential action of human DNA polymerases iota and kappa
    M Todd Washington
    University of Texas Medical Branch, Sealy Center for Molecular Science, 6 104 Blocker Medical Research Building, 11th and Mechanic St, Galveston, TX 77555 1061, USA
    Mol Cell Biol 24:5687-93. 2004
    ..Based upon these observations, we suggest that an important biological role of Poliota and Polkappa is to act sequentially to carry out the efficient and accurate bypass of highly distorting minor-groove DNA adducts of the purine bases...
  12. pmc Roles of PCNA-binding and ubiquitin-binding domains in human DNA polymerase eta in translesion DNA synthesis
    Narottam Acharya
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 105:17724-9. 2008
    ..We discuss the possible role of the Ub moiety on PCNA in TLS...
  13. pmc Role of DNA damage-induced replication checkpoint in promoting lesion bypass by translesion synthesis in yeast
    Vincent Pages
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, Galveston, Texas 77555, USA
    Genes Dev 23:1438-49. 2009
    ....
  14. pmc Requirement of yeast Rad1-Rad10 nuclease for the removal of 3'-blocked termini from DNA strand breaks induced by reactive oxygen species
    Sami N Guzder
    Sealy Center for Molelcular Science, University of Texas Medical Branch at Galveston, Galveston, Texas 77555 1061, USA
    Genes Dev 18:2283-91. 2004
    ....
  15. pmc Complex formation with Rev1 enhances the proficiency of Saccharomyces cerevisiae DNA polymerase zeta for mismatch extension and for extension opposite from DNA lesions
    Narottam Acharya
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, TX 77555 1061, USA
    Mol Cell Biol 26:9555-63. 2006
    ..In addition to this structural role, Rev1 binding enhances the proficiency of Polzeta for the extension of mismatched primer termini on undamaged DNAs and for the extension of primer termini opposite DNA lesions...
  16. pmc Requirement of replication checkpoint protein kinases Mec1/Rad53 for postreplication repair in yeast
    Venkateswarlu Gangavarapu
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, Galveston, Texas, USA
    MBio 2:e00079-11. 2011
    ....
  17. pmc Opposing effects of ubiquitin conjugation and SUMO modification of PCNA on replicational bypass of DNA lesions in Saccharomyces cerevisiae
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 24:4267-74. 2004
    ....
  18. pmc Mutations in the ubiquitin binding UBZ motif of DNA polymerase eta do not impair its function in translesion synthesis during replication
    Narottam Acharya
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:7266-72. 2007
    ..These observations lead us to suggest that the binding of Ub on PCNA via its UBZ domain is not a necessary requirement for the ability of polymerase eta to function in TLS during replication...
  19. pmc Role of hoogsteen edge hydrogen bonding at template purines in nucleotide incorporation by human DNA polymerase iota
    Robert E Johnson
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 26:6435-41. 2006
    ....
  20. pmc Complex formation with damage recognition protein Rad14 is essential for Saccharomyces cerevisiae Rad1-Rad10 nuclease to perform its function in nucleotide excision repair in vivo
    Sami N Guzder
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 26:1135-41. 2006
    ..We discuss the implications of these observations for the means by which the different NER proteins are assembled at the lesion site...
  21. pmc Mms2-Ubc13-dependent and -independent roles of Rad5 ubiquitin ligase in postreplication repair and translesion DNA synthesis in Saccharomyces cerevisiae
    Venkateswarlu Gangavarapu
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, TX 77555 1061
    Mol Cell Biol 26:7783-90. 2006
    ..In contrast to the role of Rad5 in PRR, however, where its function is coupled with that of Mms2-Ubc13, Rad5 function in TLS would be largely independent of this ubiquitin-conjugating enzyme complex...
  22. ncbi request reprint Requirement of yeast RAD2, a homolog of human XPG gene, for efficient RNA polymerase II transcription. implications for Cockayne syndrome
    Sung Keun Lee
    Sealy Center for Molecular Science, University of Texas Medical Branch, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555, USA
    Cell 109:823-34. 2002
    ..From these and other observations presented here, we suggest that transcriptional defects are the underlying cause of CS...
  23. pmc Yeast DNA polymerase zeta (zeta) is essential for error-free replication past thymine glycol
    Robert E Johnson
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, Texas 77555 1061, USA
    Genes Dev 17:77-87. 2003
    ....
  24. pmc A single domain in human DNA polymerase iota mediates interaction with PCNA: implications for translesion DNA synthesis
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch, 6 104 Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 25:1183-90. 2005
    ..We discuss the implications of these observations for the accuracy of DNA synthesis during translesion synthesis and for the process of Pol exchange at the lesion site...
  25. pmc Requirement of ELC1 for RNA polymerase II polyubiquitylation and degradation in response to DNA damage in Saccharomyces cerevisiae
    Balazs Ribar
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, TX 77555 1061, USA
    Mol Cell Biol 26:3999-4005. 2006
    ....
  26. pmc Complex formation of yeast Rev1 and Rev7 proteins: a novel role for the polymerase-associated domain
    Narottam Acharya
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 25:9734-40. 2005
    ..We discuss the possible roles of Rev1 versus the Rev1-Rev7 complex in TLS...
  27. pmc Complex formation of yeast Rev1 with DNA polymerase eta
    Narottam Acharya
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:8401-8. 2007
    ..We also found that the DNA synthesis activity of Rev1 is enhanced in this complex. We discuss the implications of these and other observations for the possible divergence of Rev1's structural role between yeast and humans...
  28. pmc Distinct mechanisms of cis-syn thymine dimer bypass by Dpo4 and DNA polymerase eta
    Robert E Johnson
    Sealy Center for Molecular Science, University of Texas Medical Branch, 6 104 Blocker Medical Research Building, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 102:12359-64. 2005
    ..These observations have important implications for the mechanisms used for the inefficient vs. efficient bypass of CPDs by DNA Pols...
  29. pmc Yeast Rev1 protein promotes complex formation of DNA polymerase zeta with Pol32 subunit of DNA polymerase delta
    Narottam Acharya
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 106:9631-6. 2009
    ..We discuss evidence for the biological significance of Rev1 binding to Pol32 for Pol zeta function in TLS and suggest a structural role for Rev1 in modulating the binding of Pol zeta with Pol32 in Pol delta stalled at a lesion site...
  30. pmc ELA1 and CUL3 are required along with ELC1 for RNA polymerase II polyubiquitylation and degradation in DNA-damaged yeast cells
    Balazs Ribar
    University of Texas Medical Branch at Galveston, 301 University Blvd, Galveston, TX 77555 1061, USA
    Mol Cell Biol 27:3211-6. 2007
    ..Also, these observations raise the distinct possibility that the elongin C-containing ubiquitin ligase, the von Hippel-Lindau tumor suppressor complex, promotes Pol II polyubiquitylation and degradation in human cells...
  31. pmc Replication past a trans-4-hydroxynonenal minor-groove adduct by the sequential action of human DNA polymerases iota and kappa
    William T Wolfle
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 26:381-6. 2006
    ....
  32. pmc DNA polymerase eta lacking the ubiquitin-binding domain promotes replicative lesion bypass in humans cells
    Narottam Acharya
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 107:10401-5. 2010
    ....
  33. pmc Stimulation of 3'-->5' exonuclease and 3'-phosphodiesterase activities of yeast apn2 by proliferating cell nuclear antigen
    Ildiko Unk
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston 77555 1061, USA
    Mol Cell Biol 22:6480-6. 2002
    ..In the absence of DNA, Apn2 binds PCNA through its IDCL domain, whereas in the presence of DNA, when PCNA has been loaded onto the template-primer junction by replication factor C, the C-terminal domain of PCNA mediates the binding...
  34. pmc Mutational specificity and genetic control of replicative bypass of an abasic site in yeast
    Vincent Pages
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 105:1170-5. 2008
    ....
  35. pmc Yeast DNA polymerase zeta is an efficient extender of primer ends opposite from 7,8-dihydro-8-Oxoguanine and O6-methylguanine
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 23:1453-9. 2003
    ..Pol zeta, however, is unusually sensitive to geometric distortion of the templating residue, as it is highly inefficient at incorporating nucleotides even opposite the moderately distorting 8-oxoG and m6G lesions...
  36. pmc Human DNA polymerase iota utilizes different nucleotide incorporation mechanisms dependent upon the template base
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 24:936-43. 2004
    ....
  37. pmc Pol31 and Pol32 subunits of yeast DNA polymerase δ are also essential subunits of DNA polymerase ζ
    Robert E Johnson
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, TX 77555, USA
    Proc Natl Acad Sci U S A 109:12455-60. 2012
    ..To distinguish the four-subunit complex from the two-subunit Polζ, we designate the four-subunit enzyme "Polζ-d," where "-d" denotes the Pol31/Pol32 subunits of Polδ...
  38. pmc Role of human DNA polymerase kappa as an extender in translesion synthesis
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061 USA
    Proc Natl Acad Sci U S A 99:16000-5. 2002
    ..These studies reveal a role for Polkappa in the extension phase of lesion bypass...
  39. pmc The mechanism of nucleotide incorporation by human DNA polymerase eta differs from that of the yeast enzyme
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Mol Cell Biol 23:8316-22. 2003
    ....
  40. pmc PCNA binding domains in all three subunits of yeast DNA polymerase δ modulate its function in DNA replication
    Narottam Acharya
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 108:17927-32. 2011
    ..We consider the implications of these observations for Polδ's role in DNA replication...
  41. pmc Highly error-free role of DNA polymerase eta in the replicative bypass of UV-induced pyrimidine dimers in mouse and human cells
    Jung Hoon Yoon
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 106:18219-24. 2009
    ..These observations have important bearing on how mammalian cells have adapted to avoid the mutagenic and carcinogenic consequences of exposure to sunlight...
  42. ncbi request reprint Yeast and human translesion DNA synthesis polymerases: expression, purification, and biochemical characterization
    Robert E Johnson
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, USA
    Methods Enzymol 408:390-407. 2006
    ..This chapter describes a general outline of methods used in our laboratory for the expression and purification of these TLS DNA polymerases from yeast cells and for assaying some of their biochemical properties...
  43. ncbi request reprint Translesion DNA synthesis in eukaryotes: a one- or two-polymerase affair
    Satya Prakash
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Genes Dev 16:1872-83. 2002
  44. pmc A mechanism for the exclusion of low-fidelity human Y-family DNA polymerases from base excision repair
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, Texas 77555 1061, USA
    Genes Dev 17:2777-85. 2003
    ....
  45. pmc Deoxynucleotide triphosphate binding mode conserved in Y family DNA polymerases
    Robert E Johnson
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 23:3008-12. 2003
    ..Furthermore, we note that tyrosine 64 and arginine 67 are functionally equivalent to the deoxynucleotide triphosphate binding residues arginine 518 and histidine 506 in T7 DNA polymerase, respectively...
  46. pmc Requirement of RAD5 and MMS2 for postreplication repair of UV-damaged DNA in Saccharomyces cerevisiae
    Carlos A Torres-Ramos
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 22:2419-26. 2002
    ..The possible roles of the Rad6-Rad18 and the Mms2-Ubc13 enzyme complexes in Rad5-dependent damage bypass are discussed...
  47. pmc Mechanism of nucleotide incorporation opposite a thymine-thymine dimer by yeast DNA polymerase eta
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 100:12093-8. 2003
    ..These results strongly support a mechanism in which the nucleotide is directly inserted opposite the TT dimer by using its intrinsic base-pairing ability without any hindrance from the distorted geometry of the lesion...
  48. pmc Requirement of Watson-Crick hydrogen bonding for DNA synthesis by yeast DNA polymerase eta
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 23:5107-12. 2003
    ..From these observations, we suggest that W-C hydrogen bonding is required for DNA synthesis by Poleta; in this regard, Poleta differs strikingly from classical high-fidelity DNA polymerases...
  49. pmc Biochemical evidence for the requirement of Hoogsteen base pairing for replication by human DNA polymerase iota
    Robert E Johnson
    Sealy Center for Molecular Science, University of Texas Medical Branch, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 102:10466-71. 2005
    ....
  50. pmc Human DINB1-encoded DNA polymerase kappa is a promiscuous extender of mispaired primer termini
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 99:1910-4. 2002
    ..Thus, in humans, Pol(kappa) would compete with Pol(zeta) for the extension of mismatched base pairs on damaged and undamaged DNAs...
  51. pmc Error-free replicative bypass of (6-4) photoproducts by DNA polymerase zeta in mouse and human cells
    Jung Hoon Yoon
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, Galveston, Texas 77555, USA
    Genes Dev 24:123-8. 2010
    ..We verify and extend these observations in mouse cells and conclude that, in human cells, TLS during replication can be markedly error-free even opposite a highly distorting DNA lesion...
  52. pmc Requirement of Rad18 protein for replication through DNA lesions in mouse and human cells
    Jung Hoon Yoon
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, Galveston, TX 77555, USA
    Proc Natl Acad Sci U S A 109:7799-804. 2012
    ....
  53. pmc Yeast DNA polymerase eta makes functional contacts with the DNA minor groove only at the incoming nucleoside triphosphate
    M Todd Washington
    Sealy Center for Molecular Science, University of Texas Medical Branch, 6 104 Blocker Medical Research Building, 11th and Mechanic Streets, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 100:5113-8. 2003
    ..These results help explain the proficient ability of Pol eta for bypassing distorting DNA lesions...
  54. pmc Error-free replicative bypass of thymine glycol by the combined action of DNA polymerases kappa and zeta in human cells
    Jung Hoon Yoon
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, 301 University Boulevard, Galveston, TX 77555 1061, USA
    Proc Natl Acad Sci U S A 107:14116-21. 2010
    ....
  55. pmc Genetic control of translesion synthesis on leading and lagging DNA strands in plasmids derived from Epstein-Barr virus in human cells
    Jung Hoon Yoon
    Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, Galveston, Texas, USA
    MBio 3:e00271-12. 2012
    ....
  56. pmc Human DNA polymerase kappa uses template-primer misalignment as a novel means for extending mispaired termini and for generating single-base deletions
    William T Wolfle
    Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, TX 77555 1061, USA
    Genes Dev 17:2191-9. 2003
    ....
  57. ncbi request reprint Translesion synthesis past acrolein-derived DNA adduct, gamma -hydroxypropanodeoxyguanosine, by yeast and human DNA polymerase eta
    Irina G Minko
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston 77555, USA
    J Biol Chem 278:784-90. 2003
    ..Collectively, the data suggest that pol eta might potentially contribute to both error-free and mutagenic bypass of gamma-HOPdG...
  58. pmc Stimulation of DNA synthesis activity of human DNA polymerase kappa by PCNA
    Lajos Haracska
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 22:784-91. 2002
    ....
  59. pmc Yeast RAD26, a homolog of the human CSB gene, functions independently of nucleotide excision repair and base excision repair in promoting transcription through damaged bases
    Sung Keun Lee
    Sealy Center for Molecular Science, University of Texas Medical Branch, Galveston, Texas 77555 1061, USA
    Mol Cell Biol 22:4383-9. 2002
    ..From these observations, we infer that RAD26 plays a role in promoting transcription by RNA polymerase II through damaged bases. The implications of these observations are discussed in this paper...
  60. pmc Regulation of polymerase exchange between Poleta and Poldelta by monoubiquitination of PCNA and the movement of DNA polymerase holoenzyme
    Zhihao Zhuang
    Department of Chemistry, 414 Wartik Laboratory, Pennsylvania State University, University Park, PA 16802, USA
    Proc Natl Acad Sci U S A 105:5361-6. 2008
    ..Thus the removal of the ubiquitin moiety from PCNA is likely required for the reverse exchange step after the lesion bypass synthesis by Poleta...
  61. pmc Human HLTF functions as a ubiquitin ligase for proliferating cell nuclear antigen polyubiquitination
    Ildiko Unk
    Institute of Genetics, Biological Research Center, Hungarian Academy of Sciences, Temesvari korut 62, H 6726, Szeged, Hungary
    Proc Natl Acad Sci U S A 105:3768-73. 2008
    ..A requirement of HLTF for error-free postreplication repair of damaged DNA is in keeping with its cancer-suppression role...
  62. doi request reprint Protein-template-directed synthesis across an acrolein-derived DNA adduct by yeast Rev1 DNA polymerase
    Deepak T Nair
    Department of Structural and Chemical Biology, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, NY 10029, USA
    Structure 16:239-45. 2008
    ....
  63. pmc Ubiquitylation of yeast proliferating cell nuclear antigen and its implications for translesion DNA synthesis
    Lajos Haracska
    Institute of Genetics, Biological Research Center, Hungarian Academy of Sciences, H 6701 Szeged, Hungary
    Proc Natl Acad Sci U S A 103:6477-82. 2006
    ..These observations lead us to suggest a role for PCNA monoubiquitylation in disrupting the PCNA binding of a protein(s) that otherwise is inhibitory to the binding of PCNA by TLS Pols...
  64. pmc Trf4 and Trf5 proteins of Saccharomyces cerevisiae exhibit poly(A) RNA polymerase activity but no DNA polymerase activity
    Lajos Haracska
    Institute of Genetics, Biological Research Center, Hungarian Academy of Sciences, Szeged, Hungary
    Mol Cell Biol 25:10183-9. 2005
    ....
  65. ncbi request reprint Rev1 employs a novel mechanism of DNA synthesis using a protein template
    Deepak T Nair
    Structural Biology Program, Department of Physiology and Biophysics, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, NY 10029, USA
    Science 309:2219-22. 2005
    ..This mechanism provides an elegant means for promoting proficient and error-free synthesis through N2-adducted guanines that obstruct replication...
  66. pmc Human SHPRH is a ubiquitin ligase for Mms2-Ubc13-dependent polyubiquitylation of proliferating cell nuclear antigen
    Ildiko Unk
    Institute of Genetics, Biological Research Center, Hungarian Academy of Sciences, H 6726 Szeged, Hungary
    Proc Natl Acad Sci U S A 103:18107-12. 2006
    ....
  67. ncbi request reprint Human DNA polymerase kappa encircles DNA: implications for mismatch extension and lesion bypass
    Samer Lone
    Department of Structural and Chemical Biology, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, NY 10029, USA
    Mol Cell 25:601-14. 2007
    ....
  68. ncbi request reprint Replication by human DNA polymerase-iota occurs by Hoogsteen base-pairing
    Deepak T Nair
    Structural Biology Program, Department of Physiology and Biophysics, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, New York 10029, USA
    Nature 430:377-80. 2004
    ....
  69. ncbi request reprint Pre-steady-state kinetic studies of protein-template-directed nucleotide incorporation by the yeast Rev1 protein
    Craig A Howell
    Department of Biochemistry, University of Iowa College of Medicine, Iowa City, Iowa 52242 1109, USA
    Biochemistry 46:13451-9. 2007
    ..Moreover, on the basis of these findings and on structures of the unrelated Escherichia coli MutM DNA glycosylase, we suggest the possible structures for the ternary complexes of Rev1p with the other incoming dNTPs...
  70. ncbi request reprint An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site
    Deepak T Nair
    Structural Biology Program, Department of Physiology and Biophysics, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, New York 10029, USA
    Structure 14:749-55. 2006
    ..Together, the structures posit a mechanism for template selection wherein dNTP binding induces a conformational switch in template purines for productive Hoogsteen base pairing...
  71. pmc Yeast Rad5 protein required for postreplication repair has a DNA helicase activity specific for replication fork regression
    Andras Blastyak
    Institute of Genetics, Biological Research Center, Hungarian Academy of Sciences, Szeged, Temesvari krt 62, H 6726, Hungary
    Mol Cell 28:167-75. 2007
    ..These observations provide insight into the mechanism of postreplicational repair in which Rad5 action promotes template switching for error-free damage bypass...
  72. ncbi request reprint Crystal structure of the catalytic core of human DNA polymerase kappa
    Sacha N Uljon
    Structural Biology Program, Department of Physiology and Biophysics, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, New York 10029, USA
    Structure 12:1395-404. 2004
    ..Together, these properties suggest that the hPolkappa active site is constrained at the site of the templating base and incoming nucleotide, but the polymerase is less constrained following translocation of the lesion...
  73. pmc Human DNA polymerase kappa forms nonproductive complexes with matched primer termini but not with mismatched primer termini
    Karissa D Carlson
    Department of Biochemistry, University of Iowa College of Medicine, 51 Newton Road, Iowa City, IA 52242 1109, USA
    Proc Natl Acad Sci U S A 103:15776-81. 2006
    ..From these observations, we conclude that pol kappa has evolved to specifically function on DNA substrates with aberrant primer-terminal base pairs, such as the ones it would encounter during the extension step of translesion synthesis...
  74. ncbi request reprint Plant availability of cadmium in presence of organic acids: an interactive aspect
    Rashmi Nigam
    Department of Chemistry, Faculty of Science, Dayalbagh Educational Institute, Dayalbagh, Agra 282 005, Uttar Pradesh, India
    J Environ Biol 23:175-80. 2002
    ..The potentiality of phytochelators (organic acids) to form plant available organically bound Cd is discussed...
  75. ncbi request reprint Hoogsteen base pair formation promotes synthesis opposite the 1,N6-ethenodeoxyadenosine lesion by human DNA polymerase iota
    Deepak T Nair
    Department of Molecular Physiology and Biophysics, Mount Sinai School of Medicine, Box 1677, 1425 Madison Avenue, New York, New York 10029, USA
    Nat Struct Mol Biol 13:619-25. 2006
    ....

Research Grants23

  1. Hoogsteen base pairing in human DNA polymerase iota
    Satya Prakash; Fiscal Year: 2009
    ..abstract_text> ..
  2. Role of human DNA polymerase kappa in replicative bypass of DNA lesions
    Satya Prakash; Fiscal Year: 2009
    ..The proposed studies will examine the role of human DNA polymerase ? in promoting error-free lesion bypass. ..
  3. Role of Rev1 in error-free replication of DNA damage and in mutation prevention
    Satya Prakash; Fiscal Year: 2010
    ..The proposed studies will examine the role of Rev1 DNA polymerase in promoting error-free replication through DNA lesions. ..
  4. Role of human DNA polymerase kappa in replicative bypass of DNA lesions
    Satya Prakash; Fiscal Year: 2010
    ..The proposed studies will examine the role of human DNA polymerase ? in promoting error-free lesion bypass. ..
  5. Hoogsteen base pairing in human DNA polymerase iota
    Satya Prakash; Fiscal Year: 2007
    ..abstract_text> ..
  6. Transcription-coupled DNA repair in yeast
    Satya Prakash; Fiscal Year: 2007
    ..abstract_text> ..
  7. DNA MISMATCH REPAIR IN EUKARYOTES
    Satya Prakash; Fiscal Year: 2003
    ..Because of the remarkable conservation of the mismatch repair machinery between yeast and humans, these studies should provide important and novel insights into the mechanisms of this repair process in humans. ..
  8. Repair of UV irradiated DNA: excision genes of yeast
    Satya Prakash; Fiscal Year: 2007
    ..We expect our studies in yeast to yield a comprehensive understanding of the underlying genetic bases of these human syndromes. ..
  9. Hoogsteen base pairing in human DNA polymerase iota
    Satya Prakash; Fiscal Year: 2010
    ..abstract_text> ..