Rui Zhao

Summary

Affiliation: University of Colorado Health Sciences Center
Country: USA

Publications

  1. ncbi request reprint The leukemia-associated transcription repressor AML1/MDS1/EVI1 requires CtBP to induce abnormal growth and differentiation of murine hematopoietic cells
    Vitalyi Senyuk
    Department of Pathology, The Cancer Center, University of Illinois at Chicago, 900 South Ashland Avenue, Chicago, IL 60607, USA
    Oncogene 21:3232-40. 2002
  2. ncbi request reprint Mechanisms of conformational change for a replicative hexameric helicase of SV40 large tumor antigen
    Dahai Gai
    Department of Biochemistry and Molecular Genetics, University of Colorado Health Sciences Center, Denver, CO 80262, USA
    Cell 119:47-60. 2004
  3. ncbi request reprint Crystal structure of UAP56, a DExD/H-box protein involved in pre-mRNA splicing and mRNA export
    Rui Zhao
    Department of Biochemistry and Molecular Genetics, University of Colorado Health Sciences Center, Aurora, Colorado 80045, USA
    Structure 12:1373-81. 2004
  4. pmc Structural evidence for consecutive Hel308-like modules in the spliceosomal ATPase Brr2
    Lingdi Zhang
    Department of Biochemistry and Molecular Genetics, University of Colorado Denver, Aurora, Colorado, USA
    Nat Struct Mol Biol 16:731-9. 2009
  5. pmc Structure-function analyses of the human SIX1-EYA2 complex reveal insights into metastasis and BOR syndrome
    Aaron N Patrick
    Department of Obstetrics and Gynecology, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA
    Nat Struct Mol Biol 20:447-53. 2013
  6. pmc Comprehensive in vivo RNA-binding site analyses reveal a role of Prp8 in spliceosomal assembly
    Xueni Li
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO 80045, USA
    Nucleic Acids Res 41:3805-18. 2013
  7. pmc Structural basis for nematode eIF4E binding an m(2,2,7)G-Cap and its implications for translation initiation
    Weizhi Liu
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO 80045, USA
    Nucleic Acids Res 39:8820-32. 2011
  8. ncbi request reprint Biochemical characterization of the ATPase and helicase activity of UAP56, an essential pre-mRNA splicing and mRNA export factor
    Jingping Shen
    Department of Biochemistry and Molecular Genetics, University of Colorado at Denver and Health Sciences Center, Aurora, Colorado 80045, USA
    J Biol Chem 282:22544-50. 2007
  9. pmc Biochemical and functional characterization of six SIX1 Branchio-oto-renal syndrome mutations
    Aaron N Patrick
    Program in Molecular Biology, University of Colorado Denver School of Medicine, Aurora, Colorado 80045, USA
    J Biol Chem 284:20781-90. 2009
  10. pmc Structural analyses of the pre-mRNA splicing machinery
    Lingdi Zhang
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, Colorado 80045, USA
    Protein Sci 22:677-92. 2013

Collaborators

Detail Information

Publications27

  1. ncbi request reprint The leukemia-associated transcription repressor AML1/MDS1/EVI1 requires CtBP to induce abnormal growth and differentiation of murine hematopoietic cells
    Vitalyi Senyuk
    Department of Pathology, The Cancer Center, University of Illinois at Chicago, 900 South Ashland Avenue, Chicago, IL 60607, USA
    Oncogene 21:3232-40. 2002
    ....
  2. ncbi request reprint Mechanisms of conformational change for a replicative hexameric helicase of SV40 large tumor antigen
    Dahai Gai
    Department of Biochemistry and Molecular Genetics, University of Colorado Health Sciences Center, Denver, CO 80262, USA
    Cell 119:47-60. 2004
    ..Additionally, six unique beta hairpins on the channel surface move longitudinally along the central channel, possibly serving as a motor for pulling DNA into the LTag double hexamer for unwinding...
  3. ncbi request reprint Crystal structure of UAP56, a DExD/H-box protein involved in pre-mRNA splicing and mRNA export
    Rui Zhao
    Department of Biochemistry and Molecular Genetics, University of Colorado Health Sciences Center, Aurora, Colorado 80045, USA
    Structure 12:1373-81. 2004
    ..The crystal structure of the N-terminal domain of UAP56 also reveals a dimer interface that is potentially important for UAP56's function...
  4. pmc Structural evidence for consecutive Hel308-like modules in the spliceosomal ATPase Brr2
    Lingdi Zhang
    Department of Biochemistry and Molecular Genetics, University of Colorado Denver, Aurora, Colorado, USA
    Nat Struct Mol Biol 16:731-9. 2009
    ..We further find that the C-terminal region of Prp8 (Prp8-CTR) facilitates the binding of the Brr2-Prp8-CTR complex to U4/U6. Our results have important implications for the mechanism and regulation of Brr2's activity in splicing...
  5. pmc Structure-function analyses of the human SIX1-EYA2 complex reveal insights into metastasis and BOR syndrome
    Aaron N Patrick
    Department of Obstetrics and Gynecology, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA
    Nat Struct Mol Biol 20:447-53. 2013
    ..Given that SIX1 and EYA are overexpressed in many tumor types, our data indicate that targeting the SIX1-EYA complex may be a potent approach to inhibit tumor progression in multiple cancer types...
  6. pmc Comprehensive in vivo RNA-binding site analyses reveal a role of Prp8 in spliceosomal assembly
    Xueni Li
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO 80045, USA
    Nucleic Acids Res 41:3805-18. 2013
    ..In addition, disruption of the Prp8 and U1 snRNA interaction reduces tri-snRNP level in the spliceosome, suggesting a previously unknown role of Prp8 in spliceosomal assembly through its interaction with U1 snRNA...
  7. pmc Structural basis for nematode eIF4E binding an m(2,2,7)G-Cap and its implications for translation initiation
    Weizhi Liu
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO 80045, USA
    Nucleic Acids Res 39:8820-32. 2011
    ..These data have implications for the contribution of 5'-UTRs in mRNA translation and the function of different eIF4E isoforms...
  8. ncbi request reprint Biochemical characterization of the ATPase and helicase activity of UAP56, an essential pre-mRNA splicing and mRNA export factor
    Jingping Shen
    Department of Biochemistry and Molecular Genetics, University of Colorado at Denver and Health Sciences Center, Aurora, Colorado 80045, USA
    J Biol Chem 282:22544-50. 2007
    ....
  9. pmc Biochemical and functional characterization of six SIX1 Branchio-oto-renal syndrome mutations
    Aaron N Patrick
    Program in Molecular Biology, University of Colorado Denver School of Medicine, Aurora, Colorado 80045, USA
    J Biol Chem 284:20781-90. 2009
    ....
  10. pmc Structural analyses of the pre-mRNA splicing machinery
    Lingdi Zhang
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, Colorado 80045, USA
    Protein Sci 22:677-92. 2013
    ..This review discusses key recent findings in the structural analyses of the spliceosome and its components and how these findings advance our understanding of the function of the splicing machinery...
  11. pmc Crystal structure of the beta-finger domain of Prp8 reveals analogy to ribosomal proteins
    Kui Yang
    Department of Biochemistry and Molecular Genetics, Anschutz Medical Campus, University of Colorado Denver, Aurora, CO 80045, USA
    Proc Natl Acad Sci U S A 105:13817-22. 2008
    ..These results also demonstrate an analogy between a spliceosomal protein and ribosomal proteins that insert extensions into folded rRNAs and stabilize the ribosome...
  12. pmc Structural insights into parasite eIF4E binding specificity for m7G and m2,2,7G mRNA caps
    Weizhi Liu
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, Colorado 80045, USA
    J Biol Chem 284:31336-49. 2009
    ..Overall the NMR and isothermal titration calorimetry data suggest the importance of intrinsic conformational flexibility in the schistosome eIF4E that enables binding to m(2,2,7)G cap...
  13. doi request reprint The Hsp90 inhibitor radicicol interacts with the ATP-binding pocket of bacterial sensor kinase PhoQ
    Michael T Guarnieri
    Department of Biochemistry and Molecular Genetics, University of Colorado Denver Anschutz Medical Campus, Aurora, CO 80045, USA
    J Mol Biol 379:82-93. 2008
    ..Our results suggest that GHL inhibitors may be useful lead compounds for developing sensor kinase inhibitors...
  14. pmc Molecular mechanism of histone H3K4me3 recognition by plant homeodomain of ING2
    Pedro V Peña
    Department of Pharmacology, University of Colorado Health Sciences Center, Aurora, Colorado 80045, USA
    Nature 442:100-3. 2006
    ..Elucidation of the mechanisms underlying this novel function of PHD fingers provides a basis for deciphering the role of the ING family of tumour suppressors in chromatin regulation and signalling...
  15. pmc Identification of a selective small-molecule inhibitor series targeting the eyes absent 2 (Eya2) phosphatase activity
    Aaron B Krueger
    Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Aurora, CO, USA
    J Biomol Screen 18:85-96. 2013
    ..Our studies identify the first selective Eya2 phosphatase inhibitors that can potentially be developed into chemical probes for functional studies of Eya phosphatase or into anticancer drugs in the future...
  16. pmc Crystal structure of the C-terminal domain of splicing factor Prp8 carrying retinitis pigmentosa mutants
    Lingdi Zhang
    Department of Biochemistry and Molecular Genetics, University of Colorado at Denver and Health Sciences Center, Aurora, Colorado 80045, USA
    Protein Sci 16:1024-31. 2007
    ..Mapping of RP13 mutants on the Prp8 structure suggests that these residues constitute a binding surface between Prp8 and other partner(s), and the disruption of this interaction provides a plausible molecular mechanism for RP13...
  17. ncbi request reprint Structure of a specific alcohol-binding site defined by the odorant binding protein LUSH from Drosophila melanogaster
    Schoen W Kruse
    Department of Pharmacology, University of Colorado Health Sciences Center, M S C236, 4200 East Ninth Avenue, Denver, Colorado 80262, USA
    Nat Struct Biol 10:694-700. 2003
    ..Further, these sequences are found in regions of ion channels that are known to confer alcohol sensitivity. We suggest that the alcohol-binding site in LUSH represents a general model for alcohol-binding sites in proteins...
  18. pmc A high-throughput TNP-ATP displacement assay for screening inhibitors of ATP-binding in bacterial histidine kinases
    Michael T Guarnieri
    Department of Biochemistry and Molecular Genetics, University of Colorado Denver, Aurora, 80045, USA
    Assay Drug Dev Technol 9:174-83. 2011
    ..We utilized the assay to screen a library of GHL inhibitors targeting the bacterial HK PhoQ, and discuss the applications of the 2',3'-O-(2,4,6-trinitrophenyl) adenosine 5'-triphosphate competition assay beyond GHKL inhibitor screening...
  19. pmc Preventive and therapeutic effects of Smad7 on radiation-induced oral mucositis
    Gangwen Han
    Department of Pathology, University of Colorado Denver Anschutz Medical Campus, Aurora, Colorado, USA
    Nat Med 19:421-8. 2013
    ..Thus, we have identified new molecular mechanisms involved in oral mucositis pathogenesis, and our data suggest an alternative therapeutic strategy to block multiple pathological processes in this condition...
  20. ncbi request reprint Structure of the replicative helicase of the oncoprotein SV40 large tumour antigen
    Dawei Li
    Department of Biochemistry and Molecular Genetics, University of Colorado Health Science Center, School of Medicine, Denver, Colorado 80262, USA
    Nature 423:512-8. 2003
    ....
  21. pmc Transcriptional down-regulation of Brca1 and E-cadherin by CtBP1 in breast cancer
    Yu Deng
    Department of Dermatology, University of Colorado, Denver, Aurora, Colorado 80045, USA
    Mol Carcinog 51:500-7. 2012
    ..Thus, CtBP1 activation could be a potential biomarker for breast cancer development...
  22. ncbi request reprint Structure and catalytic mechanism of the E. coli chemotaxis phosphatase CheZ
    Rui Zhao
    Department of Microbiology and Immunology, University of North Carolina, Chapel Hill, North Carolina, 27599 7290 USA
    Nat Struct Biol 9:570-5. 2002
    ..Similarities between the CheY[bond] CheZ and Spo0F [bond]Spo0B structures suggest a general mode of interaction for modulation of response regulator phosphorylation chemistry...
  23. pmc CheZ-mediated dephosphorylation of the Escherichia coli chemotaxis response regulator CheY: role for CheY glutamate 89
    Ruth E Silversmith
    Department of Microbiology and Immunology, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Bacteriol 185:1495-502. 2003
    ..The CheZ resistance of CheYN59R can thus be largely explained by the formation of the salt bridge between Arg59 and Glu89, which prevents Glu89 from executing its role in catalysis...
  24. doi request reprint Determining binding sites of drugs on human serum albumin using FIA-QCM
    Qundan Zhang
    Beijing National Laboratory for Molecular Sciences, Laboratory of Analytical Chemistry for Life Science, Institute of Chemistry, Chinese Academy of Sciences, Beijing, China
    Biosens Bioelectron 24:48-54. 2008
    ..The results demonstrate FIA-QCM can be a valid approach for monitoring the dynamic interaction between drugs and HSA in real time further identifying drug-binding sites without the need of labels...
  25. pmc Distinct activities of the DExD/H-box splicing factor hUAP56 facilitate stepwise assembly of the spliceosome
    Haihong Shen
    Department of Life Science, Gwangju Institute of Science and Technology, Gwangju 500 712, Korea
    Genes Dev 22:1796-803. 2008
    ..Our results indicate that hUAP56 first interacts with U2AF(65) in an ATP-dependent manner, and subsequently with U4/U6 snRNAs to facilitate stepwise assembly of the spliceosome...
  26. ncbi request reprint Crystal structures of four types of human papillomavirus L1 capsid proteins: understanding the specificity of neutralizing monoclonal antibodies
    Brooke Bishop
    Department of Molecular and Computational Biology, University of Southern California, Los Angeles, California 90089, USA
    J Biol Chem 282:31803-11. 2007
    ..On the basis of these distinct surface loop structures, we have provided a molecular explanation for the type specificity of NmAbs against HPV infection...
  27. pmc Direct mass spectrometric analysis of intact proteins of the yeast large ribosomal subunit using capillary LC/FTICR
    Sang Won Lee
    Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, P O Box 999, Richland, WA 99352, USA
    Proc Natl Acad Sci U S A 99:5942-7. 2002
    ....

Research Grants4

  1. Understanding the structure and function of splicing factor Prp8
    Rui Zhao; Fiscal Year: 2009
    ..This approach is a critical step toward generating a complete picture of Prp8 that cannot be obtained otherwise, significantly advancing our understanding of the molecular mechanisms of pre-mRNA splicing. ..
  2. Understanding the structure and function of splicing factor Prp8
    Rui Zhao; Fiscal Year: 2010
    ..This approach is a critical step toward generating a complete picture of Prp8 that cannot be obtained otherwise, significantly advancing our understanding of the molecular mechanisms of pre-mRNA splicing. ..
  3. Understanding the structure and function of splicing factor Prp8
    Rui Zhao; Fiscal Year: 2009
    ..This approach is a critical step toward generating a complete picture of Prp8 that cannot be obtained otherwise, significantly advancing our understanding of the molecular mechanisms of pre-mRNA splicing. ..