DEPARTMENT OF BIOCHEMISTRY & MOLECULAR BIOLOGY_ 

 

 

The University of Georgia

 

BCMB Faculty_____________________________________________ \

 

John Rose, Ph.D._____ _____________________________________

 


 


Associate Professor

Room B204B Fred C. Davison Life Sciences Complex

Phone: 706-542-1750              


        E-mail: rose@bcl4.bmb.uga.edu

Biographical Information

Ph.D. Rutgers, The State University (Newark), 1980 in Physical Chemistry


        Postdoctoral Fellow University of Pittsburgh, 1980-1986 in Protein Crystallography

Assistant Director Southeast Regional Collaborative Access Team  (SER-CAT) 1999-present

Research Interests

Structural biology

Protein structure-function

X-ray crystallography of proteins and protein complexes

Structure determination by single wavelength anomalous scattering

Application of synchrotron x-rays to protein crystallography

Structural proteomics

Augmenter of liver regeneration

 

The three dimensional structures of proteins or protein complexes can provide important clues concerning protein function and mechanism of action on a molecular level.  The Rose laboratory is interested in using molecular biology coupled with X-ray crystallography and other biophysical techniques to study structure function relationships of proteins, and their complexes with other proteins and nucleic acids.  These studies are aimed at providing the structural basis of molecular action that can be exploited in the design of therapeutics and other applications.  For example from our work on the Augmenter of Liver Regeneration (ALR), an interesting protein first isolated from regenerating rat liver, we were first to point out the novel ALR FAD binding motif and catalytic site. 

Another project of the Rose group, in collaboration with Bi-Cheng Wang, is focused at improving the success rate of crystal structure determination from single wavelength anomalous scattering data.   This project includes developing improved data collection methods, data collection using soft (l > 1.5) X-rays, and automating the synchrotron data collection and structure determination process.

Selected Publications (95 total)

Factors Affecting the Data Reproducibility on an Area Detector.

J.P. Rose and B.C. Wang, J. Appl. Cryst. 23: 234-240 (1990).

Crystal Structure of Bacteriophage T7 RNA Polymerase at 3.3 Resolution.    PDB entry 4RNP

R. Sousa, Y.J. Chung, J.P. Rose, and B.C. Wang, Nature 364: 593-599 (1993).

The Octameric Histone Core of Nucleosome: The Structural Issues Resolved.   PDB entry 1HIO

B.C. Wang, J.P. Rose, G. Arents and E.N. Moudrianakis, J. Mol. Biol. 236: 179‑188 (1994).

Crystal Structure of the Neurophysin-Oxytocin Complex.    PDB entry 1NPO

J.P. Rose, C.-K. Wu, C.H. Hsaio, E. Breslow and B.C. Wang, Nature  Structural Biology  3: 163-169 (1996).

The First Structure of an Aldehyde Dehydrogenase Reveals Novel NAD-Binding Interactions with Rosemann Fold.   PDB entry 1AD3

Z.J. Liu, J. Sun, J. Rose, Y.J. Chung, C.D. Hsiao, W.R. Chang, I. Kuo, J. Perozich,  R. Lindahl, J. Hempel and B.C. Wang, Nature Structural Biology 4: 317-326 (1997).

Structural Basis of Neurophysin Hormone Specificity: Geometry, Polarity, and Polarizability in Aromatic Ring Interactions.

E. Breslow, V. Mombouyran, R. Deeb, C. Zheng, J.P. Rose, B.C. Wang and R.H. Haschemeyer.  Protein Sci. 8: 820-831 (1999).

Using Single Wavelength Anomalous Scattering Data For In-House Protein Structure Determination.

J.P. Rose, C.-K. Wu, Z.-J. Liu, M.G. Newton and B.C. Wang, Rigaku J. 18: 4-12 (2001).

The 2.0 Structure of Human Ferrochelatase, the Terminal Enzyme of Heme Biosynthesis.   PDB entry 1HRK

C.-K. Wu, H.A. Dailey, J.P. Rose, A.E. Burden, V.M. Sellers, and B.C. Wang, Nature Structural Biology, 8: 156-160 (2001).

The Crystal Structure of the Transcription Factor sc-mtTFB Offers Insights into Mitochondrial Transcription.   PDB entry 1I4W

F.D. Schubot, C.-J. Chen, J.P. Rose, T.A. Dailey, H.A. Dailey, and B.C. Wang, Protein Science 10:1869-1880 (2001).

Structures of an Unliganded Neurophysin and its Vasopressin Complex: Implications for Binding and Allosteric Mechanisms.   PDB entry 1JK6, 1JK4

C.K. Wu, B. Hu, J.P. Rose, Z.J. Liu, T.L. Nguyen, C. Zheng, E. Breslow and B.C. Wang, Protein Science 10: 1869-1880 (2001).

Structural Basis For the Substrate Specificity of the Feruloyl Esterase Domain of the Cellulosomal Xylanase Z of Clostridium thermocellum.   PDB entry 1JJF

F.D. Schubot, I.A. Kataeva, D.L. Blum, A.K. Shah, L.G. Ljungdahl, J.P. Rose, and B.C. Wang, Biochemistry 40: 12524-12532 (2001).

The Crystal Structure of Augmenter of Liver Regeneration: a Mammalian FAD Dependent Sulfhydryl Oxidase.   PDB entry 1OQC

C.-K. Wu, T.A. Dailey, H.A. Dailey, B.C. Wang,  and J.P. Rose, Protein Science 12: 1109-1118 (2003).

The Southeast Collaboratory for Structural Genomics: A High-Throughput Gene to Structure Factory.

M.W.W. Adams, H.A. Dailey, L.J. DeLucas, M. Luo, J.H. Prestegard, J.P. Rose and B.C. Wang, Acc. Chem. Res. 36: 191-198 (2003).

Practical Aspects of SAS Phasing Using Chromium X-rays.

J.P. Rose, Z.-J. Liu, W. Temple, L.R. Chen, D. Lee, M.G. Newton and B.C. Wang, Rigaku J. 21: 3-11 (2004).

Monitoring the Anomalous Scattering Signal and Noise Levels in X-ray Diffraction of Crystals.

Z.-Q. Fu, J.P. Rose, and B.C Wang, Acta Cryst. D60: 499-506 (2004).

A Test of Enhancing Model Accuracy in High-Throughput Crystallography.

WB. Arendall, W. Tempel, J.S. Richardson, W. Zhou, S. Wang, I.W. Davis, Z.-J. Liu, J.P. Rose, W.M. Carson, M. Luo, D.C. Richardson and B.C. Wang. Journal of Structural and Functional Genomics, 6: 1-11 (2005).

 

SGXPro: a Parallel Workflow Engine Enabling Optimization of Program Performance and Automation of Structure Determination.

Z.Q. Fu, J.P. Rose and B.C. Wang, Acta Cryst. D61: 951-959 (2005). 


On Increasing Protein Crystallization Throughput for X-ray Diffraction Studies. 

A.K. Shah, Z.-J. Liu, P. Shaw Stewart, F. Schubot, J.P. Rose, M.G. Newton and B.C. Wang, Acta Cryst. D61: 123-129 (2005).

Parameter Space Screening – A Powerful Tool for High-throughput Crystal Structure Determination.

Z.-J. Liu, D. Lin, W. Tempel, J.L. Praissman, J.P. Rose and B.C. Wang, Acta Cryst. D61: 520-527 (2005).

Protein Production and Crystallization at SECSG – An Overview.

B.C. Wang, M.W.W. Adams, H.A. Dailey, L. DeLucas, M. Luo, J.P. Rose., R. Bunzel, T.A. Dailey, J. Habel, P. Horanyi, F. Jenney, I. Kataeva, H.-S. Lee, S. Li, T. Li, D. Lin, Z.-J. Liu, C.-H. Luan, M. Mayer, L. Nagy, M.G. Newton, J. NG, F. Poole, C. Shah, F.F. Sugar and H. Xu, Journal of Structural and Functional Genomics 6: 233-243 (2005).

Away From the Edge II: In-House Se-SAS Phasing With Chromium Radiation.   PDB entry 1XHO

<!DOCTYPE IUCR-ART PUBLIC "IUCr//DTD IUCr article dtd V1.1//EN"><iucr-art jid="" aid="" access="pay" docsubty="" crt="International Union of Crystallography" language="0"><jnlinfo name="" yr="" issue="1" volume="" abbrtitle="" coden="" editor="" issn="" fpage="0" lpage="0"><fm><atl></atl>H. <aug><au><fnm></fnm><snm>Xu</snm></au><orf id=", C."> </fnm><snm>Yang</snm></au><orf id=", L. <au><fnm><snm>Chen</snm></au><orf id=", I.A."> <au><fnm><snm>Kataeva</snm></au><orf id=", W."> <au><fnm><snm>Tempel</snm></au><orf id=", D."> <au><fnm>e<snm>Lee</snm></au><orf id=", J."> <au><fnm><snm>Habel</snm></au><orf id=", D. <au><fnm></fnm><snm>Nguyen</snm></au><orf id=", J.W."> <au><fnm>">Pflugrath, J.D.  <au><fnm><snm>Ferrara, ">W.B. <au><fnm><snm>Arendall III</snm></au><orf id=", J.S. "><au><fnm><snm>Richardson</snm></au><orf id=", D.C."> <au><fnm><snm>Richardson</snm></au><orf id=", Z.-J."> <snm>Liu</snm></au><orf id=", M.G."> Newton, J.P. <au><fnm><snm>Rose</snm></au><orf id=" and B.C. <snm>Wang</snm></au><orf id=",  Acta Cryst D61: 960-966 (2005).

Reconstruction of Ancient Genome and Gene Order From Complete Microbial Genome Sequences.

Y. Wang, W. Li, T. Zhang, C. Ding, Z. Lu, N. Long, J.P. Rose, B.C. Wang and D. Lin,  J. Theroetical Biology, (2005) in press.