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MacCHESS user publications
2008        
2007 2006 2005
2004 2003 2002
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Notable publications by MacCHESS users before 1993
Technical R&D publications
Theses from work at MacCHESS

 

2008
  Kalyan Das, Joseph D. Bauman, Arthur D. Clark, Jr., Yulia V. Frenkel, Paul J. Lewi, Aaron J. Shatkin, Stephen H. Hughes, and Eddy Arnold. High-resolution structures of HIV-1 reverse transcriptase/TMC278 complexes: Strategic flexibility explains potency against resistance mutations. PNAS, 105(5), 1466-1471, 2008.
 
  Tempel W., Tong Y., Dimov S., Bochkarev A., Park H.  First crystallographic models of human TBC domains in the context of a
family-wide structural analysis. Proteins, 71(1), 497-502, 2008
 
  Clayton G. M., Altieri S., Heginbotham L., Unger V. M., Morais-Cabral J. H. Structure of the transmembrane regions of a bacterial cyclic
nucleotide-regulated channel. PNAS, 105(5), 1511-5, 2008
 
  Cherezov V., Liu W., Derrick J. P., Luan B., Aksimentiev A., Katritch V., Caffrey M. In meso crystal structure and docking simulations suggest an alternative proteoglycan binding site in the OpcA outer membrane adhesin. Proteins, 71(1), 24-34, 2008
 
  Sung Haeng Lee, Astrid Weins, David B. Hayes, Martin R. Pollak and Roberto Dominguez. Crystal Structure of the Actin-Binding Domain of α-Actinin-4 Lys255Glu Mutant Implicated in Focal Segmental Glomerulosclerosis. JMB, 376 (2), 317-324, 2008
 
  Huang Q, Hong X, Hao Q. SNAP-25 is also an iron-sulfur protein. FEBS Lett., 582(10), 1431-6, 2008
 
  Lyann Sim, Roberto Quezada-Calvillo, Erwin E. Sterchi, Buford L. Nichols and David R. Rose. Human intestinal maltase-glucoamylase: crystal structure of the N-terminal catalytic subunit and basis of inhibition and substrate specificity. JMB, 375(3), 782-92, 2008
 

 

2007
  Hofer N., Kolaj O., Li H., Cherezov V., Gillilan R., Wall J. G., Caffrey M.
Crystallization and preliminary X-ray diffraction analysis of a soluble domain of the putative zinc transporter CzrB from Thermus thermophilus. Acta Cryst. F, Struct. Biol. Cryst. Commun., 63(8), 673 -7, 2007
 
  Dias S. M. G, Cerione R. A. X-ray Crystal Structures Reveal Two Activated States for RhoC. Biochemistry, 46(22), 6547-6558, 2007
 
  Srivastava D. K., Jude K. M., Banerjee A. L., Haldar M., Manokaran S., Kooren J., Mallik S., Christianson D. W. Structural analysis of charge discrimination in the binding of inhibitors to human carbonic anhydrases I and II. J. Am. Chem. Soc., 129(17), 5528-37, 2007
 
Di Costanzo L., Gomez G. A., Christianson D. W. Crystal Structure of Lactaldehyde Dehydrogenase from Escherichia coli and Inferences Regarding Substrate and Cofactor Specificity. JMB, 366(2), 481-493, 2007
 
Olia A. S., Casjens S., Cingolani G. Structure of phage P22 cell envelopeA-penetrating needle. Nature Structural & Molecular Biology, 14, 1221-1226, 2007
 
  Yang Y., Gourinath S., Kovacs M., Nyitray L., Reutzel R., Himmel D. M., O`Neall-Hennessey E., Reshetnikova L., Szent-Gyorgyi A. G., Brown J. H., Cohen C. Rigor-like Structures from Muscle Myosins Reveal Key Mechanical Elements in the Transduction Pathways of This Allosteric Motor. Structure, 15(5), 553-564, 2007
 
  Brian D. Zoltowski, Sarsten Schwerdtfeger, Joanne Widom, Jennifer J. Loros, Alexandrine M. Bilwes, Jay C. Dunlap, Brian R. Crane. Conformational Switching in the Fungal Light Sensor Vivid. Science, 316, 5827, 1054-1057, 2007
 
  Sung Haeng Lee, David B. Hayes, Grzegorz Rebowski, Isabelle Tardieux, Roberto Dominguez. Toxofilin from Toxoplasma gondii forms a ternary complex with an antiparallel actin dimer. PNAS, v 104, 41, 16122-16127, 2007
 
  Lee S. H., Weins A., Hayes D. B., Pollak M. R., Dominguez R. Crystal Structure of the Actin-Binding Domain of alpha-Actinin-4 Lys255Glu Mutant Implicated in Focal Segmental Glomerulosclerosis. JMB,  Epub, 2007
 
  Zhang Y., El Kouni M. H., Ealick S. E. Substrate analogs induce an intermediate conformational change in Toxoplasmagondii adenosine kinase. Acta Cryst., D, 63(2), 126-34, 2007
 
  Hoskins A. A., Morar M., Kappock T. J., Mathews I. I., Zaugg J. B., Barder T. E., Peng P., Okamoto A., Ealick S. E., Stubbe J. N5-CAIR mutase: role of a CO2 binding site and substrate movement in catalysis. Biochemistry, 46(10), 2842-55, 2007
 
  Hidber E., Brownie E. R., Hayakawa K., Fraser M. E.; Participation of Cys123alpha of Escherichia coli succinyl-CoA synthetase in catalysis. Acta. Cryst. D, Biol. Cryst., 63(8), 876-84, 2007
 
Kozlov G., Peschard P., Zimmerman B., Lin T., Moldoveanu T., Mansur-Azzam N., Gehring K., Park M. Structural basis for UBA-mediated dimerization of c-Cbl ubiquitin ligase. JBC,  282(37), 27547-27555, 2007
 
  Kumar S., Padhan N., Alam N., Gourinath S. Crystal structure of calcium binding protein-1 from Entamoeba histolytica: A novel arrangement of EF hand motifs. Proteins: Structure, Function and Bioinformatics, 68(4), 990-998, 2007
 
Kim C-U., Hao Q. and Gruner S. M. High-pressure cryocooling for capillary sample cryoprotection and diffraction phasing at long wavelengths. Acta Cryst Sect. D Bio Cryst.,  63(5), 653-659, 2007
 
Collins M. D., Quillin M. L., Hummer G., Matthews B. W., Gruner S. M.
Structural Rigidity of a Large Cavity-containing Protein Revealed by High-pressure Crystallography. JMB, 367(3), 752-763, 2007
 
Drake E. J., Cao J., Qu J., Shah M. B., Straubinger R. M. and Gulick  A. M. The 1.8 Å Crystal Structure of PA2412, an MbtH-like Protein from the Pyoverdine Cluster of Pseudomonas aeruginosa. JBC, 282(28), 20425-20434, 2007
 
Reger A. R., Carney J. M., Gulick A. M. Biochemical and crystallographic analysis of substrate binding and conformational changes in acetyl-CoA synthetase. Biochemistry,  46, 6536-6546, 2007
 
Fan Jun, Qun Liu, Quan Hao, Maikun Teng, Liwen Niu. Crystal Structure of Uroporphyrinogen Decarboxylase from Bacillus subtilis. J. Bacteriol, 189, 3575-3580, 2007
 
Xing W., Zou Y., Liu Q., Liu J., Luo X., Huang Q., Chen S., Zhu L., Bi R., Hao Q., Wu J-W., Zhou J-M., Chai J. The structural basis for activation of plant immunity by bacterial effector protein AvrPto. Nature, 449, 243-247, 2007
 
  Qun Liu, Irina A. Kriksunov, Christelle Moreau, Richard Graeff, Barry V. L. Potter, Hon Cheung Lee, and Quan Hao. Catalysis associated conformational changes revealed by human CD38 complexed with a non-hydrolyzable substrate analog. JBC, 282(34), 24825-32, 2007
 
  Qun Liu, Irina A. Kriksunov, Richard Graeff, Hon Cheung Lee, and Quan Hao. Structural Basis for Formation and Hydrolysis of the Calcium Messenger Cyclic ADP-ribose by Human CD38. JBC, 282, 5853-5861, 2007
 
  H. Rong, Y. Li, X. Shi, X. Zhang, Y. Gao, H. Dai, M. Teng, L. Niu, Q. Liu and Q. Hao. Structure of human upstream binding factor HMG box 5 and site for binding of the cell-cycle regulatory factor TAF1. Acta Cryst.,D63, 730-737, 2007
 
  H. Wang, Y. Yan, Q. Liu, Y. Huang, Y. Shen, L. Chen, Y. Chen, Q. Y. Yang, Q. Hao, K. W. Wang and J. J. Chai. Structural basis for modulation of Kv4 K+ channels by auxiliary KChIP subunits. Nature Neuroscience, 10, 32-39, 2007
 
  Lockless S. W., Zhou M. and MacKinnon R. Structural and Thermodynamic Properties of Selective Ion Binding in a K+ Channel. PLoS Biology, 5(5), e121, 2007
 
Li K., Ossareh-Nazari B., Liu X., Dargemont C., Marmorstein R. Molecular Basis for Bre5 Cofactor Recognition by the Ubp3 Deubiquitylating Enzyme. JMB, 372, 194-204, 2007
 
Sanders B. D., Zhao K., Slama J. T., Marmorstein R. Structural basis for nicotinamide inhibition and base exchange in Sir2 enzymes. Mol Cell, 25(3), 463-72, 2007
 
Divya N., Grifith E. and Narayana N. Structure of the Q67H mutant of R67 dihydrofolate reductase-NADP+ complex reveals a novel cofactor binding mode. Protein Science, 16, 1063-1068, 2007
 
Nikolov D., Li C., Lackmann M., Jeffrey P., Himanen J. Crystal structure of the human ephrin-A5 ectodomain. Protein Science, 16, 996-1000, 2007
 
Gillilan R. E., Ayers S. D., Noy N. Structural Basis for Activation of Fatty Acid-binding Protein 4. JMB, 372(5), 1246-60, 2007
 
Ayers S. D., Nedrow K. L., Gillilan R. E. and Noy N. Continuous Nucleocytoplasmic Shuttling Underlies Transcriptional Activation of PPAR by FABP4. Biochemistry, 46(23), 6744-6752, 2007
 
Srimathi T., Robbins S. L., Dubas R. L., Seo J-H., Park Y. C. Purification, crystallization and preliminary crystallographic characterization of the caspase-recruitment domain of human Nod1. Acta Cryst., Section F, Structural Biology and Crystallization Communication, 63(1), 21-23, 2007
 
Englebienne P., Fiaux H., Kuntz D. A., Corbeil C. R., Gerber-Lemaire S, Rose D. R., Moitessier N. Evaluation of docking programs for predicting binding of Golgi -mannosidase II inhibitors: A comparison with crystallography. Proteins: Structure, Function, and Bioinformatics, 69(1), 160-176, 2007
 
Smilgies D-M., Blasini D. R. Indexation scheme for oriented molecular thin films studied with grazing-incidence reciprocal-space mapping. J. Appl. Cryst. 40, 716-718, 2007
 
Lomakin I.,B., Xiong Y. and Steitz T. A. The crystal structure of yeast fatty acid synthase, a cellular machine with eight active sites working together. Cell, 129, 319-332, 2007
 
Field M. S., Szebenyi D. M. E., Perry C. A., Stover P. J. Inhibition of 5,10-methenyltetrahydrofolate synthetase. Biochemistry and Biophysics, 458(2), 194-201, 2007
 
Moza B., Varma A. K., Buonpane R. A., Zhu P., Herfst C. A., Nicholson M. J., Wilbuer A-K., Seth N. P., Wucherpfennig K. W., McCormick J. K., Kranz D. M., Sundberg E. J. Structural basis of T-cell specificity and activation by the bacterial superantigen TSST-1. EMBO Journal, 26, 1187-1197, 2007
 
Brouillard J-N. P., Gunther S., Varma A. K., Gryski I., Herfst C. A., Nur_ur Rahman A. K. M., Leung D. Y. M., Schlievert P. M., Madrenas J., Sundberg E. J., McCormick J. K. Crystal Structure of the Streptococcal Superantigen SpeI and Functional Role of a Novel Loop Domain in T Cell Activation by Group V Superantigens. JMB, 367(4), 925-934, 2007
 
Lee S., Tsai F. T. F. Crystallization and preliminary X-ray crystallographic analysis of a 40 kDa N-terminal fragment of the yeast prion-remodeling factor Hsp104. Acta Cryst., F63, 784-786, 2007
 
MacElrevey C., Spitale R. C., Krucinska J., Wedekind J. E. A posteriori design of crystal contacts to improve the X-ray diffraction properties of a small RNA enzyme. Acta Cryst. D Biol Cryst.,  63(7), 812-25, 2007
 
  Abhijit A. Gurjar, Neela H. Yennawar, Hemant P. Yennawar, Kanagalaghatta R. Rajashankar, Narasimha V. Hegde and Bhushan M. Jayarao. Expression, crystallization and preliminary X-ray diffraction studies of recombinant Clostridium perfringens β2-toxin. Acta Crystallographica, Section F, Volume 63, Issue 6, 484-487, 2007
 
  Zhou M., Azzi A., Xia X., Wang E-D., Lin S-X. Crystallization and preliminary X-ray diffraction of E.coli arginyl-tRNA synthetase in complex form with a tRNAarg. Amino Acids, 32(4), 479-482, 2007
 
   
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2006
  Govindasamy Lakshmanan, Eric Padron, Robert McKenna, Nicholas Muzyczka, Nikola Kaludov, John A. Chiorini, and Mavis Agbandje-McKenna. Structurally Mapping the Diverse Phenotype of Adeno-Associated Virus Serotype 4. J. Virology, 80(23), 11556-11570, 2006
 
 
Lakshmanan Govindasamy, Eric Padron, Robert McKenna, Nicholas Muzyczka, Nikola Kaludov, John A. Chiorini, and Mavis Agbandje-McKenna. Structurally Mapping the Diverse Phenotype of Adeno-Associated Virus Serotype 4. J. Virol., 80, 11556-11570, 2006
 
  A. Lopez-Bueno , M. P. Rubio, N. Bryant, R. McKenna, M. Agbandje-McKenna, J. M. Almendral. Host selection of subtle topological changes at the sialic acid binding pocket of the parvovirus capsid modulating cell binding affinity drastically determine virulence. J. Virol., 80, 1563-1573, 2006.
 
  Tian Y., Ma X., Oren D. A., Hering K., Wrin T., Petropoulos C.J., Arnold E., Arnold G. F. and Taylor J. W. Structure-based Design of conformationally constrained peptide immunogens with high affinities for the HIV-1 neutralizing monoclonal antibody 2F5. Manuscript in preparation, 2006.
 
  Das K., A. D. Clark Jr., P. J. Lewi, S. H. Hughes and E. Arnold.
Detection of non-nucleoside inhibitor binding to HIV-1 reverse transcriptase by dynamic light scattering. Submitted, 2006.
 
  Gouskos T., K. Das, S. Lewin, F. Wightman, E. Arnold, T. Bock and J. Torresi. Functional analysis of the beta3-beta4 region in the fingers subdomain of the HBV polymerase. Submitted, 2006.
 
  Kenji Maeda, Debananda Das, Hiromi Ogata-Aoki, Hirotomo Nakata, Toshikazu Miyakawa, Yasushi Tojo, Rachael Norman, Yoshikazu Takaoka, Jianping Ding, Gail F. Arnold Eddy , and Hiroaki Mitsuya. Structural and Molecular Interactions of CCR5 Inhibitors with CCR5. J. Biol. Chem., 281, 12688 - 12698, 2006
 
  Monica E. Hamburgh, Kenneth A. Curr, Melissa Monaghan, Vasudev R. Rao, Snehlata Tripathi, Bradley D. Preston, Stefan Sarafianos, Eddy Arnold , Thomas Darden, and Vinayaka R. Prasad. Determinants of Slippage-mediated Mutations by Human Immunodeficiency Virus Type 1 Reverse Transcriptase. JBC, 281, 7421 - 7428, 2006
 
  McWilliams M. J., J. G. Julias,S. G. Sarafianos, W. G. Alvord, E. Arnold and S. H. Hughes. Combining mutations in human immunodeficiency virus type 1 (HIV-1) reverse transcriptse with mutations in the HIV-1 polypurine tract (PPT) affects RNase H cleavages involved in PPT utilization. Virology, in press, 2006
 
  Boyer P. L, S. G. Sarafianos, P. K .Clark, E. Arnold and S. H. Hughes. Why do HIV-1 and HIV-2 use different pathways to develop AZT resistance?. PLoS Pathogens,in press, 2006.
 
  Jeremy Wally, Peter J. Halbrooks, Clemens Vonrhein, Mark A. Rould, Stephen J. Everse, Anne B. Mason, and Susan K. Buchanan. The crystal structure of iron-free human serum transferrin provides insight into inter-lobe communication and receptor binding. JBC, 2006
 
Albright R. A., Vazquez Ibar J.-L., Kim C. U., Gruner S. M., and Morais Cabral J. H. The RCK domain of the KtrAB K+ transporter: multiple conformations of an octameric ring. Cell, 126, 1147-1159, 2006
 
  Cherezov V., Clogston J., Papiz M. Z., Caffrey M. Room to move: crystallizing membrane proteins in swollen lipidic mesophases. JMB, 357(5), 1605-1618, 2006.
 
  Wakshlag J. J., Antonyak M. A., Boehm J., Duff K., Cerione R. A.
Effects of tissue transglutaminase on beta-amyloid 1-49-induced apoptosis. The Protein Journal,In Press, 2006
 
  Fidyk N., Wang J. B., Cerione R. A. Influencing cellular transformation by modulating the rates of GTP hydrolysis by Cdc42. Biochemistry, Submitted, 2006
 
  Lin Q., Yang W., Cerione R. A. Measurement of epidermal growth factor receptor turnover and effects of Cdc42. Methods Enzymol, 406, 614-625, 2006
 
  Majumdar S., Ramachandran S., Cerione R. A. New Insights into the Role of Conserved, Essential Residues in the GTP Binding/GTP Hydrolytic Cycle of Large G Proteins. JBC,  281(14), 9219-9226, 2006.
 
  Baird D., Feng Q., Cerione R. A. Biochemical characterization of Cool (Cloned-out-of-Library)/PIX (Pak-interactive exchange factor) proteins. Methods Enzymol, 406, 58-69, 2006.
 
  Jude K. M., Banerjee A. L., Haldar M. K., Manokaran S., Roy B., Mallik S., Srivastava D. K., Chrisianson D. W. Ultrahigh resolution crystal structures of human carbonic anhydrases I and II complexed with `two-prong` inhibitors reveal the molecular basis of high affinity. J. Am. Chem. Soc., 128(9), 3011-3018, 2006.
 
  Kevin Jude, Abir Banerjee, Manas Haldar, Sumathra Manokaran, Bidhan Roy, Sanku Mallik, D. K. Srivastava, David Christianson. Ultrahigh Resolution Crystal Structures of aHuman Carbonic Anhydrases I and II Complexed with `Two-Prong` Inhibitors Reveal the Molecular Basis of High Affinity. J. Am. Chem. Soc., 128, 3011-3018, 2006.
 
  Gennadios H. A., Whittington D. A., Li X., Fierke C. A. and Christianson D. W.  Mechanistic Inferences from the Binding of Ligands to LpxC, a Metal-Dependent Deacetylase. Biochemistry, 45, 7940-7948, 2006.
 
Taylor D. J., Speir J. A., Reddy V., Cingolani G., Pringle F. M., Ball L. A. Johnson J. E. Preliminary x-ray characterization of authentic providence virus and attempts to express its coat protein gene in recombinant baculovirus. Arch. Virol., 151, 1, 155-65, 2006
 
  G. Cingolani,D. Andrews and S. Casjens. Crystallogenesis of bacteriophage P22 tail accessory factor gp26 at acidic and neutral pH. Acta Cryst., F62, 6, 477-482, 2006.
 
  D. E. Hurt, J. Widom and J. Clardy. Structure of Plasmodium falciparum dihydroorotate dehydrogenase with a bound inhibitor. Acta Cryst., D62, 3, 312-323, 2006.
 
  Hurt D. E., Sutton A. E. and Clardy J. . Brequinar derivatives and species-specific drug design for dihydroorotate dehydrogenase. Bioorganic & Medicinal Chemistry Letters, 16, 1610-1615, 2006.
 
  Nonato M. C., Widom J., and Clardy J. Human methionine aminopeptidase type 2 in complex with l- and d-methionine. Bioorganic & Medicinal Chemistry Letters, 16, 2580-2583, 2006.

Cody, V., Pac, J., Chisum, K. New Insights into Dihydrofolate Reductase (DHFR) Interactions: Analysis of Pneumocystis carinii and Mouse DHFR Complexes with NADPH and Two Highly Potent 5-(w-Carboxy(alkyloxy) Trimethoprim Derivatives Reveals Conformational Correlations with Activity and Novel Parallel Ring Stacking Interactions. Proteins Structure, Function and Bioinformatics, In Press, 2006
 
Houdusse A, Gaucher J.F., Krementsova E., Mui S., Trybus K. M., Cohen C. Crystal structure of apo-calmodulin bound to the first two IQ motifs of myosin V reveals essential recognition features. PNAS,03(51), 19326-31, 2006
 
  Chao X, Muff T. J., Park S. Y., Zhang S., Pollard A. M., Ordal G. W., Bilwes A. M., Crane B. R. A receptor-modifying deamidase in copmlex with a signaling phosphatase reveals reciprocal regulation. Cell, 124(3), 561-571, 2006.
 
  Pant K., Crane B. R. Nitrosyl-heme structures of Bacillus subtilis nitric oxide synthase have implications for understanding substrate oxidation. Biochemistry, 45(8), 2537-44, 2006.
 
  Kang S. A., Hoke K. R., Crane B. R. Solvent isotope effects on interfactial protein electron transfer in crystals and electrode films. J. Am. Chem. Soc., 128(7), 2346-55, 2006
 
  Blanco-Rodriguez A. M., Busby M., Gradinaru C., Crane B. R., DiBilio A. J., Matousek P., Towrie M., Leigh B. S., Richards J. H., Vlcek A., and Gray H. B. Excited-State Dynamics of Structurally Characterized [ReI(CO)3(phen)(HisX)]+ (X = 83, 109) Pseudomonas aeruginosa Azurins in Aqueous Solution J. Am. Chem. Soc., 128, 4365-4370,2006. 
 
  Shen N., Guo L., Yang B., Jin Y., and Ding J. Structure of human tryptophanyl-tRNA synthetase in complex with tRNATrp reveals the molecular basis of tRNA recognition and specificity. Nucleic Acids Res., 34, 3246-3258,2006
 
Zhang P., J. Du, B. Sun, X. Dong, G. Xu, J .Zhou, Q. Q. Huang, Q. Liu, Q. Hao and J. P. Ding. Structure of human MRG15 chromo domain and its binding to Lys36-methylated histone H3. Nucleic Acids Research, 34, 6621-6628, 2006
 
Jurgenson C.T., Chatterjee A., Begley T. P. and Ealick S. E. Structural insights into the function of the thiamin biosynthetic enzyme Thi4 from Saccharomyces cerevisiae. Biochemistry, 45(37), 11061-70, 2006
 
Xu Guoqiang. Narayan Mahesh, Kurinov Igor, Ripoll Daniel R., Welker Ervin, Khalili Mey, Ealick Steven E., Scheraga Harold A. A localized specific interaction alters the unfolding pathways ofstructural homologues.
J. Am. Chem. Soc., 128, 1204-13, 2006
 
Zhang Y., Secrist  J. A. 3rd, Ealick  S. E. The structure of human deoxycytidine kinase in complex with clofarabine reveals key interactions for prodrug activation. Acta Cryst., D, 62(2), 133-9, 2006
 
  Zhang Y., Porcelli M., Cacciapuoti G., Ealick S. E. The crystal structure of 5`-Deoxy-5`-methylthioadenosine Phosphorylase II from sulfolobus solfataricus, a thermophilic enzyme stabilized by intramolecular disulfide bonds. JMB, 357, 252-262, 2006.
 
  Lehmann C., Begley T., Ealick S. E. Structure of the escherichia coli ThiS-ThiF complex, a key component of the sulfur transfer system in thiamin biosynthesis. Biochemistry, 45, 11-19, 2006.
 
Nezami Azin G., Poy Florence, Eck Michael J. Structure of the autoinhibitory switch in formin mDia1. Structure, 14(2), 257-63, 2006
 
  Ceccarelli Derek F., Song Hyun Kyu, Poy Florence, Schaller Michael D., Eck Michael J. Crystal structure of the FERM domain of focal adhesion kinase. JBC, 281, 252-9, 2006
 
  Meyer P. A., Ye P., Zhang M., Suh M.-H., and Fu J. Phasing RNA Polymerase II Using Intrinsically Bound Zn Atoms: An Updated Structural Model. Structure, 14, 973-982, 2006.
 
Alexey Yu. Denisov, Gang Chen, Tara Sprules, Tudor Moldoveanu, Pierre Beauparlant, and Kalle Gehring. Structural Model of the BCL-w-BID Peptide Complex and Its Interactions with Phospholipid Micelles. Biochemistry, 45(7), 2250-2256, 2006
 
Ghosh D., Erman M. and Griswold J. Crystal Structure of Estrone Sulfatse-Estrone Complex and Mechanism of Estrogen Recognition. In Preparation, 2006
 
Qun Shen, Quan Hao and Sol M Gruner. Macromolecular Phasing.
Physics Today. Japanese version: Parity, Vol. 21, No. 10, 46-52, 2006
 
  Chae Un Kim, Quan Hao and Sol M. Gruner. Solution of protein crystallographic structures by high-pressure cryocooling and noble-gas phasing. Acta Cryst. D, 62(7), 687-694, 2006
 
  Sundlov J. A., Garringer J. A., Carney J. M., Reger A. S., Drake E. J., Duax W. L. and Gulick A. M. Determination of the crystal structure of EntA, a 2,3-dihydro-2,3-dihydroxybenzoic acid dehydrogenase from Escherichia coli. Acta Cryst., D 62, 7, 734-740, 2006.
 
  Jun Fan, Qun Liu, Quan Hao, Maikun Teng, Liwen Niu. Crystal Structure of Uroporphyrinogen Decarboxylase from Bacillus subtilis. J. Bacteriol.,  Accepted, 2006
 
  Li X., Guo M., Fan J., Tang W., Wang D., Ge H., Rong H., Teng M., Niu L., Liu Q., Hao Q. Crystal structure of 3-hydroxyanthranilic acid 3,4-dioxygenase from Saccharomyces cerevisiae: A special subgroup of the type III extradiol dioxygenases. Protein Sci.,15,761-773,2006.
 
  Q. Hao. Macromolecular envelope determination and envelope-based phasing. Acta Cryst., D 62, 8, 909-914, 2006.
 
  Chad R. Simmons, Qun Liu, Qingqiu Huang, Quan Hao, Tadhg P. Begley, P. Andrew Karplus, and Martha H. Stipanuk. Crystal Structure of Mammalian Cysteine Dioxygenase: a Novel Mononuclear Iron Center for Cysteine Thiol Oxidation. JBC, 281, 18723 - 18733, 2006.
 
  Richard Graeff, Qun Liu, Irina A. Kriksunov, Quan Hao, and Hon Cheung Lee. Acidic residues at the active sites of CD38 and ADP-ribosyl cyclase determine NAADP synthesis and hydrolysis activities. JBC, 281, 28951-28957, 2006.
 
  Qun Liu, Irina A. Kriksunov, Richard Graeff, Cyrus Munshi, Hon Cheung Lee, and Quan Hao. Structural basis for the mechanistic understanding human CD38 controlled multiple catalysis. JBC, 281, 32861-32869, 2006.
 
Adams Melanie A., Jia Zongchao. Modulator of Drug Activity B from Escherichia coli: Crystal Structure of a Prokaryotic Homologue of DT-diaphorase. JMB, 359(2), 455-65, 2006
 
  Adams J. J., Pal G., Jia Z., Smith S. P. Mechanism of bacterial cell-surface attachment revealed by the structure of cellulosomal type II cohesin-dockerin complex. PNAS, 103(2), 305-310, 2006.
 
  Huang, J., and Lipscomb, W. N.  T-State Active Site of Aspartate Transcarbamylase: Crystal Structure of the Carbamyl Phosphate and Alanosine Ligated Enzyme. Biochemistry, 45, 346-352, 2006.

L. Vogeley and H. Luecke. Crystallization, X-ray diffraction analysis and SIRAS/molecular-replacenent phasing of three crystal forms of Anabaena sensory rhodopsin transducer. Acta Cryst., F62, 4, 388-391, 2006
 
Ho WC, Fitzgerald MX, Marmorstein R. Structure of the p53 core domain dimer bound to DNA. J. Biol. Chem., 281(29), 20494-502, 2006
 
Fitzgerald Mary X., Rojas Jeannie R., Kim John M., Kohlhaw Gunter B., Marmorstein Ronen. Structure of a Leu3-DNA Complex: Recognition of Everted CGG Half-Sites by a Zn(2)Cys(6) Binuclear Cluster Protein. Structure, 14(4), 725-35, 2006
 
  Fisher S. Zoë, Govindasamy Lakshmanan, Tu Chingkuang C., Agbandje-McKenna Mavis, Silverman David N., Rajaniemi Hannu J., McKenna Robert. Structure of human salivary alpha-amylase crystallized in a C-centered monoclinic space group. Acta Cryst F, 62, 2, 88-93, 2006
 
  Budayova-Spano Monika, Fisher S. Zoe, DAuvergne Marie Therese, Agbandje-McKenna Mavis, Silverman David N., Myles Dean A. A., McKenna Robert. Production and X-ray crystallographic analysis of fully deuterated human carbonic anhydrase II. Acta Cryst F, 62, 1, 6-9, 2006
 
  Fisher, S. Z., Govindasamy, L., Boyle, N., Agbandje-McKenna, M., Silverman, D. N., Blackburn, G. M., and McKenna, R.  X-ray crystallographic studies reveal that the incorporation of spacer groups in carbonic anhydrase inhibitors causes alternate binding modes. Acta Cryst F, 62, 618-622, 2006.
 
Narayana Narendra , Shamala N, Ganesh Krishna N., Viswamitra M. A. 
Interaction between the Z-type DNA duplex and 1,3-propanediamine: crystal structure of d(CACGTG)2 at 1.2 A resolution. Biochemistry, 45, 4, 1200-11, 2006
 
  Kwok L. W., Shcherbakova I., Lamb J. S., Park H. Y., Andresen K., Smith H., Brenowitz M., and Pollack L. Concordant Exploration of the Kinetics of RNA Folding from Global and Local Perspectives. JMB, 355, 282-293, 2006.
 
  X. Qiu, L. W. Kwok, H. Y. Park, J. S. Lamp, K. Andresen and L. Pollack. Measuring inter-DNA Potentials in Solution. Physical Review Letters,  96, 138101-1 - 138101-4, 2006.
 
  Chen R., Neill J. D., Estes M. K., and Prasad B. V. V.  X-ray structure of a native calicivirus: Structural insights into antigenic diversity and host specificity. PNAS, 103, 8048-8053, 2006.
 
  Monnier N., Higo-Moriguchi K., Sun Z.-Y. J., Prasad B. V. V., Taniguchi K., and Dormitzer P. R.  High-Resolution Molecular and Antigen Structure of the VP8* Core of a Sialic Acid-Independent Human Rotavirus Strain. J. Virol, 80, 1513-1523, 2006.
 
Victoria E. Ahn, Paul Leyko, Jean-René Alattia, Lu Chen and Gilbert G. Privé. Crystal structures of saposins A and C. Protein Science,15, 1849-1857, 2006
 
  Roni D. Gordon, Prashanth Sivarajah, Malathy Satkunarajah, Dengbo Ma, Chris A. Tarling, Dragos Vizitiu, Stephen G. Withers and James M. Rini. X-ray Crystal Structures of Rabbit N-acetylglucosaminyltransferase I (GnT I) in Complex with Donor Substrate Analogues. JMB, V. 360, 1,67-79,2006.
 
Pak J. E., Arnoux P., Zhou S., Sivarajah P., Satkunarajah M., Xing X., and Rini J. M. X-ray crystal structure of leukocyte type core 2a1,6-N-acetylglucosaminyltransferase: evidence for a convergence of metal ion independent glycosyltransferase mechanism. JBC, 281, 36, 26693-701, 2006.
 
  Kawatkar S. P., Kuntz D. A., Woods R. J., Rose D. R. and Boons G. J.  Structural Basis of the Inhibition of Golgi Mannosidase II by Mannostatin A and the Role of the Thiomethyl Moiety in Ligand-Protein Interactions. J. Am. Chem. Soc., 128, 8310-8319, 2006.
 
Kuntz D.A., Liu H., Bols M. and Rose D. R. The role of the active site Zn in the catalytic mechanism of the GH38 Golgi a-mannosidase II: implications from noeuromycin inhibition. Biocatalysis and Biotransformation, 24, 55-61, 2006
 
  Lauren R. Sheckler, Lisa Henry, Shuzo Sugita, Thomas C. Südhof, and Gabby Rudenko. Crystal structure of the second LNS/LG domain from neurexin 1alpha : Ca2+-binding and the effects of alternative splicing. JBC, 2006.
 
  Lu, J. Z., Fujiwara, T., Komatsuzawa, H., Sugai, M., and Sakon, J.  Cell Wall-targeting Domain of Glycylglycine Endopeptidase Distinguishes among Peptidoglycan Cross-bridges. JBC, 281, 549-558,2006.
 
Dashuang Shi, Xiaolin Yu, Lauren Roth, Hiroki Morizono, Mendel Tuchman, Norma M. Allewell. Structures of N-acetylornithine transcarbamoylase from Xanthomonas campestris complexed with substrates and substrate analogs imply mechanisms for substrate binding and catalysis. Proteins: Structure, Function, and Bioinformatics, 64, 2, 532-542, 2006
 
Shi D., Yu X., Roth L., Morizono H., Tuchman M. and Allewell N. M.
Structures of N-acetylornithine transcarbamoylase from Xanthomonas campestris complexed with substrates and substrate analogues imply mechanisms for substrate binding and catalysis. Proteins, 634, 532-542, 2006
 
  Nieng Yan, Jun R. Huh, Virgil Schirf, Borries Demeler, Bruce A. Hay, and Yigong Shi. Structure and Activation Mechanism of the Drosophila Initiator Caspase Dronc. JBC, 281, 8667 - 8674, 2006.
 
  Field, M. S., Szebenyi, D. M. E., and Stover, P. J.  Regulation of de Novo Purine Biosynthesis by Methenyltetrahydrofolate Synthetase in Neuroblastoma. JBC, 281, 4215-4221, 2006.
 
Banerjee A., Santos W. L., Verdine G. L. Structure of a DNA glycosylase searching for lesions. Science, 311, 1153-1157, 2006.
 
Blainey Paul C., van Oijen Antoine M., Banerjee Anirban , Verdine Gregory L., Xie X .,Sunney X. S. A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA. PNAS  USA, 103, 15, 5752-7, 2006
 
Qiaozhen Ye, Robert M. Krug and Yizhi Jane Tao. The mechanism by which influenza A virus nucleoprotein forms oligomers and binds RNA. Nature, 2006
 
Joseph E. Wedekind, Richard Gillilan, Alena Janda, Jolanta Krucinska, Jason D. Salter, Ryan P. Bennett, Jay Raina, and Harold C. Smith. Nanostructures of APOBEC3G support a hierarchical assembly model of high molecular mass ribonucleoprotein particles from dimeric subunits. JBC, 281, 50, 38122-38126, 2006.
 
  Salter J., Krucinska J., Alam S., Grum-Tokars V. and Wedekind J. E. Water in the active site of an all-RNA hairpin ribozyme and the effects of Gua8 base variants on the geometry of phosphoryl transfer. Biochemistry, 45 (3), 686-700, 2006.
 
Yingfang Liu , Adhar C. Manna, Cheol-Ho Pan, Irina A. Kriksunov, Daniel J. Thiel, Ambrose L. Cheung and Gongyi Zhang. Structural and function analyses of the global regulatory protein SarA from Staphylococcus aureus. PNAS, 103(7), 2392-2397, 2006
 
Cui Y., Parra I., Zhang M., Hilsenbeck S. G., Tsimelzon A., Furukawa T., Horii A., Zhang Z-Y., Nicholson R. I. and Fuqua S. A. Elevated Expression of Mitogen-Activated Protein Kinase Phosphatase 3 in Breast Tumors: A Mechanism of Tamoxifen Resistance. Cancer Research, 66, 5950-5959, 2006
 
Zue C., Liang F., Mahmood R., Vuolo, M. Wyckoff J., Qian H., Tsai K-L., Kim M., Locker J., Zhang Z-Y. and Segall J. E. ErbB3-dependent motility and intravasation in breast cancer metastasis. Cancer Research,66, 1418-1426, 2006
 
Liu S., Sun J-P., Zhou B. and Zhang Z-Y. Structural basis of docking interaction between ERK2 and MAP kinase phosphatase 3.
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Lee H., Xie L., Luo Y., Lee S-Y, Lawrence D. S., Wang X. B., Sotgia F, Lisanti, M. P. and Zhang, Z-Y. Identification of Phospho-Caveolin-1 as a Novel PTP1B Substrate. Biochemistry, 45, 234-240, 2006
 
Xue C., Wyckoff J., Liang F., Sidani M., Violini S., Tsai K-L., Zhang Z-Y, Sahai E., Condeelis J., and Segall J. E. Epidermal Growth Factor Receptor Overexpression Results in Increased Tumor Cell Motility In vivo Coordinately with Enhanced Intravasation and Metastasis. Cancer Research, 66, 192-197, 2006
 
Kumar S., Zhou B., Liang F., Yang H., Wang W-Q. and Zhang Z-Y. Global Analysis of Protein Tyrosine Phosphatase Activity with Ultra-Sensitive Fluorescent Probes. J. Proteome Res., 5, 1898-1905, 2006
 
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updated by Weilin Meng

 

2005
  M. D. Lane, H.-J.