Publications (Authors of the NMR user groups are in bold): 

 

   This Keck/IMD NMR Center has three major users, Dr. Xiaolian Gao, Dr. Xiang-Qun Xie and Dr. Glen Legge, and other minor users. The publications related to NMR between year 2003 and 2005 are listed below.

 

1.     Xia, Y., Yee, A., Arrowsmith, C. H., and Gao, X. (2003) 1HC and 1HN Total NOE correlations in a single 3D NMR experiment. 15N and 13C time sharing in t1 and t2 dimensions for simultaneous data acquisition. J. Biomol. NMR 27, 193-203.

2.     Cohen, D. M., Guthrie, P. H., Gao, X., Sakai, R., and Taegtmeyer, H. (2003) Glutamine Cycling in Isolated Working Rat Heart. Am. J. Physiol. Endocrinol. Metabolism 285, E1213-E1216.

3.     Li, C., Xia, Y., Gao, X., and Gershon, P. D. (2004) Mechanism of RNA 2'-O-methylation: Evidence that the catalytic lysine acts to steer rather than deprotonate the target nucleophile. Biochemistry 43, 5680-5687.

4.     Xia, Y., Zhu, G., Veeraraghavan, S. and Gao, X. (2004) (3,2)D GFT-NMR experiments for fast data collection from Proteins. J. Biomol. NMR 29, 467-476.

5.     Jun, K.-Y., Xia, Y., Han, X., Zhang, H., Timchenko, L., Swanson, S. M., and Gao, X. (2004) 1H, 15N and 13C Chemical Shift Assignments of RNA Repeats Binding Protein – CUGBP1ab. J. Biomol. NMR 30, 371-372.

6.     Xia, Y., Legge, G., Jun, K.-Y., Qi, Y., Lee, H., and Gao, X. (2005) IP-COSY, a totally in-phase and sensitive COSY experiment. J. Mag. Chemistry 43, 372-379.

7.     Zhao, Q., Nagaswamy, U., Lee, H., Xia, Y., Huang, H.-C., Gao, X., and Fox, G. E. (2005) NMR Structure and Mg2+ binding of an RNA segment that underlies the L7/L12 stalk in the E. coli 50S ribosomal subunit. Nucleic Acids Res. 33, 3145–3153.

8.     Zhu, G., Xia, Y., Lin, D., and Gao, X. (2004) “TROSY-based correlation and NOE spectroscopy for NMR structural studies of large proteins” Ch. 5 in Methods in Molecular Biology/Molecular Medicine. Ed. Walker, J. M. 278, 57-78.  Hamans, UK.

9.     Zhu, G., Xia, Y., Lin, D., and Gao, X. (2004) “TROSY-based NMR experiments for the study of macromolecular dynamics and hydrogen bonding” Ch. 8 in Methods in Molecular Biology/Molecular Medicine. Ed. Walker, J. M. 278, 164-184.  Hamans, UK.

10.  Gao, T.Y., Zhang, X.F., Xia, Y.L., Cho, Y.S., Sacchettini, J.C., Golden, S.S., LiWang, A.C. (2005) 1H, 13C and 15N chemical shift assignments of the C-terminal, 133-residue pseudoreceiver domain of circadian input kinase (CikA) in Synechococcus elongates. J. Biomol. NMR 32, 259.

11.  Xie, X.Q. and Chen, J.Z. (2005) NMR Structural Comparison of the Cytoplasmic Juxtamembrane Domains of G-protein-coupled CB1 and CB2 Receptors in Membrane Mimetic   Dodecylphosphocholine Micelles.   J. Biol. Chem. 280, 3605-3612. 
12.  Chen, J.Z., Han, X.W., Liu, Q., Makriyannis, A., Wang, J., and, and Xie, X.Q. (2005)  3D-QSAR Studies of Arylpyrazole Antagonists of Cannabinoid Receptor Subtypes CB1 and CB2. A Combined NMR and CoMFA Approach. J. Med. Chem., in press, Web Release 12/24/05.
13.  Chen, J.Z., Ranade, S.V. and Xie, X.Q. (2005) NMR characterization of paclitaxel/poly (styrene-isobutylene-styrene) formulations, Int. J. Pharmaceu.,-Nanotechnology 305, 129-144.
14.  Chen, J.Z., Han, X.W. and Xie, X.Q. (2005) Preferred conformations of endogenous cannabinoid ligand anandamide. Life Sci. 76, 2053-2069.
15.  Qin, H.; Chakulski, B. J.; Rousseau, I. A.; Chen, J.; Xie, X.-Q.*; Mather, P. T.; Constable, G. S.; Coughlin, E. B. (2004) Synthesis and Characterization of Unsaturated Thermotropic Polyesters Prepared via Acyclic Diene Metathesis Polymerization. Macromolecules 37, 5239-5249.

16.  Xie, X.Q., Chen, J.Z., Billings, E.M. (2003) 3D structural model of the G-protein-coupled cannabinoid CB2 receptor.  Proteins: Structure, Function, and Genetics, 53, 307-319.

17.  Zheng, H.A.; Zhao, J.; Thomas Chen, T.; Jones, D. J.; Ma, M.;  Stanley Opella, S. and Xie, X.-Q. (2005) Biosynthesis and Purification of a Hydrophobic Peptide from Transmembrane Domains of G Protein coupled CB2 Receptor. J. Peptide Res. 65, 450-458.

18.  Xie, X-Q.; Zhao, J. and Zheng, H.A. (2004) Expression, purification, and isotope labeling of cannabinoid CB2 receptor fragment, CB2180-233. Protein Exp. & Purif. 38, 61-68. (top 20 downloaded article in 2004).

19.  Zhao, J. Zheng, H.A.; Jones, D.; Opella, S. and Xie, X.-Q. 3D NMR characterization of cannabinoid receptor CB2 fragment CB2180-233. Protein Letters (accepted).

20.  Craft, J.W. Jr. and Legge, G.B. (2005) An AMBER/DYANA/MOLMOL Phosphorylated Amino Acid Library Set and Incorporation into NMR Structure Calculations. J. Biomol NMR  33(1):15-24.

21.  Legge, G.B., Martinez-Yamout, M., Hamberly, D., Trinh, Tam M., Lee, Brian M., Dyson, H.J. and Wright, P.E. (2004) ZZ-domain of CBP-an unusual Zinc Finger Fold in a Protein Interaction Module J. Mol. Biol. 343:1081-1093

22.  Legge, G.B., Morris, G.M., Sanner, M.F., Takada, Y. Olson, A.J. and Grysnzpan, F. (2002) A model of the L2 integrin I-domain / ICAM-1 D1 interface suggests subtle changes in loop orientation determine ligand specificity. Prot. Struct. Funct. Gen. 48:151-160

23.  Ruan, K.H., Wu, J.X., Wang, L.H. (2005) Solution structure of a common substrate mimetic of cyclooxygenase-downstream synthases bound to an engineered thromboxane A(2) synthase using a high-resolution NMR technique. A. Biochem. Biophys. 444, 165-173.  
24.  Zhang, L.H., Huang, G.X., Wu, J.X., and Ruan, K.H. (2005) A profile of the residues in the first intracellular loop critical for Gs-mediated signaling of human prostacyclin receptor characterized by an integrative approach of NMR-experiment and mutagenesis. Biochem. 44,  11389-11401.

25.  Geng, L., Wu, J.X., So, S.P., Huang, G.X., Ruan, K.H. (2004) Structural and functional characterization of the first intracellular loop of human thromboxane A(2) receptor. A. Biochem. Biophys. 423, 253-265.

26.  Ruan, K.H., Wu, J.X., So, S.P., et al. (2004) NMR structure of the thromboxane A(2) receptor ligand recognition pocket. Eur. Biochem. 271, 3006-3016.

27.  Ruan, K.H. (2004) High resolution nuclear magnetic resonance spectroscopy-guided mutagenesis for characterization of membrane-bound proteins: Experimental designs and applications. Spectrosc. Internat. J. 18, 13-29.

28.  Ruan, K.H., Wu, J.X., So, S.P., Jenkins, L.A. (2003) Evidence of the residues involved in ligand recognition in the second extracellular loop of the prostacyclin receptor characterized by high resolution 2D NMR techniques.  A. Biochem. Biophys. 418, 25-33.

29.  Deng, H., Wu, J.X., So, S.P., Ruan, K.H. (2003) Identification of the residues in the helix F/G loop important to catalytic function of membrane-bound prostacyclin synthase. Biochem. 42, 5609-5617.

30.  So, S.P., Wu, J.X., Huang, G.X., Huang, A.M., Li, D.W., Ruan, K.H. (2003) Identification of residues important for ligand binding of thromboxane A(2) receptor in the second extracellular loop using the NMR experiment-guided mutagenesis approach. J. Biol. Chem. 278, 10922-10927.

31.  Wu, J.X., So, S.P., Ruan, K.H. (2003) Determination of the membrane contact residues and solution structure of the helix F/G loop of prostaglandin I-2 synthase.  A. Biochem. Biophys. 411, 27-35.

32.  Wu, H.X., So, S.P., Ruan, K.H. (2003) Solution structure of the third extracellular loop of human thromboxane A(2) receptor. A. Biochem. Biophys. 414, 287-293.

33.  Shimogawa, H., Kwon, Y., Mao, Q., Kawazoe, Y., Choi, Y., Asada, S., Kigoshi, H., and Uesugi, M. (2004) A Wrench-Shaped Synthetic Molecule that Modulates a Transcription Factor-Coactivator Interaction. J. Am. Chem. Soc.126: 3461-3471.

34.  Asada, S., Choi, Y., and Uesugi, M. (2003) A Gene-Expression Inhibitor that Targets an -Helix-Mediated Protein Interaction. J. Am. Chem. Soc. 125: 4992-4993.

35.  Wang, Z., Mahfuza, M. and Samia, S. (2005) Facile Preparation of Peracetates and Per-3-bromobenzoates of α-Mono- and Disaccharides. Molecules 10, 1325-1334.

36.  Zheng, H.A.; Zhao,J. and Xie, X.-Q. Expression, Purification, and Analysis of a Helix-Bundle from G Protein Coupled Receptor CB2 for Structural Study. Biopolymers (submitted).

37.  Sen, M., Agrawal, S., Ruf, W., Legge, G.B. (2006) Phosphorylation of the Cytoplasmic Tail of Tissue Factor and its Role in Modulating Structure and Binding Affinity. Nat. Struct. Mol. Biol. (submitted)

38.  Wang, Y., Yang, J., McIntyre, B.W., Sen, M., Legge, G.B., Molldrem, J.J., and Ma, Q. (2006) Conformational changes in the I-domain of mouse LFA-1 contribute to lymphocyte adhesion and proliferation. J. Immunol. (submitted).

39.  Anbanandam, A., Albarado, D., Nguyen, C., Halder, G., Gao, X., Veeraraghavan, S. (2006) Insights into TEF-1 function from TEA domain structure. Proc. Natl. Acad. Sci USA. submitted.

40.  Raduner, S.; Majewska, A.;, Chen, Jianzhong; Xie Xiang-Qun*, Altmann, K. H., and Gertsch, J.*, "Alkylamides from Echinacea functionally bind to the human cannabinoid receptor CB2 -Differential effects of alkylamides, anandamide, and SR144528 on cytokine expression in human whole blood"  J. Biol. Chem. 2005 (in preparation) (joint paper with Dr. J. Gertsch at ETH, Institute of Pharmaceutical Sciences, Switzerland).

41.  Chen, J.Z., Wang, J.M., and Xie, X.-Q. GPCR CB2 Structure-based In-Silico Screening for Novel CB Ligands. J. Chem. Inf. Comput. Sci. (in preparation)

42.  Anbanandam, A., Tirziu, D., Albarado, D., Simons, M., Veeraraghavan, S. Inhibition of 20S proteasome by the angiogenic proline- and arginine-rich peptides requires a preformed conformation. Nat. Struct. Mol. Biol. or Proc. Natl. Acad. Sci (USA).  (In preparation)

43.  Nioche, P., Raman, C.S., Veeraraghavan, S. NMR investigation of a bacterial NO sensor homolog of mammalian guanylyl cyclase. J. Biol. Chem. (In preparation).