NECAT Beamline

The Northeastern Collaborative Access Team (NE-CAT) facility at the Advanced Photon Source at Argonne National Laboratory is managed by Cornell University and consists of seven member institutions:

  • Columbia University
  • Cornell University
  • Harvard University
  • Memorial Sloan-Kettering Cancer Center
  • Massachusetts Institute of Technology
  • Rockefeller University
  • Yale University.

    • Primary funding for this project comes from the National Center for Research Resources (NCRR), a division of the National Institutes of Health (NIH). Additional financial support for NE-CAT comes from the member institutions.

    Publications based in part upon data collected at the NE-CAT beamlines at the Advanced Photon Source
    (reverse chronological order)

    Gao, X., Xie, X., Pashkov, I., Sawaya, M. R., Laidman, J., Zhang, W., Cacho, R., Yeates, T. O., and Tang, Y. (2009) Directed evolution and structural characterization of a simvastatin synthase, Chem. Biol. 16, 1064-1074. PubMed

    Ivanova, M. I., Sievers, S. A., Sawaya, M. R., Wall, J. S., and Eisenberg, D. (2009) Molecular basis for insulin fibril assembly, Proc. Natl. Acad. Sci. U. S. A. (in press) PubMed

    Levin, E. J., Quick, M., and Zhou, M. (2009) Crystal structure of a bacterial homologue of the kidney urea transporter, Nature (in press) PubMed

    Sohn, J., Grant, R. A., and Sauer, R. T. (2009) OMP peptides activate the DegS stress-sensor protease by a relief of inhibition mechanism, Structure 17, 1411-1421. PubMed

    Brohawn, S. G., and Schwartz, T. U. (2009) Molecular architecture of the Nup84-Nup145C-Sec13 edge element in the nuclear pore complex lattice, Nat. Struct. Mol. Biol. 16, 1173-1177. PubMed

    Lee, S., and Verdine, G. L. (2009) Atomic substitution reveals the structural basis for substrate adenine recognition and removal by adenine DNA glycosylase, Proc. Natl. Acad. Sci. U. S. A.106, 18497-18502. PubMed

    Singh, H., Felts, R. L., Schuermann, J. P., Reilly, T. J., and Tanner, J. J. (2009) Crystal Structures of the Histidine Acid Phosphatase from Francisella tularensis Provide Insight into Substrate Recognition, J. Mol. Biol. (in Press) PubMed

    Baltz, J. L., Filman, D. J., Ciustea, M., Silverman, J. E., Lautenschlager, C. L., Coen, D. M., Ricciardi, R. P., and Hogle, J. M. (2009) The Crystal Structure of PF-8, the DNA Polymerase Accessory Subunit from Kaposi's Sarcoma-Associated Herpesvirus, J. Virol. 83, 12215-12228. PubMed

    Wang, Y., Juranek, S., Li, H., Sheng, G., Wardle, G. S., Tuschl, T., and Patel, D. J. (2009) Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes, Nature 461, 754-761. PubMed

    Zhuang, M., Calabrese, M. F., Liu, J., Waddell, M. B., Nourse, A., Hammel, M., Miller, D. J., Walden, H., Duda, D. M., Seyedin, S. N., Hoggard, T., Harper, J. W., White, K. P., and Schulman, B. A. (2009) Structures of SPOP-Substrate Complexes: Insights into Molecular Architectures of BTB-Cul3 Ubiquitin Ligases, Mol. Cell 36, 39-50. PubMed

    Whittle, J. R., and Schwartz, T. U. (2009) Architectural nucleoporins Nup157/170 and Nup133 are structurally related and descend from a second ancestral element, J. Biol. Chem. 284, 28442-28452. PubMed

    Duan, X., Sarangi, P., Liu, X., Rangi, G. K., Zhao, X., and Ye, H. (2009) Structural and functional insights into the roles of the Mms21 subunit of the Smc5/6 complex, Mol. Cell 35, 657-668. PubMed

    Cai, Z., Chehab, N. H., and Pavletich, N. P. (2009) Structure and activation mechanism of the CHK2 DNA damage checkpoint kinase, Mol. Cell 35, 818-829. PubMed

    Sharma, H., Yu, S., Kong, J., Wang, J., and Steitz, T. A. (2009) Structure of apo-CAP reveals that large conformational changes are necessary for DNA binding, Proc. Natl Acad. Sci. U. S. A. 106, 16604-16609. PubMed

    Ameriks, M. K., Axe, F. U., Bembenek, S. D., Edwards, J. P., Gu, Y., Karlsson, L., Randal, M., Sun, S., Thurmond, R. L., and Zhu, J. (2009) Pyrazole-based cathepsin S inhibitors with arylalkynes as P1 binding elements, Bioorg. Med. Chem. Lett. 19, 6131-6134. PubMed

    Gallagher, D. T., Ruan, B., London, M., Bryan, M. A., and Bryan, P. N. (2009) Structure of a switchable subtilisin complexed with substrate and with the activator azide, Biochemistry 48, 10389-10394. PubMed

    Yunus, A. A., and Lima, C. D. (2009) Structure of the Siz/PIAS SUMO E3 ligase Siz1 and determinants required for SUMO modification of PCNA, Mol. Cell. 35, 669-682. PubMed

    Gurel, G., Blaha, G., Steitz, T. A., and Moore, P. B. (2009) The structures of Triacetyloleandomycin and Mycalamide A bound to the large ribosomal subunit of Haloarcula marismortui, Antimicrob. Agents Chemother. (in press) PubMed

    Ho, M. C., Cassera, M. B., Madrid, D. C., Ting, L. M., Tyler, P. C., Kim, K., Almo, S. C., and Schramm, V. L. (2009) Structural and metabolic specificity of methylthiocoformycin for malarial adenosine deaminases, Biochemistry 48, 9618-9626. PubMed

    Choi, M., Sukumar, N., Liu, A., and Davidson, V. L. (2009) Defining the Role of the Axial Ligand of the Type 1 Copper Site in Amicyanin by Replacement of Methionine with Leucine, Biochemistry 48, 9174-9184. PubMed

    Gordon, W. R., Vardar-Ulu, D., L'Heureux, S., Ashworth, T., Malecki, M. J., Sanchez-Irizarry, C., McArthur, D. G., Histen, G., Mitchell, J. L., Aster, J. C., and Blacklow, S. C. (2009) Effects of S1 cleavage on the structure, surface export, and signaling activity of human Notch1 and Notch2, PLoS One 4, e6613. PubMed

    Kapoor, N., Menon, S. T., Chauhan, R., Sachdev, P., and Sakmar, T. P. (2009) Structural Evidence for a Sequential Release Mechanism for Activation of Heterotrimeric G Proteins, J. Mol. Biol. 393, 882-897. PubMed

    Zhang, W., Dunkle, J. A., and Cate, J. H. (2009) Structures of the Ribosome in Intermediate States of Ratcheting, Science 325, 1014-1017. PubMed

    Blaha, G., Stanley, R. E., and Steitz, T. A. (2009) Formation of the first peptide bond: the structure of EF-P bound to the 70S ribosome, Science 325, 966-970. PubMed

    Su, C.-C., Yang, F., Long, F., Reyon, D., Routh, M. D., Kuo, D. W., Mokhtari, A. K., Van Ornam, J. D., Rabe, K. L., Hoy, J. A., Lee, Y. J., Rajashankar, K. R., and Yu, E. W. Crystal structure of the membrane fusion protein CusB from Escherichia coli, J. Mol. Biol. 393, 342-355. PubMed

    Wiltzius, J. J., Landau, M., Nelson, R., Sawaya, M. R., Apostol, M. I., Goldschmidt, L., Soriaga, A. B., Cascio, D., Rajashankar, K., and Eisenberg, D. (2009) Molecular mechanisms for protein-encoded inheritance, Nat. Struct. Mol. Biol. 16, 973-978. PubMed

    Tsai Y, Sawaya MR and Yeats TO. (2009) Analysis of lattice translocation disorder in the layered hexagonal structure of carboxysome shell protein CsoS1C. Acta Crystallogr. D. 65, 980-988. PubMed

    Wang, J., Dye, B. T., Rajashankar, K. R., Kurinov, I., and Schulman, B. A. (2009) Insights into anaphase promoting complex TPR subdomain assembly from a CDC26-APC6 structure, Nat. Struct. Mol. Biol. 16, 987-989. PubMed

    Dias, S. M., Wilson, K. F., Rojas, K. S., Ambrosio, A. L., and Cerione, R. A. (2009) The molecular basis for the regulation of the cap-binding complex by the importins, Nat. Struct. Mol. Biol. 16, 930-937. PubMed

    Huang, J., Makabe, K., Biancalana, M., Koide, A., and Koide, S. (2009) Structural basis for exquisite specificity of affinity clamps, synthetic binding proteins generated through directed domain-interface evolution, J. Mol. Biol. 392, 1221-1231. PubMed

    Duan, X., and Ye, H. (2009) Purification, crystallization and preliminary X-ray crystallographic studies of the complex between Smc5 and the SUMO E3 ligase Mms21, Acta Crystallogr. F 65, 849-852. PubMed

    Palioura, S., Sherrer, R. L., Steitz, T. A., Soll, D., and Simonovic, M. (2009) The human SepSecS-tRNASec complex reveals the mechanism of selenocysteine formation, Science 325, 321-325. PubMed

    Kawate, T., Michel, J. C., Birdsong, W. T., and Gouaux, E. (2009) Crystal structure of the ATP-gated P2X4 ion channel in the closed state, Nature 460, 592-598. PubMed

    Yun, S. M., Moulaei, T., Lim, D., Bang, J. K., Park, J. E., Shenoy, S. R., Liu, F., Kang, Y. H., Liao, C., Soung, N. K., Lee, S., Yoon, D. Y., Lim, Y., Lee, D. H., Otaka, A., Appella, E., McMahon, J. B., Nicklaus, M. C., Burke Jr, T. R., Yaffe, M. B., Wlodawer, A., and Lee, K. S. (2009) Structural and functional analyses of minimal phosphopeptides targeting the polo-box domain of polo-like kinase 1, Nat. Struct. Mol. Biol. 16, 876-883. PubMed

    Joh, N. H., Oberai, A., Yang, D., Whitelegge, J. P., and Bowie, J. U. (2009) Similar Energetic Contributions of Packing in the Core of Membrane and Water-Soluble Proteins, J. Am. Chem. Soc. 131, 10846-10847. PubMed

    Leksa, N. C., Brohawn, S. G., and Schwartz, T. U. (2009) The Structure of the Scaffold Nucleoporin Nup120 Reveals a New and Unexpected Domain Architecture, Structure 17, 1082-1091. PubMed

    Wang, Q., Navarro, M. V., Peng, G., Molinelli, E., Shih, L. G., Judson, B. L., Rajashankar, K. R., and Sondermann, H. (2009) Molecular mechanism of membrane constriction and tubulation mediated by the F-BAR protein Pacsin/Syndapin, Proc. Natl. Acad. Sci. U. S. A. 106, 12700-12705. PubMed

    Jin, L., Wei, W., Jiang, Y., Peng, H., Cai, J., Mao, C., Dai, H., Choy, W., Bemis, J. E., Jirousek, M. R., Milne, J. C., Westphal, C. H., and Perni, R. B. (2009) Crystal structures of human SIRT3 displaying substrate-induced conformational changes, J. Biol. Chem. 284, 24394-24405. PubMed

    Wiltzius, J. J., Sievers, S. A., Sawaya, M. R., and Eisenberg, D. (2009) Atomic structures of IAPP (amylin) fusions suggest a mechanism for fibrillation and the role of insulin in the process, Protein Sci. 18, 1521-1530. PubMed

    Mandel, C. R., Tweel, B., and Tong, L. (2009) Crystal structure of human mitochondrial acyl-CoA thioesterase (ACOT2), Biochem. Biophys. Res. Commun. 385, 630-633. PubMed

    Himanen, J. P., Goldgur, Y., Miao, H., Myshkin, E., Guo, H., Buck, M., Nguyen, M., Rajashankar, K. R., Wang, B., and Nikolov, D. B. (2009) Ligand recognition by A-class Eph receptors: crystal structures of the EphA2 ligand-binding domain and the EphA2/ephrin-A1 complex, EMBO Rep. 10, 722-728. PubMed

    Aoki, S. T., Settembre, E. C., Trask, S. D., Greenberg, H. B., Harrison, S. C., and Dormitzer, P. R. (2009) Structure of rotavirus outer-layer protein VP7 bound with a neutralizing Fab, Science 324, 1444-1447. PubMed

    Bale, S., Brooks, W., Hanes, J. W., Mahesan, A. M., Guida, W. C., and Ealick, S. E. (2009) Role of the Sulfonium Center in Determining the Ligand Specificity of Human S-Adenosylmethionine Decarboxylase, Biochemistry 48, 6423-6430). PubMed

    Jin, R., Singh, S. K., Gu, S., Furukawa, H., Sobolevsky, A. I., Zhou, J., Jin, Y., and Gouaux, E. (2009) Crystal structure and association behaviour of the GluR2 amino-terminal domain, EMBO J. 28, 1812-1823. PubMed

    Wang, G. G., Song, J., Wang, Z., Dormann, H. L., Casadio, F., Li, H., Luo, J. L., Patel, D. J., and Allis, C. D. (2009) Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger, Nature. 458, 847-851. PubMed

    Regni, C. A., Roush, R. F., Miller, D. J., Nourse, A., Walsh, C. T., and Schulman, B. A. (2009) How the MccB bacterial ancestor of ubiquitin E1 initiates biosynthesis of the microcin C7 antibiotic, EMBO J. 23, 1953-1964. PubMed

    Gennadios, H. A., Gonzalez, V., Di Costanzo, L., Li, A., Yu, F., Miller, D. J., Allemann, R. K., and Christianson, D. W. (2009) Crystal Structure of (+)-δ-Cadinene Synthase from Gossypium arboreum and Evolutionary Divergence of Metal Binding Motifs for Catalysis, Biochemistry 48, 6175-6183. PubMed

    Partridge, J. R., and Schwartz, T. U. (2009) Crystallographic and Biochemical Analysis of the Ran-Binding Zinc Finger Domain, J. Mol. Biol. 391, 375-389. PubMed

    Roman-Hernandez, G., Grant, R. A., Sauer, R. T., and Baker, T. A. (2009) Molecular basis of substrate selection by the N-end rule adaptor protein ClpS, Proc. Natl. Acad. Sci. U. S. A. 106, 8888-8893. PubMed

    Zhang, Q., Zhou, Y. F., Zhang, C. Z., Zhang, X., Lu, C., and Springer, T. A. (2009) Structural specializations of A2, a force-sensing domain in the ultralarge vascular protein von Willebrand factor, Proc. Natl. Acad. Sci. U. S. A. 106, 9226-9231. PubMed

    Sukumar, N., Dewanti, A., Merli, A., Rossi, G. L., Mitra, B., and Mathews, F. S. (2009) Structures of the G81A mutant form of the active chimera of (S)-mandelate dehydrogenase and its complex with two of its substrates, Acta Crystallogr. D 65, 543-552. PubMed

    Kirouac, K. N., and Ling, H. (2009) Structural basis of error-prone replication and stalling at a thymine base by human DNA polymerase iota, EMBO J. 28,1644-1654. PubMed

    Thomas, S. R., McTamney, P. M., Adler, J. M., Laronde-Leblanc, N., and Rokita, S. E. (2009) Crystal Structure of Iodotyrosine Deiodinase, a Novel Flavoprotein Responsible for Iodide Salvage in Thyroid Glands, J. Biol. Chem. 284, 19659-19667. PubMed

    Rechkoblit, O., Malinina, L., Cheng, Y., Geacintov, N. E., Broyde, S., and Patel, D. J. (2009) Impact of Conformational Heterogeneity of OxoG Lesions and Their Pairing Partners on Bypass Fidelity by Y Family Polymerases, Structure 17, 725-736. PubMed

    Shen, A., Higgins, D. E., and Panne, D. (2009) Recognition of AT-Rich DNA Binding Sites by the MogR Repressor, Structure 17, 769-777. PubMed

    Randau, L., Stanley, B. J., Kohlway, A., Mechta, S., Xiong, Y., and Soll, D. (2009) A cytidine deaminase edits C to U in transfer RNAs in Archaea, Science 324, 657-659. PubMed

    Yin, F. F., Bailey, S., Innis, C. A., Ciubotaru, M., Kamtekar, S., Steitz, T. A., and Schatz, D. G. (2009) Structure of the RAG1 nonamer binding domain with DNA reveals a dimer that mediates DNA synapsis, Nat. Struct. Mol. Biol. 6, 499-508. PubMed

    Afshar, S., Sawaya, M. R., and Morrison, S. L. (2009) Structure of a mutant human purine nucleoside phosphorylase with the prodrug, 2-fluoro-2'-deoxyadenosine and the cytotoxic drug, 2-fluoroadenine, Protein. Sci. 18, 1107-1114. PubMed

    Samanta, U., Kirby, S. D., Srinivasan, P., Cerasoli, D. M., and Bahnson, B. J. (2009) Crystal Structures of Human Group-VIIA Phospholipase A2 Inhibited by Organophosphorus Nerve Agents Exhibit Non-aged Complexes, Biochem. Pharmacol.78, 420-429. PubMed

    Gurel, G., Blaha, G., Moore, P. B., and Steitz, T. A. (2009) U2504 Determines the Species Specificity of the A-site Cleft Antibiotics. The Structures of Tiamulin, Homoharringtonine and Bruceantin Bound to the Ribosome, J. Mol. Biol. 389, 146-156. PubMed

    Zhang, H., Astrof, N. S., Liu, J. H., Wang, J. H., and Shimaoka, M. (2009) Crystal structure of isoflurane bound to integrin LFA-1 supports a unified mechanism of volatile anesthetic action in the immune and central nervous systems, FASEB J. 23, 2735-2740. PubMed

    Gallagher, D. T., Smith, N., Kim, S. K., Robinson, H., and Reddy, P. T. (2009) Profound asymmetry in the structure of the cAMP-free cAMP Receptor Protein (CRP) from Mycobacterium tuberculosis, J. Biol. Chem. 284, 8228-8232. PubMed

    Pakotiprapha, D., Liu, Y., Verdine, G. L., and Jeruzalmi, D. (2009) A structural model for the damage sensing complex in bacterial nucleotide excision repair, J. Biol. Chem. 284, 12837–12844. PubMed

    McCulloch, K., Mukherjee, T., Begley, T., and Ealick, S. (2009) Structure of the PLP Degradative Enzyme 2-Methyl-3-hydroxypyridine-5-carboxylic acid Oxygenase from Mesorhizobium loti MAFF303099 and its Mechanistic Implications, Biochemistry 48, 4139-4149. PubMed

    Wong, C., Fujimori, D. G., Walsh, C. T., and Drennan, C. L. (2009) Structural Analysis of an Open Active Site Conformation of Nonheme Iron Halogenase CytC3, J. Am. Chem. Soc. 131, 4872-4879. PubMed

    Pollard, A. M., Bilwes, A. M., and Crane, B. R. (2009) The structure of a soluble chemoreceptor suggests a mechanism for propagating conformational signals, Biochemistry 48, 1936-1944. PubMed

    Nayak, V., Dessau, M., Kucera, K., Anthony, K., Ledizet, M., and Modis, Y. (2009) Crystal structure of dengue virus type 1 envelope protein in the postfusion conformation and its implications for membrane fusion, J. Virol. 83, 4338-4344. PubMed

    Escobar-Alvarez, S., Goldgur, Y., Yang, G., Ouerfelli, O., Li, Y., and Scheinberg, D. A. (2009) Structure and Activity of Human Mitochondrial Peptide Deformylase, a Novel Cancer Target, J. Mol. Biol. 387, 1211-1228. PubMed

    Huang, D. T., Ayrault, O., Hunt, H. W., Taherbhoy, A. M., Duda, D. M., Scott, D. C., Borg, L. A., Neale, G., Murray, P. J., Roussel, M. F., and Schulman, B. A. (2009) E2-RING expansion of the NEDD8 cascade confers specificity to cullin modification, Mol. Cell. 33, 483-495. PubMed

    Laronde-Leblanc, N., Resto, M., and Gerratana, B. (2009) Regulation of active site coupling in glutamine-dependent NAD+ synthetase, Nat. Struct. Mol. Biol. 16, 421-429. PubMed

    Zheng, J., Sagar, V., Smolinsky, A., Bourke, C., LaRonde-LeBlanc, N., and Cropp, T. A. (2009) Structure and function of the macrolide biosensor protein, MphR(A), with and without erythromycin, J. Mol. Biol. 387, 1250-1260. PubMed

    Wada, M., Heux, L., Nishiyama, Y., and Langan, P. (2009) X-ray Crystallographic, Scanning Microprobe X-ray Diffraction, and Cross-Polarized/Magic Angle Spinning 13C NMR Studies of the Structure of Cellulose III, Biomacromolecules 10, 302-309. URL

    Lo, Y. C., Lin, S. C., Rospigliosi, C. C., Conze, D. B., Wu, C. J., Ashwell, J. D., Eliezer, D., and Wu, H. (2009) Structural Basis for Recognition of Diubiquitins by NEMO, Mol. Cell. 33, 602-615. PubMed

    McCloskey, D. E., Bale, S., Secrist, J. A., Tiwari, A., Moss, T. H., Valiyaveettil, J., Brooks, W. H., Guida, W. C., Pegg, A. E., and Ealick, S. E. (2009) New Insights into the Design of Inhibitors of Human S-Adenosylmethionine Decarboxylase: Studies of Adenine C8 Substitution in Structural Analogues of S-Adenosylmethionine, J. Med. Chem. 52, 1388-1407. PubMed

    Tanaka, S., Sawaya, M. R., Phillips, M., and Yeates, T. O. (2009) Insights from multiple structures of the shell proteins from the beta-carboxysome, Protein Sci.18, 108-120. PubMed

    Stabach, P. R., Simonovic, I., Ranieri, M. A., Aboodi, M. S., Steitz, T. A., Simonovic, M., and Morrow, J. S. (2009) The structure of the ankyrin-binding site of β-spectrin reveals how tandem spectrin-repeats generate unique ligand-binding properties, Blood 113, 5377-5384. PubMed

    Bick, M. J., Lamour, V., Rajashankar, K. R., Gordiyenko, Y., Robinson, C. V., and Darst, S. A. (2009) How to Switch Off a Histidine Kinase: Crystal Structure of Geobacillus stearothermophilus KinB with the inhibitor Sda, J. Mol. Biol. 386, 163-177. PubMed

    Serganov, A., Huang, L., and Patel, D. J. (2009) Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch, Nature 458, 233-237. PubMed

    Ostrander, E. L., Larson, J. D., Schuermann, J. P., and Tanner, J. J. (2009) A Conserved Active Site Tyrosine Residue of Proline Dehydrogenase Helps Enforce the Preference for Proline over Hydroxyproline as the Substrate, Biochemistry 48, 951-959. PubMed

    Dong, G., Wearsch, P. A., Peaper, D. R., Cresswell, P., and Reinisch, K. M. (2009) Insights into MHC class I peptide loading from the structure of the tapasin-ERp57 thiol oxidoreductase heterodimer, Immunity 30, 21-32. PubMed

    Miallau, L., Faller, M., Chiang, J., Arbing, M., Guo, F., Cascio, D., and Eisenberg, D. (2009) Structure and Proposed Activity of a Member of the VapBC Family of Toxin-Antitoxin Systems: VapBC-5 from Mycobacterium tuberculosis, J. Biol. Chem. 284, 276-283. PubMed

    Singh, M., Gonzales, F. A., Cascio, D., Heckmann, N., Chanfreau, G., and Feigon, J. (2009) Structure and Functional Studies of the CS Domain of the Essential H/ACA Ribonucleoparticle Assembly Protein SHQ1, J. Biol. Chem. 284, 1906-1916. PubMed

    Sukumar, N., Mathews, F. S., Gordon, M. M., Ealick, S. E., and Alpers, D. H. (2009) Postcrystallization Analysis of the Irreproducibility of the Human Intrinsic Factor-Cobalamin Complex Crystals, Cryst. Growth Des. 9, 348-351. PubMed

    Gordon, W. R., Roy, M., Vardar-Ulu, D., Garfinkel, M., Mansour, M. R., Aster, J. C., and Blacklow, S. C. (2009) Structure of the Notch1 negative regulatory region: Implications for normal activation and pathogenic signaling in T-ALL, Blood 113, 4381-4390. PubMed

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