Publications from 2000 until 2009

 

 

2009

Kajander, T., Sachs, J. N., Goldman, A. & Regan, L. Electrostatic Interactions of Hsp-organizing protein tetratricopeptide domains with Hsp70 and Hsp90: computational analysis and protein engineering, J. Biol. Chem., 284, 25364-25374 (2009).

Leo, J. C. & Goldman, A. The immunoglobulin-binding Eib proteins from Escherichia coli are receptors for IgG Fc Mol. Immunol., 46, 1860-1866 (2009).

Parkash, V. & Goldman, A. Comparison of GFL-GFRa complexes: further evidence relating GFL bend angle to RET signalling, Acta Crystallogr F, 65, 551-558 (2009).

Parkash, V., Lindholm, P., Peränen, J., Kalkkinen, N., Oksanen, E., Saarma, M., Leppänen, V.-M. & Goldman, A. The structure of the conserved neurotrophic factors MANF and CDNF explains why they are bifunctional, Prot. Eng. Des. Sel, 22:233-241 (2009).



2008

Paavilainen, V., Oksanen, E.J, Goldman, A & Lappalainen, P. Structure of the actin-depolymerizing-factor homology domain in complex with actin, J Cell Biol. 182, 51-59 (2008).

Parkash, V., Leppänen, V.-M., Virtanen, H., Jurvansuu, J. M., Bespalov, M. M., Sidorova, Y. A., Runeberg-Roos, P., Saarma, M. & Goldman, A. The Structure of the GDNF2-GFRα12 complex: Insights into RET signalling and Heparin binding, J. Biol. Chem. 283:35164-35172 (2008).

Patana, A.-S., Kurkela, M., Finel, M. & Goldman, A. Mutational analysis of UGT1A9 suggest a relationship between substrate and catalytic residues in UDP-glucuronosyltransferases. Prot. Eng. Des. Sel., 21: 537-543 (2008).

Leo, J. C., Elovaara, H., Brodsky, B., Skurnik, M. & Goldman, A. The Yersinia adhesin YadA binds to a collagenous triple-helical conformation but without sequence specificity, Prot. Eng. Des. Sel., 21: 475-484 (2008).

Xiong, Y., Patana, A.-S., Miley, M., Zielinska, A.K., Bratton, S.M., Miller, G.P., Goldman, A., Finel, M., Redinbo, M., & Radominska-Pandya, A. The First Aspartic Acid of the DQxD Motif within the C-Terminal Region of Human UDP-Glucuronosyltransferases Is Critical to the Binding of UDP-Glucuronic Acid. Drug. Metab. Dispos., 36, 517-522 (2008)



2007

Leppänen, V.-M., Tossavainen, H., Permi, P., Lehtiö, L., Rönnholm, G., Goldman, A., Kilpeläinen, I. & Pihlajamaa, T. Crystal structure of the N-terminal NC4 domain of collagen IX, a zinc binding member of the laminin-neurexin-sex hormone binding globulin (LNS) domain family, J. Biol. Chem., 282, 23219-23230 (2007).

Patana, A.-S., Kurkela, M., Goldman, A. & Finel, M. The human UDP-Glucuronosyltransferase - identification of key residues within the nucleotide-sugar binding site, Mol. Pharmacol, 72, 604-611 (2007).

Rantanen, M. K., Lehtiö, L., Rajagopal, L., Rubens, C. E. & Goldman, A. Structure of the Streptococcus agalactiae serine/threonine phosphatase: the subdomain conformation is coupled to the binding of a third metal ion, FEBS J., 274, 3128-3137 (2007).

Rantanen, M. K., Lehtiö, L., Rajagopal, L., Rubens, C. E. & Goldman, A. Structure of the Streptococcus agalactiae family II inorganic pyrophosphatase at 2.70 Å resolution, Acta Crystallogr. D, 63, 738-743, (2007).

Fabrichniy, I. P., Lehtiö, L., Tammenkoski, M., Zyryanov, A. B., Oksanen, E. J., Baykov, A. A., Lahti, R. & Goldman, A. A Trimetal Site and Ground-state Substrate Distortion mark the active site of Family II Inorganic Pyrophosphatase, J. Biol. Chem, 282, 1422-1431 (2007).

Kurkela, M., Patana, A.-S., Mackenzie, P. I., Court, M. H., Tate, C. G., Hirvonen, J., Goldman, A. & Finel, M. Interactions with other human UDP-glucuronosyltransferases attenuate the consequences of the Y485D mutation on the activity and substrate affinity of UGT1A6, Pharmacogen. Genom, 17, 115-126 (2007).

Oksanen, E., Ahonen, A.-K., Tuominen, H., Tuominen, V., Lahti, R., Goldman, A. & Heikinheimo, P. A complete structural description of the catalytic cycle of yeast pyrophosphatase, Biochemistry, 46, 1228-1239 (2007).



2006

Halak, S., Lehtiö, L., Basta, T., Bürger, S., Contzen, M., Stolz, A. & Goldman, A. Structure and function of the 3-carboxy-cis,cis-muconate lactonizing enzyme from Agrobacterium radiobacter S2, FEBS J., 273, 5169-5182 (2006).

Oksanen, E. J., Jaakola, V.-P., Tolonen, T., Valkonen, K., Åkerström, B., Kalkkinen, N., Virtanen, V. & Goldman, A. Reindeer β−lactoglobulin crystal structure with pseudo-body centered non-crystallographic symmetry, Acta Crystallogr. D, 62, 1369-1374 (2006).

Lehtiö, L., Grossmann, J. G., Kokona, B., Fairman, R. & Goldman, A. Crystal Structure of a glycyl radical enzyme from Archaeoglobus fulgidus, J. Mol. Biol, 357, 221-235 (2006).

von Ossowski, I., Oksanen, E. J., von Ossowski, L., Cai, Chunllin, Sundberg, M., Goldman, A. & Keinänen, K. Crystal Structure of the Second PDZ Domain of SAP97 in Complex with a GluR-A C-terminal Peptide, FEBS J., 273, 5219-5229 (2006).

Rantanen, M. K., Lehtiö, L., Rajagopal, L., Rubens, C. E. & Goldman, A. Crystallization and preliminary crystallographic analysis of two Streptococcus agalactiae proteins, the family II inorganic pyrophosphatase, and the serine/threonine phosphatase, Acta Crystallogr. F 62, 891-894. (2006).

Jokiranta, T. S., Jaakola, V.-P., Pärepalo, M., Lehtinen, M. J., Meri, S. & Goldman, A. Structure of complement factor H carboxyl-terminus reveals molecular basis of atypical haemolytic uremic syndrome. EMBO J., 25, 1784-1794 (2006).

Lehtiö, L., Grossmann, J. G., Kokona, B., Fairman, R. & Goldman, A. Crystal Structure of a glycyl radical enzyme from Archaeoglobus fulgidus. J. Mol. Biol., 357, 221-235 (2006).



2005

Halonen, P., Tammenkoski, M., Niiranen, L., Huopalahti, S., Parfeneyev, A. N., Goldman, A., Baykov, A. A. & Lahti, R. Effects of Active Site Mutations on the Metal Binding Affinity, Catalytic Competence and Stability of the family II Pyrophosphatase from Bacillus subtilis. Biochemistry, 44, 4004-4010 (2005).

Jaakola, V.-P., Rehn, M., Alexiev, U., Goldman, A. & Turner, G. J. G-protein-coupled receptor domain over-expression in Halobacterium salinarum: a new tool for structural and functional studies of integral membrane proteins. Proteins: Struct. Funct. Genet., 60, 412-4223 (2005).

Jaakola, V.-P., Vainio, M., Sen, S., Rehn, M., Heimo, H., Scheinin, M. & Goldman, A. Intracellularly Truncated Human α2B-Adrenoceptors: Stable and Functional GPCRs for Structural Studies. J. Recept. Sig. Transd., 25, 99-124 (2005).

Jaakola, V.-P., Prilusky, J., Sussman, J. L. & Goldman, A. G protein-coupled receptors show unusual patterns of intrinsic unfolding. Prot. Eng. Des. Sel, 18, 103-110 (2005).

Lehtiö, L., Fabrichniy, I. P., Hansen, T., Schönheit, P. & Goldman, A. Unusual twinning in an acetyl coenzyme A synthetase (ADP forming) from Pyrococcus furiosus. Acta Crystallogr. D, 61, 350-354 (2005).

Merckel, M. C., Huiskonen, J. T., Bamford, D. H., Goldman, A. & Tuma, R. Evolution of Viral Capsid Structure: Origin of Bacteriophage PRD1 Spike Fold. Mol. Cell, 18, 161-170 (2005).

Sen, S., Jaakola, V.-P., Pirilä, P., Finel, M. & Goldman, A. Expression of recombinant human α2-adrenergic receptors in Spodoptera frugiperda Sf9 cells: an expression system towards functional and structural studies. Biochim. Biophys. Acta, 1712, 62-70 (2005).

Virtanen, H., Yang, J., Bespalov, M. M., Hiltunen, J. O., Leppänen, V.-M., Goldman, A., Saarma, M. & Runeberg-Roos, P. The first cysteine-rich domain of the GFRα1 receptor stabilises the binding of GDNF. Biochem. J., 387, 817-824 (2005).



2004

Fabrichniy, I. P., Lehtiö, L., Salminen, A., Zyryanov, A. B., Baykov, A. A., Lahti, R., Goldman A. Structural Studies of Metal Ions in Family II Pyrophosphatases: The Requirement for a Janus ion. Biochemistry 43, 14403-14411 (2004).

Lehtiö, L. & Goldman, A. The pyruvate formate lyase family: sequences, structures and activation. Prot. Eng. Des. Sel, 17, 545-552(2004).

Leppänen, V.-M., Bespalov, M., Runeberg-Roos, P., Puurand, Ü., Merits, A., Saarma, M. & Goldman, A. The structure of GFRα1 domain 3 reveals new insights into GDNF binding and RET activation. EMBO J. 23, 1452-1462 (2004).

Nummelin, H., Merckel, M. C., Leo, J., Lankinen, H. Skurnik, M. & Goldman, A. The structure of Yersinia adhesin YadA collagen-binding domain is a novel left-handed parallel β-roll. EMBO J., 23, 701-711 (2004).

Tuominen, V. U., Myles, D., Dauvergne, M.-T., Lahti, R., Heikinheimo, P. & Goldman, A. Production and preliminary analysis of perdeuterated yeast inorganic pyrophosphatase crystals suitable for neutron diffraction. Acta Crystallogr. D, 60, 606-609 (2004).

Zyryanov, A. B., Vener, A. V., Salminen, A., Goldman, A., Lahti, R. & Baykov, A. A. Rates of Elementary Catalytic Steps for Different Metal Forms of the Family II Pyrophosphatase from Streptococcus gordonii. Biochemistry, 43, 1065-1074 (2004).

Zyryanov, A. B., Tammenkoski, M., Salminen, A., Kolomiytseva, G. Y., Fabrichniy, I. P., Goldman, A., Lahti, R. & Baykov, A. A. Site-specific effects of Zinc on the Activity of Family II Pyrophosphatase. Biochemistry 43, 14395-14402 (2004).



2003

Bartus, C. L, Jaakola, V.-P., Valentine, H. H. Heikinheimo, P. Levy, A. Heimo, H. Potter, L. T. Goldman, A & Turner, G. J. Downstream coding region determinants of bacterio-opsin, muscarinic acetylcholine receptor and α2b-adrenergic receptor expression in Halobacterium salinarum. Biochem Biophys Acta, 1610, 109-123 (2003).

Kajander, T., Lehtiö, L., Schlömann, M., & Goldman, A. The structure of Pseudomonas P51 Cl-muconate lactonizing enzyme – co-evolution of structure and dynamics with the dehalogenation function. Prot. Sci. 12, 1855-1864 (2003).

Merckel, M. C., Tanskanen, J., Edelman, S., Wikström, B.-L., Korhonen, T. K. &
Goldman, A.The Structural Basis of Receptor-binding by Escherichia coli Associated with Diarrhea and Septicemia. J. Mol. Biol. 331, 897-905 (2003).

Nummelin, H., Merckel, M. C., el Tahir, Y., Ollikka, P., Skurnik, M. & Goldman, A. Structural studies of Yersinia adhesin YadA. Adv. Exp. Med. Biol., 529, 85-88 (2003).

Sen, S., Jaakola, V.-P., Heimo, H., Engström, M., Larjomaa, P., Lundström, K., Scheinin, M., & Goldman, A. Functional Expression and Direct Visualization of the human α2B-Adrenergic Receptor and α2B-AR - Green Fluorescent Fusion Protein in Mammalian Cell Lines using Semliki Forest Virus Vectors. Prot. Exp. Purif. 32, 265–275 (2003).



2002

Halonen, P., Baykov, A. A., Goldman, A., Lahti, R. & Cooperman, B. S. Single Turnover Kinetics of Saccharomyces cerevisiae Inorganic Pyrophosphatase. Biochemistry, 45, 12025-12031 (2002).

Kajander, T., Merckel, M. C., Thompson, A., Deacon, A., Mazur, P., Kozarich, J. W. & Goldman, A. The structure of Neurospora crassa 3-carboxy-cis,cis-mcuonate lactonizing enzyme - a β-propeller cycloisomerase. Structure, 10, 483-492, (2002).

Lehtiö, L., Leppänen, V.-M., Kozarich, J. W. & Goldman, A. Crystal structure of Escherichia coli pyruvate formate-lyase with pyruvate, the natural substrate, in the active site. Acta Crystallogr. D, 58, 2209-2212 (2002).

Merckel, M.C., Kajander, T., Deacon, A. M., Thompson, A., Grossman, J. G., Kalkkinen, N. & Goldman, A. 3-Carboxy-cis,cis-muconate lactonizing enzyme from Neurospora crassa: MAD phasing with 80 Selenomethionines. Acta Crystallogr. D, 58, 727-734, (2002).

Nummelin, H., Tahir, Y. E., Ollikka, P., Skurnik, M. & Goldman, A. Expression, purification and crystallisation of a collagen binding fragment of Yersinia adhesin YadA. Acta Crystallogr. D, 58, 1042-1044 (2002).

Salminen, A., Parfenyev, A. N., Salli, K., Efimova, I. S., Magretova, N. N., Goldman, A., Baykov, A. A. & Lahti, R. Modulation of dimer stability in yeast pyrophosphatase by mutations at the subunit interface and ligand binding to the active site. J. Biol. Chem., 277, 15465-154671 (2002).

Sen, S., Jaakola, V.-P., Heimo, H., Kivela, P., Scheinin, M., Lundström, K. & Goldman, A. Development of a ScintiplateTM Assay for recombinant human α2B Adrenergic Receptor. Anal. Biochem., 307, 280-286 (2002).

Tuominen, V., Heikinheimo, P., Baykov, A. A., Myles, D., Lahti, R. & Goldman, A.Hydrogens in the active site of yeast inorganic pyrophosphatase, 4th Intl Symp. 'Development of New Structural Biology Including Hydrogen and Hydration' in Organized Research Combination System, (2002).



2001

Heikinheimo, P., Tuominen, V. U., Ahonen, A.-K., Teplyakov, A., Cooperman, B. S., Baykov, A. A., Lahti, R. & Goldman, A. Toward a Quantum-mechanical description of Metal Assisted Phosphoryl Transfer in Pyrophosphatase. Proc. Natl. Acad. Sci. USA, 98, 3121-3126 (2001).

Hyytia, T., Halonen, P., Salminen, A., Goldman, A., Lahti, R. & Cooperman, B. S. Ligand Binding Sites in Escherichia coli Inorganic Pyrophosphatase: Effects of Active Site Mutations. Biochemistry, 40, 4645-4653 (2001).

Liitti, S., Matikainen, M.-T., Scheinin, M., Glumoff, T. & Goldman, A. Immunoaffinity purification and reconstitution of human α2-adrenergic receptor subtype C2 into phospholipid vesicles. Protein Express. Purif., 22, 1-10 (2001).

Merckel, M. C., Fabrichniy, I. P., Salminen, A., Kalkkinen, N., Baykov, A. A., Lahti, R. & Goldman, A. Crystal Structure of Streptococcus mutans Pyrophosphatase: a new fold for an old mechanism. Structure,9, 289-297 (2001).

Pohjanjoki, P., Fabrichniy, I. P., Kasho, V. N., Cooperman, B. S., Goldman, A., Baykov, A. A. & Lahti, R. Probing Essential Water in Yeast Pyrophosphatase by Directed Mutagenesis and Fluoride Inhibition Measurements. J. Biol. Chem., 276, 434-441 (2001).

Tuominen, H., Heikinheimo, P., Loo, B.-M., Oker-Blom, C., Jalkanen, M., Alitalo, K. & Goldman, A. Expression and glycosylation studies of human FGF receptor 4. Protein Express. Purif., 21, 275-285 (2001).

Zyryanov, A. B., Pohjanjoki, P., Kasho, V. N., Shestakov, A. S., Goldman, A., Lahti, R. & Baykov, A. A. The electrophilic and leaving group phosphates in the catalytic mechanism of yeast pyrophosphatase. J. Biol. Chem., 276, 17629-17634. (2001).



2000

Belogurov, G. A., Fabrichniy, I. P., Pohjanjoki, P., Kasho, V. N., Lehtihuhta, E., Turkina, M. V., Cooperman, B. S., Goldman, A., Baykov, A. A. & Lahti, R.

Catalytically Important Ionizations Along the Reaction Pathway of Yeast Pyrophosphatase. Biochemistry, 39, 13931-13938 (2000).

Frang, H., Hellman, J., Goldman, A., Scheinin, M. & Glumoff, T. A Two-site immunometric assay for the detection of the expression level of 2(C2)-adrenergic receptor produced in Escherichia coli. Biotechnol. Lett., 22, 1963-1966 (2000).

Kajander, T., Kahn, P. C., Helin, S., Cohen, D. C., Lehtiö, L., Adolfsen, W., Schell, U. & Goldman, A. Buried charged surface in proteins. Struture Fold. Des., 8, 1203-1214 (2000).

Kapat, A., Jaakola, V.-P., Heimo, H., Liitti, S., Heikinheimo, P., Glumoff, T. & Goldman, A. Production and purification of recombinant human α2C2 adrenergic receptor using Saccharomyces cerevisiae. Bioseparation, 9, 167-172 (2000).

Loo, B.-M., Darwish, K., Vainnikka, S., Saarikettu, J., Vihko, P., Hermonen, J., Goldman, A., Alitalo, K. & Jalkanen, M. Production and characterization of the extracellular domain of recombinant human fibroblast growth factor receptor 4. Int. J. Biochem. Cell Biol., 32, 489-497 (2000).