http://publicationslist.org/data/susanne.van.den.berg/atom.xml Susanne van den Berghttp://publicationslist.org/susanne.van.den.berg$basepathfavicon.icoRecent additions to Susanne van den Berg's PublicationsList.org pagehttp://publicationslist.org/publications.png2010-10-20T09:12:30Z http://publicationslist.org/susanne.van.den.berg/refid17 2010-10-20T08:52:08Z

DEAD-box RNA helicases play various, often critical, roles in all processes where RNAs are involved. Members of this family of proteins are linked to human disease, including cancer and viral infections. DEAD-box proteins contain two conserved domains that both contribute to RNA and ATP binding. Despite recent advances the molecular details of how these enzymes convert chemical energy into RNA rem...<br/><br/>Patrick Schütz, Tobias Karlberg, Susanne van den Berg, Ruairi Collins, Lari Lehtiö, Martin Högbom, Lovisa Holmberg-Schiavone, Wolfram Tempel, Hee-Won Park, Martin Hammarström, Martin Moche, Ann-Gerd Thorsell, Herwig Schüler (2010) <i>PLoS One</i> <i></i> <i></i> 5: 9 <br/>

http://publicationslist.org/susanne.van.den.berg/refid2 2010-08-05T12:06:50Z

DEXD/H-box RNA helicases couple ATP hydrolysis to RNA remodeling by an unknown mechanism. We used x-ray crystallography and biochemical analysis of the human DEXD/H-box protein DDX19 to investigate its regulatory mechanism. The crystal structures of DDX19, in its RNA-bound prehydrolysis and free posthydrolysis state, reveal an alpha-helix that inserts between the conserved domains of the free prot...<br/><br/>Ruairi Collins, Tobias Karlberg, Lari Lehtiö, Patrick Schütz, Susanne van den Berg, Lars-Göran Dahlgren, Martin Hammarström, Johan Weigelt, Herwig Schüler (2009) <i>J Biol Chem</i> <i></i> <i></i> 284: 16 10296-10300<br/>

http://publicationslist.org/susanne.van.den.berg/refid16 2010-08-06T12:40:33Z

Impairment of the formation or action of hydrogen sulfide (H(2)S), an endogenous gasotransmitter, is associated with various diseases, such as hypertension, diabetes mellitus, septic and hemorrhagic shock, and pancreatitis. Cystathionine beta-synthase and cystathionine gamma-lyase (CSE) are two pyridoxal-5'-phosphate (PLP)-dependent enzymes largely responsible for the production of H(2)S in mammal...<br/><br/>Qingxiang Sun, Ruairi Collins, Shufen Huang, Lovisa Holmberg-Schiavone, Ganesh S Anand, Choon-Hong Tan, Susanne van-den-Berg, Lih-Wen Deng, Philip K Moore, Tobias Karlberg, J Sivaraman (2009) <i>J Biol Chem</i> <i></i> <i></i> 284: 5 3076-3085<br/>

http://publicationslist.org/susanne.van.den.berg/refid1 2010-08-05T12:04:49Z

Paraplegin is an m-AAA protease of the mitochondrial inner membrane that is linked to hereditary spastic paraplegias. The gene encodes an FtsH-homology protease domain in tandem with an AAA+ homology ATPase domain. The protein is believed to form a hexamer that uses ATPase-driven conformational changes in its AAA-domain to deliver substrate peptides to its protease domain. We present the crystal s...<br/><br/>Tobias Karlberg, Susanne van den Berg, Martin Hammarström, Johanna Sagemark, Ida Johansson, Lovisa Holmberg-Schiavone, Herwig Schüler (2009) <i>PLoS One</i> <i></i> <i></i> 4: 10 <br/>

http://publicationslist.org/susanne.van.den.berg/refid5 2010-08-05T12:09:18Z

Argininosuccinate synthetase catalyzes the transformation of citrulline and aspartate into argininosuccinate and pyrophosphate using the hydrolysis of ATP to AMP and pyrophosphate. This enzymatic process constitutes the rate-limiting step in both the urea and arginine-citrulline cycles. Previous studies have investigated the crystal structures of argininosuccinate synthetase from bacterial species...<br/><br/>Tobias Karlberg, Ruairi Collins, Susanne van den Berg, Alex Flores, Martin Hammarström, Martin Högbom, Lovisa Holmberg Schiavone, Jonas Uppenberg (2008) <i>Acta Crystallogr D Biol Crystallogr</i> <i></i> <i></i> 64: Pt 3 279-286<br/>

http://publicationslist.org/susanne.van.den.berg/refid4 2010-08-05T12:09:18Z

Tankyrases are recently discovered proteins implicated in many important functions in the cell including telomere homeostasis and mitosis. Tankyrase modulates the activity of target proteins through poly(ADP-ribosyl)ation, and here we report the structure of the catalytic poly(ADP-ribose) polymerase (PARP) domain of human tankyrase 1. This is the first structure of a PARP domain from the tankyrase...<br/><br/>Lari Lehtiö, Ruairi Collins, Susanne van den Berg, Andreas Johansson, Lars-Göran Dahlgren, Martin Hammarström, Thomas Helleday, Lovisa Holmberg-Schiavone, Tobias Karlberg, Johan Weigelt (2008) <i>J Mol Biol</i> <i></i> <i></i> 379: 1 136-145<br/>

http://publicationslist.org/susanne.van.den.berg/refid3 2010-08-05T12:09:18Z

Tobacco etch virus (TEV) protease is generally used to remove affinity tags from target proteins. It has been reported that some detergents inhibit the activity of this protease, and therefore should be avoided when removing affinity tags from membrane proteins. The aim of this study was to explore and evaluate this further. Hence, affinity tag removal with TEV protease was tested from three membr...<br/><br/>Anna-Karin Lundbäck, Susanne van den Berg, Hans Hebert, Helena Berglund, Said Eshaghi (2008) <i>Anal Biochem</i> <i></i> <i></i> 382: 1 69-71<br/>

http://publicationslist.org/susanne.van.den.berg/refid6 2010-08-05T12:09:18Z

DExD-box helicases are involved in all aspects of cellular RNA metabolism. Conserved domains 1 and 2 contain nine signature motifs that are responsible for nucleotide binding, RNA binding and ATP hydrolysis. The human DEAD-box helicase DDX3X has been associated with several different cellular processes, such as cell-growth control, mRNA transport and translation, and is suggested to be essential f...<br/><br/>Martin Högbom, Ruairi Collins, Susanne van den Berg, Rose-Marie Jenvert, Tobias Karlberg, Tetyana Kotenyova, Alex Flores, Gunilla B Karlsson Hedestam, Lovisa Holmberg Schiavone (2007) <i>J Mol Biol</i> <i></i> <i></i> 372: 1 150-159<br/>

http://publicationslist.org/susanne.van.den.berg/refid15 2010-08-05T12:18:17Z

The efficiency and high specificity of tobacco etch virus (TEV) protease has made it widely used for cleavage of recombinant fusion proteins. However, the production of TEV protease in E. coli is hampered by low solubility. We have subjected the gene encoding TEV protease to directed evolution to improve the yield of soluble protein. Libraries of mutated genes obtained by error-prone PCR and gene ...<br/><br/>Susanne van den Berg, Per-Ake Löfdahl, Torleif Härd, Helena Berglund (2006) <i>J Biotechnol</i> <i></i> <i></i> 121: 3 291-298<br/>

http://publicationslist.org/susanne.van.den.berg/refid7 2010-08-05T12:09:18Z

We have compared four different vectors for expression of proteins with N- or C-terminal hexahistidine (His6) tags in Escherichia coli by testing these on 20 human proteins. We looked at a total recombinant protein production levels per gram dry cell weight, solubility of the target proteins, and yield of soluble and total protein when purified by immobilized metal ion affinity purification. It wa...<br/><br/>Esmeralda A Woestenenk, Martin Hammarström, Susanne van den Berg, Torleif Härd, Helena Berglund (2004) <i>J Struct Funct Genomics</i> <i></i> <i></i> 5: 3 217-229<br/>

http://publicationslist.org/susanne.van.den.berg/refid8 2010-08-05T12:27:16Z

A prerequisite for structural genomics and related projects is to standardize the process of gene overexpression and protein solubility screening to enable automation for higher throughput. We have tested a methodology to rapidly subclone a large number of human genes and screen these for expression and protein solubility in Escherichia coli. The methodology, which can be partly automated, was use...<br/><br/>Martin Hammarström, Niklas Hellgren, Susanne van den Berg, Helena Berglund, Torleif Härd (2002) <i>Protein Sci</i> <i></i> <i></i> 11: 2 313-321<br/>

http://publicationslist.org/susanne.van.den.berg/refid9 2010-08-05T12:09:18Z

We used isothermal titration calorimetry in the temperature range 21-25 degrees C to investigate the effect of pH on the calorimetric enthalpy (delta H(cal)) for sequence specific DNA-binding of the glucocorticoid receptor DNA-binding domain (GR DBD). Titrations were carried out in solutions containing 100 mM NaCl, 1 mM dithiothreitol, 5% glycerol by volume, and 20 mM Tris, Hepes, Mops, or sodium ...<br/><br/>T Lundbäck, S van Den Berg, T Härd (2000) <i>Biochemistry</i> <i></i> <i></i> 39: 30 8909-8916<br/>

http://publicationslist.org/susanne.van.den.berg/refid10 2010-08-05T12:09:18Z

We examined the internal mobility of the estrogen receptor DNA-binding domain (ER DBD) using NMR15N relaxation measurements and compared it to that of the glucocorticoid receptor DNA-binding domain (GR DBD). The studied protein fragments consist of residues Arg183-His267 of the human ER and residues Lys438-Gln520 of the rat GR. The15N longitudinal (R1) and transverse (R2) relaxation rates and stea...<br/><br/>A Wikström, H Berglund, C Hambraeus, S van den Berg, T Härd (1999) <i>J Mol Biol</i> <i></i> <i></i> 289: 4 963-979<br/>

http://publicationslist.org/susanne.van.den.berg/refid11 2010-08-05T12:09:18Z

Nuclear magnetic resonance was used to compare parameters reflecting solution structure and dynamics of the glucocorticoid receptor DNA-binding domain (GRDBD), which binds specifically to a GRE binding site on DNA, and a triple mutant (GRDBDEGA), which binds to an ERE site. The studies were prompted by an earlier observation that the cooperativity for dimeric DNA-binding is 10 times higher for the...<br/><br/>H Berglund, M Wolf-Watz, T Lundbäck, S van den Berg, T Härd (1997) <i>Biochemistry</i> <i></i> <i></i> 36: 37 11188-11197<br/>

http://publicationslist.org/susanne.van.den.berg/refid12 2010-08-05T12:09:18Z

Insulin-like growth factor II (IGF-II) cDNA was isolated from adult guinea pig liver by polymerase chain reaction (PCR) screening. A cDNA sequence was obtained corresponding to part of the preproIGF-II, including the signal peptide, the mature IGF-II and 37 amino acids of the acid carboxy-terminal E-domain. Amino acid sequence prediction, based on the cDNA clone, showed that mature guinea pig IGF-...<br/><br/>A Levinovitz, G Norstedt, S van den Berg, I C Robinson, T J Ekström (1992) <i>Mol Cell Endocrinol</i> <i></i> <i></i> 89: 1-2 105-110<br/>

http://publicationslist.org/susanne.van.den.berg/refid13 2010-08-05T12:09:18Z

A Ellin, S van den Berg, B Strandvik (1991) <i>Clin Chim Acta</i> <i></i> <i></i> 200: 1 59-61<br/>

http://publicationslist.org/susanne.van.den.berg/refid14 2010-08-05T12:09:18Z

High-performance liquid chromatography based on pre-column derivatization of histidine and 3-methylhistidine with o-phthalaldehyde-mercaptoethanol has been used to determine these amino acids in small volumes of plasma and urine. The elution is performed in 45 min on a 5-micron Resolve C18 column by a multi-step gradient. The eluted analytes are measured with a fluorescence detector which provides...<br/><br/>G A Qureshi, S Van den Berg, A Gutierrez, J Bergström (1984) <i>J Chromatogr</i> <i></i> <i></i> 297: 83-89<br/>