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The Thiamine diphosphate dependent Enzyme Engineering Database: A tool for the systematic analysis of sequence and structure relations

Michael Widmann, Robert Radloff, Jürgen Pleiss BMC Biochemistry 2010, 11:9 (1 February 2010)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

A database of thiamine diphosphate (ThDP) dependent enzymes includes multisequence alignments and phylogenetic trees for families of the enzymes, structural information, and SNPs of human enzymes that might be related to disease.

Research article   Open Access

Orthophosphate binding at the dimer interface of Corynebacterium callunae starch phosphorylase: mutational analysis of its role for activity and stability of the enzyme

Mario Mueller, Bernd Nidetzky BMC Biochemistry 2010, 11:8 (29 January 2010)

Abstract | Full text | PDF | PubMed

Research article   Open Access

NMR characterisation of the minimal interacting regions of centrosomal proteins 4.1R and NuMA1: effect of phosphorylation

Miguel A Treviño, Mar Rodríguez-Rodríguez, Isabel Correas, Miguel Marcilla, Juan P Albar, Manuel Rico, M Ángeles Jiménez, Marta Bruix BMC Biochemistry 2010, 11:7 (28 January 2010)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Two chitinase-like proteins abundantly accumulated in latex of mulberry show insecticidal activity

Sakihito Kitajima, Kaeko Kamei, Shigeru Taketani, Masamitsu Yamaguchi, Fumiko Kawai, Aino Komatsu, Yoshihiro Inukai BMC Biochemistry 2010, 11:6 (28 January 2010)

Abstract | Full text | PDF | PubMed | 1 comment

Methodology article   Open Access Highly Accessed

Rapid determination of tricarboxylic acid cycle enzyme activities in biological samples

Sergio Goncalves, Vincent Paupe, Emmanuel P Dassa, Jean-Jacques Brière, Judith Favier, Anne-Paule Gimenez-Roqueplo, Paule Bénit, Pierre Rustin BMC Biochemistry 2010, 11:5 (28 January 2010)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Identification of inhibitors of Plasmodium falciparum phosphoethanolamine methyltransferase using an enzyme-coupled transmethylation assay

April M Bobenchik, Jae-Yeon Choi, Arunima Mishra, Iulian N Rujan, Bing Hao, Dennis R Voelker, Jeffrey C Hoch, Choukri Mamoun BMC Biochemistry 2010, 11:4 (19 January 2010)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Amodiaquine inhibits the activity of Plasmodium falciparum phosphoethanolamine methyltransferase and, as this enzyme is essential for survival of the malaria parasite and is not found in mammals, the inhibitor is an ideal candidate for drug development.

Research article   Open Access Highly Accessed

Thioredoxins function as deglutathionylase enzymes in the yeast Saccharomyces cerevisiae

Darren Greetham, Jill Vickerstaff, Daniel Shenton, Gabriel G Perrone, Ian W Dawes, Chris M Grant BMC Biochemistry 2010, 11:3 (14 January 2010)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access Highly Accessed

Mechanism of attenuation of leptin signaling under chronic ligand stimulation

Holger Knobelspies, Julia Zeidler, Paul Hekerman, Simone Bamberg-Lemper, Walter Becker BMC Biochemistry 2010, 11:2 (8 January 2010)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Cloning and characterization of Escherichia coli DUF299: a bifunctional ADP-dependent kinase - Pi-dependent pyrophosphorylase from bacteria

Jim N Burnell BMC Biochemistry 2010, 11:1 (3 January 2010)

Abstract | Full text | PDF | PubMed |  Editor’s summary

A bacterial homologue of the maize orthophosphate dikinase regulatory protein, cloned from Escherichia coli, catalyses both the inactivation and activation of phosphoenolpyruvate synthetase, by ADP-dependent phosphorylation, and Pi-dependent pyrophosphorylation respectively.

Research article   Open Access Highly Accessed

Identification of four novel phosphorylation sites in estrogen receptor α: impact on receptor-dependent gene expression and phosphorylation by protein kinase CK2

Christopher C Williams, Aninda Basu, Abeer El-Gharbawy, Latonya M Carrier, Carolyn L Smith, Brian G Rowan BMC Biochemistry 2009, 10:36 (31 December 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

The acidic domains of the Toc159 chloroplast preprotein receptor family are intrinsically disordered protein domains

Lynn GL Richardson, Masoud Jelokhani-Niaraki, Matthew D Smith BMC Biochemistry 2009, 10:35 (30 December 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

The variable N-terminal acidic domains of the Toc159 chloroplast preprotein receptor family in Arabidopsis are intrinsically disordered, which may facilitate interactions with transit peptides, and explain how these receptors serve to import a wide variety of proteins into chloroplasts.

Research article   Open Access Highly Accessed

Identification and characterization of endonuclein binding proteins: evidence of modulatory effects on signal transduction and chaperone activity

Maja Ludvigsen, Morten Østergaard, Henrik Vorum, Christian Jacobsen, Bent Honoré BMC Biochemistry 2009, 10:34 (22 December 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Comparison of the receptor FGFRL1 from sea urchins and humans illustrates evolution of a zinc binding motif in the intracellular domain

Lei Zhuang, Andrei V Karotki, Philip Bruecker, Beat Trueb BMC Biochemistry 2009, 10:33 (18 December 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Analysis of the stoichiometric metal activation of methionine aminopeptidase

Sergio C Chai, Qi-Zhuang Ye BMC Biochemistry 2009, 10:32 (17 December 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Biochemical evidence for the tyrosine involvement in cationic intermediate stabilization in mouse β-carotene 15, 15'-monooxygenase

Eugenia Poliakov, Susan Gentleman, Preethi Chander, Francis X Cunningham, Bella L Grigorenko, Alexander V Nemuhin, T Michael Redmond BMC Biochemistry 2009, 10:31 (14 December 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Ghrelin-like peptide with fatty acid modification and O-glycosylation in the red stingray, Dasyatis akajei

Hiroyuki Kaiya, Shiho Kodama, Koutaro Ishiguro, Kouhei Matsuda, Minoru Uchiyama, Mikiya Miyazato, Kenji Kangawa BMC Biochemistry 2009, 10:30 (14 December 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Prion protein self-peptides modulate prion interactions and conversion

Alan Rigter, Jan Priem, Drophatie Timmers-Parohi, Jan PM Langeveld, Fred G van Zijderveld, Alex Bossers BMC Biochemistry 2009, 10:29 (30 November 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Prion peptides are tested for their ability to modulate prion protein self-interactions and conversion to the scrapie isoform, indicating domain-specific roles and the importance of stabilizing PrPC-PrPC and PrPC-PrPSc interactions as a prelude to conversion.

Research article   Open Access Highly Accessed

Purification and characterization of cysteine protease from germinating cotyledons of horse gram

Rajeswari Jinka, Vadde Ramakrishna, Sridhar K Rao, Ramakrishna P Rao BMC Biochemistry 2009, 10:28 (17 November 2009)

Abstract | Full text | PDF | PubMed

Database   Open Access Highly Accessed

The Cytochrome P450 Engineering Database: integration of biochemical properties

Demet Sirim, Florian Wagner, Andrey Lisitsa, Jürgen Pleiss BMC Biochemistry 2009, 10:27 (12 November 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

The new version of the Cytochrome P450 Engineering Database (CYPED) contains information on the sequences of 8613 proteins and the structures of 47 proteins, and has been extended by integrating biochemical information from the Cytochrome P450 Knowledgebase.

Research article   Open Access Highly Accessed

Biosynthesis of the proteasome inhibitor syringolin A: the ureido group joining two amino acids originates from bicarbonate

Christina Ramel, Micha Tobler, Martin Meyer, Laurent Bigler, Marc-Olivier Ebert, Barbara Schellenberg, Robert Dudler BMC Biochemistry 2009, 10:26 (28 October 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Biosynthesis of the proteosome inhibitor syringolin A is directed by the syl gene cluster of phytopathogenic bacterium Pseudomonas syringae pv. syringae B728a after heterologous transfer, with CO2 being incorporated to form the unusual ureido group.

Research article   Open Access Highly Accessed

Ser170 of Bacillus thuringiensis Cry1Ab δ-endotoxin becomes anchored in a hydrophobic moiety upon insertion of this protein into Manduca sexta brush border membranes

Oscar Alzate, Craig F Hemann, Cristina Osorio, Russ Hille, Donald H Dean BMC Biochemistry 2009, 10:25 (19 October 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Mapping of protein phosphatase-6 association with its SAPS domain regulatory subunit using a model of helical repeats

Julien Guergnon, Urszula Derewenda, Jessica R Edelson, David L Brautigan BMC Biochemistry 2009, 10:24 (16 October 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Our understanding of how SAPS-related proteins differentially regulate closely-related Ser/Thr phosphatases is advanced by a study indicating that human PP6R3 forms distinctive helical repeats within its conserved SAPS domain and uses interhelical loops to associate with protein phosphatase 6.

Research article   Open Access Highly Accessed

Monitoring compartment-specific substrate cleavage by cathepsins B, K, L, and S at physiological pH and redox conditions

Silvia Jordans, Saša Jenko-Kokalj, Nicole M Kühl, Sofia Tedelind, Wolfgang Sendt, Dieter Brömme, Dušan Turk, Klaudia Brix BMC Biochemistry 2009, 10:23 (22 September 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

Cathepsin cysteine proteases are active under conditions simulating extracellular and intracellular compartments with a range of pHs and redox potentials, as shown by cleavage of the natural substrate thyroglobulin in distinct ways in different physiologic environments.

Research article   Open Access Highly Accessed

Identification of a nuclear localization motif in the serine/arginine protein kinase PSRPK of physarum polycephalum

Shide Liu, Zhuolong Zhou, Ziyang Lin, Qiuling Ouyang, Jianhua Zhang, Shengli Tian, Miao Xing BMC Biochemistry 2009, 10:22 (25 August 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Contribution of oenocytes and pheromones to courtship behaviour in Drosophila

Claude Wicker-Thomas, Ilhem Guenachi, Youssouf F Keita BMC Biochemistry 2009, 10:21 (11 August 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access Highly Accessed

Biochemical characterization of malate synthase G of P. aeruginosa

Bart Roucourt, Nikki Minnebo, Patrick Augustijns, Kirsten Hertveldt, Guido Volckaert, Rob Lavigne BMC Biochemistry 2009, 10:20 (24 June 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access

Insights into the role of Val45 and Gln182 of Escherichia coli MutY in DNA substrate binding and specificity

Po-Wen Chang, Amrita Madabushi, A-Lien Lu BMC Biochemistry 2009, 10:19 (12 June 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Analysis of DNA relaxation and cleavage activities of recombinant Mycobacterium tuberculosis DNA topoisomerase I from a new expression and purification protocol

Thirunavukkarasu Annamalai, Neil Dani, Bokun Cheng, Yuk-Ching Tse-Dinh BMC Biochemistry 2009, 10:18 (11 June 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

DNA binding kinetics of two response regulators, PlnC and PlnD, from the bacteriocin regulon of Lactobacillus plantarum C11

Daniel Straume, Rune F Johansen, Magnar Bjørås, Ingolf F Nes, Dzung B Diep BMC Biochemistry 2009, 10:17 (11 June 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Two response regulators of antibacterial peptide production in Lactobacillus plantarum are highly homologous, co-expressed, and bind to the same promoters but differ in their binding affinity and cooperativity, explaining their opposite functions in gene regulation.

Research article   Open Access Highly Accessed

TIPT2 and geminin interact with basal transcription factors to synergize in transcriptional regulation

Mara E Pitulescu, Martin Teichmann, Lingfei Luo, Michael Kessel BMC Biochemistry 2009, 10:16 (10 June 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

A novel transcriptional regulator, isoform 2 of the TATA-binding protein-like factor-interacting protein (TIPT2), binds to the cell cycle regulatory protein geminin, and together they cooperate with chromatin associated factors and the basal transcription machinery to activate transcription synergistically.

Research article   Open Access Highly Accessed

A novel human NatA Nα-terminal acetyltransferase complex: hNaa16p-hNaa10p (hNat2-hArd1)

Thomas Arnesen, Darina Gromyko, Diane Kagabo, Matthew J Betts, Kristian K Starheim, Jan Varhaug, Dave Anderson, Johan R Lillehaug BMC Biochemistry 2009, 10:15 (29 May 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access Highly Accessed

The endocannabinoid anandamide is a precursor for the signaling lipid N-arachidonoyl glycine by two distinct pathways

Heather B Bradshaw, Neta Rimmerman, Sherry Hu, Valery M Benton, Jordyn M Stuart, Kim Masuda, Benjamin F Cravatt, David K O'Dell, J Michael Walker BMC Biochemistry 2009, 10:14 (21 May 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

The lipid signaling molecule N-arachidonyl glycine (NAGly) is produced from the endogenous cannabinoid anandamide (AEA) by two pathways - oxidative metabolism of AEA's ethanolamine moiety, and glycine conjugation to arachidonic acid released during AEA hydrolysis by fatty acid amide hydrolase.

Research article   Open Access Highly Accessed

Biochemical characterization of bovine plasma thrombin-activatable fibrinolysis inhibitor (TAFI)

Zuzana Valnickova, Morten Thaysen-Andersen, Peter Højrup, Trine Christensen, Kristian W Sanggaard, Torsten Kristensen, Jan J Enghild BMC Biochemistry 2009, 10:13 (5 May 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Exploring the functional interaction between POSH and ALIX and the relevance to HIV-1 release

Jörg Votteler, Elena Iavnilovitch, Orit Fingrut, Vivian Shemesh, Daniel Taglicht, Omri Erez, Stefan Sörgel, Torsten Walther, Norbert Bannert, Ulrich Schubert, Yuval Reiss BMC Biochemistry 2009, 10:12 (24 April 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access Highly Accessed

Both Ca2+ and Zn2+ are essential for S100A12 protein oligomerization and function

Olga V Moroz, Will Burkitt, Helmut Wittkowski, Wei He, Anatoli Ianoul, Vera Novitskaya, Jingjing Xie, Oxana Polyakova, Igor K Lednev, Alexander Shekhtman, Peter J Derrick, Per Bjoerk, Dirk Foell, Igor B Bronstein BMC Biochemistry 2009, 10:11 (23 April 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access Highly Accessed

Identification of distinct SET/TAF-Iβ domains required for core histone binding and quantitative characterisation of the interaction

Zoe Karetsou, Anastasia Emmanouilidou, Ioannis Sanidas, Stamatis Liokatis, Eleni Nikolakaki, Anastasia S Politou, Thomais Papamarcaki BMC Biochemistry 2009, 10:10 (9 April 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

alpha-Sarcin catalytic activity is not required for cytotoxicity

Spencer C Alford, Joel D Pearson, Amanda Carette, Robert J Ingham, Perry L Howard BMC Biochemistry 2009, 10:9 (3 April 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Characterisation of the paralytic shellfish toxin biosynthesis gene clusters in Anabaena circinalis AWQC131C and Aphanizomenon sp. NH-5

Troco K Mihali, Ralf Kellmann, Brett A Neilan BMC Biochemistry 2009, 10:8 (30 March 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

The roles of aldehyde dehydrogenases (ALDHs) in the PDH bypass of Arabidopsis

Yanling Wei, Ming Lin, David J Oliver, Patrick S Schnable BMC Biochemistry 2009, 10:7 (25 March 2009)

Abstract | Full text | PDF | PubMed

Methodology article   Open Access Highly Accessed

A novel method for screening the glutathione transferase inhibitors

Zhijun Wang, Li Jin, Grzegorz Węgrzyn, Alicja Węgrzyn BMC Biochemistry 2009, 10:6 (16 March 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Transmembrane voltage regulates binding of annexin V and lactadherin to cells with exposed phosphatidylserine

Christina Smith, Donald F Gibson, Jonathan F Tait BMC Biochemistry 2009, 10:5 (17 February 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access

Dictyostelium cells bind a secreted autocrine factor that represses cell proliferation

Jonathan M Choe, Deenadayalan Bakthavatsalam, Jonathan E Phillips, Richard H Gomer BMC Biochemistry 2009, 10:4 (2 February 2009)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

Research article   Open Access Highly Accessed

Structural studies of the Enterococcus faecalis SufU [Fe-S] cluster protein

Gustavo P Riboldi, Hugo Verli, Jeverson Frazzon BMC Biochemistry 2009, 10:3 (2 February 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Human Rad51 mediated DNA unwinding is facilitated by conditions that favour Rad51-dsDNA aggregation

Kamakshi Balakrishnan, Neeraja M Krishnan, Anagha Kulkarni, Basuthkar J Rao BMC Biochemistry 2009, 10:2 (9 January 2009)

Abstract | Full text | PDF | PubMed |  Editor’s summary

The unwinding of double-stranded DNA in humans as mediated by hRad51, the RecA homolog, is stimulated by the protein hRad52, which possibly acts as a scaffold to bring DNA and hRad51 together.

Research article   Open Access Highly Accessed

Redox biology of Mycobacterium tuberculosis H37Rv: protein-protein interaction between GlgB and WhiB1 involves exchange of thiol-disulfide

Saurabh Garg, Md Suhail Alam, Richa Bajpai, KV Radha Kishan, Pushpa Agrawal BMC Biochemistry 2009, 10:1 (5 January 2009)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Phage display-derived inhibitor of the essential cell wall biosynthesis enzyme MurF

Catherine Paradis-Bleau, Adrian Lloyd, François Sanschagrin, Tom Clarke, Ann Blewett, Timothy DH Bugg, Roger C Levesque BMC Biochemistry 2008, 9:33 (19 December 2008)

Abstract | Full text | PDF | PubMed

Research article   Open Access Highly Accessed

Modification of carbonic anhydrase II with acetaldehyde, the first metabolite of ethanol, leads to decreased enzyme activity

Fatemeh Bootorabi, Janne Jänis, Jarkko Valjakka, Sari Isoniemi, Pirjo Vainiotalo, Daniela Vullo, Claudiu T Supuran, Abdul Waheed, William S Sly, Onni Niemelä, Seppo Parkkila BMC Biochemistry 2008, 9:32 (27 November 2008)

Abstract | Full text | PDF | PubMed |  Editor’s summary

Acetaldehyde, a metabolite of ethanol, forms a Schiff base with one of the amino groups of carbonic anhydrase II, and its inhibition of this enzyme by covalent modification may help explain the toxicity of ethanol in human tissues.

Research article   Open Access Highly Accessed

Lipid bilayer composition influences small multidrug transporters

Kalypso Charalambous, David Miller, Paul Curnow, Paula J Booth BMC Biochemistry 2008, 9:31 (25 November 2008)

Abstract | Full text | PDF | PubMed |  Editor’s summary

The activity of two bacterial multidrug transporters increases in membrane bilayers containing phosphatidylethanolamine, with EmrE from Escherichia coli and TBsmr from Mycobacterium tuberculosis also becoming more active in the presence of phosphatidylglycerol and phosphatidylinositol, respectively.

Research article   Open Access Highly Accessed

An earthworm protease cleaving serum fibronectin and decreasing HBeAg in HepG2.2.15 cells

Xue-Qing Wang, Lan Chen, Rong Pan, Jing Zhao, Ying Liu, Rong-Qiao He BMC Biochemistry 2008, 9:30 (24 November 2008)

Abstract | Full text | PDF | PubMed

Research article   Open Access

The FF domains of yeast U1 snRNP protein Prp40 mediate interactions with Luc7 and Snu71

Claudia Ester, Peter Uetz BMC Biochemistry 2008, 9:29 (11 November 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

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