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Protein and enzyme biochemistry

Section edited by Joel Weiner

Protein and enzyme biochemistry: This section incorporates all aspects of protein and enzyme biochemistry including but not limited to: protein chemistry and proteomics, protein folding and enzyme activity. Applications of these areas, such as in bionanotechnology and biosensors are also welcome.

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  1. Defensins are basic, cysteine-rich antimicrobial peptides that are important components of plant defense against pathogens. Previously, we isolated a defensin, Pv D1, from Phaseolus vulgaris L. (common bean) seed...

    Authors: Érica de O Mello, Izabela S dos Santos, André de O Carvalho, Luísa S de Souza, Gonçalo A de Souza-Filho, Viviane V do Nascimento, Olga LT Machado, Umberto Zottich and Valdirene M Gomes

    Citation: BMC Biochemistry 2014 15:7

    Content type: Research article

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  2. Endoplasmic reticulum stress, caused by the presence of misfolded proteins, activates the stress sensor inositol-requiring enzyme 1α (IRE1α). The resulting increase in IRE1α RNase activity causes sequence-spec...

    Authors: Daniel Itzhak, Michael Bright, Peter McAndrew, Amin Mirza, Yvette Newbatt, Jade Strover, Marcella Widya, Andrew Thompson, Gareth Morgan, Ian Collins and Faith Davies

    Citation: BMC Biochemistry 2014 15:3

    Content type: Research article

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  3. We have previously shown that the P. gingivalis HmuY hemophore-like protein binds heme and scavenges heme from host hemoproteins to further deliver it to the cognate heme receptor HmuR. The aim of this study was ...

    Authors: Marcin Bielecki, Halina Wójtowicz and Teresa Olczak

    Citation: BMC Biochemistry 2014 15:2

    Content type: Research article

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  4. Heterotrimeric G-proteins relay extracellular signals to intracellular effector proteins. Multiple methods have been developed to monitor their activity; including labeled nucleotides and biosensors based on g...

    Authors: Lauri Tõntson, Sergei Kopanchuk and Ago Rinken

    Citation: BMC Biochemistry 2013 14:37

    Content type: Research article

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  5. Dihydroorotase (DHO) is a zinc metalloenzyme, although the number of active site zinc ions has been controversial. E. coli DHO was initially thought to have a mononuclear metal center, but the subsequent X-ray st...

    Authors: Brian FP Edwards, Roshini Fernando, Philip D Martin, Edward Grimley, Melissa Cordes, Asmita Vaishnav, Joseph S Brunzelle, Hedeel Guy Evans and David R Evans

    Citation: BMC Biochemistry 2013 14:36

    Content type: Research article

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  6. Proteases are important enzymes involved in numerous essential physiological processes and hold a strong potential for industrial applications. The proteolytic activity of insects’ gut is endowed by many isofo...

    Authors: Prashant T Sanatan, Purushottam R Lomate, Ashok P Giri and Vandana K Hivrale

    Citation: BMC Biochemistry 2013 14:32

    Content type: Research article

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  7. Alpha-1 proteinase inhibitor (API) is a plasma serpin superfamily member that inhibits neutrophil elastase; variant API M358R inhibits thrombin and activated protein C (APC). Fusing residues 1-75 of another se...

    Authors: Leigh Ann Roddick, Varsha Bhakta and William P Sheffield

    Citation: BMC Biochemistry 2013 14:31

    Content type: Research article

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  8. YedY, a molybdoenzyme belonging to the sulfite oxidase family, is found in most Gram-negative bacteria. It contains a twin-arginine signal sequence that is cleaved after its translocation into the periplasm. D...

    Authors: Monique Sabaty, Sandrine Grosse, Geraldine Adryanczyk, Séverine Boiry, Frédéric Biaso, Pascal Arnoux and David Pignol

    Citation: BMC Biochemistry 2013 14:28

    Content type: Research article

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  9. BTBD10 binds to Akt and protein phosphatase 2A (PP2A) and inhibits the PP2A-mediated dephosphorylation of Akt, thereby keeping Akt activated. Previous studies have suggested that BTBD10 plays an important role...

    Authors: Mikiro Nawa and Masaaki Matsuoka

    Citation: BMC Biochemistry 2013 14:27

    Content type: Research article

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  10. Methylmalonyl-CoA mutase (MCM) is an adenosylcobalamin-dependent enzyme that catalyses the interconversion of (2R)-methylmalonyl-CoA to succinyl-CoA. In humans, a deficit in activity of MCM, due to an impairme...

    Authors: Bazoumana Ouattara, Mélissa Duplessis and Christiane L Girard

    Citation: BMC Biochemistry 2013 14:25

    Content type: Methodology article

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  11. Vitamin C (ascorbic acid) is an essential nutrient of most living tissues that readily acts as a strong reducing agent, which is abundant in fruits and vegetables. Although, it inhibits cell growth in many hum...

    Authors: Arulkumar Nagappan, Hyeon Soo Park, Kwang Il Park, Jin A Kim, Gyeong Eun Hong, Sang Rim Kang, Jue Zhang, Eun Hee Kim, Won Sup Lee, Chung Kil Won and Gon Sup Kim

    Citation: BMC Biochemistry 2013 14:24

    Content type: Research article

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  12. Streptomyces sp. N174 chitosanase (CsnN174), a member of glycoside hydrolases family 46, is one of the most extensively studied chitosanases. Previous studies allowed identifying several key residues of this inve...

    Authors: Marie-Ève Lacombe-Harvey, Mélanie Fortin, Takayuki Ohnuma, Tamo Fukamizo, Thomas Letzel and Ryszard Brzezinski

    Citation: BMC Biochemistry 2013 14:23

    Content type: Research article

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  13. The cytochrome P450s are monooxygenases that insert oxygen functionalities into a wide variety of organic substrates with high selectivity. There is interest in developing efficient catalysts based on the “per...

    Authors: James E Erman, Heather Kilheeney, Anil K Bidwai, Caitlan E Ayala and Lidia B Vitello

    Citation: BMC Biochemistry 2013 14:19

    Content type: Research article

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  14. Lamins A and C, two major structural components of the nuclear lamina that determine nuclear shape and size, are phosphoproteins. Phosphorylation of lamin A/C is cell cycle-dependent and is involved in regulat...

    Authors: Jeng-Ting Chen, Chia-Wen Ho, Lang-Ming Chi, Kun-Yi Chien, Ya-Ju Hsieh, Shih-Jie Lin and Jau-Song Yu

    Citation: BMC Biochemistry 2013 14:18

    Content type: Research article

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  15. Signal peptide peptidase (SPP) is a multi-transmembrane aspartic protease involved in intramembrane-regulated proteolysis (RIP). RIP proteases mediate various key life events by releasing bioactive peptides fr...

    Authors: Masako Hoshi, Yu Ohki, Keisuke Ito, Taisuke Tomita, Takeshi Iwatsubo, Yoshiro Ishimaru, Keiko Abe and Tomiko Asakura

    Citation: BMC Biochemistry 2013 14:16

    Content type: Research article

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  16. α-Dystroglycan (α-DG) is heavily glycosylated within its central mucin-like domain. The glycosylation shell of α-dystroglycan is known to largely influence its functional properties toward extracellular ligand...

    Authors: Manuela Bozzi, Enrico Di Stasio, Giovanni Luca Scaglione, Claudia Desiderio, Claudia Martelli, Bruno Giardina, Francesca Sciandra and Andrea Brancaccio

    Citation: BMC Biochemistry 2013 14:15

    Content type: Research article

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  17. Analysis of factors contributing to high affinity antibody-protein interactions provides insight into natural antibody evolution, and guides the design of antibodies with new or enhanced function. We previousl...

    Authors: Alex Stewart, Joseph S Harrison, Lauren K Regula and Jonathan R Lai

    Citation: BMC Biochemistry 2013 14:9

    Content type: Research article

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  18. Conjugation of the ubiquitin-like modifier Nedd8 to cullins is critical for the function of SCF-type ubiquitin ligases and thus facilitates ubiquitin conjugation and ultimately degradation of SCF substrates, i...

    Authors: Jean E O’Donoghue, Dawadschargal Bech-Otschir, Ida B Larsen, Mairi Wallace, Rasmus Hartmann-Petersen and Colin Gordon

    Citation: BMC Biochemistry 2013 14:8

    Content type: Research article

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  19. Heparin cofactor II (HCII) is a circulating protease inhibitor, one which contains an N-terminal acidic extension (HCII 1-75) unique within the serpin superfamily. Deletion of HCII 1-75 greatly reduces the abi...

    Authors: Amanda J Boyle, Leigh Ann Roddick, Varsha Bhakta, Melissa D Lambourne, Murray S Junop, Patricia C Liaw, Jeffrey I Weitz and William P Sheffield

    Citation: BMC Biochemistry 2013 14:6

    Content type: Research article

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  20. The α-isoform of the Type 1A Phosphoinositide 3-kinases (PI3Kα) has protein kinase activity as well as phosphoinositide lipid kinase activity. The best described substrate for its protein kinase activity is it...

    Authors: Meredith J Layton, Mirette Saad, Nicole L Church, Richard B Pearson, Christina A Mitchell and Wayne A Phillips

    Citation: BMC Biochemistry 2012 13:30

    Content type: Research article

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  21. An important controversy in the relationship between beef tenderness and muscle characteristics including biochemical traits exists among meat researchers. The aim of this study is to explain variability in me...

    Authors: Sghaier Chriki, Graham E Gardner, Catherine Jurie, Brigitte Picard, Didier Micol, Jean-Paul Brun, Laurent Journaux and Jean-Francois Hocquette

    Citation: BMC Biochemistry 2012 13:29

    Content type: Research article

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  22. Ca2+/calmodulin-dependent protein kinase kinase (CaMKK) phosphorylates and activates particular downstream protein kinases — including CaMKI, CaMKIV, and AMPK— to stimulate multiple Ca2+-signal transduction pathw...

    Authors: Saki Yurimoto, Tomohito Fujimoto, Masaki Magari, Naoki Kanayama, Ryoji Kobayashi and Hiroshi Tokumitsu

    Citation: BMC Biochemistry 2012 13:27

    Content type: Research article

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  23. Methionine (Met) residues in proteins can be readily oxidized by reactive oxygen species to Met sulfoxide (MetO). MetO is a promising physiological marker of oxidative stress and its inefficient repair by MetO...

    Authors: Xinwen Liang, Alaattin Kaya, Yan Zhang, Dung Tien Le, Deame Hua and Vadim N Gladyshev

    Citation: BMC Biochemistry 2012 13:21

    Content type: Research article

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  24. Streptococcus pneumoniae expresses three distinct sialidases, NanA, NanB, and NanC, that are believed to be key virulence factors and thus, potential important drug targets. We previously reported that the three ...

    Authors: Jasvinder Kaur Hayre, Guogang Xu, Luisa Borgianni, Garry L Taylor, Peter W Andrew, Jean-Denis Docquier and Marco R Oggioni

    Citation: BMC Biochemistry 2012 13:19

    Content type: Methodology article

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  25. Mutations to the TSC1 and TSC2 genes cause the disease tuberous sclerosis complex. The TSC1 and TSC2 gene products form a protein complex that integrates multiple metabolic signals to regulate the activity of the...

    Authors: Marianne Hoogeveen-Westerveld, Leontine van Unen, Ans van den Ouweland, Dicky Halley, Andre Hoogeveen and Mark Nellist

    Citation: BMC Biochemistry 2012 13:18

    Content type: Research article

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  26. The molecular basis of the increased susceptibility of steatotic livers to warm ischemia/reperfusion (I/R) injury during transplantation remains undefined. Animal model for warm I/R injury was induced in obese...

    Authors: Venkataswarup Tiriveedhi, Kendra D Conzen, Jane Liaw-Conlin, Gundumi Upadhya, James Malone, R Reid Townsend, Robnet Kerns, Jianluo Jia, Krista Csontos, Sabarinathan Ramachandran, Thallachallour Mohanakumar, Christopher D Anderson and William C Chapman

    Citation: BMC Biochemistry 2012 13:17

    Content type: Research article

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  27. Protein-protein interactions are at the basis of many cellular processes, and they are also involved in the interaction between pathogens and their host(s). Many intracellular pathogenic bacteria translocate p...

    Authors: Bernard Nkengfac, Jenny Pouyez, Emilie Bauwens, Jean Vandenhaute, Jean-Jacques Letesson, Johan Wouters and Xavier De Bolle

    Citation: BMC Biochemistry 2012 13:16

    Content type: Research article

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  28. Enzymatic allergens of storage mites that contaminate stored food products are poorly characterized. We describe biochemical and immunological properties of the native alpha-amylase allergen Aca s 4 from Acarus s...

    Authors: Jana Pytelková, Martin Lepšík, Miloslav Šanda, Pavel Talacko, Lucie Marešová and Michael Mareš

    Citation: BMC Biochemistry 2012 13:3

    Content type: Research article

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  29. Conjugation of human and animal hemoglobins with polyethylene glycol has been widely explored as a means to develop blood substitutes, a novel pharmaceutical class to be used in surgery or emergency medicine. ...

    Authors: Daniela Coppola, Stefano Bruno, Luca Ronda, Cristiano Viappiani, Stefania Abbruzzetti, Guido di Prisco, Cinzia Verde and Andrea Mozzarelli

    Citation: BMC Biochemistry 2011 12:66

    Content type: Research article

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  30. The Gram-negative bacterium Haemophilus influenzae is a glutathione auxotroph and acquires the redox-active tripeptide by import. The dedicated glutathione transporter belongs to the ATP-binding cassette (ABC)-tr...

    Authors: Bjorn Vergauwen, Ruben Van der Meeren, Ann Dansercoer and Savvas N Savvides

    Citation: BMC Biochemistry 2011 12:59

    Content type: Research article

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  31. Botulism is caused by botulinum neurotoxins (BoNTs), extremely toxic proteins which can induce respiratory failure leading to long-term intensive care or death. Treatment for botulism includes administration o...

    Authors: Suzanne R Kalb, Wanda I Santana, Isin N Geren, Consuelo Garcia-Rodriguez, Jianlong Lou, Theresa J Smith, James D Marks, Leonard A Smith, James L Pirkle and John R Barr

    Citation: BMC Biochemistry 2011 12:58

    Content type: Research article

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  32. Staphylococcus aureus is a human pathogen that produces extracellular adenosine to evade clearance by the host immune system, an activity attributed to the 5'-nucleotidase activity of adenosine synthase (AdsA). I...

    Authors: Vilasack Thammavongsa, Olaf Schneewind and Dominique M Missiakas

    Citation: BMC Biochemistry 2011 12:56

    Content type: Research article

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