The GH5 1,4-β-mannanase from Bifidobacterium animalis subsp. lactis Bl-04 possesses a low-affinity mannan-binding module and highlights the diversity of mannanolytic enzymes
Conclusion:
BlMan5_8 is evolved for efficient deconstruction of soluble mannans, which is reflected by an exceptionally low K
m
and the presence of an atypical low affinity CBM, which increases binding to specifically to soluble mannan while causing minimal decrease in catalytic efficiency as opposed to enzymes with canonical mannan binding modules. These features highlight fine tuning of catalytic and binding properties to support specialization towards a preferred substrate, which is likely to confer an advantage in the adaptation ...
Source: BMC Biochemistry - November 11, 2015 Category: Biochemistry Authors: Johan MorrillEvelina KulcinskajaAnna SulewskaSampo LahtinenHenrik StålbrandBirte SvenssonMaher Abou Hachem Source Type: research
The laforin/malin E3-ubiquitin ligase complex ubiquitinates pyruvate kinase M1/M2
Lafora disease (LD, OMIM 254780) is a fatal neurodegenerative disorder produced mainly by mutations in two genes: EPM2A, encoding the dual specificity phosphatase laforin, and EPM2B, encoding the E3-ubiquitin lig... (Source: BMC Biochemistry)
Source: BMC Biochemistry - October 23, 2015 Category: Biochemistry Authors: Rosa Viana, Pablo Lujan and Pascual Sanz Source Type: research
The eukaryotic translation initiation factor 3f (eIF3f) interacts physically with the alpha 1B-adrenergic receptor and stimulates adrenoceptor activity
eIF3f is a multifunctional protein capable of interacting with proteins involved in different cellular processes, such as protein synthesis, DNA repair, and viral mRNA edition. In human cells, eIF3f is related... (Source: BMC Biochemistry)
Source: BMC Biochemistry - October 23, 2015 Category: Biochemistry Authors: Mario Javier Gutiérrez-Fernández, Ana Edith Higareda-Mendoza, César Adrián Gómez-Correa and Marco Aurelio Pardo-Galván Source Type: research
The laforin/malin E3-ubiquitin ligase complex ubiquitinates pyruvate kinase M1/M2
Conclusions:
We present evidence indicating that the laforin/malin complex is able to interact with and ubiquitinate both PKM1 and PKM2. This post-translational modification, although it does not affect the catalytic activity of PKM1, it impairs the nuclear localization of PKM2. (Source: BMC Biochemistry)
Source: BMC Biochemistry - October 23, 2015 Category: Biochemistry Authors: Rosa VianaPablo LujanPascual Sanz Source Type: research
The eukaryotic translation initiation factor 3f (eIF3f) interacts physically with the alpha 1B-adrenergic receptor and stimulates adrenoceptor activity
Conclusions:
The eIF3f/alpha adrenergic receptor interaction opens new insights regarding adrenoceptor-related transduction pathways and proliferation control in human cells. The eIf3f/alpha 1B-ADR complex is found in mammals and is not tissue specific. (Source: BMC Biochemistry)
Source: BMC Biochemistry - October 23, 2015 Category: Biochemistry Authors: Mario Gutiérrez-FernándezAna Higareda-MendozaCésar Gómez-CorreaMarco Pardo-Galván Source Type: research
Evaluating the role of a trypsin inhibitor from soap nut (Sapindus trifoliatus L. Var. Emarginatus) seeds against larval gut proteases, its purification and characterization
Conclusion:
We conclude that SNTI potentially inhibits larval gut proteases of insects and the kinetics exhibited by the protease inhibitor further substantiates its efficacy against serine proteases. (Source: BMC Biochemistry)
Source: BMC Biochemistry - October 22, 2015 Category: Biochemistry Authors: V GandreddiVijaya KappalaKunal ZaveriKiranmayi Patnala Source Type: research
Respiration and substrate transport rates as well as reactive oxygen species production distinguish mitochondria from brain and liver
Conclusions:
We conclude that important mechanistic differences exist between mouse liver and brain mitochondria and that mouse mitochondria exhibit phenotypic differences compared with mitochondria from other species. (Source: BMC Biochemistry)
Source: BMC Biochemistry - September 10, 2015 Category: Biochemistry Authors: Aaron GusdonGabriel Fernandez-BuenoStephanie WohlgemuthJenelle FernandezJing ChenClayton Mathews Source Type: research
Complex kinetics and residual structure in the thermal unfolding of yeast triosephosphate isomerase
Conclusions:
The slow temperature-induced unfolding of yeast TIM shows three kinetic phases. Rather than a simple sequential pathway, a complex mechanism involving off-pathway intermediates or even parallel pathways may be operating. β-strand-type residual structure, which appears below pH 8.0, is likely to be associated with increased irreversible aggregation of the unfolded protein. However, this denatured form apparently accelerates the refolding process. (Source: BMC Biochemistry)
Source: BMC Biochemistry - September 3, 2015 Category: Biochemistry Authors: Ariana Labastida-PolitoGeorgina Garza-RamosMenandro Camarillo-CadenaRafael ZubillagaAndrés Hernández-Arana Source Type: research
Purification and characterization of a cytochrome c with novel caspase-3 activation activity from the pathogenic fungus Rhizopus arrhizus
Conclusions:
Rhizopus arrhizus cytochrome c can activate human caspase-3 in HeLa cell extracts and it possesses similar physical and spectral properties as human and horse cytochrome c. This protein was found to have a previously unknown potential to activate human caspase-3, an important step in the apoptosis cascade. (Source: BMC Biochemistry)
Source: BMC Biochemistry - September 3, 2015 Category: Biochemistry Authors: Manoj SaxenaRohit SharmaJosell Ramirez-PazArthur TinocoKai Griebenow Source Type: research
Identification of inhibitors that target dual-specificity phosphatase 5 provide new insights into the binding requirements for the two phosphate pockets
Conclusions:
The new DUSP5 inhibitors we identify in this study typically have sulfonates 7 Å apart, likely positioning them where the two phosphates of the substrate peptide (pThr-Glu-pTyr) bind, with one inhibitor also positioning a phenolic hydroxyl where the water nucleophile may reside. Polysulfonated aromatic compounds do not commonly appear in drugs and have a tendency to aggregate. One FDA-approved polysulfonated drug, suramin, inhibits DUSP5 and also aggregates. Docking and modeling studies presented herein identify polysulfonated aromatic inhibitors that do not aggregate, and provide insights to guide future de...
Source: BMC Biochemistry - August 19, 2015 Category: Biochemistry Authors: Terrence NeumannElise SpanKelsey KalousRobert BongardAdam GastonguayMichael LepleyRaman KuttyJaladhi NayakChris BohlRachel LangeMajher SarkerMarat TalipovRajendra RathoreRamani RamchandranDaniel Sem Source Type: research
Design of symmetric TIM barrel proteins from first principles
Conclusions:
Despite the detection of molten characteristics, the creation of a soluble, cooperatively folding protein represents an advancement over previous attempts at TIM barrel design. Strategies to further improve Symmetrin-1 are elaborated. Our techniques may be used to create other large, internally symmetric proteins. (Source: BMC Biochemistry)
Source: BMC Biochemistry - August 12, 2015 Category: Biochemistry Authors: Deepesh NagarajanGeeta DekaMegha Rao Source Type: research
Structural plasticity of green fluorescent protein to amino acid deletions and fluorescence rescue by folding-enhancing mutations
Conclusion:
Our results suggested that a “size-minimized” GFP may be developed by iterative incorporation of amino acid deletions, followed by fluorescence rescue with folding-enhancing mutations. (Source: BMC Biochemistry)
Source: BMC Biochemistry - July 25, 2015 Category: Biochemistry Authors: Shu-su LiuXuan WeiXue DongLiang XuJia LiuBiao Jiang Source Type: research
Kv1.3 contains an alternative C-terminal ER exit motif and is recruited into COPII vesicles by Sec24a
Conclusion:
These results expand upon previous studies aimed at deciphering the Kv1.3 secretory trafficking mechanisms and further show in vitro evidence of the association between Kv1.3 and the COPII cargo adaptor subunit isoform Sec24a. (Source: BMC Biochemistry)
Source: BMC Biochemistry - July 10, 2015 Category: Biochemistry Authors: John SpearDolly KoborssyAustin SchwartzAdam JohnsonAnjon AudhyaDebra FadoolScott Stagg Source Type: research
Enzyme assays for synthesis and degradation of 2-5As and other 2′-5′ oligonucleotides
Conclusions:
This paper comprises an assay toolbox for identification and characterization of the synthetases and nucleases regulating cellular 2-5A levels. Assays are presented for both enzyme families. The assays can also be used to address a broader cellular role of the OAS enzymes, based on the multiple substrate specificity intrinsic to these proteins. (Source: BMC Biochemistry)
Source: BMC Biochemistry - June 26, 2015 Category: Biochemistry Authors: Jesper PoulsenKarina KjærJust JustesenPia Martensen Source Type: research
Human POLD1 modulates cell cycle progression and DNA damage repair
Conclusions:
Our results suggest that human POLD1 plays important role in the regulation of cell cycle progression and DNA damage repair. (Source: BMC Biochemistry)
Source: BMC Biochemistry - June 19, 2015 Category: Biochemistry Authors: Jing SongPing HongChengeng LiuYueqi ZhangJinling WangPeichang Wang Source Type: research
