Abstract：
:Seryl-tRNA synthetases (SerRS) covalently attach serine to cognate tRNA(Ser). Atypical SerRSs, considerably different from canonical enzymes, have been found in methanogenic archaea. A crystal structure of methanogenic-type SerRS revealed a motif within the active site (serine ordering loop; SOL), which undergoes a notable induced-fit rearrangement during serine binding. The loop rearranges from a disordered conformation in the unliganded enzyme, to an ordered structure comprising an α-helix followed by a loop. We performed kinetic and thermodynamic analyses of SerRS variants to establish the role of the SOL in serylation. Thermodynamic data confirmed a linkage between binding of serine and α-helix formation, previously described by the crystallographic analysis. The ability of the SOL to adopt the observed secondary structure was recognized as essential for serine activation. Mutation of Gln400, which according to the structural data establishes the main connection between the serine and the SOL, produced only modest kinetic effects. Kinetic data offer new insights into the coupling of the conformational change with active site assembly. Productive positioning of the SOL may be driven by the interaction between Trp396 and the serine α-amino group. Rapid kinetics reveals that His250, a non-SOL residue, is essential for transfer of serine to tRNA. Modeling data established that accommodation of the tRNA within the active site may require movement of the SOL. This would enable His250 to assist in productive positioning of the 3'-end of the tRNA for the aminoacyl transfer. Thus, the rearrangements of the SOL conformationally adjust the active site for both reaction steps.
journal_name
Biochimiejournal_title
Biochimieauthors
Dulic M,Pozar J,Bilokapic S,Weygand-Durasevic I,Gruic-Sovulj Idoi
10.1016/j.biochi.2011.06.013subject
Has Abstractpub_date
2011-10-01 00:00:00pages
1761-9issue
10eissn
0300-9084issn
1638-6183pii
S0300-9084(11)00209-4journal_volume
93pub_type
杂志文章相关文献
BIOCHIMIE文献大全abstract：:Virtually all brain circuits are physically embedded in a three-dimensional matrix of fibers that release 5-hydroxytryptamine (5-HT, serotonin). The density of this matrix varies across brain regions and cortical laminae, and it is altered in some mental disorders, including Major Depressive Disorder and Autism Spectr...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2018.07.014
更新日期：2019-06-01 00:00:00
abstract：:pH-Dependence of hydrolytic activity of trypsin has been studied in cationic reverse micellar system of cetyltrimethylammonium bromide (CTAB) in (50% v/v) chloroform/isooctane using a positively charged substrate N(alpha)-benzoyl-L-arginine ethyl ester (BAEE). The pH of the medium was varied from 4.0 to 8.5 with addit...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(99)80007-8
更新日期：1998-12-01 00:00:00
abstract：:Diabetic cardiomyopathy is related to oxidative stress and correlated with the presence of advanced glycation end products (AGEs). In a clinical setting, AGEs can be detected in patients presenting diabetic cardiomyopathy; however, the underlying mechanism has yet to be elucidated. In our previous study, AGEs increase...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2015.07.019
更新日期：2015-11-01 00:00:00
abstract：:The vasoactive hormone bradykinin, its N-and C-terminal fragments and some structural analogues were studied by Circular Dichroism. Conformational features of the peptide can be detected by comparative analysis of the various CD spectra recorded as a function of aqueous pH, solvent and temperature. It is shown that th...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(79)80316-8
更新日期：1979-01-01 00:00:00
abstract：:We present here, a new method for coupling sulfhydryl groups (SH) to low-density lipoprotein (LDL) surface. This method uses homocysteine thiolactone (HCTL) which reacts with lysine residues in a very mild manner, and permits the selection of the number of SH bound per LDL. Under our experimental conditions (8 SH/LDL)...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(86)80166-3
更新日期：1986-05-01 00:00:00
abstract：:The inhibitory action on rat liver phosphoglycerate kinase of structural analogs of the two substrates of this enzyme (beta,gamma- methyleneadenosine 5'-triphosphate for ATP and 2-phosphoglycerate for 3-phosphoglycerate) was studied. In the direction of ADP utilization, the inhibition patterns obtained with beta,gamma...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(86)80201-2
更新日期：1986-04-01 00:00:00
abstract：:Phospholipases A(2) (PLA(2)s) and its generation of second messengers play an important role in signal transduction, cell proliferation, cell survival and gene expression. At low concentrations mediators of PLA(2) activity have a variety of physiological effects whereas high levels of PLA(2) and its metabolites are ge...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/j.biochi.2010.04.007
更新日期：2010-06-01 00:00:00
abstract：:The nuclear metabolism of poly(ADP-ribose) is mainly regulated by poly(ADP-ribose) polymerase-1 (PARP-1) and by poly(ADP-ribose) glycohydrolase (PARG). A PARP-like enzyme, V-PARP, and a PARG isoform are present in the extra-nuclear compartment of mammalian cells, even if poly(ADP-ribose) has never been detected therei...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(02)00017-2
更新日期：2002-12-01 00:00:00
abstract：:Nitrogen fixation in A. vinelandii and R. leguminosarum bacteroides shows identical characteristics with respect to the dependence on membrane energization, the sensitivity to uncouplers, the ATP/ADP-ratio, and the dependences on flavodoxinhydroquinone as electrondonor. Although we have been successful in preparing in...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(78)80820-7
更新日期：1978-01-01 00:00:00
abstract：:mRNAs extracted from human pheochromocytoma were translated in vitro in a lysate of a rabbit reticulocytes. Two enzymes of the biosynthetic pathway of the catecholamines, tyrosine-hydroxylase (TH) and dopamine-beta-hydroxylase (DBH), were characterized as translation products after immunoprecipitation by specific anti...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(85)80198-x
更新日期：1985-06-01 00:00:00
abstract：:The purpose of the present study was to investigate the effect of a concentrated preparation (EPA 30) containing eicosapentaenoic acid (EPA, 20:5 n-3) and docosahexaenoic acid (DHA, 22:6 n-3) on the limiting desaturation steps of the polyunsaturated fatty acid biosynthesis in spontaneously hypertensive rats (SHR). Adu...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(97)81505-2
更新日期：1997-02-01 00:00:00
abstract：:Snake venom phospholipases A2 (PLA2) share high sequence identities and a conserved structural scaffold, but show important functional differences. Only a few PLA2s have been purified and characterized from coral snake (Micrurus spp.) venoms, and their role in envenomation remains largely unknown. In this report, we d...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2017.03.008
更新日期：2017-06-01 00:00:00
abstract：:In all living cells 3' ends of RNA are posttranscriptionally elongated or shortened by nucleotidyl transferases and ribonucleases. The detailed analysis of the rpsO mRNA of Escherichia coli presented here demonstrates that transcription terminates in vivo at two sites located seven and eight nucleotides downstream fro...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2005.02.012
更新日期：2005-09-01 00:00:00
abstract：:Colorectal cancer (CRC) is the third most diagnosed cancer in the western world, affecting 1 out of approximately 22 people in their lifetime. Several epidemiological studies suggest a positive association between high plasma cholesterol levels and colorectal cancer. However, the molecular mechanisms by which choleste...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2018.07.006
更新日期：2018-10-01 00:00:00
abstract：:Lysophosphatidic acid (LPA), a naturally occurring bioactive phospholipid, mediates a multitude of (patho)physiological events including activation of mitogen-activated protein kinases (MAPKs). As LPA may induce cellular reponses in human osteosarcoma, the present study aimed at investigating expression of various LPA...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2012.05.023
更新日期：2012-09-01 00:00:00
abstract：:The action of indomethacin on the lactogenic activity of prolactin has been evaluated usind the technique of rabbit mammary gland organ culture. Indomethacin is totally unable to inhibit prolactin action as estimated by lactose synthetase activity and casein synthesis. These data suggest, as opposed to previous works...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(80)80060-5
更新日期：1980-01-01 00:00:00
abstract：:Accumulating evidences suggest that Herba epimedii has the potential benefits against osteoporosis. However, previous studies were focused on the crude extract, total flavonoids (TF) and icariin (ICA), and the detailed molecular mechanisms of action and structure-activity relationship (SAR) remain unclear. Herein we a...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2012.06.033
更新日期：2012-12-01 00:00:00
abstract：:New strains of basidiomycetes producing extracellular laccases (Trametes ochracea 92-78, and Trametes hirsuta 56) have been found by screening of isolates of Trametes fungi. The laccases from T. hirsuta 56 and T. ochracea 92-78 as well as two laccases from previously found and described strains of basidiomycetes, name...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2004.08.005
更新日期：2004-09-01 00:00:00
abstract：:Present knowledge of the different enzymatic steps of the denitrification chains in various bacteria, particularly Paracoccus denitrificans and Pseudomonas aeruginosa has been briefly reviewed. The question whether nitric oxide (NO), nitrous oxide (N2O) and other nitrogen derivatives are obligatory intermediates has b...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/0300-9084(84)90005-1
更新日期：1984-04-01 00:00:00
abstract：:Interleukin-17 (IL-17) is a pro-inflammatory cytokine produced primarily by a subset of CD4(+)T cells, called Th17 cells, that is involved in host defense, inflammation and autoimmune disorders. The two most structurally related IL-17 family members, IL-17A and IL-17F, form homodimeric (IL-17A/A, IL-17F/F) and heterod...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2011.04.003
更新日期：2011-07-01 00:00:00
abstract：:The binding of Ca2+ to membrane models composed of diplamitoylphosphatidylcholine (DPPC) and dipalmitoylphosphatidylethanolamine (DPPE) 15N-labeled in the polar head group was investigated at pH 8.5 and pH 9.4 by 15N-NMR spectroscopy. Both phospholipids exhibit a decrease in the chemical shift anisotropy, indicating c...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/0300-9084(89)90143-0
更新日期：1989-01-01 00:00:00
abstract：:It has been shown that two Proteus morganii strains produce an inducible cephalosporinase. No significative difference was shown between them: they present the same isoelectric poit: 8,3 and very similar kinetic constants. The parameter tau, proportional to the half life of antibiotic at low concentration, in presence...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(76)80086-7
更新日期：1976-11-13 00:00:00
abstract：:The effect of 7-chloro-4-nitrobenzofurazan on yeast 3-phosphoglycerate kinase causes a modification of one tyrosyl residue concomitantly with a total loss of activity of the enzyme. The modification is not accompanied by any significant conformational change. A total protection against inactivation is observed with th...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/s0300-9084(79)80164-9
更新日期：1979-01-01 00:00:00
abstract：:Because of the ability of photosensitizers to induce specific photochemical reactions in vivo, leading to cell injury and death, many such molecules have been considered as therapeutic agents. Among them two classes of sensitizers, i.e. furocoumarins (psoralens) and porphyrins, are currently used for the photochemothe...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/s0300-9084(86)80103-1
更新日期：1986-06-01 00:00:00
abstract：:Mammalian chymotrypsin-like serine proteases (SPs) are one of the best-studied family of enzymes with roles in a wide range of physiological processes, including digestion, blood coagulation, fibrinolysis and humoral immunity. Extracellular SPs can form cascades, in which one protease activates the zymogen of the next...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/j.biochi.2015.10.007
更新日期：2016-03-01 00:00:00
abstract：:The expression of serotonin (5-HT) in the retina was first reported in the sixties. The detection of vesicular monoamine transporter and serotonin receptors in several retinal cells confirm that 5-HT is playing a neuromodulatory role in this structure. Whereas signaling pathways activated by 5-HT receptor binding has ...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/j.biochi.2018.11.006
更新日期：2019-06-01 00:00:00
abstract：:Sm and Sm-like (Lsm) proteins are considered as an evolutionary conserved family involved in RNA metabolism in organisms from bacteria and archaea to human. Currently, the function of Sm-like archaeal proteins (SmAP) is not well understood. Here, we report the crystal structures of SmAP proteins from Sulfolobus acidoc...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/j.biochi.2020.05.001
更新日期：2020-08-01 00:00:00
abstract：:In around 10% of SARS-CoV-2 infected patients, coronavirus disease-2019 (Covid-19) symptoms are complicated with a severe lung damage called Acute Respiratory Distress Syndrome (ARDS), which is often lethal. ARDS is mainly associated with an uncontrolled overproduction of immune cells and cytokines, called "cytokine s...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/j.biochi.2020.09.003
更新日期：2020-12-01 00:00:00
abstract：:The inhibition rates and spectral characteristics of 2 probes specific for the active-site serine residue of proteases were examined for evidence of conformational change of the proteases upon their binding to alpha 2-macroglobulin (alpha 2M). Elastase, chymotrypsin, trypsin, and plasmin were reacted with (7-nitrobenz...
journal_title：Biochimie
pub_type： 杂志文章
doi：10.1016/0300-9084(89)90004-7
更新日期：1989-03-01 00:00:00
abstract：:A 3-D model of the tyrosylable tRNA-like domain of the genomic brome mosaic virus RNAs was built by computer modelling based on solution probing of the molecule with different chemical and enzymatic reagents. This model encompasses four major structural domains, including two peculiar substructures oriented perpendicu...
journal_title：Biochimie
pub_type： 杂志文章,评审
doi：10.1016/0300-9084(93)90014-j
更新日期：1993-01-01 00:00:00
