describe the effect of dna binding domain

... the deformability required for the formation of the Early protein 2 C-terminal DNA- binding domain DNA complexes of var- ious types is based not only on the rigidity of the base sequences in the DNA ... For HPV-16, the flexibility of the loop may alter the adaptability of the DNA- binding helices, thus modulating the discrimination of specific versus nonspecific DNA sequences. For both the E2s, we ... flexibility. This behavior underlines a greater degree of com- pactness of the b-barrel in the HPV-16 domain than in the BPV-1 domain. Papillomavirus E2 DNA- binding domain simulations M. Falconi et al. 2388...

Ngày tải lên: 16/03/2014, 10:20

... required. Because the domain- swapped dimer of Bc-Csp has only been observed in the presence of a bound dT 6 strand, the question remains whether DNA binding to the CSP is responsible for domain swapping. ... structures. The extended irregular conformation of dT 6 oligonucleotides in the binding site, the unstacking of bases with respect to each other upon binding, and the shielding of the nu- cleobase ... A ˚ 2 ). The Bc-Csp domain swap provides insight into the folding and misfolding of the CSP The Bc-Csp domain swap occurs in the middle of loop L 34 and is promoted by a unique combination of torsion...

Ngày tải lên: 23/03/2014, 09:21

... WASP map to the N-terminal WH1 (EVH1) domain of WASP which interacts with WIP and destabilize this interaction [52–56]. The 3D structure of a complex comprising the binding domains of WIP and the WASP-family ... 5A,B). Loss of the LBD abolished the ability of C-Vrp1p 364)817 to restore growth of vrp1D cells at elevated temperature. We next assessed the importance of the LBD for the ability of C-Vrp1p 364)817 to ... have named the novel C-terminal actin binding domain the VH2-C domain to distinguish it from the two previously reported N-terminal actin -binding domains [19,21,23]. The second submodule comprises the...

Ngày tải lên: 18/02/2014, 16:20

... one-turn helix on the other face. It is thought that the two inner strands of the b-sheet lie within the major groove of the DNA and that a hydrophobic pocket formed by the side chains of Y123 and ... cluster in these two regions. Know- ledge of the structure of a larger portion of MeCP2 including the transcriptional repression domain would resolve these speculations and clarify the role of the helical ... [18]. The structure of the helical coil a 2 /a 3 allows us to interpret the consequences of the six mutations. As P153(152) and G162(161) are buried in the protein core, replacement of each of these...

Ngày tải lên: 21/02/2014, 00:20

... changed either in the presence or absence of the metal cofactor. By contrast, the sub- strate binding affinity of the RNase H domain proba- bly increases in the presence of the metal cofactor compared ... the HBDs of other type 1 RNases H bind to the substrate in a manner similar to the interaction of the HBD of Hsa-RNase H1. The mutation of Trp43 to Ala greatly reduces both the substrate binding ... than those of Tma-RNase HI. These results indicate that the substrate binding affinity of Tma-RNase HI is reduced by five- to seven-fold on removal of the HBD, regardless of the metal cofactor, and the...

Ngày tải lên: 06/03/2014, 22:21

... outperform the other training corpora, and that of the other four, FAQ is the best- performing corpus. Figure 3 also shows a large difference in the sizes of the starting percentiles: The proportion of ... to the size and domain of the vocabularies in both data sets and the richness of the contexts (in order for the algo- rithm to predict a word, it has to have seen it in the train set). If the ... and Abascal, 2006). In most applications, the scope of the prediction is the completion of the current word; hence the often- used term ‘word completion’. The most basic method for word completion...

Ngày tải lên: 17/03/2014, 22:20

... recogni- tion, the ionic strength of the medium would be expected to have an effect on the binding [43]. To study the effect of ionic strength on the conformation of ToxRp in the presence of ZnO NP, ... understanding of the effect of NPs on the structure of proteins is still in a nascent state. In this work we report the unfolding behavior of the periplasmic domain of the ToxR protein (ToxRp) of Vibrio ... decrease in the a-helical content of the free protein. Isothermal titration calorimetry, used to quantify the thermodynamics of binding of ToxRp with ZnO NPs, showed an exothermic binding isotherm (DH...

Ngày tải lên: 23/03/2014, 03:20

... information about the functionality of the ATPase, they are all interpreted independently of the metallo-chaperone. Indeed, studying the Atx1–Ccc2 route in vivo remains challenging, because of the existence of ... FEBS [44]. In the case of Ccc2, copper needs to bind to the CPC motif located at the sixth helix to allow the phos- phorylation reaction, and thereby the release of copper in the TGN lumen [25]. ... activate the ATPase. We propose that, as described for the Wilson pro- tein, the N-terminus interacts with another domain of Ccc2 (the catalytic loop for example) and this interac- tion inhibits the...

Ngày tải lên: 23/03/2014, 05:22

... between the HAMP domain and the PAS domain is observed [13]. The role of the membrane anchors in signaling through HAMP domains remains enigmatic. The close attachment of the HAMP domains to the ... (Table 1). Do the differences in the effects of the HAMP domains reside in particular features of the respective ensemble or are they intrinsic properties of the respective HAMP domains? To answer ... with the hydrophilic surfaces of the HAMP helices. Finally, we wished to characterize the effect of the HAMP domains in the context of the membranous holoenzymes. Therefore we attempted to express...

Ngày tải lên: 23/03/2014, 12:20

... mixing the human CPR FMN domain with its FAD/NADPH domain (% 16-fold) (29). However, the domain mixture still recon- stituted only % 2% of the activity of the full length CPR. In thecaseofNR1,thek cat for ... stabilization of the FMN semiqui- none, consistent with (a) a need to transfer electrons from the FAD/NADPH domain to the FMN domain, and (b) the thermodynamic properties of the FMN domain in CPR ... from the NR1-FAD/NADPH domain as the His-tag was ineffi- ciently cleaved from this domain. The presence of the His- tag on the FAD/NADPH domain had no apparent effect on catalytic activity. The...

Ngày tải lên: 23/03/2014, 21:20

... (in the absence of m Abs, at p53/ scDNA ratios of 3 and 6, Fig. 5). Oxidized p53 exhibited similar binding to scDNA and linDNA in the absence of the other DNA form (Fig. 5, lanes 8–11). Nevertheless, ... take part in the SCS DNA binding of fl p53. One of the earlier proposed models of p53 latency, the ÔstericÕ hypothesis [30], was based on mutual exclusivity of the p53 CD and CTDBS in DNA binding, ... general, the reduced state of cysteines is critical for the proper DNA binding function of the p53 core. It has been shown that extensive oxidation of the p53 thiol groups results in a loss of DNA binding...

Ngày tải lên: 30/03/2014, 15:20

... were then held in the thermocycler at the indi- cated temperatures for the indicated times prior to RT- PCR. At the end of the incubation, the thermocycler was programmed to ramp the samples at the ... amplicon DNA depends on the availability of a heat-labile UNG enzyme, the heat-inactivation of which prevents cleavage of product DNA amplified from the tar- get template. The half-life of heat-labile ... in detectible RNA. Effect of incubation temperature and time on DNA degradation and RT-PCR amplification of RNA The effect of temperature on DNA degradation and RNA amplification in the presence of UNG...

Ngày tải lên: 19/06/2014, 08:20

... were then held in the thermocycler at the indi- cated temperatures for the indicated times prior to RT- PCR. At the end of the incubation, the thermocycler was programmed to ramp the samples at the ... amplicon DNA depends on the availability of a heat-labile UNG enzyme, the heat-inactivation of which prevents cleavage of product DNA amplified from the tar- get template. The half-life of heat-labile ... in detectible RNA. Effect of incubation temperature and time on DNA degradation and RT-PCR amplification of RNA The effect of temperature on DNA degradation and RNA amplification in the presence of UNG...

Ngày tải lên: 20/06/2014, 04:20

... by chondrocytes in vitro: the N-terminal heparin -binding domain, the gelatin -binding domain, the central CBD, and the EIIIA segment. The ~170-kDa N-terminal species of FN may therefore be both a participant ... array in the cathodic half of each membrane, approximating the point of migration of the corresponding species within the 1D lane. A cluster of staining with migration approximating that of the ~200+ ... a lane at the left of each SDS–PAGE gel, and asterisks denote the approximate positions of migration of the ~200+- and ~170-kDa species in these lanes. At least part of the staining of material...

Ngày tải lên: 09/08/2014, 01:23

Ngày tải lên: 09/08/2014, 10:20

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Ngày tải lên: 05/09/2013, 14:58