Báo cáo khoa học: The crystal structure of Thermoactinomyces vulgaris R-47 a-amylase II (TVA II) complexed with transglycosylated product potx

... First, the only structures of natural TPRs in the PDB (13 TPR-containing coordi-nate sets) consist of nonglobular, extended arrays of helices [9,10,13–21]. Second, the majority of these(11 structures) ... Monomer of NlpI, showing the rolled-up array of helices with the C-terminus folding within the curvature of the N-terminus. Helix num-bers are in brackets. Note that ‘A’ helices locate to the globular ... compo-nent of the crystallization mother liquor, was found tofit the density envelope, making hydrogen bonds with carboxylate groups of Glu235 and Glu270, and with the back bone amide of Val269....

... ndomains II, III and IV are either distorted or the access of acation to the site is blocked by the p resence of a side chain of a b asic residue. I n case of the IIAB s ite (Fig. 2), the acidic ... residue in the present structure is s omehow halfwaybetween the loop-in and the loop-out position of the bellpepper annexin.Fig. 1. The three-dimensional structure of Anx(Gh1). (A) The fold of Anx(Gh1) ... shows separation of t he two modules ( I/IV and II/ III) leading to greater accessibility of the intermodularspace than in the case of AnxA5 and to formation of agroove on the c onvex side (cf....

... to the exo-loop of OXG-RCBH. The coordinates and structure factorshave been deposited in the Protein Data Bank (PDB)(accession code 3A0F). The structure of XEG was compared with those of other ... fromcleavage of XXXGXXXG. The structures of theseproducts were X, XG, GX, XX, XXG, XXX andXXXG, as confirmed by MALDI-TOF MS combined with enzymatic treatments of the reaction productsusing ... result, and those of the previous experiment with loop-deleted OXG-RCBH [10], strongly suggest that the basis for the endoactivity of XEG is the absence of the exo loop. The second difference...

... site in the cur-rent structure might be a product of an inability of the Fig. 1. Structure of PPWD1 and comparison with other Cyp structures. (A) The structure of the isomerase domain of PPWD1 ... backbonenitrogen of Glu485 with the oxygen of Gly551, the side-chain of Glu485 is nestled in a deep pocket of the enzyme (Fig. 3B). An oxygen of the c-carboxyl groupforms hydrogen bonds with the backbone ... 1A), the structure of PPWD1 is similar to the structure of the canonical CypA as well as to CypH and PPIL1,two other spliceosomal Cyps (Fig. 1B). The Ca atoms of CypA align to the isomerase domain of...

... of the domain with the active site of the enzyme on oneside and the Rieske center on the other side of the sheet (Fig. 3). Covering one side of the sheet are twoFig. 2. Crystal structure of PhnI. ... following the sequence.) Together with the extended loop, whichextends 20 A˚from the center of the funnel, they form the base of the b subunit (Fig. 3). The last four resi-dues in the C-terminal ... works 2475and the Rieske and catalytic domains of the a subunit.In the heterohexamer, the Rieske domain interacts with the base of the adjacent b subunit and the cata-lytic domain of the adjacent...

... different domains of IDH weresearched for separately because of different domain orienta-tions found in other IDH crystal structures. The rotationand the position of the dimer of the small domains, ... structure of the dimeric apo form of TmIDH at 2.2 A˚. The R-factor of the refined model was 18.5% (Rfree22.4%). The conformation of the TmIDH structure was open and showed a domain rotation of 25–30° ... in the large domain of subunit B in TmIDH. The quality of the electron-density map of the interface-containing small domain of subunit B was, however,fine, which allowed safe analysis of the...

... (II) , the first tetrahedralintermediate of the cycle. The subsequentdecarboxylation of II results in the centralreaction intermediate, the a-carbanion-enamine of ThDP (III). Protonation of ... a-carbanion ⁄ enamine(III). Protonation of III yields hydroxyethyl-ThDP(IV), and the release of the second product acetalde-hyde completes the catalytic cycle of ThDP. The yeast Kluyveromyces ... omitted in the final model, and the position of the residues adjacent to the loop are labeled. The orientation of the sub-unit is the same as that of subunit B in Fig. 1. Crystal structure of pyruvate...