Crystal structure of amyb, an alpha amylase from halothermothrix orenii, and comparison with its homologs

... AmyB and ΔAmyB 54 3.2.5 Stability analysis of AmyB and ΔAmyB 56 3.3 Protein crystallization and optimization 58 3.4 Data collection and processing 60 3.4.1 AmyB crystal form I 60 3.4.2 AmyB crystal ... by means of molecular replacement, the crystal structure of the halotolerant and thermostable α -amylase AmyB from Halothermothrix orenii at 2.3 Å resolution In addition, the structures of AmyB ... linear and unbranched whereas amylopectin is branched with α-1,6 glycosidic bonds at the branch points The relative ratios of amylose and amylopectin vary with typical values of 15-25% and 75-85%,...

Báo cáo khoa học: Crystal structure of the halotolerant c-glutamyltranspeptidase from Bacillus subtilis in complex with glutamate reveals a unique architecture of the solvent-exposed catalytic pocket docx

... asymmetric unit, and the glutamate- binding modes are identical to each other (Fig 2A) The a- carboxyl and a- amino groups of the bound glutamate are at the bottom of the pocket, and are held in this position ... was ampliﬁed by PCR from the plasmid pCY167 (Suzuki H & Yamada C, Unpublished), using forward primer 5¢-CATATGGATGAGTACAAACA AGTAGATG-3¢ and reverse primer 5¢-GGATCCTCGAG CTCATTTACGTTTTAAATTAATGCCGAT-3¢ ... structure of CapD in complex with di -a- l -glutamate peptide, a nonhydrolyzable analog of the substrate, is compared with that of the B subtilis GGT glutamate complex, it is apparent that CapD is a member...

Tài liệu Báo cáo khoa học: Crystal structure of thiamindiphosphate-dependent indolepyruvate decarboxylase from Enterobacter cloacae, an enzyme involved in the biosynthesis of the plant hormone indole-3-acetic acid doc

... Evidence for the presence of DNA-binding proteins involved in regulation of the gene expression of indole-3pyruvic acid decarboxylase, a key enzyme in indole-3-acetic acid biosynthesis in Azospirillum ... the aminopyrimidine ring, are conserved in all ThDP-dependent enzymes One of these, the hydrogen bond between the N1¢ atom of the pyrimidine ring of ThDP and the side chain of an invariant glutamate ... FEBS 2003 3D structure of indolepyruvate decarboxylase (Eur J Biochem 270) 2313 Fig The indole-3-pyruvic acid pathway for the biosynthesis of the plant hormone indole-3-acetic acid in Enterobacter...

Tài liệu Báo cáo khoa học: Crystal structure of the cambialistic superoxide dismutase from Aeropyrum pernix K1 – insights into the enzyme mechanism and stability pdf

... illustrates the superimposition of ApeSOD with the cambialistic SOD from P shermanii The overall structures of these enzymes were similar; the rmsd of the 747 Ca atoms was ˚ 0.695 A ApeSOD eluted from the ... superoxide dismutases Biochim Biophys Acta 1804, 24 5–2 62 Crystal structure of SOD from A pernix K1 Sugio S, Hiraoka BY & Yamakura F (2000) Crystal structure of cambialistic superoxide dismutase from ... inhibition of the binding of the superoxide substrate and the other to product inhibition by hydrogen peroxide There are two mechanisms proposed for the reaction cycle of Mn ⁄ Fe-SOD: the 5-6-5 mechanism...

Báo cáo khoa học: The crystal structure of the ring-hydroxylating dioxygenase from Sphingomonas CHY-1 pot

... extends 20 A from the center of the funnel, they form the base of the b subunit (Fig 3) The last four residues in the C-terminal coil (residues 171–174) are deeply anchored inside the core of the conical ... catalytic domains of the a subunit In the heterohexamer, the Rieske domain interacts with the base of the adjacent b subunit and the catalytic domain of the adjacent a subunit Most of the ab interactions ... for each of the three a subunits LI, on the other hand, could only be partially modeled for one of the three a subunits, the high ﬂexibility of the loop precluded modeling for the two other chains...

Tài liệu Báo cáo khoa học: The crystal structure of human a-amino-b-carboxymuconatee-semialdehyde decarboxylase in complex with 1,3-dihydroxyacetonephosphate suggests a regulatory link between NAD synthesis and glycolysis ppt

... 14-48 form the small insertion domain that comprises a short a- helix and a three-stranded anti-parallel b-sheet; the remaining protein residues form the (a ⁄ b)8 barrel domain and a C-terminal extension ... would act as a regulatory link between glycolysis and NAD synthesis The structure of hACMSD in complex with DHAP may used for the design of potent and highly selective enzyme inhibitors that may ... (at 2.8 A) The DHAP aliphatic chain is sandwiched between Trp191 and Asp291, with its carbonyl oxygen contacting, at a ˚ distance of 2.7 A, both Asp291 and the solvent molecule w1 Finally, the...

Tài liệu Báo cáo khoa học: Crystal structure of an ascomycete fungal laccase from Thielavia arenaria – common structural features of asco-laccases ppt

... differences from the analogous structures of the ascomycete laccase (asco -laccase) MaL, thus giving a comprehensive view of the structure and function of asco-laccases Results and Discussion Overall structure ... Thornton JM (2003) Structural characterization and functional signiﬁcance of transient protein–protein interactions J Mol Biol 325, 99 1–1 018 Crystal structure of a Thielavia arenaria laccase 54 Kiiskinen ... potentials of the enzyme and the substrate (DE °) [2 8–3 1] This study presents the crystal structure of a novel laccase (TaLcc1) from the ascomycete fungus Thielavia arenaria [32] The molecular mass of...

Báo cáo khoa học: The crystal structure of annexin Gh1 from Gossypium hirsutum reveals an unusual S3 cluster Implications for cellulose synthase complex formation and oxidative stress response potx

... Fig The membrane binding loops The IAB loops of Anx (Gh1) (A) and AnxA5 (B) are shown in the same view from the front (C) and (D) show the IIAB loops of Anx (Gh1) and AnxA5, respectively, from the ... the three-dimensional crystal structure of Anx (Gh1) from cotton emphasizes the high conservation of the unique annexin fold even among the members of the plant subfamily of annexin proteins The ... in comparison with Anx24(Ca32) and AnxA5 The three-dimensional crystal structure of annexin Gh1 contains the typical annexin fold, well known from the studies of other members of this protein family...

Tài liệu Báo cáo khoa học: Crystal structure of importin-a bound to a peptide bearing the nuclear localisation signal from chloride intracellular channel protein 4 ppt

... A2 for main-chain atoms, 35.7 A2 for side-chain ˚ overall (3 244 atoms) For the pepatoms and 33.8 A tide, B factors are slightly higher than those for ˚ ˚ importin -a: 36.9 A2 for main-chain atoms, ... atoms, 40 .2 A2 for ˚ overall (62 total atoms) side-chain atoms and 38.7 A Electron density analysis Both the main-chain and side-chain atoms of the modelled CLIC4 peptide show a good ﬁt to the electron ... ﬁt, there are a large number (30) of atom -to- atom van der Waals’ contacts between the Tyr205 side chain and importin -a (Table 2) The numbers of contacts are comparable with those of the basic residues...

Tài liệu Báo cáo khoa học: Crystal structure of the BcZBP, a zinc-binding protein from Bacillus cereus doc

... References Ivanova N, Sorokin A, Anderson I, Galleron N, Candelon B, Kapatral V, Bhattacharyya A, Reznik G, Mikhailova N, Lapidus A et al (2003) Genome sequence of Bacillus cereus and comparative analysis ... of GAB catalysis have been identiﬁed to date [12] which are based either on a single, bifunctional GAB catalyst or on a GAB catalysts pair The available biochemical data on MshB and LpxC are ... 276–280 Handa N, Terada T, Kamewari Y, Hamana H, Tame JRH, Park S-Y, Kinoshita K, Ota M, Nakamura H, Kuramitsu S et al (2003) Crystal structure of the conserved protein TT1542 from Thermus thermophilus...

Tài liệu Báo cáo khoa học: ˚ The 1.8 A crystal structure of a proteinase K-like enzyme from a psychrotroph Serratia species docx

... the carboxyl oxygen atoms of the side chains of Asp11, Asp14 and Asp21, the amide oxygen atom of Gln15 and the carbonyl oxygen atoms of Asp11 and Asn23 (Fig 3) in an arrangement similar to what ... within a few days to thin hexa62 Table Data collection and reﬁnement statistics for SPRK ˚ Resolution (A) Space group Cell parameters ˚ a- axis (A) ˚ b-axis (A) ˚ c-axis (A) b angle (°) Number of ... bound to the prime side (S¢) of the active site is reported Results and discussion Crystallization, data collection and reﬁnement Crystals of the catalytic domain of the Serratia proteinase K (SPRK)...

Tài liệu Báo cáo khoa học: Crystal structure of a subtilisin-like serine proteinase from a psychrotrophic Vibrio species reveals structural aspects of cold adaptation docx

... of cold adaptation ase structure, the ﬁrst structure of a cold- adapted subtilase to be determined, enables a more focused examination of plausible determinants of different temperature adaptation ... Number of ion pairsa Number of hydrogen bonds Main chain–main chain Main chain–side chain Side chain–side chain Total ˚ Exposed surface areab (A2 ) ˚ Apolarc (A2 ) ˚ Buried surface areab (A2 ) ˚ Apolarc ... uracil–DNA glycosylase from Atlantic cod (Gadus morhua) reveals cold- adaptation features Acta Crystallogr Sect D 59, 1357–1365 10 Aghajari N, Van Petegem F, Villeret V, Chessa JP, Gerday C, Haser...

Tài liệu Báo cáo khoa học: Crystal structure of Trypanosoma cruzi glyceraldehyde-3-phosphate dehydrogenase complexed with an analogue of 1,3-bisphospho-D-glyceric acid Selective inhibition by structure-based design docx

... effect of these substrate analogues This is consistent with a simultaneous interaction of the 1,3BPGA analogues at both Ps and Pi phosphate-binding sites Comparison of the inhibition of T cruzi and ... speciﬁc binding modes of these 1,3-BPGA analogues to the two trypanosomatid enzymes Materials and methods Sources of substrates, cofactors and inhibitors The synthesis of 1,3-BPGA analogues used in ... here the reﬁned crystal structure of a complex between the T cruzi gGAPDH and this substrate isosteric analogue On the basis of this crystal structure, we were able to design selective inhibitors...

Báo cáo khoa học: Crystal structure of salt-tolerant glutaminase from Micrococcus luteus K-3 in the presence and absence of its product L-glutamate and its activator Tris pdf

... report the crystal structure of the intact glutaminase under four different conditions: in the absence of the additives (referred to as N); in the presence of Tris (referred to as T); in the presence ... determined the F structure containing the truncated region of the C-terminal domain; however, we failed to determine the structure of the intact glutaminase because the crystals exhibited heavy twinning ... to determine nearly the full-length structure of Mglu in the presence and absence of l-glutamate and Tris (N, T, G and TG) l-Glutamate was identiﬁed in the G and TG structures, and Tris was identiﬁed...

Báo cáo khoa học: Crystal structure of basic 7S globulin, a xyloglucanspeciﬁc endo-b-1,4-glucanase inhibitor protein-like protein from soybean lacking inhibitory activity against endo-b-glucanase doc

... The DASA of the AB dimer is deﬁned as [(ASA of A) + (ASA of B) ) (ASA of AB dimer)] ⁄ The number of water molecules in the dimer interface was detected with ASV CALCULATOR [34] ASA was calculated ... crystallization and X-ray diffraction study of basic 7S globulin from soybean Acta Crystallogr F Struct Biol Crystallogr Commun 67, 87–89 Hirano H, Kagawa H & Okubo K (1992) Characterization of proteins ... The Authors Journal compilation ª 2011 FEBS T Yoshizawa et al Structure of Bg7S, a XEGIP-like protein of soybean Fig Analysis of Bg7S assembly (A) Sedimentation velocity analysis of Bg7S and...

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