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At least 1,009 records · Page 56Linked to original sources
PubMed2005

Modeling the tertiary structure of a maize (Zea mays ssp. mays) non-symbiotic hemoglobin.

The tertiary structure of a maize (Zea mays ssp. mays) non-symbiotic hemoglobin (Hbm) was modeled using computer tools and the known tertiary structure of rice Hb1 as a template. This method was tested by predicting the tertiary structure of soybean leghemoglobin a (Lba) using rice Hb1 as a template. The tertiary structures of the predicted and native Lba were similar, indicating that our computer methods could reliably predict the tertiary structures of plant Hbs. We next predicted the tertiary structure of Hbm. Hbm appears to have a long pre-helix A and a large CD-loop. The positions of the distal and proximal His are identical in Hbm and rice Hb1, which suggests that heme-Fe is hexacoordinate in Hbm and that the kinetic properties of Hbm and rice Hb1 are expected to be very similar, i.e. that Hbm has a high O2-affinity. Thermostability analysis showed that Hbm CD-loop is unstable and may provide mobility to amino acids located at the heme pocket for both ligand binding and stabilization and heme-Fe coordination. Analysis of the C-terminal half of Hbm showed the existence of a pocket-like region (the N/C cavity) where interactions with organic molecules or proteins could be possible. Lys K94 protrudes into the N/C cavity, suggesting that K94 may sense the binding of molecules to the N/C cavity. Thus, it is likely that the instability of the CD-loop and the possibility of binding molecules to the N/C cavity are essential for positioning amino acids in the heme pocket and in regulating Hbm activity and function.

Amino Acids↗
PubMed2006

Structure determinants and substrate recognition of serine carboxypeptidase-like acyltransferases from plant secondary metabolism.

Structures of the serine carboxypeptidase-like enzymes 1-O-sinapoyl-beta-glucose:L-malate sinapoyltransferase (SMT) and 1-O-sinapoyl-beta-glucose:choline sinapoyltransferase (SCT) were modeled to gain insight into determinants of specificity and substrate recognition. The structures reveal the alpha/beta-hydrolase fold as scaffold for the catalytic triad Ser-His-Asp. The recombinant mutants of SMT Ser173Ala and His411Ala were inactive, whereas Asp358Ala displayed residual activity of 20%. 1-O-sinapoyl-beta-glucose recognition is mediated by a network of hydrogen bonds. The glucose moiety is recognized by a hydrogen bond network including Trp71, Asn73, Glu87 and Asp172. The conserved Asp172 at the sequence position preceding the catalytic serine meets sterical requirements for the glucose moiety. The mutant Asn73Ala with a residual activity of 13% underscores the importance of the intact hydrogen bond network. Arg322 is of key importance by hydrogen bonding of 1-O-sinapoyl-beta-glucose and L-malate. By conformational change, Arg322 transfers L-malate to a position favoring its activation by His411. Accordingly, the mutant Arg322Glu showed 1% residual activity. Glu215 and Arg219 establish hydrogen bonds with the sinapoyl moiety. The backbone amide hydrogens of Gly75 and Tyr174 were shown to form the oxyanion hole, stabilizing the transition state. SCT reveals also the catalytic triad and a hydrogen bond network for 1-O-sinapoyl-beta-glucose recognition, but Glu274, Glu447, Thr445 and Cys281 are crucial for positioning of choline.

Acyltransferases↗
PubMed2002

A cDNA clone for beta-caryophyllene synthase from Artemisia annua.

An homology-based cloning strategy yielded a full-length cDNA from Artemisia annua that encoded a protein of 60.3 kDa which resembled a sesquiterpene synthase in sequence. Heterologous expression of the gene in Escherichia coli provided a soluble recombinant enzyme capable of catalyzing the divalent metal ion-dependent conversion of farnesyl diphosphate to beta-caryophyllene, a sesquiterpene olefin found in the essential oil of A. annua. In reaction parameters and kinetic properties, beta-caryophyllene synthase resembles other sesquiterpene synthases of angiosperms. The beta-caryophyllene synthase gene is expressed in most plant tissues during early development, and is induced in mature tissue in response to fungal elicitor thus suggesting a role for beta-caryophyllene in plant defense.

Artemisia annua↗
PubMed2001

Cyclooxygenase-inhibitory and antioxidant constituents of the aerial parts of Antirhea acutata.

Two new compounds, (6S)-hydroxy-29-nor-3,4-seco-cycloart-4(30),24-dien-3-oic acid (1) and 8-[1-(3,4-dihydroxyphenyl)-3-methoxy-3-oxopropyl]epicatechin (3), were isolated by bioassay-guided fractionation from the aerial parts of Antirhea acutata (DC.) Urb. (Rubiaceae). Compound 1 showed moderate inhibitory activities in cyclooxygenase-1 and -2 assays (IC(50) 43.7 and 4.7 microM, respectively), while compound 3 was active in 1,1-diphenyl-2-picrylhydrazyl free-radical and cytochrome c reduction antioxidant assays (IC(50) 29.1 and 16.3 microM, respectively). Additionally, one further new compound was isolated, (3S,24S)-25-trihydroxy-9,19-cycloartane-29-oic acid (2), but this was inactive in the bioassay systems used. Compound 1 is based on the unprecedented 29-nor-3,4-seco-cycloartane skeleton.

Animals↗
PubMed2005

[Field investigation on Salix psammophila plant morphology and airflow structure].

A field investigation in the flat sands of southern Maowusu sandy land showed that artificially cultivated single line Salix psammophila could accumulate sand because the plant decreased the windward and leeward wind velocity. There was a significant correlation (R = 0. 696) between accumulated sand volume (V2) and plant volume (V1). When the wind velocity at 4 m height of single-line S. psammophila was 6 m x s(-1), the wind velocity decreased at 3H windward, increased at 2H windward, and then steeply decreased leeward, reached the lowest value at 1H leeward and gradually recovered to the open field velocity. The protection distance of single-line S. psammophila was about 17 H', and the effective protection distance was about 13 H'. Single-line S. psamnmophila had little effect on the wind velocity above plant height.

Air↗
PubMed1994

The role of scaffold attachment regions in the structural and functional organization of plant chromatin.

Studies on nuclear scaffolds and scaffold attachment regions (SARs) have recently been extended to different plant species and indicate that SARs are involved in the structural and functional organization of the plant genome, as is the case for other eukaryotes. One type of SAR seems to delimit structural chromatin loops and may also border functional units of gene expression and DNA replication. Another group of SARs map close to regulatory elements and may be directly involved in gene expression. In this overview, we summarize the structural and functional properties of plant SARs in comparison with those of SARs from animals and yeast.

Base Sequence↗
PubMed1998

Protein phosphatase 2C (PP2C) function in higher plants.

In the past few years, molecular cloning studies have revealed the primary structure of plant protein serine/threonine phosphatases. Two structurally distinct families, the PP1/PP2A family and the PP2C family, are present in plants as well as in animals. This review will focus on the plant PP2C family of protein phosphatases. Biochemical and molecular genetic studies in Arabidopsis have identified PP2C enzymes as key players in plant signal transduction processes. For instance, the ABI1/ABI2 PP2Cs are central components in abscisic acid (ABA) signal transduction. Arabidopsis mutants containing a single amino acid exchange in ABI1 or ABI2 show a reduced response to ABA. Another member of the PP2C family, kinase-associated protein phosphatase (KAPP), appears to be an important element in some receptor-like kinase (RLK) signalling pathways. Finally, an alfalfa PP2C acts as a negative regulator of a plant mitogen-activated protein kinase (MAPK) pathway. Thus, the plant PP2Cs function as regulators of various signal transduction pathways.

Abscisic Acid↗
PubMed2001

Canopy structure and light interception in Quercus petraea seedlings in relation to light regime and plant density.

Foliage structure was measured on 1- and 2-year-old Quercus petraea (Matt.) Liebl. seedlings grown in 100 or 18% sunlight at a planting density of 2.8 or 25 plants per m(2). A three-dimensional digitizing device was used to acquire the spatial position and orientation of all leaves within the seedlings and of all seedlings within the plot. The data were used to obtain (1) quantitative information on canopy structure, including leaf area index (LAI), seedling leaf area, number of leaves, leaf area density and leaf orientation; and (2) structural information on foliage arrangement from virtual images to estimate light interception by individual seedlings (STAR) and light partitioning among seedlings. During the second year, shading significantly reduced total leaf area and number of leaves but increased individual leaf area. The STAR was greater for seedlings in shade than in full sunlight because of the more horizontal orientation of leaves. Leaf area density was unaffected by the full sun treatments, and changes in leaf area dispersion had no effect on light-interception efficiency. No plant density effect was observed during the first year. During the second year, only the high plant density treatment induced mutual shading between seedlings, resulting in greater competition for light among seedlings in the full sun treatment than in the shade treatment. The small treatment-induced changes in light interception indicate that Q. petraea has low morphological plasticity of foliage structure compared with other species.

Light↗
PubMed2001

Cytotoxic and novel compounds from Solanum indicum.

Solavetivone (1), cytotoxic to OVCAR-3 cells with an IC(50) value of 0.1 mM, has been isolated from Solanum indicum. In addition, a novel solafuranone (2) and three known compounds, scopoletin, N-(p-trans-coumaroyl)tyramine, and N-trans-feruloyltyramine, were isolated for the first time from this plant. The structures of the above compounds were established by means of spectroscopic and X-ray analyses.

Antineoplastic Agents, Phytogenic↗
PubMed1978

Structural differences contrast higher plant and animal Golgi apparatus.

The intercisternal spacings between cisternae of dictyosomes of higher plants differ from those of mammalian dictyosomes. In plants, the spacings increase from an average of about 8.0 nm at the forming face to about 14.0 nm at the maturing face. The increase in spacing coincides with the appearance within the intercisternal space of parallel filaments called intercisternal elements. In mammals, the intercisternal spacings are more nearly constant, and intercisternal elements have not been observed. Plant and animal dictyosomes may differ as well in the relative widths of the cisternal lumina, the widths of the intercisternal spacings, and in more subtle ways involving the appearance of the membranes. These structural differences may be indicative of some functional differences that contrast higher plant and animal Golgi apparatus.

Animals↗
PubMed2000

A comparative structural analysis of the ADF/cofilin family.

Actin-depolymerizing factor (ADF) and cofilin define a family of actin-binding proteins essential for the rapid turnover of filamentous actin in vivo. Here we present the 2.0 A crystal structure of Arabidopsis thaliana ADF1 (AtADF1), the first plant crystal structure from the ADF/cofilin (AC) family. Superposition of the four AC isoform structures permits an accurate sequence alignment that differs from previously reported data for the location of vertebrate-specific inserts and reveals a contiguous, vertebrate-specific surface opposite the putative actin-binding surface. Extending the structure-based sequence alignment to include 30 additional isoforms indicates three major groups: vertebrates, plants, and "other eukaryotes." Within these groups, several structurally conserved residues that are not conserved throughout the entire AC family have been identified. Residues that are highly conserved among all isoforms tend to cluster around the tryptophan at position 90 and a structurally conserved kink in alpha-helix 3. Analysis of surface character shows the presence of a hydrophobic patch and a highly conserved acidic cluster, both of which include several residues previously implicated in actin binding.

Actin Depolymerizing Factors↗
PubMed2002

Multiscale indicators of land degradation in the Patagonian Monte, Argentina.

Depletion of vegetation by overgrazing in arid environments has long-lasting effects on the environmental quality over extended geographic areas. An adequate inspection of habitat changes requires scaled up procedures that would allow assessing end-points of environmental status in broad areas that would be based on processes occurring at the plant canopy level. Our purpose was to find indicators of land degradation-conservation status for use in land monitoring programs and in planning management practices that would be amenable to further up-scaling for use with remotely sensed imagery. In several sites of the Patagonian Monte differing in the impact of grazing management, we evaluated vegetation attributes at three spatial scales. At the population scale, we found that the severity of grazing impact was characterized by the reduction of the palatable grass, P. ligularis, outside and inside shrub canopies. At the vegetation patch scale, we found that land degradation by domestic herbivore impact was characterized by changes in attributes of patch shape (radius, height, internal canopy cover) and patch abundance. At the plant community scale, we found that the structure of the plant canopy as described using Fourier analysis of cover data changed after long-term grazing impact consistently with the modifications in plant population and patch structures. We present a conceptual multiscale scenario of structural changes triggered by domestic herbivore impact, and quantitative indicators of plant structure and processes useful to develop management strategies of the Patagonian-Monte that would conserve its natural habitats. The developed end-points are also amenable for use in land conservation assessment through remotely sensed imagery.

Agriculture↗
PubMed1993

Where plants make oxygen: a structural model for the photosynthetic oxygen-evolving manganese cluster.

In the photosynthetic evolution of oxygen, water oxidation occurs at a catalytic site that includes four manganese atoms together with the essential cofactors, the calcium and chlorine ions. A structural model and a determination of the manganese oxidation states based on x-ray absorption spectroscopy are presented. The salient features, in both higher plants and cyanobacteria, are a pair of di-mu-oxo bridged manganese binuclear clusters linked by a mono-mu-oxo bridge, one proximal calcium atom, and one halide. In dark-adapted samples, manganese occurs in oxidation states (III) and (IV). Data from oriented membranes display distinct dichroism, precluding highly symmetrical structures for the manganese complex.

Bridged-Ring Compounds↗
PubMed2000

Assembly of double-shelled, virus-like particles in transgenic rice plants expressing two major structural proteins of rice dwarf virus.

Rice dwarf virus (RDV) is a double-shelled particle that contains a major capsid protein (P8), a major core protein (P3), several minor core proteins, and viral genomic double-stranded RNA. Coexpression of P8 and P3 in transgenic rice plants resulted in formation of double-shelled, virus-like particles (VLPs) similar to the authentic RDV particles. The VLPs were not detected in transgenic rice plant cells expressing P8 alone. This in vivo result suggests that P8 interacted with P3 and that these two proteins provide the structural integrity required for the formation of VLPs in rice cells independently of other structural proteins, nonstructural proteins, or viral genomic double-stranded RNAs.

Capsid↗
PubMed1995

Influence of modified nucleosides on tRNA structure as probed by two plant nucleases.

Two new enzymatic probes have been used for structural investigations of native and unmodified transcript tRNA molecules. Both probes were single-strand-specific nucleases isolated from higher plants. The results obtained after enzymatic hydrolysis of tRNAs support the earlier hypothesis that posttranscriptional modifications in tRNA help to stabilize its structure and make it more rigid.

Base Sequence↗