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PubMed2005

Comparison of the phytoestrogen trans-resveratrol (3,4',5-trihydroxystilbene) structures from x-ray diffraction and solution NMR.

The NMR-derived solution structure of trans-3,4',5-trihydroxystilbene (resveratrol) was compared with two recent literature crystal x-ray structures, resveratrol in complex with human transthyretin (TTR-RES) from 1DVS.pdb and resveratrol bound to chalcone synthase (CHS-RES) from 1CGZ.pdb. 1H and 13C NMR spectra of resveratrol were acquired in DMSO-d6. Assignments were obtained from an analysis of DQF-COSY, TOCSY, DEPT, HMQC/HSQC, HMBC and INADEQUATE NMR spectra. Past 1H and 13C NMR literature assignments are corrected. The dihedral angle 2-1-1'-2' provides an indication of the relative spatial orientation of the two phenolic rings. Values of 1.62, - 54.10 and 12.6 +/- 1.1 degrees were found for the 1DVS.pdb, 1CGZ.pdb and NMR resveratrol structures, respectively. The 1DVS.pdb resveratrol structure is 'flat' with the two phenolic rings along the same plane. The 1CGZ.pdb structure has these two rings almost orthogonal to each other, and the NMR structure has these two rings much closer to being along the same plane. The angles 1-alpha--alpha' and 1'-alpha'--alpha are along the same trace and of similar magnitude for the 1CGZ.pdb and NMR resveratrol structures. For the 1DVS.pdb resveratrol structure, these angles are about 7-10 degrees greater, with alpha and alpha' being 180 degrees out-of-phase from the other two structures. The alpha rings did not overlap, with the NMR result representing a 'median model' of the two x-ray structures.

Binding Sites↗

PubMed2005

Unusual tension reception in an insect.

Muscle tension receptors in animals monitor the tension generated by muscles. This information is important for the initiation and control of movements and for muscle tone in relation to spatial orientation and gravity. Vertebrates have tendon organs located at the musculo-tendinous junction. The number of muscle fibers attached to one receptor is in the range of 3 to 25. In insects by contrast, only a few examples are known where muscle tension is measured by only single receptors embedded in the muscle. All other muscle activity is monitored by a range of other receptors that detect strains on the cuticle or movements of the joints. Here we describe a set of approximately 200 receptor cells located on a single insect muscle. These receptor cells are associated with ovipositor muscle fibers and were preferentially responsive to muscle tension and not muscle length. Although single receptors may respond differently, their summed response to altered muscle tension characterized them as phasic-tonic type receptors. Experimental activation of muscle receptors in animals producing a basic oviposition motor pattern inhibited homonymous muscle activity without resetting the phase of the rhythm. These results suggest a potential role of tension receptors in regulating ovipositor muscle activity and in particular preventing excessive muscle tension during oviposition. The muscle receptors presented here provide the first example of tension measurement in insects by a few hundred receptor cells associated with a single muscle. Their role in motor control and relation to other tension receptors in vertebrates and invertebrates are discussed.

Animals↗

PubMed2005

CD10+ stromal cells form B-lymphocyte maturation niches in the human bone marrow.

In adult mammals, early B-lymphopoiesis takes place in the bone marrow in close association with stromal cells. Both the phenotype of the stromal cells and the molecules involved in this essential interaction are as yet inadequately described. In this study, all benign, differentiating B-cells (Pax-5+ lymphoid cells) are shown, by using two-colour immunohistochemistry on biopsies from human bone marrow, to be in close contact with scant dendritic CD10+ stromal cells until they leave via the sinusoids. This CD10+ stromal cell population does not fully overlap with the VCAM-1+ stromal cell population. Furthermore, using a set of B-cell differentiation markers (TdT, Pax-5, and CD20), B-cell development is shown to be spatially oriented, with maturation progressing towards bone marrow sinusoids. In conclusion, CD10+ stromal cells form distinct B-lymphocyte maturation niches in the human bone marrow.

B-Lymphocytes↗

PubMed1994

Quantification of the calcium-induced secondary structural changes in the regulatory domain of troponin-C.

The backbone resonance assignments have been completed for the apo (1H and 15N) and calcium-loaded (1H, 15N, and 13C) regulatory N-domain of chicken skeletal troponin-C (1-90), using multidimensional homonuclear and heteronuclear NMR spectroscopy. The chemical-shift information, along with detailed NOE analysis and 3JHNH alpha coupling constants, permitted the determination and quantification of the Ca(2+)-induced secondary structural change in the N-domain of TnC. For both structures, 5 helices and 2 short beta-strands were found, as was observed in the apo N-domain of the crystal structure of whole TnC (Herzberg O, James MNG, 1988, J Mol Biol 203:761-779). The NMR solution structure of the apo form is indistinguishable from the crystal structure, whereas some structural differences are evident when comparing the 2Ca2+ state solution structure with the apo one. The major conformational change observed is the straightening of helix-B upon Ca2+ binding. The possible importance and role of this conformational change is explored. Previous CD studies on the regulatory domain of TnC showed a significant Ca(2+)-induced increase in negative ellipticity, suggesting a significant increase in helical content upon Ca2+ binding. The present study shows that there is virtually no change in alpha-helical content associated with the transition from apo to the 2Ca2+ state of the N-domain of TnC. Therefore, the Ca(2+)-induced increase in ellipticity observed by CD does not relate to a change in helical content, but more likely to changes in spatial orientation of helices.

Amino Acid Sequence↗

PubMed1997

Effect of limited proteolysis on the stability and enzymatic activity of human placental S-adenosylhomocysteine hydrolase.

Human placental S-adenosylhomocysteine (AdoHcy) hydrolase was subjected to limited papain digestion. The multiple cleavage sites in the enzyme were identified to be Lys94-Ala95, Tyr100-Ala101, Glu243-Ile244, Met367-Ala368, Gln369-Ile370, and Gly382-Val383. Despite multiple cleavage sites in the backbone of the protein, the digested enzyme was able to maintain its quaternary structure and retain its full catalytic activity. The enzyme activity of the partially digested AdoHcy hydrolase was essentially identical to that of the native enzyme at several pH values. The thermal stabilities of the native and partially digested enzymes were only slightly different at all temperatures tested. The stability of both native and partially digested enzymes were examined in guanidine hydrochloride and equilibrium unfolding transitions were monitored by CD spectroscopy and tryptophan fluorescence spectroscopy. The results of these experiments can be summarized as follows: (1) CD spectroscopic analysis showed that the overall secondary and tertiary structures of the partially digested enzyme are essentially identical with those of the native enzyme; and (2) tryptophan fluorescence spectroscopic analysis indicated that there are small differences in the environments of surface-exposed tryptophan residues between the partially digested enzyme and the native enzyme under unfolding conditions. The differences in the free energy of unfolding, delta(delta Gu) [delta Gu(native)-delta Gu(digested)], is approximately 1.3 kcal/mol. When NAD+ was removed from the partially digested enzyme, the secondary and tertiary structures of the apo form of the digested AdoHcy hydrolase were completely lost and the enzymatic activity could not be recovered by incubation with excess NAD+. These results suggest that AdoHcy hydrolase exists as a very compact enzyme with extensive intramolecular bonding, which contributes significantly to the overall global protein stabilization. Identification of the surface-exposed peptide bonds, which are susceptible to papain digestion, has provided some constraints on the spatial orientations of subunits of the enzyme. This information, in turn, has provided supplemental data for X-ray crystallographic studies currently ongoing in our laboratories.

Adenosylhomocysteinase↗

PubMed2006

The CDR1 of the human lambdaVI light chains adopts a new canonical structure.

We performed a comparative analysis of the conformation of the CDR1 of the human lambdaVI variable domains JTO and WIL and the equivalent loop of the lambdaI light chains RHE and KOL, which are representative of the type I canonical structure for lambda light chains. On the basis of the differences found in the main chain conformation, as well as the identity of the residues at key positions, we showed that the L1 of some lambdaVI light chains adopts a conformation that represents a new type of canonical structure. The conformation of the L1 of those lambdaVI light chains, is primarily determined by the presence of an Arg residue at position 25. The analysis of the lambdaVI light chain sequences so far reported, showed that near 25% of those proteins have Gly at position 25 instead of Arg, which represents an allotypic variant of the lambdaVI variable locus. The presence of Gly at position 25 in the L1 of lambdaVI light chains would imply a different conformation for this loop. Additionally, the position 68 in lambdaVI light chains, which is at the top of the FR3 loop, showed such spatial orientation and variability that suggested its participation in the conformation of the antigen recognition surface in this subgroup of lambda chains.

Amino Acid Sequence↗

PubMed2005

Structure-activity relationship study on human urotensin II.

The vasoactive cyclic undecapeptide urotensin-II (U-II) has been identified as an endogenous ligand for the G-protein coupled receptor now referred to as the UT receptor. The U-II/UT receptor system might be relevant for cardiovascular functions. A structure-activity study of human U-II investigating 31 peptides in the rat aorta bioassay is reported. Ala- and D-scan investigations indicated that the sequence Phe6-Trp7-Lys8-Tyr9 is essential for biological activity and that Lys8 and Tyr9 are particularly important. These two residues were substituted with a series of coded and non-coded amino acids. These studies demonstrated that the positive charge of the primary aliphatic amine at position 8 and its relative spatial orientation is crucial for both receptor occupation and activation, while the only chemical requirement at position 9 is the presence of an aromatic moiety. Moreover, this study led to the identification of UT receptor partial agonists (compounds 23 and 24) which can be used as chemical templates for further investigations aimed at the identification of selective antagonists.

Animals↗

PubMedDate not supplied

Lengths measurements in microvascular corrosion castings: two-dimensional versus three-dimensional morphometry.

In the present study we compared measurements of vessel lengths from (a) single-digital scanning electron microscope (SEM) images of microvascular corrosion casts (VCCs) of gill filters of tadpoles of Xenopus laevis Daudin by two-dimensional (2-D) morphometry (Optimas 6.5, Optimas Corp., Bothell, Wash., USA; planar measurements) and (b) digital stereopairs by three-dimensional (3-D) morphometry (3D-Morphometry, Minnich and Muska OEG, Salzburg). Depending on the spatial orientation of the vessels measured, we found a maximum difference of 58.84% (100 [3-D]-41.16 [2-D]) in vessel lengths by 3-D morphometry versus 2-D morphometry, which, in multiple (segmental) lengths measurements or when determining space angles, might be even higher. Based on results we consider 3-D morphometry of VCCs to be the method of choice for lengths measurements.

Animals↗

PubMed2005

Two- and three-dimensional sonographic findings in a case of distal urethral obstruction due to a paraurethral tumor.

The cause of bladder outlet obstruction in women may be categorized generally into two types, functional and anatomical. On ultrasonography, the urethra appears as a tubular structure with a central echolucent part and surrounding hyperechogenic structures. Morphological changes in the echolucent portion of the urethra have been reported to be associated with voiding dysfunction. We present a case of distal urethral obstruction secondary to metastatic paraurethral adenocarcinoma. Three-dimensional sonography clearly demonstrated the configuration of the metastatic tumor and its spatial orientation in association with distal urethral obstruction.

Adenocarcinoma↗

PubMed2004

Sonographic findings in a case of voiding dysfunction secondary to the tension-free vaginal tape (TVT) procedure.

The tension-free vaginal tape (TVT) procedure was introduced as a minimally invasive surgical technique for treating female stress urinary incontinence. This procedure is supposed to be associated with less postoperative voiding dysfunction because the vaginal tape, theoretically, remains tension-free. Nevertheless, significant voiding dysfunction or complete urinary retention has been reported to complicate 2.8% to 7.6% of TVT procedures. We report a case of voiding dysfunction following a TVT procedure. Two-dimensional sonography revealed the tape situated beneath the mid-urethra. The spatial orientation between the vaginal tape and the urethral structure was clearly demonstrated on three-dimensional scanning. The urethra was indented from the posterior by the vaginal tape, resulting in acute constriction of the hypoechogenic region of the urethra. Urethral dilation was performed using Hegar dilators. Thereafter, the patient's voiding difficulty improved dramatically and the residual urine volume decreased. One week later, repeat sonography showed the hypoechogenic region of the urethra to have a normal configuration with a lesser degree of urethral indentation.

Adult↗

PubMed2002

Molecular characterization of Saccharomyces cerevisiae Sco2p reveals a high degree of redundancy with Sco1p.

The Saccharomyces cerevisiae gene SCO1 has been shown to play an essential role in the transfer of copper to the Cu(A)-centre of the mitochondrial cytochrome c oxidase subunit Cox2p. By contrast, the function of Sco2p, the gene product of the highly homologous SCO2 gene, remains to be elucidated. Deletion of the SCO2 gene does not affect growth on a variety of carbon sources, including glycerol, lactate and ethanol. We report here, that Sco2p is anchored in the mitochondrial membrane by a single transmembrane segment and displays a similar tripartite structure as Sco1p. Most parts of Sco1p can be replaced by the homologous parts of Sco2p without loss of function. A short stretch of 13 amino acids, immediately adjacent to the transmembrane region, is crucial for Sco1p function and cannot be replaced by its Sco2p counterpart. We propose that this region is relevant for the correct spatial orientation of the C-terminal part of the protein. Immunoprecipitation and in vitro binding assays show that Sco2p interacts with the C-terminal portion of Cox2p. This interaction is neither dependent on bound copper ions nor on the presence of Sco1p. Furthermore we report on in vitro binding assays which show that Sco2p can form homomeric complexes, but also heteromeric complexes with Sco1p. Our data suggest that Sco2p is involved in the transfer of copper to Cox2p, but that this activity is insufficient for oxidative growth and not able to substitute for Sco1p activity.

Amino Acid Sequence↗

PubMed1998

The covalent coupling of Arg-Gly-Asp-containing peptides to liposomes: purification and biochemical function of the lipopeptide.

With the advent of liposomes as drug carriers, there arises a need for efficient targeted delivery in vivo. Proteins coupled to liposomes usually yield heterogeneous products that are ill-defined both chemically and in terms of spatial orientation. We now report on the disulfide linkage to the surface of intact liposomes of a peptide representing one-half of a ligand-receptor pair. An RGD-motif-containing peptide was coupled to the phospholipid PDP-DOPE of the liposomes by a thiol-disulfide exchange. The resulting lipopeptides were amenable to definition by TLC, HPLC, and MS and found to be in a functional orientation allowing biochemical interaction with their receptor, the integrin glycoprotein IIb-IIIa.

1,2-Dipalmitoylphosphatidylcholine↗

PubMed2001

Human sterol 14alpha-demethylase activity is enhanced by the membrane-bound state of cytochrome b(5).

Human sterol 14alpha-demethylase (P45051; CYP51) catalyzes the oxidative removal of the C32 methyl group of dihydrolanosterol, an essential step in the cholesterol biosynthetic pathway. The reaction is dependent upon NADPH cytochrome P450 reductase (CPR) that donates the electrons for the catalytic cycle. Here we used a recombinant yeast CPR to investigate the abilities of four different forms of cytochrome b(5) to support sterol demethylation activity of CYP51. The cytochrome b(5) derivatives were genetically engineered forms of the native rat cytochrome b(5) core-tail: the soluble globular b(5) core (core), the core linked at its N-terminus with the secretory signal sequence of alkaline phosphatase (signal-core), and the signal sequence linked to the native b(5) (signal-core-tail). The rat core-tail enzyme greatly stimulated sterol demethylation, whereas the signal-core-tail was only marginally active. In contrast, the core and signal-core constructs were completely inactive in stimulating the demethylation reaction. Additionally, cytochrome b(5) enhanced sterol demethylation by more than threefold by accepting electrons from soluble yeast CPR and in its ability to reduce P450. We show that the nature of transient linkage between the hemoproteins and the redox partners is most likely brought about electrostatically, although productive interaction between cytochrome b(5) and CYP51 is governed by the membrane-insertable hydrophobic region in the cytochrome b(5) which in turn determines the correct spatial orientation of the core. This is the first report showing the stimulation of CYP51 by cytochrome b(5).

Amino Acid Sequence↗

PubMed2001

Spatial learning and memory in the blind mole-rat in comparison with the laboratory rat and Levant vole.

Studies dealing with spatial orientation in mammals have mostly dealt with surface-dwelling species. We studied the ability of a subterranean rodent to orient in space and compared it with two species of rodents that spend most of their lives above ground. The solitary blind mole-rat, Spalax ehrenbergi, inhabits an extensive, branching tunnel system that it digs itself and in which it spends its entire life. We examined its ability to learn and remember a winding path towards a goal in a multiple labyrinth and compared it with Levant voles, Microtus guentheri, and laboratory rats, Rattus norvegicus. The mole-rats learned significantly faster than the rats and voles. Furthermore, their ability to remember the maze was significantly better than that of the rats after 2, 7, 30 and 60 days from the end of the learning experiment and significantly better than the voles after 120 days. The mole-rats still retained ca. 45% of their optimal performance at the end of the learning experiment after 4 months compared with 20% for the voles after 4 months and less than 20% for the rats after 2 months. Despite having lost its vision, the mole-rat was thus more able to orient in a complex maze than the surface-dwelling vole and laboratory rat. We suggest that the mole-rat compensates for the sensory limitations imposed by the subterranean niche and for its loss of vision by relying on the Earth's magnetic field and internal cues to steer its course efficiently. We discuss the possible mechanisms of orientation. Copyright 2001 The Association for the Study of Animal Behaviour.

Journal Article↗

PubMed1996

Structural analysis of a biologically active echistatin analogue des(46-49)-[Ala8,37]-echistatin gamma with three disulfide bonds by 2D-NMR and computer graphics.

An echistatin analogue, designated as des(46-49)-[Ala8,37]-echistatin gamma, was synthesized chemically by solid-phase peptide synthesis. The analogue was made by replacing Cys8 and Cys37 residues with two alanines and the deletion of C-terminal peptide 46-49 of echistatin gamma, resulting in an artificial polypeptide of 45 amino acids with three disulfide bonds. In the platelet aggregation assay, the analogue exhibits almost the same activity as echistatin gamma, indicating that the linear sequence of des(46-49)-[Ala8,37]-echistatin gamma contains all of the primary-structure information that is required for proper folding of this synthetic polypeptide. The tertiary structure of the analogue, as determined from high-resolution nuclear magnetic resonance (NMR) coupled with dynamic simulated annealing, is very similar to that of echistatin alpha1 which differs from echistatin gamma by 8 residues. In particular the two important sites of the Arg-Gly-Asp (RGD) loop and the C-terminal Lys45, both of which show some degree of disorder, are maintained in similar spatial orientation and proximity as those in echistatin alpha 1 even without the constraint provided by the disulfide bond of the (Cys8-Cys37) pair. These results provide new insights in further defining distinct structural features of echistatin gamma, which are involved in supporting the active polypeptide conformation to achieve biological activity in the absence of one pair of disulfide bonds.

Amino Acid Sequence↗

PubMed1997

Crystal structure of NMC-4 fab anti-von Willebrand factor A1 domain.

We have solved the crystal structure of the Fab fragment of NMC-4, a mouse monoclonal antibody that binds to the A1 domain of von Willebrand factor (vWF). Two Asp and three Tyr residues in the complementarity determining regions 1 and 3 of the heavy chain exhibited a spatial orientation suggestive of a dominant role in establishing contact with the antigen. A cluster of Asp and Tyr residues occurs also in a region of the platelet glycoprotein (GP) Ib alpha amino terminal domain known to be critically involved in vWF binding. Thus, the structural information obtained with NMC-4 may prove relevant to understand the stereochemical bases of the GP Ib alpha-vWF interaction essential for thrombus formation at sites of vascular lesion.

Amino Acid Sequence↗

PubMed1997

The influence of center of mass effect on the distribution of spatial attention in the vertical and horizontal dimensions.

Normal subjects attend toward the middle of grouped items (center of mass effect). In order to learn if mass effect could influence performance on line bisection tasks and if the spatial orientation of the line (vertical vs. horizontal) could influence center of mass effect, we administered bisection tasks to 16 normal subjects using either lines composed of two unequal segments (one thick and one thin) or unsegmented lines. When the longer segment was to the right, left, up, or down, subjects erred by deviating their bisection toward the longer segment (center of mass effect). Our results demonstrate that the center of mass effect can be seen with bisection tasks and is greater in the vertical than in the horizontal dimension.

Adult↗

PubMed2000

Metacognition and awareness.

It is tempting to assume that metacognitive processes necessarily evoke awareness. We review a number of experiments in which cognitive schema have been shown to develop without awareness. Implicit learning of a novel schema may not involve metacognitive regulation per se. Substitution of one automatic process by another as a result of the inadequacy of the former as circumstances change does, however, clearly involve metacognitive and executive processes of error correction and schema selection. We describe a recently published study in which we serendipitously discovered that a blindsight subject could change the schema with which he processed cue information in orienting spatial attention task without reporting any awareness of this change, or of the cues and targets which respectively directed and were the object his attention.

Attention↗