abstract：:This article has been withdrawn at the request of the author(s) and/or editor. The Publisher apologizes for any inconvenience this may cause. The full Elsevier Policy on Article Withdrawal can be found at http://www.elsevier.com/locate/withdrawalpolicy. ...

journal_title：Journal of structural biology

authors： Fan Y,Kong R,Tweardy DJ,Wong ST

更新日期：2013-02-18 00:00:00

abstract：:Single-axis cryo-electron tomography of vitrified specimens has become a method of choice to reconstruct in three dimensions macromolecular assemblies in their cellular context or prepared from purified components. Here, we asked how a dual-axis acquisition scheme would improve three-dimensional reconstructions of mic...

journal_title：Journal of structural biology

authors： Guesdon A,Blestel S,Kervrann C,Chrétien D

更新日期：2013-02-01 00:00:00

abstract：:Three-dimensional (3D) electron microscopy (EM) has become a major player in structural cell biology as it enables the analysis of subcellular architecture at an unprecedented level of detail. Interpretation of the resulting 3D volumes strongly depends on segmentation, which consists in decomposing the volume into the...

journal_title：Journal of structural biology

authors： Martinez-Sanchez A,Garcia I,Fernandez JJ

更新日期：2013-01-01 00:00:00

abstract：:The structure of Panicum Mosaic Virus (PMV) was determined by X-ray diffraction analysis to 2.9Å resolution. The crystals were of pseudo symmetry F23; the true crystallographic unit cell was of space group P2(1) with a=411.7Å, b=403.9Å and c=412.5Å, with β=89.7°. The asymmetric unit was two entire T=3 virus particles,...

journal_title：Journal of structural biology

authors： Makino DL,Larson SB,McPherson A

更新日期：2013-01-01 00:00:00

abstract：:Amyloid formation is associated with a range of debilitating human disorders including Alzheimer's and prion diseases. The amyloid structure is essential for understanding the role of amyloids in these diseases. Amyloid formation of Ure2 protein underlies the yeast prion [URE3]. Here we use site-directed spin labeling...

journal_title：Journal of structural biology

authors： Ngo S,Chiang V,Guo Z

更新日期：2012-11-01 00:00:00

abstract：:Proteins isolated from marine invertebrates are frequently characterized by exceptional structural and functional properties. ShPI-1, a BPTI Kunitz-type inhibitor from the Caribbean Sea anemone Stichodactyla helianthus, displays activity not only against serine-, but also against cysteine-, and aspartate proteases. As...

journal_title：Journal of structural biology

authors： García-Fernández R,Pons T,Perbandt M,Valiente PA,Talavera A,González-González Y,Rehders D,Chávez MA,Betzel C,Redecke L

更新日期：2012-11-01 00:00:00

abstract：:The recent high-resolution structure of the toxin FraC derived from the sea anemone Actinia fragacea has provided new insight into the mechanism of pore formation by actinoporins. In this work, we report two new crystal forms of FraC in its oligomeric prepore conformation. Together with the previously reported structu...

journal_title：Journal of structural biology

authors： Mechaly AE,Bellomio A,Morante K,Agirre J,Gil-Cartón D,Valle M,González-Mañas JM,Guérin DM

更新日期：2012-11-01 00:00:00

abstract：:Traditional single particle reconstruction methods use either the Fourier or the delta function basis to represent the particle density map. This paper proposes a more flexible algorithm that adaptively chooses the basis based on the data. Because the basis adapts to the data, the reconstruction resolution and signal-...

journal_title：Journal of structural biology

authors： Kucukelbir A,Sigworth FJ,Tagare HD

更新日期：2012-07-01 00:00:00

abstract：:Hypercalcified sponges, endowed with a calcium carbonate basal skeleton in addition to their spicules, form one of the most basal metazoan group engaged in extensive biomineralization. The Mediterranean species Petrobiona massiliana was used to investigate biological controls exerted on the biomineralization of its ba...

journal_title：Journal of structural biology

authors： Gilis M,Baronnet A,Dubois P,Legras L,Grauby O,Willenz P

更新日期：2012-06-01 00:00:00

abstract：:We have previously used cryo-electron tomography combined with sub-volume averaging and classification to obtain 3D structures of macromolecular assemblies in cases where a single dominant species was present, and applied these methods to the analysis of a variety of trimeric HIV-1 and SIV envelope glycoproteins (Env)...

journal_title：Journal of structural biology

authors： Frank GA,Bartesaghi A,Kuybeda O,Borgnia MJ,White TA,Sapiro G,Subramaniam S

更新日期：2012-05-01 00:00:00

abstract：:The aim of this work was to develop a protocol for automated tracking of actin filaments in electron tomograms of lamellipodia embedded in negative stain. We show that a localized version of the Radon transform for the detection of filament directions enables three-dimensional visualizations of filament network archit...

journal_title：Journal of structural biology

authors： Winkler C,Vinzenz M,Small JV,Schmeiser C

更新日期：2012-04-01 00:00:00

abstract：:The structure of full-length human TLR5 determined by electron microscopy single-particle image reconstruction at 26Å resolution shows that TLR5 forms an asymmetric homodimer via ectodomain interactions. The structure shows that like TLR9, TLR5 dimerizes in the absence of ligand. The asymmetry of the dimer suggests th...

journal_title：Journal of structural biology

authors： Zhou K,Kanai R,Lee P,Wang HW,Modis Y

更新日期：2012-02-01 00:00:00

abstract：:The crystallographic structures of the adducts of salicylate 1,2-dioxygenase (SDO) with substrates salicylate, gentisate and 1-hydroxy-2-naphthoate, obtained under anaerobic conditions, have been solved and analyzed. This ring fission dioxygenase from the naphthalenesulfonate-degrading bacterium Pseudaminobacter salic...

journal_title：Journal of structural biology

authors： Ferraroni M,Matera I,Steimer L,Bürger S,Scozzafava A,Stolz A,Briganti F

更新日期：2012-02-01 00:00:00

abstract：:Teeth sustain high loads over a lifetime and yet intact tooth failure is rare. The different structures of the tooth, jaw bone and the intervening soft periodontal ligament enable the tooth to endure repeated loading during mastication. Although mechanical and functional properties of the different components are thor...

journal_title：Journal of structural biology

authors： Naveh GR,Shahar R,Brumfeld V,Weiner S

更新日期：2012-02-01 00:00:00

abstract：:X-ray imaging offers a new 3-D view into cells. With its ability to penetrate whole hydrated cells it is ideally suited for pairing fluorescence light microscopy and nanoscale X-ray tomography. In this paper, we describe the X-ray optical set-up and the design of the cryo full-field transmission X-ray microscope (TXM)...

journal_title：Journal of structural biology

authors： Schneider G,Guttmann P,Rehbein S,Werner S,Follath R

更新日期：2012-02-01 00:00:00

abstract：:We present RIBFIND, a method for detecting flexibility in protein structures via the clustering of secondary structural elements (SSEs) into rigid bodies. To test the usefulness of the method in refining atomic structures within cryoEM density we incorporated it into our flexible fitting protocol (Flex-EM). Our benchm...

journal_title：Journal of structural biology

authors： Pandurangan AP,Topf M

更新日期：2012-02-01 00:00:00

abstract：:Hard X-ray fluorescence microscopy and magnified phase contrast imaging are combined to obtain quantitative maps of the projected metal concentration in whole cells. The experiments were performed on freeze dried cells at the nano-imaging station ID22NI of the European Synchrotron Radiation Facility (ESRF). X-ray fluo...

journal_title：Journal of structural biology

authors： Kosior E,Bohic S,Suhonen H,Ortega R,Devès G,Carmona A,Marchi F,Guillet JF,Cloetens P

更新日期：2012-02-01 00:00:00

abstract：:The nuclear lamina is a protein meshwork that lines the nuclear envelope in metazoan cells. It is composed largely of a polymeric assembly of lamins, which comprise a distinct sequence homology class of the intermediate filament protein family. On the basis of its structural properties, the lamina originally was propo...

journal_title：Journal of structural biology

authors： Gerace L,Huber MD

更新日期：2012-01-01 00:00:00

abstract：:The massive basal skeleton of a few remnant living hypercalcified sponges rediscovered since the 1960s are valuable representatives of ancient calcium carbonate biomineralization mechanisms in basal Metazoa. A multi-scale mineralogical characterization of the easily accessible Mediterranean living hypercalcified spong...

journal_title：Journal of structural biology

authors： Gilis M,Grauby O,Willenz P,Dubois P,Legras L,Heresanu V,Baronnet A

更新日期：2011-12-01 00:00:00

abstract：:Here we introduce plusTipTracker, a Matlab-based open source software package that combines automated tracking, data analysis, and visualization tools for movies of fluorescently-labeled microtubule (MT) plus end binding proteins (+TIPs). Although +TIPs mark only phases of MT growth, the plusTipTracker software allows...

journal_title：Journal of structural biology

authors： Applegate KT,Besson S,Matov A,Bagonis MH,Jaqaman K,Danuser G

更新日期：2011-11-01 00:00:00

abstract：:The ultrastructure of β-chitin microfibrils from a centric diatom, Thalassiosira, and a tubeworm, Lamellibrachia, was studied using electron diffraction and high-resolution electron microscopy. Electron microdiffraction diagrams corresponding to each projection of the β-chitin crystals were obtained, and all the data ...

journal_title：Journal of structural biology

authors： Ogawa Y,Kimura S,Wada M

更新日期：2011-10-01 00:00:00

abstract：:The yeast Saccharomyces cerevisiae mitochondrial matrix factor Mmf1, a member in the YER057c/Yigf/Uk114 family, participates in isoleucine biosynthesis and mitochondria maintenance. Mmf1 physically interacts with another mitochondrial matrix protein Mam33, which is involved in the sorting of cytochrome b₂ to the inter...

journal_title：Journal of structural biology

authors： Pu YG,Jiang YL,Ye XD,Ma XX,Guo PC,Lian FM,Teng YB,Chen Y,Zhou CZ

更新日期：2011-09-01 00:00:00

abstract：:The baculum is an extraskeletal bone located in the penis of a few species in several orders of mammals such as carnivores, insectivores, rodents, bats and primates. This study aims to describe the structure, architecture and mechanical properties of the canine baculum. To this end canine bacula from castrated and unc...

journal_title：Journal of structural biology

authors： Sharir A,Israeli D,Milgram J,Currey JD,Monsonego-Ornan E,Shahar R

更新日期：2011-09-01 00:00:00

abstract：:The yeast peroxisomal hydrolase Lpx1 belongs to the α/β-hydrolase superfamily. In the absence of Lpx1, yeast peroxisomes show an aberrant vacuolated morphology similar to what is found in peroxisomal disorder patients. Here, we present the crystal structure of Lpx1 determined at a resolution of 1.9 Å. The structure re...

journal_title：Journal of structural biology

authors： Thoms S,Hofhuis J,Thöing C,Gärtner J,Niemann HH

更新日期：2011-09-01 00:00:00

abstract：:The goal of this study is to evaluate the performance of software for automated particle-boxing, and in particular the performance of a new tool (TextonSVM) that recognizes the characteristic texture of particles of interest. As part of a high-throughput protocol, we use human editing that is based solely on class-ave...

journal_title：Journal of structural biology

authors： Arbeláez P,Han BG,Typke D,Lim J,Glaeser RM,Malik J

更新日期：2011-09-01 00:00:00

abstract：:The use of a Zernike-type phase plate in biologic cryo-electron microscopy allows the imaging, without using defocus, of what are predominantly phase objects. It is thought that such phase-plate implementations might result in higher quality images, free from the problems of CTF correction that occur when images must ...

journal_title：Journal of structural biology

authors： Hall RJ,Nogales E,Glaeser RM

更新日期：2011-06-01 00:00:00

abstract：:The ability to convert into amyloid fibrils is a common feature of prion proteins. However, not all amyloid-forming proteins act as prions. Here, we compared two homologs of the yeast prion protein Ure2 from Saccharomyces cerevisiae and Saccharomyces paradoxus, ScUre2p and SpUre2p, which have different prion propensit...

journal_title：Journal of structural biology

authors： Wang YQ,Bongiovanni M,Gras SL,Perrett S

更新日期：2011-06-01 00:00:00

abstract：:3,4-dihydroxy 2-butanone 4-phosphate synthase (DHBPS) and GTP cyclohydrolase-II (GTPCH-II) are the two initial enzymes involved in riboflavin biosynthesis pathway, which has been shown to be essential for the pathogens. In Mycobacterium tuberculosis (Mtb), the ribA2 gene (Rv1415) encodes for the bi-functional enzyme w...

journal_title：Journal of structural biology

authors： Singh M,Kumar P,Karthikeyan S

更新日期：2011-05-01 00:00:00

abstract：:Vateritic deformities occurring in the invasive heterodont bivalve Corbicula fluminea from several locations in the UK were characterised in detail for the first time using scanning electron microscopy, X-ray diffraction and different geochemical techniques (electron microprobe, ICP-AES, and mass spectrometry). Large ...

journal_title：Journal of structural biology

authors： Frenzel M,Harper EM

更新日期：2011-05-01 00:00:00

abstract：:The small icosahedral plant RNA nepovirus Grapevine fanleaf virus (GFLV) is specifically transmitted by a nematode and causes major damage to vineyards worldwide. To elucidate the molecular mechanisms underlying the recognition between the surface of its protein capsid and cellular components of its vector, host and v...

journal_title：Journal of structural biology

authors： Schellenberger P,Demangeat G,Lemaire O,Ritzenthaler C,Bergdoll M,Oliéric V,Sauter C,Lorber B

更新日期：2011-05-01 00:00:00

abstract：:Enhanced Green Fluorescent Protein (EGFP) is a variant of wild-type Green Fluorescent Protein from the jellyfish Aequorea victoria, whose mutations S65T and F64L increase brightness and folding efficiency. EGFP is extensively used in cell biology and biochemistry as a colocalization or expression reporter. Surprisingl...

journal_title：Journal of structural biology

authors： Royant A,Noirclerc-Savoye M

更新日期：2011-05-01 00:00:00

abstract：:Structural analysis of multi-domain protein complexes is a key challenge in current biology and a prerequisite for understanding the molecular basis of essential cellular processes. The use of solution techniques is important for characterizing the quaternary arrangements and dynamics of domains and subunits of these ...

journal_title：Journal of structural biology

authors： Madl T,Gabel F,Sattler M

更新日期：2011-03-01 00:00:00

abstract：:In recent years, cryo-electron microscopy (cryo-EM) has established itself as a key method in structural biology, permitting the structural characterization of large biomolecular complexes in various functional states. The data obtained through single-particle cryo-EM has recently seen a leap in resolution thanks to l...

journal_title：Journal of structural biology

authors： Trabuco LG,Schreiner E,Gumbart J,Hsin J,Villa E,Schulten K

更新日期：2011-03-01 00:00:00

abstract：:A characteristic feature of the dense phases formed by fiber-shaped molecules is their organization into parallel rods packed in a hexagonal or pseudo-hexagonal lateral network. This is typically the case for the collagen triple helices inside fibrils, as confirmed by recent X-ray diffraction experiments carried out o...

journal_title：Journal of structural biology

authors： Doucet J,Briki F,Gourrier A,Pichon C,Gumez L,Bensamoun S,Sadoc JF

更新日期：2011-02-01 00:00:00

abstract：:Nearly a third of all eukaryotic proteins are transported from the ER to the Golgi apparatus through the secretory pathway using COPII coated vesicles. Evidence suggests that this transport occurs via 500-900 Å vesicles that bud from the ER membrane. It has been shown that procollagen molecules utilize the COPII prote...

journal_title：Journal of structural biology

authors： O'Donnell J,Maddox K,Stagg S

更新日期：2011-02-01 00:00:00

abstract：:Vibrio alginolyticus use flagella to swim. A flagellum consists of a filament, hook and basal body. The basal body is made up of a rod and several ring structures. This study investigates the structure of the T ring which is a unique component of the V. alginolyticus sodium ion-driven flagellar basal body. Using Zerni...

journal_title：Journal of structural biology

authors： Hosogi N,Shigematsu H,Terashima H,Homma M,Nagayama K

更新日期：2011-01-01 00:00:00

abstract：:The photosynthetic membrane in purple bacteria contains several pigment-protein complexes that assure light capture and establishment of the chemiosmotic gradient. The bioenergetic tasks of the photosynthetic membrane require the strong interaction between these various complexes. In the present work, we acquired the ...

journal_title：Journal of structural biology

authors： Liu LN,Sturgis JN,Scheuring S

更新日期：2011-01-01 00:00:00

abstract：:Members of the Ku superfamily are DNA-end-binding proteins involved in non-homologous end-joining (NHEJ) DNA repair. The published crystal structure of human Ku-DNA complex reveals a heterodimer that forms a ring around dsDNA by means of the Ku core modules. These modules contain a highly conserved seven-stranded β-ba...

journal_title：Journal of structural biology

authors： Krishna SS,Aravind L

更新日期：2010-12-01 00:00:00

abstract：:In bacteria, the two-component system (TCS) is the most prevalent for sensing and transducing the environmental signals into the cell. In Salmonella, the small basic protein PmrD is found to protect phospho-PmrA and prolong the expression of PmrA-activated genes. In contrast, Escherichia coli PmrD fails to protect pho...

journal_title：Journal of structural biology

authors： Luo SC,Lou YC,Cheng HY,Pan YR,Peng HL,Chen C

更新日期：2010-12-01 00:00:00

abstract：:An approach to automated acquisition of cryoEM image data from lacey carbon grids using the Leginon program is described. Automated liquid nitrogen top up of the specimen holder dewar was used as a step towards full automation, without operator intervention during the course of data collection. During cryoEM studies o...

journal_title：Journal of structural biology

authors： Nicholson WV,White H,Trinick J

更新日期：2010-12-01 00:00:00