当前位置： SCI文献检索 > JOURNAL OF STRUCTURAL BIOLOGY期刊下所有文献 > Crystallographic studies of ligand binding by Zn-alpha2-glycoprotein.

Crystallographic studies of ligand binding by Zn-alpha2-glycoprotein.

Abstract：

:Zn-alpha2-glycoprotein (ZAG) is a 41 kDa soluble protein that is present in most bodily fluids. The previously reported 2.8 A crystal structure of ZAG isolated from human serum demonstrated the structural similarity between ZAG and class I major histocompatibility complex (MHC) molecules and revealed a non-peptidic ligand in the ZAG counterpart of the MHC peptide-binding groove. Here we present crystallographic studies to explore further the nature of the non-peptidic ligand in the ZAG groove. Comparison of the structures of several forms of recombinant ZAG, including a 1.95 A structure derived from ZAG expressed in insect cells, suggests that the non-peptidic ligand in the current structures and in the structure of serum ZAG is a polyethylene glycol (PEG), which is present in the crystallization conditions used. Further support for PEG binding in the ZAG groove is provided by the finding that PEG displaces a fluorophore-tagged fatty acid from the ZAG binding site. From these results we hypothesize that our purified forms of ZAG do not contain a bound endogenous ligand, but that the ZAG groove is capable of binding hydrophobic molecules, which may relate to its function.

journal_name

J Struct Biol

journal_title

Journal of structural biology

authors

Delker SL,West AP Jr,McDermott L,Kennedy MW,Bjorkman PJ

doi

10.1016/j.jsb.2004.04.009

keywords:

subject

Has Abstract

pub_date

2004-11-01 00:00:00

pages

205-13

issue

2

eissn

1047-8477

issn

1095-8657

pii

S1047847704001029

journal_volume

148

pub_type

杂志文章

相关文献

JOURNAL OF STRUCTURAL BIOLOGY文献大全
  • A statistical approach to the initial volume problem in Single Particle Analysis by Electron Microscopy.

    abstract：:Cryo Electron Microscopy is a powerful Structural Biology technique, allowing the elucidation of the three-dimensional structure of biological macromolecules. In particular, the structural study of purified macromolecules -often referred as Single Particle Analysis(SPA)- is normally performed through an iterative proc...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2015.01.009

    authors： Sorzano CO,Vargas J,de la Rosa-Trevín JM,Otón J,Álvarez-Cabrera AL,Abrishami V,Sesmero E,Marabini R,Carazo JM

    更新日期：2015-03-01 00:00:00

  • Gold-tagged RNA-A probe for macromolecular assemblies.

    abstract：:Ribonucleic acids (RNAs) play a key role in many fundamental life processes. These polymers are often found complexed with proteins in extremely large particles whose molecular mass may reach several millions of daltons (e.g., ribosomes, spliceosomes, and viruses). Structural studies of such RNA-protein complexes shou...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1999.4134

    authors： Medalia O,Heim M,Guckenberger R,Sperling R,Sperling J

    更新日期：1999-09-01 00:00:00

  • The canine baculum: the structure and mechanical properties of an unusual bone.

    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

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2011.06.006

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

    更新日期：2011-09-01 00:00:00

  • Crystal structure of a carbohydrate induced homodimer of phospholipase A2 from Bungarus caeruleus at 2.1A resolution.

    abstract：:This is the first crystal structure of a carbohydrate induced dimer of phospholipase A(2) (PLA(2)). This is an endogenous complex formed between two PLA(2) molecules and two mannoses. It was isolated from Krait venom (Bungarus caeruleus) and crystallized as such. The complete amino acid sequence of PLA(2) was determin...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2004.11.011

    authors： Singh G,Gourinath S,Sarvanan K,Sharma S,Bhanumathi S,Betzel Ch,Yadav S,Srinivasan A,Singh TP

    更新日期：2005-03-01 00:00:00

  • Zernike phase contrast cryo-electron tomography of whole bacterial cells.

    abstract：:Cryo-electron tomography (cryo-ET) provides three-dimensional (3D) structural information of bacteria preserved in a native, frozen-hydrated state. The typical low contrast of tilt-series images, a result of both the need for a low electron dose and the use of conventional defocus phase-contrast imaging, is a challeng...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2013.09.011

    authors： Guerrero-Ferreira RC,Wright ER

    更新日期：2014-01-01 00:00:00

  • Crystal structure of thebaine 6-O-demethylase from the morphine biosynthesis pathway.

    abstract：:Thebaine 6-O-demethylase (T6ODM) from Papaver somniferum (opium poppy), which belongs to the non-heme 2-oxoglutarate/Fe(II)-dependent dioxygenases (ODD) family, is a key enzyme in the morphine biosynthesis pathway. Initially, T6ODM was characterized as an enzyme catalyzing O-demethylation of thebaine to neopinone and ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2018.01.007

    authors： Kluza A,Niedzialkowska E,Kurpiewska K,Wojdyla Z,Quesne M,Kot E,Porebski PJ,Borowski T

    更新日期：2018-06-01 00:00:00

  • Three-dimensional structure of an invertebrate intercellular communicating junction.

    abstract：:Gap junctions containing extensive, highly ordered crystalline arrays of hexagonally packed connexons have been isolated from the hepatopancreas of the arthropod, Homarus americanus (American lobster). The structure of such junctions has been studied to a resolution of approximately 25 A in three dimensions by electro...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/1047-8477(91)90075-8

    authors： Sikerwar SS,Downing KH,Glaeser RM

    更新日期：1991-06-01 00:00:00

  • Crystal structure of the N-terminal RecA-like domain of a DEAD-box RNA helicase, the Dugesia japonica vasa-like gene B protein.

    abstract：:The Dugesia japonica vasa-like gene B (DjVLGB) protein is a DEAD-box RNA helicase of a planarian, which is well known for its strong regenerative capacity. DjVLGB shares sequence similarity to the Drosophila germ-line-specific DEAD-box RNA helicase Vasa, and even higher similarity to its paralogue, mouse PL10. In this...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2005.01.006

    authors： Kurimoto K,Muto Y,Obayashi N,Terada T,Shirouzu M,Yabuki T,Aoki M,Seki E,Matsuda T,Kigawa T,Okumura H,Tanaka A,Shibata N,Kashikawa M,Agata K,Yokoyama S

    更新日期：2005-04-01 00:00:00

  • Discontinuous membrane helices in transport proteins and their correlation with function.

    abstract：:Alpha-helical bundles and beta-barrel proteins represent the two basic types of architecture known for integral membrane proteins. Irregular structural motifs have been revealed with the growing number of structures determined. "Discontinuous" helices are present in membrane proteins that actively transport ions. In t...

    journal_title：Journal of structural biology

    pub_type： 杂志文章,评审

    doi：10.1016/j.jsb.2007.01.011

    authors： Screpanti E,Hunte C

    更新日期：2007-08-01 00:00:00

  • Depth-resolved structural imaging by third-harmonic generation microscopy.

    abstract：:Third harmonic generation microscopy is shown to be a robust method for obtaining structural information on a variety of biological specimens. Its nature allows depth-resolved imaging of inhomogeneities with virtually no background from surrounding homogeneous media. With an appropriate illumination geometry, third ha...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/S1047-8477(03)00125-4

    authors： Oron D,Yelin D,Tal E,Raz S,Fachima R,Silberberg Y

    更新日期：2004-07-01 00:00:00

  • The avian malaria parasite Plasmodium gallinaceum causes marked structural changes on the surface of its host erythrocyte.

    abstract：:Using a combination of atomic force, scanning and transmission electron microscopy, we found that avian erythrocytes infected with the avian malaria parasite Plasmodium gallinaceum develop approximately 60 nm wide and approximately 430 nm long furrow-like structures on the surface. Furrows begin to appear during the e...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2008.03.005

    authors： Nagao E,Arie T,Dorward DW,Fairhurst RM,Dvorak JA

    更新日期：2008-06-01 00:00:00

  • Structure of human DPEP3 in complex with the SC-003 antibody Fab fragment reveals basis for lack of dipeptidase activity.

    abstract：:Dipeptidase 3 (DPEP3) is one of three glycosylphosphatidylinositol-anchored metallopeptidases potentially involved in the hydrolytic metabolism of dipeptides. While its exact biological function is not clear, DPEP3 expression is normally limited to testis, but can be elevated in ovarian cancer. Antibody drug conjugate...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2020.107512

    authors： Hayashi K,Longenecker KL,Koenig P,Prashar A,Hampl J,Stoll V,Vivona S

    更新日期：2020-07-01 00:00:00

  • Mutational analysis of the functional motifs in the ATPase domain of Caenorhabditis elegans fidgetin homologue FIGL-1: firm evidence for an intersubunit catalysis mechanism of ATP hydrolysis by AAA ATPases.

    abstract：:The AAA family proteins usually form a hexameric ring structure. The ATP-binding pocket, which is located at the interface of subunits in the hexamer, consists of three functionally important motifs, the Walker A and B motifs, and the second region of homology (SRH). It is well known that Walker A and B motifs mediate...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2006.03.001

    authors： Yakushiji Y,Nishikori S,Yamanaka K,Ogura T

    更新日期：2006-10-01 00:00:00

  • A transmission electron microscope study using vitrified ice sections of predentin: structural changes in the dentin collagenous matrix prior to mineralization.

    abstract：:The assembly of the collagenous organic matrix prior to mineralization is a key step in the formation of bones and teeth. This process was studied in the predentin of continuously forming rat incisors, using unstained vitrified ice sections examined in the transmission electron microscope. Progressing from the odontob...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.2000.4320

    authors： Beniash E,Traub W,Veis A,Weiner S

    更新日期：2000-12-01 00:00:00

  • Exploiting desktop supercomputing for three-dimensional electron microscopy reconstructions using ART with blobs.

    abstract：:Three-dimensional electron microscopy allows direct visualization of biological macromolecules close to their native state. The high impact of this technique in the structural biology field is highly correlated with the development of new image processing algorithms. In order to achieve subnanometer resolution, the si...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2008.09.009

    authors： Bilbao-Castro JR,Marabini R,Sorzano CO,García I,Carazo JM,Fernández JJ

    更新日期：2009-01-01 00:00:00

  • Ultrastructure of familial amyloid polyneuropathy amyloid fibrils: examination with high-resolution electron microscopy.

    abstract：:The ultrastructure of familial amyloid polyneuropathy (FAP) amyloid fibrils was examined with high-resolution electron microscopy and immunolabeling. Sural nerve biopsies from FAP (Met 30) patients as well as control tissues were prepared for thin-section observations. Extracellular spaces in the vicinity of myelinate...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1998.4052

    authors： Inoue S,Kuroiwa M,Saraiva MJ,Guimarães A,Kisilevsky R

    更新日期：1998-12-01 00:00:00

  • Higher order assembling of the mycobacterial polar growth factor DivIVA/Wag31.

    abstract：:DivIVA or Wag31, which is an essential pole organizing protein in mycobacteria, can self-assemble at the negatively curved side of the membrane at the growing pole to form a higher order structural scaffold for maintaining cellular morphology and localizing various target proteins for cell-wall biogenesis. The structu...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2019.107429

    authors： Choukate K,Gupta A,Basu B,Virk K,Ganguli M,Chaudhuri B

    更新日期：2020-02-01 00:00:00

  • How does osteocalcin lacking γ-glutamic groups affect biomimetic apatite formation and what can we say about its structure in mineral-bound form?

    abstract：:Non-collagenous proteins such as osteocalcin function as regulators of the mineralization process in bone. Osteocalcin undergoes post-translational modification adding an extra carboxylate group on three of its glutamate residues to enhance interaction with bone mineral. In this work, we examine regulation of biomimet...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2019.04.014

    authors： Iline-Vul T,Kulpanovich A,Nadav-Tsubery M,Semionov A,Keinan-Adamsky K,Goobes G

    更新日期：2019-08-01 00:00:00

  • Morphologic effects of sulfur-substituted fatty acids on rat hepatocytes with special reference to proliferation of peroxisomes and mitochondria.

    abstract：:The morphologic effects of different sulfur-substituted mono- and dicarboxylic fatty acids on rat hepatocytes have been examined. The substance 1,10-biscarboxymethylthiodecane (BCMTD) is blocked for both beta- and omega-oxidation, whereas 1-monocarboxymethylthiodecane (CMTTD) is only non-beta-oxidizable. At equimolar ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/1047-8477(90)90044-d

    authors： Kryvi H,Aarsland A,Berge RK

    更新日期：1990-05-01 00:00:00

  • Studying chaperone-proteases using a real-time approach based on FRET.

    abstract：:Chaperone-proteases are responsible for the processive breakdown of proteins in eukaryotic, archaeal and bacterial cells. They are composed of a cylinder-shaped protease lined on the interior with proteolytic sites and of ATPase rings that bind to the apical sides of the protease to control substrate entry. We present...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2009.07.003

    authors： Kolygo K,Ranjan N,Kress W,Striebel F,Hollenstein K,Neelsen K,Steiner M,Summer H,Weber-Ban E

    更新日期：2009-11-01 00:00:00

  • The structure of a COPII tubule.

    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

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.09.002

    authors： O'Donnell J,Maddox K,Stagg S

    更新日期：2011-02-01 00:00:00

  • Ultrastructural analysis of bacteriophage Φ29 during infection of Bacillus subtilis.

    abstract：:Recent advances in cryo-electron tomography (cryo-ET) have allowed direct visualization of the initial interactions between bacteriophages and their hosts. Previous studies focused on phage infection in Gram-negative bacteria but it is of particular interest how phages penetrate the thick, highly cross-linked Gram-pos...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2016.07.019

    authors： Farley MM,Tu J,Kearns DB,Molineux IJ,Liu J

    更新日期：2017-02-01 00:00:00

  • Structures of PspAG97A α-glucoside hydrolase reveal a novel mechanism for chloride induced activation.

    abstract：:Here we report the first crystal structure of a secretory α-glucoside hydrolase isolated from Pseudoalteromonas sp. K8, PspAG97A, which belongs to glycoside hydrolase family 97 and exhibits halophilic property. PspAG97A lacks an acidic surface, that is considered essential for protein stability at high salinity. Inter...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2016.09.009

    authors： He C,Li J,Li W,Xue Y,Fang Z,Fang W,Zhang X,Wang X,Xiao Y

    更新日期：2016-12-01 00:00:00

  • Long-depth imaging of specific gene expressions in whole-mount mouse embryos with single-photon excitation confocal fluorescence microscopy and FISH.

    abstract：:Long-depth imaging of specific gene expression in the midgestation whole-mount mouse embryo (WME) is demonstrated with single-photon excitation (1PE) confocal fluorescence microscopy and fluorescence in situ hybridization. Expression domains of Pax-6 mRNA transcripts were labeled with an in situ hybridization probe th...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.2000.4238

    authors： Palmes-Saloma C,Saloma C

    更新日期：2000-07-01 00:00:00

  • Bacillus licheniformis Anti-TRAP can assemble into two types of dodecameric particles with the same symmetry but inverted orientation of trimers.

    abstract：:Anti-TRAP (AT) protein regulates expression of tryptophan biosynthetic genes by binding to the trp RNA-binding attenuation protein (TRAP) and preventing its interaction with RNA. Bacillus subtilis AT forms trimers that can either interact with TRAP or can further assemble into dodecameric particles. To determine which...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.01.013

    authors： Shevtsov MB,Chen Y,Isupov MN,Leech A,Gollnick P,Antson AA

    更新日期：2010-04-01 00:00:00

  • Crystal structure of the periplasmic sensor domain of histidine kinase VbrK suggests indirect sensing of β-lactam antibiotics.

    abstract：:Bacterial two-component regulatory systems (TCS) play important roles in sensing environmental stimuli and responding to them by regulating gene expression. VbrK/VbrR, a TCS in Vibrio parahaemolyticus, confers resistance to β-lactam antibiotics through activating a β-lactamase gene. Its periplasmic sensor domain was p...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2020.107610

    authors： Goh BC,Chua YK,Qian X,Lin J,Savko M,Dedon PC,Lescar J

    更新日期：2020-11-01 00:00:00

  • Cryo-electron tomography of nanoparticle transmigration into liposome.

    abstract：:Nanoparticle transport across cell membrane plays a crucial role in the development of drug delivery systems as well as in the toxicity response induced by nanoparticles. As hydrophilic nanoparticles interact with lipid membranes and are able to induce membrane perturbations, hypothetic mechanisms based on membrane cu...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2009.07.006

    authors： Le Bihan O,Bonnafous P,Marak L,Bickel T,Trépout S,Mornet S,De Haas F,Talbot H,Taveau JC,Lambert O

    更新日期：2009-12-01 00:00:00

  • Filaments of the Ure2p prion protein have a cross-beta core structure.

    abstract：:Formation of filaments by the Ure2 protein constitutes the molecular mechanism of the [URE3] prion in yeast. According to the "amyloid backbone" model, the N-terminal asparagine-rich domains of Ure2p polymerize to form an amyloid core fibril that is surrounded by C-terminal domains in their native conformation. Protea...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2005.02.007

    authors： Baxa U,Cheng N,Winkler DC,Chiu TK,Davies DR,Sharma D,Inouye H,Kirschner DA,Wickner RB,Steven AC

    更新日期：2005-05-01 00:00:00

  • QVIEW: software for rapid selection of particles from digital electron micrographs.

    abstract：:The QVIEW image-processing software package provides a graphical user interface for interactive and rapid selection of particles from digital electron micrographs. This package was developed to facilitate the selection of elliptical, hydrophobic, and aggregating particles, which present complications for other particl...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1998.4011

    authors： Shah AK,Stewart PL

    更新日期：1998-09-01 00:00:00

  • Zernike phase contrast cryo-electron tomography of sodium-driven flagellar hook-basal bodies from Vibrio alginolyticus.

    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

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.08.004

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

    更新日期：2011-01-01 00:00:00