Structural analysis of lipocalin-type prostaglandin D synthase complexed with biliverdin by small-angle X-ray scattering and multi-dimensional NMR.

[1]  G. Fournet,et al.  Small‐Angle Scattering of X‐Rays , 1956 .

[2]  U. Cogan,et al.  Binding affinities of retinol and related compounds to retinol binding proteins. , 1976, European journal of biochemistry.

[3]  K. Wüthrich.  NMR of proteins and nucleic acids , 1988 .

[4]  K. Brew,et al.  Homology and structure‐function correlations between α1 ‐acid glycoprotein and serum retinol‐binding protein and its relatives , 1987, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[5]  G. Scott,et al.  Bilirubin and the induction of intracranial arterial spasm. , 1988, Journal of neurosurgery.

[6]  T A Jones,et al.  Crystallographic refinement of human serum retinol binding protein at 2Å resolution , 1990, Proteins.

[7]  J. Ghiso,et al.  Isolation and amino terminal sequence of β-trace, a novel protein from human cerebrospinal fluid , 1991, Brain Research.

[8]  R. Matran,et al.  The possible role of prostaglandin D2 in the long-lasting airways vasodilatation induced by allergen in the sensitized pig. , 1991, Acta physiologica Scandinavica.

[9]  Dmitri I. Svergun,et al.  Determination of the regularization parameter in indirect-transform methods using perceptual criteria , 1992 .

[10]  V. Saudek,et al.  Gradient-tailored excitation for single-quantum NMR spectroscopy of aqueous solutions , 1992, Journal of biomolecular NMR.

[11]  G. Gross,et al.  Purification and Chemical Characterization of β‐Trace Protein from Human Cerebrospinal Fluid: Its Identification as Prostaglandin D Synthase , 1993 .

[12]  L. Kay,et al.  Two-dimensional NMR experiments for correlating carbon-13.beta. and proton.delta./.epsilon. chemical shifts of aromatic residues in 13C-labeled proteins via scalar couplings , 1993 .

[13]  R. Aebersold,et al.  Identification of a brain-specific human cerebrospinal fluid glycoprotein, beta-trace protein. , 1993, Applied and theoretical electrophoresis : the official journal of the International Electrophoresis Society.

[14]  T. Kaneko,et al.  Dominant expression of mRNA for prostaglandin D synthase in leptomeninges, choroid plexus, and oligodendrocytes of the adult rat brain. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[15]  S. Grzesiek,et al.  Resonance assignment of methionine methyl groups and χ3angular information from long-range proton—carbon and carbon—carbon J correlation in a calmodulin—peptide complex , 1994, Journal of biomolecular NMR.

[16]  D. Svergun,et al.  CRYSOL : a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates , 1995 .

[17]  L. Kay,et al.  Pulsed field gradient multi-dimensional NMR methods for the study of protein structure and dynamics in solution. , 1995, Progress in biophysics and molecular biology.

[18]  S. Grzesiek,et al.  NMRPipe: A multidimensional spectral processing system based on UNIX pipes , 1995, Journal of biomolecular NMR.

[19]  R. Hodges,et al.  1H, 13C and 15N random coil NMR chemical shifts of the common amino acids. I. Investigations of nearest-neighbor effects , 1995, Journal of biomolecular NMR.

[20]  D. Dumitrascu.  Mast cells as potent inflammatory cells. , 1996, Romanian journal of internal medicine = Revue roumaine de medecine interne.

[21]  J. Thornton,et al.  AQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR , 1996, Journal of biomolecular NMR.

[22]  D R Flower,et al.  The lipocalin protein family: structure and function. , 1996, The Biochemical journal.

[23]  I. Kuntz,et al.  Bile pigments as HIV-1 protease inhibitors and their effects on HIV-1 viral maturation and infectivity in vitro. , 1996, The Biochemical journal.

[24]  M. Billeter,et al.  MOLMOL: a program for display and analysis of macromolecular structures. , 1996, Journal of molecular graphics.

[25]  Y. Urade,et al.  Lipocalin-type Prostaglandin D Synthase (β-Trace) Is a Newly Recognized Type of Retinoid Transporter* , 1997, The Journal of Biological Chemistry.

[26]  B. Silvestrini,et al.  Quantification of prostaglandin D synthetase in cerebrospinal fluid: A potential marker for brain tumor , 1998, Biochemistry and molecular biology international.

[27]  R. Nau,et al.  β‐Trace protein in cerebrospinal fluid: A blood–CSF barrier–related evaluation in neurological diseases , 1998, Annals of neurology.

[28]  Y. Urade,et al.  Enhancement of lipocalin-type prostaglandin D synthase enzyme activity by guanidine hydrochloride. , 1999, Biochemical and biophysical research communications.

[29]  Y. Urade,et al.  Acute and transient increase of lipocalin-type prostaglandin D synthase (β-trace) level in cerebrospinal fluid of patients with aneurysmal subarachnoid hemorrhage , 1999, Neuroscience Letters.

[30]  D I Svergun,et al.  Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing. , 1999, Biophysical journal.

[31]  R. Pattanayek,et al.  Protein and ligand adaptation in a retinoic acid binding protein , 1999, Protein science : a publication of the Protein Society.

[32]  H. Toh,et al.  Binding of biliverdin, bilirubin, and thyroid hormones to lipocalin-type prostaglandin D synthase. , 1999, Biochemistry.

[33]  A. Bax,et al.  Protein backbone angle restraints from searching a database for chemical shift and sequence homology , 1999, Journal of biomolecular NMR.

[34]  G. Boers,et al.  beta-Trace protein in human cerebrospinal fluid: a diagnostic marker for N-glycosylation defects in brain. , 1999, Biochimica et biophysica acta.

[35]  S. Narumiya,et al.  Prostaglandin D2 as a mediator of allergic asthma. , 2000, Science.

[36]  Y. Urade,et al.  Prostaglandin D synthase: structure and function. , 2000, Vitamins and hormones.

[37]  D. Sanchez,et al.  A phylogenetic analysis of the lipocalin protein family. , 2000, Molecular biology and evolution.

[38]  D. Harris,et al.  Oxidative degradation of bilirubin produces vasoactive compounds. , 2000, European journal of biochemistry.

[39]  D R Flower,et al.  The lipocalin protein family: structural and sequence overview. , 2000, Biochimica et biophysica acta.

[40]  Y. Urade,et al.  Biochemical, structural, genetic, physiological, and pathophysiological features of lipocalin-type prostaglandin D synthase. , 2000, Biochimica et biophysica acta.

[41]  Dmitri I. Svergun,et al.  Automated matching of high- and low-resolution structural models , 2001 .

[42]  D I Svergun,et al.  Determination of domain structure of proteins from X-ray solution scattering. , 2001, Biophysical journal.

[43]  C. Dempsey.  Hydrogen exchange in peptides and proteins using NMR spectroscopy , 2001 .

[44]  Y. Urade,et al.  Lipocalin-type prostaglandin D synthase in cerebrospinal fluid of patients with aneurysmal subarachnoid hemorrhage scavenges bile pigments , 2002 .

[45]  Y. Urade,et al.  Lipocalin-type and hematopoietic prostaglandin D synthases as a novel example of functional convergence. , 2002, Prostaglandins & other lipid mediators.

[46]  F. Sharp,et al.  Oxidation of Bilirubin Produces Compounds that Cause Prolonged Vasospasm of Rat Cerebral Vessels: A Contributor to Subarachnoid Hemorrhage–Induced Vasospasm , 2002, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.

[47]  Y. Urade,et al.  Lipocalin-type prostaglandin D synthase (beta-trace) in cerebrospinal fluid: a useful marker for the diagnosis of normal pressure hydrocephalus , 2003, Neuroscience Research.

[48]  I. Bertini,et al.  A use of Ramachandran potentials in protein solution structure determinations , 2003, Journal of biomolecular NMR.

[49]  Y. Urade,et al.  Characterization of the Unfolding Process of Lipocalin-type Prostaglandin D Synthase* , 2003, The Journal of Biological Chemistry.

[50]  Dmitri I. Svergun,et al.  Uniqueness of ab initio shape determination in small-angle scattering , 2003 .

[51]  D. Svergun,et al.  Conformational Variability of Nucleo-cytoplasmic Transport Factors* , 2004, Journal of Biological Chemistry.

[52]  N. Yagi,et al.  Present Status of BL40B2 and BL40XU at SPring-8 (Beamlines for Small Angle X-ray Scattering) , 2004 .

[53]  I. Korndörfer,et al.  The 1.8-Å Crystal Structure of Human Tear Lipocalin Reveals an Extended Branched Cavity with Capacity for Multiple Ligands* , 2005, Journal of Biological Chemistry.

[54]  Y. Urade,et al.  Lipocalin‐type prostaglandin D synthase is up‐regulated in oligodendrocytes in lysosomal storage diseases and binds gangliosides , 2006, Journal of neurochemistry.

[55]  David Perahia,et al.  Odorant Binding and Conformational Dynamics in the Odorant-binding Protein* , 2006, Journal of Biological Chemistry.

[56]  Y. Urade,et al.  NMR Solution Structure of Lipocalin-type Prostaglandin D Synthase , 2007, Journal of Biological Chemistry.

[57]  A. Brunger.  Version 1.2 of the Crystallography and NMR system , 2007, Nature Protocols.

[58]  A. Skerra,et al.  Structural Insight into the Dual Ligand Specificity and Mode of High Density Lipoprotein Association of Apolipoprotein D*♦ , 2007, Journal of Biological Chemistry.

[59]  T. Konuma,et al.  Promiscuous binding of ligands by beta-lactoglobulin involves hydrophobic interactions and plasticity. , 2007, Journal of molecular biology.

[60]  Y. Urade,et al.  Lipocalin-type prostaglandin D synthase/β-trace is a major amyloid β-chaperone in human cerebrospinal fluid , 2007, Proceedings of the National Academy of Sciences.

[61]  Y. Urade,et al.  Thermal unfolding mechanism of lipocalin‐type prostaglandin D synthase , 2008, The FEBS journal.

[62]  Y. Urade,et al.  Compact packing of lipocalin-type prostaglandin D synthase induced by binding of lipophilic ligands. , 2008, Journal of biochemistry.