Experts and Doctors on protein conformation in Davis, California, United States

Summary

Locale: Davis, California, United States
Topic: protein conformation

Top Publications

  1. Li Z, Zhang Y, Hedman A, Ames J, Sacks D. Calmodulin Lobes Facilitate Dimerization and Activation of Estrogen Receptor-α. J Biol Chem. 2017;292:4614-4622 pubmed publisher
    ..In light of the critical role of ER-α in breast carcinoma, our data suggest that small molecules that selectively disrupt the interaction of ER-α with CaM may be useful in the therapy of breast carcinoma. ..
  2. de Jesus A, Allen T. The role of tryptophan side chains in membrane protein anchoring and hydrophobic mismatch. Biochim Biophys Acta. 2013;1828:864-76 pubmed publisher
  3. Erickson J, Patel R, Ferguson A, Bossuyt J, Bers D. Fluorescence resonance energy transfer-based sensor Camui provides new insight into mechanisms of calcium/calmodulin-dependent protein kinase II activation in intact cardiomyocytes. Circ Res. 2011;109:729-38 pubmed publisher
    ..This represents a first step in using Camui to elucidate key mechanistic details of CaMKII signaling in live hearts and myocytes. ..
  4. Kim I, Allen T. On the selective ion binding hypothesis for potassium channels. Proc Natl Acad Sci U S A. 2011;108:17963-8 pubmed publisher
  5. Zhang Y, Matt L, Patriarchi T, Malik Z, Chowdhury D, Park D, et al. Capping of the N-terminus of PSD-95 by calmodulin triggers its postsynaptic release. EMBO J. 2014;33:1341-53 pubmed publisher
    ..Our data indicate that CaM binding to PSD-95 serves to block palmitoylation of PSD-95, which in turn promotes Ca(2+)-induced dissociation of PSD-95 from the postsynaptic membrane. ..
  6. Aziz A, Hess J, Budamagunta M, Voss J, FitzGerald P. Site-directed spin labeling and electron paramagnetic resonance determination of vimentin head domain structure. J Biol Chem. 2010;285:15278-85 pubmed publisher
    ..These data provide the first evidence-based model of IF head domain structure. ..
  7. Phimister A, Lango J, Lee E, Ernst Russell M, Takeshima H, Ma J, et al. Conformation-dependent stability of junctophilin 1 (JP1) and ryanodine receptor type 1 (RyR1) channel complex is mediated by their hyper-reactive thiols. J Biol Chem. 2007;282:8667-77 pubmed
    ..These findings support a model in which JP1 interacts with the RyR1 channel complex in a conformationally sensitive manner and may contribute integral redox-sensing properties through reactive sulfhydryl chemistry. ..
  8. Tomczak M, Hincha D, Crowe J, Harding M, Haymet A. The effect of hydrophobic analogues of the type I winter flounder antifreeze protein on lipid bilayers. FEBS Lett. 2003;551:13-9 pubmed
    ..The different effects correlate with the helicity of the peptides and suggest that the solution conformation of the peptides has a significant role in determining the effects of the peptides on thermotropic membrane phase transitions. ..
  9. Beynon J, MacRae I, Huston S, Nelson D, Segel I, Fisher A. Crystal structure of ATP sulfurylase from the bacterial symbiont of the hydrothermal vent tubeworm Riftia pachyptila. Biochemistry. 2001;40:14509-17 pubmed
    ..Amino acid differences between the mobile loops of the enzymes from sulfate assimilators and sulfur chemolithotrophs may account for the significant kinetic differences between the two classes of ATP sulfurylase. ..

More Information

Publications89

  1. Ni L, Sun M, Yu H, Chokhawala H, Chen X, Fisher A. Cytidine 5'-monophosphate (CMP)-induced structural changes in a multifunctional sialyltransferase from Pasteurella multocida. Biochemistry. 2006;45:2139-48 pubmed
    ..Additionally, a short helix near the active site seen in the apo structure becomes disordered upon binding to CMP. This helix may swing down upon binding to donor CMP-sialic acid to form the binding pocket for an acceptor. ..
  2. Harris T, Hammock B. Soluble epoxide hydrolase: gene structure, expression and deletion. Gene. 2013;526:61-74 pubmed publisher
    ..The review ends with an overview of studies that have employed the sEH knockout mouse model. ..
  3. Kohler A, Gae D, Richley M, Stoll S, Gunn A, Lim S, et al. Structural basis for hydration dynamics in radical stabilization of bilin reductase mutants. Biochemistry. 2010;49:6206-18 pubmed publisher
  4. de Jesus A, Allen T. The determinants of hydrophobic mismatch response for transmembrane helices. Biochim Biophys Acta. 2013;1828:851-63 pubmed publisher
    ..This comparison of energetic driving forces of mismatch responses allows for deeper insight into protein stability and conformational changes in lipid membranes. ..
  5. Morisseau C, Goodrow M, Newman J, Wheelock C, Dowdy D, Hammock B. Structural refinement of inhibitors of urea-based soluble epoxide hydrolases. Biochem Pharmacol. 2002;63:1599-608 pubmed
    ..The resulting compounds had a 2-fold higher water solubility. These findings will facilitate the rational design and optimization of sEH inhibitors with better physical properties. ..
  6. Kryshtafovych A, Moult J, Bartual S, Bazan J, Berman H, Casteel D, et al. Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction. Proteins. 2011;79 Suppl 10:6-20 pubmed publisher
  7. Xu F, Berka R, Wahleithner J, Nelson B, Shuster J, Brown S, et al. Site-directed mutations in fungal laccase: effect on redox potential, activity and pH profile. Biochem J. 1998;334 ( Pt 1):63-70 pubmed
    ..The observed effects are interpreted as possible mutation-induced structural perturbations on the molecular recognition between the reducing substrate and laccase and on the electron transfer from the substrate to the type-1 Cu centre. ..
  8. Wu C, Lei H, Wang Z, Zhang W, Duan Y. Phenol red interacts with the protofibril-like oligomers of an amyloidogenic hexapeptide NFGAIL through both hydrophobic and aromatic contacts. Biophys J. 2006;91:3664-72 pubmed
    ..Further free energy analysis suggested that a phenol red analog may potentially improve the binding affinity. ..
  9. Mogilner A, Oster G. Force generation by actin polymerization II: the elastic ratchet and tethered filaments. Biophys J. 2003;84:1591-605 pubmed
    ..We also discuss "symmetry breaking" dynamics observed in ActA-coated bead experiments, and the implications of the model for lamellipodial protrusion in migrating cells. ..
  10. Vorobyov I, Bekker B, Allen T. Electrostatics of deformable lipid membranes. Biophys J. 2010;98:2904-13 pubmed publisher
  11. Skoufias D, Cole D, Wedaman K, Scholey J. The carboxyl-terminal domain of kinesin heavy chain is important for membrane binding. J Biol Chem. 1994;269:1477-85 pubmed
    ..Our results support the hypothesis that the carboxyl-terminal domains of the heavy chains attach kinesin molecules to their membranous cargo in mitotic and interphase sea urchin cells. ..
  12. Stoll S, Lee Y, Zhang M, Wilson R, Britt R, Goodin D. Double electron-electron resonance shows cytochrome P450cam undergoes a conformational change in solution upon binding substrate. Proc Natl Acad Sci U S A. 2012;109:12888-93 pubmed publisher
    ..This approach should be useful for investigating many other P450s, including mammalian forms, in which the role of conformational change is of central importance but not well understood. ..
  13. Kavanagh K, Klimacek M, Nidetzky B, Wilson D. The structure of apo and holo forms of xylose reductase, a dimeric aldo-keto reductase from Candida tenuis. Biochemistry. 2002;41:8785-95 pubmed
    ..Modeling of xylose into the active site of the holoenzyme using ordered waters as a guide for sugar hydroxyls suggests a convincing mode of substrate binding. ..
  14. Chen Y, Xue S, Zou J, Lopez J, Yang J, Perez C. Myoplasmic resting Ca2+ regulation by ryanodine receptors is under the control of a novel Ca2+-binding region of the receptor. Biochem J. 2014;460:261-71 pubmed publisher
    ..The identification of a new Ca2+-binding domain of RyRs with a key modulatory role in [Ca2+]rest regulation provides new insights into Ca2+-mediated regulation of RyRs. ..
  15. Addington T, Mertz R, Siegel J, Thompson J, Fisher A, Filkov V, et al. Janus: prediction and ranking of mutations required for functional interconversion of enzymes. J Mol Biol. 2013;425:1378-89 pubmed publisher
    ..Methods such as this, coupled with computational modeling, may prove invaluable in furthering our understanding of enzyme catalysis and engineering. ..
  16. Lin C, Isbell M, Morin D, Boland B, Salemi M, Jewell W, et al. Characterization of a structurally intact in situ lung model and comparison of naphthalene protein adducts generated in this model vs lung microsomes. Chem Res Toxicol. 2005;18:802-13 pubmed
    ..The proteins adducted and identified from in situ incubations were not the same proteins identified from microsomal incubations. ..
  17. Xu X, Olson C, Engman D, Ames J. NMR structure of the calflagin Tb24 flagellar calcium binding protein of Trypanosoma brucei. Protein Sci. 2012;21:1942-7 pubmed publisher
  18. Tuluc P, Yarov Yarovoy V, Benedetti B, Flucher B. Molecular Interactions in the Voltage Sensor Controlling Gating Properties of CaV Calcium Channels. Structure. 2016;24:261-71 pubmed publisher
    ..These interactions facilitate the final transition into the activated state and critically determine the voltage sensitivity and current amplitude of these CaV channels. ..
  19. Chen T, Hwang T. CLC-0 and CFTR: chloride channels evolved from transporters. Physiol Rev. 2008;88:351-87 pubmed publisher
    ..A promising byproduct of this exercise is a deeper mechanistic insight into how different transport proteins work at a fundamental level...
  20. Lackner L, Horner J, Nunnari J. Mechanistic analysis of a dynamin effector. Science. 2009;325:874-7 pubmed publisher
    ..The nucleation of DRP assembly probably represents a general regulatory strategy for this family of filament-forming proteins, similar to F-actin regulation. ..
  21. Wimmers L, Ewing N, Bennett A. Higher plant Ca(2+)-ATPase: primary structure and regulation of mRNA abundance by salt. Proc Natl Acad Sci U S A. 1992;89:9205-9 pubmed
    ..Lycopersicon Ca(2+)-ATPase mRNA levels increase dramatically upon a 1-day exposure to 50 mM NaCl. Thus this report describes the primary structure of a higher-plant Ca(2+)-ATPase and the regulation of its mRNA abundance by salt stress. ..
  22. Renosto F, Martin R, Borrell J, Nelson D, Segel I. ATP sulfurylase from trophosome tissue of Riftia pachyptila (hydrothermal vent tube worm). Arch Biochem Biophys. 1991;290:66-78 pubmed
    ..e., the physiological reaction is APS + MgPPi in equilibrium SO4(2-) + MgATP. ..
  23. Kawano M, Xing L, Tsukamoto H, Inoue T, Handa H, Cheng R. Calcium bridge triggers capsid disassembly in the cell entry process of simian virus 40. J Biol Chem. 2009;284:34703-12 pubmed publisher
    ..Our data also indicate that calcium depletion-induced SV40 capsid disassembly may occur in the ER region and that this is essential for successful SV40 infection...
  24. Zhang D, Nandi S, Bryan P, Pettit S, Nguyen D, Santos M, et al. Expression, purification, and characterization of recombinant human transferrin from rice (Oryza sativa L.). Protein Expr Purif. 2010;74:69-79 pubmed publisher
  25. Gay S, Segel I, Fisher A. Structure of the two-domain hexameric APS kinase from Thiobacillus denitrificans: structural basis for the absence of ATP sulfurylase activity. Acta Crystallogr D Biol Crystallogr. 2009;65:1021-31 pubmed publisher
    ..Therefore, these results provide the first structural insights into a unique hexameric APS kinase that contains a nonfunctional ATP sulfurylase-like domain of unknown function...
  26. Payne J. Molecular operation of the cation chloride cotransporters: ion binding and inhibitor interaction. Curr Top Membr. 2012;70:215-37 pubmed publisher
    ..These homology models provide our first glimpse into the fine details of the molecular operation of the CCCs. ..
  27. Couch V, Medvedev E, Stuchebrukhov A. Electrostatics of the FeS clusters in respiratory complex I. Biochim Biophys Acta. 2009;1787:1266-71 pubmed publisher
    ..A simple electrostatic model of the protein/membrane system is examined to illustrate the viability of our hypothesis. ..
  28. Myers W, Xu X, Li C, Lagerstedt J, Budamagunta M, Voss J, et al. Double electron-electron resonance probes Ca²?-induced conformational changes and dimerization of recoverin. Biochemistry. 2013;52:5800-8 pubmed publisher
    ..The DEER approach will be useful for elucidating dimeric structures of NCS proteins in general for which Ca²?-induced dimerization is functionally important but not well understood. ..
  29. Lin J, Singh R, Cox D. Theoretical study of DNA damage recognition via electron transfer from the [4Fe-4S] complex of MutY. Biophys J. 2008;95:3259-68 pubmed publisher
    ..We suggest a scenario where the charge transfer leads to a stabilization of the specific binding conformation, which is likely the recognition mode, thus enabling it to find the damaged site efficiently. ..
  30. Mukherjee S, Wright W, Ehmsen K, Heyer W. The Mus81-Mms4 structure-selective endonuclease requires nicked DNA junctions to undergo conformational changes and bend its DNA substrates for cleavage. Nucleic Acids Res. 2014;42:6511-22 pubmed publisher
    ..These data suggest that mutually compatible conformational changes of Mus81-Mms4 and its substrates tailor its incision activity to nicked junction molecules...
  31. Lynch E, Hicks D, Shepherd M, Endrizzi J, Maker A, Hansen J, et al. Human CTP synthase filament structure reveals the active enzyme conformation. Nat Struct Mol Biol. 2017;24:507-514 pubmed publisher
    ..Allosteric regulation of CTPS polymerization by ligands likely represents a fundamental mechanism underlying assembly of other metabolic filaments. ..
  32. di Luccio E, Wilson D. Comprehensive X-ray structural studies of the quinolinate phosphoribosyl transferase (BNA6) from Saccharomyces cerevisiae. Biochemistry. 2008;47:4039-50 pubmed publisher
    ..These results allow insight into the kinetic mechanism of QAPRTase and provide an understanding of structural diversity in the active site of the Saccharomyces cerevisiae enzyme when compared to prokaryotic homologues. ..
  33. Popovic D, Stuchebrukhov A. Proton exit channels in bovine cytochrome c oxidase. J Phys Chem B. 2005;109:1999-2006 pubmed
    ..The obtained results are fully consistent with our His291 model of proton pumping, and provide a rationale for the absence of proton leaking in CcO between the pumping strokes. ..
  34. Tramontano A, Makker S. Conformation and glycosylation of a megalin fragment correlate with nephritogenicity in Heymann nephritis. J Immunol. 2004;172:2367-73 pubmed
    ..Glycosidic modifications could influence the presentation of either B or T cell epitopes in AHN, consistent with emerging evidence of the role of post-translational modifications in pathogenic autoimmune responses. ..
  35. Makarov E, Oleinikov A, Zecherle G, Traut R. Zero-length cross-linking of the C-terminal domain of Escherichia coli ribosomal protein L7/L12 to L10 in the ribosome and in the (L7/L12)4-L10 pentameric complex. Biochimie. 1993;75:963-9 pubmed
    ..The L7/L12Cys89-L10Cys70 cross-link in the pentameric L8 complex implies that the protein can exist in this bent conformation there as well as in the ribosome. ..
  36. Endrizzi J, Kim H, Anderson P, Baldwin E. Crystal structure of Escherichia coli cytidine triphosphate synthetase, a nucleotide-regulated glutamine amidotransferase/ATP-dependent amidoligase fusion protein and homologue of anticancer and antiparasitic drug targets. Biochemistry. 2004;43:6447-63 pubmed publisher
    ..Overall, the E. coli structure provides a framework for homology modeling of other CTPSs and structure-based design of anti-CTPS therapeutics...
  37. Dicus M, Conlan A, Nechushtai R, Jennings P, Paddock M, Britt R, et al. Binding of histidine in the (Cys)3(His)1-coordinated [2Fe-2S] cluster of human mitoNEET. J Am Chem Soc. 2010;132:2037-49 pubmed publisher
    ..The parameters determined in this work can function as reporters on how the cluster structure is altered upon pH changes and drug binding. ..
  38. Liu W, Peterson P, Langston J, Jin X, Zhou X, Fisher A, et al. Kinetic and crystallographic analysis of active site mutants of Escherichia coli gamma-aminobutyrate aminotransferase. Biochemistry. 2005;44:2982-92 pubmed
  39. Van Hoozen C, Ling E, Halsted C. Folate binding protein: molecular characterization and transcript distribution in pig liver, kidney and jejunum. Biochem J. 1996;319 ( Pt 3):725-9 pubmed
    ..Although defining the molecular structure of pig liver FBP, these studies suggest that this protein participates in the regulation of folate uptake by liver and kidney membranes but is not involved in folate absorption. ..
  40. Wedaman K, Meyer D, Rashid D, Cole D, Scholey J. Sequence and submolecular localization of the 115-kD accessory subunit of the heterotrimeric kinesin-II (KRP85/95) complex. J Cell Biol. 1996;132:371-80 pubmed
    ..Despite the lack of sequence conservation outside the motor domains, there is striking conservation of the ultrastructure of the kinesin and kinesin-II holoenzymes...
  41. DeVay R, Dominguez Ramirez L, Lackner L, Hoppins S, Stahlberg H, Nunnari J. Coassembly of Mgm1 isoforms requires cardiolipin and mediates mitochondrial inner membrane fusion. J Cell Biol. 2009;186:793-803 pubmed publisher
  42. Hagiwara N. Sox6, jack of all trades: a versatile regulatory protein in vertebrate development. Dev Dyn. 2011;240:1311-21 pubmed publisher
    ..To date, Sox6 has been reported to regulate differentiation of tissues of mesoderm, ectoderm, and endoderm origins, making Sox6 a truly multifaceted transcription factor. ..
  43. Lei H, Wu C, Wang Z, Duan Y. Molecular dynamics simulations and free energy analyses on the dimer formation of an amyloidogenic heptapeptide from human beta2-microglobulin: implication for the protofibril structure. J Mol Biol. 2006;356:1049-63 pubmed
    ..A double-layer protofibril structure is also proposed in which two antiparallel beta-sheets face each other and are held together by hydrophobic staples and hydrogen bonds of the polar side-chains. ..
  44. Span E, Suess D, Deller M, Britt R, Marletta M. The Role of the Secondary Coordination Sphere in a Fungal Polysaccharide Monooxygenase. ACS Chem Biol. 2017;12:1095-1103 pubmed publisher
    ..Altogether, H161 and Q167 are important for oxygen activation, and the results are suggestive of a copper-oxyl active intermediate. ..
  45. Page S, Hawley R. c(3)G encodes a Drosophila synaptonemal complex protein. Genes Dev. 2001;15:3130-43 pubmed
    ..Moreover, the observation of interference among the residual exchanges in these mutant oocytes implies that complete SC formation is not required for crossover interference in Drosophila. ..
  46. Ford M, Jenni S, Nunnari J. The crystal structure of dynamin. Nature. 2011;477:561-6 pubmed publisher
  47. Farboud B, Hauksdottir H, Wu Y, Privalsky M. Isotype-restricted corepressor recruitment: a constitutively closed helix 12 conformation in retinoic acid receptors beta and gamma interferes with corepressor recruitment and prevents transcriptional repression. Mol Cell Biol. 2003;23:2844-58 pubmed
    ..We refer to this phenomenon as a "gate-latch" model of corepressor regulation. ..
  48. Li Y, Syvitski R, Auclair K, de Montellano P, La Mar G. 1H NMR investigation of the solution structure of substrate-free human heme oxygenase: comparison to the cyanide-inhibited, substrate-bound complex. J Biol Chem. 2004;279:10195-205 pubmed
  49. Signor D, Wedaman K, Rose L, Scholey J. Two heteromeric kinesin complexes in chemosensory neurons and sensory cilia of Caenorhabditis elegans. Mol Biol Cell. 1999;10:345-60 pubmed
  50. Harris P, Welner D, McFarland K, Re E, Navarro Poulsen J, Brown K, et al. Stimulation of lignocellulosic biomass hydrolysis by proteins of glycoside hydrolase family 61: structure and function of a large, enigmatic family. Biochemistry. 2010;49:3305-16 pubmed publisher
  51. Cozzetto D, Kryshtafovych A, Fidelis K, Moult J, Rost B, Tramontano A. Evaluation of template-based models in CASP8 with standard measures. Proteins. 2009;77 Suppl 9:18-28 pubmed publisher
  52. di Luccio E, Elling R, Wilson D. Identification of a novel NADH-specific aldo-keto reductase using sequence and structural homologies. Biochem J. 2006;400:105-14 pubmed
    ..This should allow improved prediction of co-substrate specificity and provide a basis for engineering enzymes with altered co-substrate utilization for this class of enzymes. ..
  53. Wogulis M, Chew E, Donohoue P, Wilson D. Identification of formyl kynurenine formamidase and kynurenine aminotransferase from Saccharomyces cerevisiae using crystallographic, bioinformatic and biochemical evidence. Biochemistry. 2008;47:1608-21 pubmed publisher
    ..Biochemical, bioinformatics, genetic and in vivo metabolite data derived from LC-MS demonstrate that YDR428C, which we have designated BNA7, is the yeast FKF. ..
  54. Myers W, Lee Y, Britt R, Goodin D. The conformation of P450cam in complex with putidaredoxin is dependent on oxidation state. J Am Chem Soc. 2013;135:11732-5 pubmed publisher
    ..The opening of the enzyme in the ferric-hydroperoxo state following electron transfer from Pdx would provide for efficient O2 bond activation, substrate oxidation, and product release. ..
  55. Smit McBride Z, Dever T, Hershey J, Merrick W. Sequence determination and cDNA cloning of eukaryotic initiation factor 4D, the hypusine-containing protein. J Biol Chem. 1989;264:1578-83 pubmed
    ..eIF-4D possesses rather little secondary structure in the amino-terminal two-thirds of the protein, but the carboxyl-terminal third is rich in alpha helices. ..
  56. Oda T, Yang Y, Nitu F, Svensson B, Lu X, Fruen B, et al. In cardiomyocytes, binding of unzipping peptide activates ryanodine receptor 2 and reciprocally inhibits calmodulin binding. Circ Res. 2013;112:487-97 pubmed publisher
    ..DPc10-binding and CaM-binding sites are distinct but are allosterically interacting RyR2 sites. Neither DPc10 nor FKBP12.6 influences RyR2 binding of the other. ..
  57. Zeng X, Stahlberg H, Grigorieff N. A maximum likelihood approach to two-dimensional crystals. J Struct Biol. 2007;160:362-74 pubmed
    ..Compared with crystallographic processing, the newly developed software yields better resolution for 2D crystal images of lower crystal quality, and it performs equally well for well-ordered crystal images. ..
  58. Lansdon E, Segel I, Fisher A. Ligand-induced structural changes in adenosine 5'-phosphosulfate kinase from Penicillium chrysogenum. Biochemistry. 2002;41:13672-80 pubmed
    ..The structure of the binary E.ADP complex revealed further changes in the active site and N-terminal helix that occur upon the binding/release of (P)APS. ..
  59. Zhou G, Troy F. Characterization by NMR and molecular modeling of the binding of polyisoprenols and polyisoprenyl recognition sequence peptides: 3D structure of the complexes reveals sites of specific interactions. Glycobiology. 2003;13:51-71 pubmed
  60. Li Y, Chen X. Sialic acid metabolism and sialyltransferases: natural functions and applications. Appl Microbiol Biotechnol. 2012;94:887-905 pubmed publisher
    ..This mini-review focuses on current understanding and applications of sialic acid metabolism and sialyltransferases. ..
  61. Bonde B, Sharif M, Privalsky M. Ontogeny of the v-erbA oncoprotein from the thyroid hormone receptor: an alteration in the DNA binding domain plays a role crucial for v-erbA function. J Virol. 1991;65:2037-46 pubmed
  62. Chen M, Chen T. Side-chain charge effects and conductance determinants in the pore of ClC-0 chloride channels. J Gen Physiol. 2003;122:133-45 pubmed
    ..On the other hand, the Cl--binding site at the selectivity filter controls the exit rate of Cl- and therefore determines the maximal channel conductance...
  63. Xu X, Ishima R, Ames J. Conformational dynamics of recoverin's Ca2+-myristoyl switch probed by 15N NMR relaxation dispersion and chemical shift analysis. Proteins. 2011;79:1910-22 pubmed publisher
    ..We propose that millisecond dynamics during T ? I may transiently increase the exposure of Ca(2+)-binding sites to initiate Ca(2+) binding that drives extrusion of the myristoyl group during I ? R...
  64. Gilkerson J, Hu J, Brown J, Jones A, Sun T, Callis J. Isolation and characterization of cul1-7, a recessive allele of CULLIN1 that disrupts SCF function at the C terminus of CUL1 in Arabidopsis thaliana. Genetics. 2009;181:945-63 pubmed publisher
    ..This mutation represents the first reported allele of CUL1 to directly affect subunit interactions at the CUL1 C terminus. ..
  65. Sarantos M, Raychaudhuri S, Lum A, Staunton D, Simon S. Leukocyte function-associated antigen 1-mediated adhesion stability is dynamically regulated through affinity and valency during bond formation with intercellular adhesion molecule-1. J Biol Chem. 2005;280:28290-8 pubmed
    ..These data reveal the respective importance of LFA-1 affinity and proximity in tuning bond lifetime with ICAM-1 and demonstrate a nonlinear increase in the bond lifetime of the dimer versus the monomer at higher affinity. ..
  66. Yang F, Cui Y, Wang K, Zheng J. Thermosensitive TRP channel pore turret is part of the temperature activation pathway. Proc Natl Acad Sci U S A. 2010;107:7083-8 pubmed publisher
    ..These observations suggest that the turret is part of the temperature-sensing apparatus in thermoTRP channels, and its conformational change may give rise to the large entropy that defines high temperature sensitivity. ..
  67. Privalsky M. Activation incarnate. Dev Cell. 2003;5:1-2 pubmed
    ..Three new publications reveal that the nuclear receptors LRH-1, DHR38, and Nurr1 can assume active conformations in the absence of a ligand agonist. These reports help elucidate how transcriptional regulators are themselves regulated. ..
  68. Francis Lyon P, Gu S, Hass J, Amenta N, Koehl P. Sampling the conformation of protein surface residues for flexible protein docking. BMC Bioinformatics. 2010;11:575 pubmed publisher
    ..Overall, in 650 of 700 test patches we produce a candidate that is either within 1 Å RMSD of the bound conformation or is closer to the bound state than the unbound is. ..
  69. Ingerman E, Perkins E, Marino M, Mears J, McCaffery J, Hinshaw J, et al. Dnm1 forms spirals that are structurally tailored to fit mitochondria. J Cell Biol. 2005;170:1021-7 pubmed
    ..These data suggest that Dnm1 has evolved to form structures that fit the dimensions of mitochondria. ..
  70. Richman D, Yu Y, Lee T, Tseng P, Yu W, Maselli R, et al. Dominantly inherited myotonia congenita resulting from a mutation that increases open probability of the muscle chloride channel CLC-1. Neuromolecular Med. 2012;14:328-37 pubmed publisher
    ..Since expression levels of the mutant and wild-type subunits in artificial model cell systems were unable to explain the disease symptoms, the mechanism leading to dominant inheritance in this family remains to be determined...
  71. Zhang X, Galkin V, Yu X, Egelman E, Heyer W. Loop 2 in Saccharomyces cerevisiae Rad51 protein regulates filament formation and ATPase activity. Nucleic Acids Res. 2009;37:158-71 pubmed publisher
    ..No significant changes in the interaction between Rad51-K342E and Rad54 could be identified. These findings suggest that loop 2 contributes to the primary DNA-binding site in Rad51, controlling filament formation and ATPase activity. ..
  72. Kruckeberg A, Bisson L. The HXT2 gene of Saccharomyces cerevisiae is required for high-affinity glucose transport. Mol Cell Biol. 1990;10:5903-13 pubmed
    ..Low-stringency Southern blot analysis revealed a number of other sequences that cross-hybridize with HXT2, suggesting that S. cerevisiae possesses a large family of sugar transporter genes. ..
  73. Leal W, Ishida Y, Pelletier J, Xu W, Rayo J, Xu X, et al. Olfactory proteins mediating chemical communication in the navel orangeworm moth, Amyelois transitella. PLoS ONE. 2009;4:e7235 pubmed publisher
    ..Of these, AtraPBP1 is highly enriched in male antennae. Fluorescence, CD and NMR studies suggest a dramatic pH-dependent conformational change, with high affinity to pheromone constituents at neutral pH and no binding at low pH. ..
  74. Yerby T, Vibat C, Sun D, Payne J, O Donnell M. Molecular characterization of the Na-K-Cl cotransporter of bovine aortic endothelial cells. Am J Physiol. 1997;273:C188-97 pubmed
    ..5-kb transcripts in a number of bovine tissues. Finally, a prominent expression of Na-K-Cl cotransporter was found by Western blot analysis in both cultured and freshly isolated endothelial cells of bovine aorta and cerebral microvessels...
  75. Tieu Q, Nunnari J. Mdv1p is a WD repeat protein that interacts with the dynamin-related GTPase, Dnm1p, to trigger mitochondrial division. J Cell Biol. 2000;151:353-66 pubmed
  76. Monastyrskyy B, Fidelis K, Moult J, Tramontano A, Kryshtafovych A. Evaluation of disorder predictions in CASP9. Proteins. 2011;79 Suppl 10:107-18 pubmed publisher
    ..It was also shown that capability of most CASP9 methods to predict disorder decreases with increasing minimum disorder segment length. ..
  77. Kashina A, Baskin R, Cole D, Wedaman K, Saxton W, Scholey J. A bipolar kinesin. Nature. 1996;379:270-2 pubmed
    ..Such a bipolar 'minifilament' could crosslink spindle MTs and slide them relative to one another. We do not know of any other MT motors that have a bipolar structure. ..
  78. Ehrensberger A, Wilson D. Structural and catalytic diversity in the two family 11 aldo-keto reductases. J Mol Biol. 2004;337:661-73 pubmed
    ..A comparison of the apo and holo forms of AKR11A demonstrates that the cosubstrate does not play the dramatic role in active site assembly seen in other superfamily members. ..
  79. Doblin M, Kurek I, Jacob Wilk D, Delmer D. Cellulose biosynthesis in plants: from genes to rosettes. Plant Cell Physiol. 2002;43:1407-20 pubmed
    ..These proteins should prove valuable in identifying additional CelS components. ..
  80. Staadt O, Natarajan V, Weber G, Wiley D, Hamann B. Interactive processing and visualization of image data for biomedical and life science applications. BMC Cell Biol. 2007;8 Suppl 1:S10 pubmed
    ..We demonstrated that interactive processing and visualization methods and systems can support scientists in a variety of biomedical and life science application areas concerned with massive data analysis. ..