AQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR

Laskowski, RomanA., Rullmann, J.AntoonC., MacArthur, MalcolmW., Kaptein, Robert, Thornton, JanetM.·1996·Journal of Biomolecular NMR

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Items 501–600 of 1,009

  1. Structure of the anchor-domain of myristoylated and non-myristoylated HIV-1 Nef protein 1 1Edited by A. R. Fersht
    Matthias Geyer, Cláudia Elisabeth Munte, Jacqueline Schorr, Roland Kellner, Hans Robert Kalbitzer · 1999 · Journal of Molecular Biology
  2. Recognition of ERK MAP kinase by PEA‐15 reveals a common docking site within the death domain and death effector domain
    Hill, Justine M., Vaidyanathan, Hema, Ramos, Joe W., Ginsberg, Mark H., Werner, Milton H. · 2002 · The EMBO Journal
  3. The Polycomb protein Ezl1 mediates H3K9 and H3K27 methylation to repress transposable elements in Paramecium
    Andrea Frapporti, Caridad Miró-Pina, Olivier Arnaiz, Daniel Holoch, Takayuki Kawaguchi, Adeline Humbert, Evangelia Eleftheriou, Bérangère Lombard, Damarys Loew, Linda Sperling et al. · 2019 · Nature Communications
  4. Solution Structure of Cox11, a Novel Type of β-Immunoglobulin-like Fold Involved in CuB Site Formation of Cytochrome c Oxidase
    Lucia Banci, Ivano Bertini, Francesca Cantini, Simone Ciofi‐Baffoni, Leonardo Gonnelli, Stefano Mangani · 2004 · Journal of Biological Chemistry
  5. Cyclic MrIA: A Stable and Potent Cyclic Conotoxin with a Novel Topological Fold that Targets the Norepinephrine Transporter
    Erica S. Lovelace, Christopher J. Armishaw, Michelle Lisa Colgrave, Maria E. Wahlstrom, Paul F. Alewood, Norelle L. Daly, David J. Craik · 2006 · Journal of Medicinal Chemistry
  6. Structure of a Human A-type Potassium Channel Interacting Protein DPPX, a Member of the Dipeptidyl Aminopeptidase Family
    Pavel Strop, Alexander J. Bankovich, Kirk Charles Hansen, K. Christopher García, Axel T. Brünger · 2004 · Journal of Molecular Biology
  7. DRESS: a database of REfined solution NMR structures
    Sander B. Nabuurs, Aart Johannes Nederveen, Wim Vranken, Jurgen F. Doreleijers, Alexandre M. J. J. Bonvin, Geerten W. Vuister, Gert Vriend, Chris A. E. M. Spronk · 2004 · Proteins Structure Function and Bioinformatics
  8. Conformational Flexibility Determines Selectivity and Antibacterial, Antiplasmodial, and Anticancer Potency of Cationic α-Helical Peptides
    Louic S. Vermeer, Yun Lan, Vincenzo Abbate, Emrah Ruh, Tam T. T. Bui, Louise J. Wilkinson, Tokuwa Kanno, Elmira Jumagulova, Justyna Kozlowska, Jayneil Patel et al. · 2012 · Journal of Biological Chemistry
  9. Structure and RNA Interactions of the N-Terminal RRM Domains of PTB
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  10. Solution structure of eggcase silk protein and its implications for silk fiber formation
    Zhi Lin, Weidong Huang, Jingfeng Zhang, Jing‐Song Fan, Daiwen Yang · 2009 · Proceedings of the National Academy of Sciences
  11. Structural Model of the Pre-pore Ring-like Structure of Panton-Valentine Leukocidin: Providing Dimensionality to Biophysical and Mutational Data
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  12. Sulindac Inhibits Canonical Wnt Signaling by Blocking the PDZ Domain of the Protein Dishevelled
    Ho‐Jin Lee, Nick X. Wang, De‐Li Shi, Jie Zheng · 2009 · Angewandte Chemie International Edition
  13. Solution Structure of the Interacting Domains of the Mad–Sin3 Complex
    Kurt Brubaker, Shaun M. Cowley, Kai Huang, Lenora W. M. Loo, Gregory S. Yochum, Donald E. Ayer, Robert N. Eisenman, Ishwar Radhakrishnan · 2000 · Cell
  14. Structural Basis for the Versatile Interactions of Smad7 with Regulator WW Domains in TGF-β Pathways
    Aragón, Eric, Goerner, Nina, Xi, Qiaoran, Gomes, Tiago, Gao, Sheng, Massagué, Joan, Macias, Maria J. · 2012 · Structure
  15. Structural Basis for Telomerase RNA Recognition and RNP Assembly by the Holoenzyme La Family Protein p65
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  16. Structure of a PL17 Family Alginate Lyase Demonstrates Functional Similarities among Exotype Depolymerases
    David S. Park, Sujit Sadashiv Jagtap, Satish K. Nair · 2014 · Journal of Biological Chemistry
  17. PROSESS: a protein structure evaluation suite and server
    Mark V. Berjanskii, Yu‐He Liang, J. Zhou, P. Tang, Paul Stothard, You Lang Zhou, J. Cruz, Cam Macdonell, Guohui Lin, P. Lu et al. · 2010 · Nucleic Acids Research
  18. PHF20 is an effector protein of p53 double lysine methylation that stabilizes and activates p53
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  19. Structure of Domain III of the Blood-stage Malaria Vaccine Candidate, Plasmodium falciparum Apical Membrane Antigen 1 (AMA1)
    Margie M. Nair, Mark G. Hinds, Andrew M. Coley, Anthony N. Hodder, Michael Foley, Robin F. Anders, Raymond S. Norton · 2002 · Journal of Molecular Biology
  20. Evaluating the absolute quality of a single protein model using structural features and support vector machines
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  21. Structure and Carboxyl-terminal Domain (CTD) Binding of the Set2 SRI Domain That Couples Histone H3 Lys36 Methylation to Transcription
    Erika Vojnic, Bernd Simon, Brian D. Strahl, Michael Sattler, Patrick Cramer · 2005 · Journal of Biological Chemistry
  22. ATP-induced conformational changes of the nucleotide-binding domain of Na,K-ATPase
    M. Hilge, Gregg Siegal, Geerten W. Vuister, Peter Güntert, Sergio M. Gloor, Jan Pieter Abrahams · 2003 · Nature Structural & Molecular Biology
  23. Identification of a Novel Determinant for Membrane Association in Hepatitis C Virus Nonstructural Protein 4B
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  24. Structural and Biochemical Characterization Reveals LysGH15 as an Unprecedented “EF-Hand-Like” Calcium-Binding Phage Lysin
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  25. Demonstration of Long-Range Interactions in a PDZ Domain by NMR, Kinetics, and Protein Engineering
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  26. Characterization of Plasmodium falciparum Calcium-dependent Protein Kinase 1 (PfCDPK1) and Its Role in Microneme Secretion during Erythrocyte Invasion
    Abhisheka Bansal, Shailja Singh, Kunal R. More, Dhiraj Hans, Kuldeep Nangalia, M. Yogavel, Amit Kumar Sharma, Chetan E. Chitnis · 2012 · Journal of Biological Chemistry
  27. Solution structure of the bb′ domains of human protein disulfide isomerase
    Alexey Yu. Denisov, Pekka Määttänen, Christian Dabrowski, Guennadi Kozlov, David Y. Thomas, Kalle Gehring · 2009 · FEBS Journal
  28. Structural and Functional Characterization of Transmembrane Segment IV of the NHE1 Isoform of the Na+/H+ Exchanger
    Emily R. Slepkov, Jan K. Rainey, Xiuju Li, Yongsheng Liu, Florence J. Cheng, Darrin A. Lindhout, Brian D. Sykes, Larry Fliegel · 2005 · Journal of Biological Chemistry
  29. Haemoglobin polymorphisms affect the oxygen-binding properties in Atlantic cod populations
    Øivind Andersen, Ola Frang Wetten, Maria Cristina De Rosa, Carl André, Cristiana Carelli Alinovi, Mauro Colafranceschi, Ole Brix, Alfredo Colosimo · 2008 · Proceedings of the Royal Society B Biological Sciences
  30. Characterization of two linear cationic antimalarial peptides in the scorpion Mesobuthus eupeus
    Bin Gao, Jia Xu, Maria del Carmen Rodriguez, Humberto Lanz‐Mendoza, Rosaura Hernández‐Rivas, Weihong Du, Shunyi Zhu · 2010 · Biochimie
  31. Crystal Structure of the Staphylococcus aureus pI258 CadC Cd(II)/Pb(II)/Zn(II)-Responsive Repressor
    Jun Ye, Ashoka Kandegedara, Philip D. Martin, Barry P. Rosen · 2005 · Journal of Bacteriology
  32. Interplay of histidine residues of the Alzheimer’s disease Aβ peptide governs its Zn-induced oligomerization
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  33. Solution structures of the cytoplasmic tail complex from platelet integrin αIIb- and β3-subunits
    Aalim M. Weljie, Peter M. Hwang, Hans J. Vogel · 2002 · Proceedings of the National Academy of Sciences
  34. Structure and Orientation of a G Protein Fragment in the Receptor Bound State from Residual Dipolar Couplings
    Bernd W. Koenig, Georg Kontaxis, Drake C. Mitchell, John M. Louis, Burton J. Litman, Ad Bax · 2002 · Journal of Molecular Biology
  35. Structural Insight into G-Protein Coupled Receptor Binding by Apelin
    David N. Langelaan, Emily Bebbington, Tyler Reddy, Jan K. Rainey · 2009 · Biochemistry
  36. Alpha-Synuclein defects autophagy by impairing SNAP29-mediated autophagosome-lysosome fusion
    Qilin Tang, Pan Gao, Thomas Arzberger, Matthias Höllerhage, Jochen Wolfgang Herms, Günter U. Höglinger, Thomas Koeglsperger · 2021 · Cell Death and Disease
  37. Structure of the Ca2+/S100B/NDR Kinase Peptide Complex: Insights into S100 Target Specificity and Activation of the Kinase
    Shibani Bhattacharya, Edward E. Large, Claus W. Heizmann, Brian A. Hemmings, Walter Chazin · 2003 · Biochemistry
  38. An Essential Epitope of Anti-MUC1 Monoclonal Antibody KL-6 Revealed by Focused Glycopeptide Library
    Naoki Ohyabu, Hiroshi Hinou, Takahiko Matsushita, Ryukou Izumi, Hiroki Shimizu, Keiko Kawamoto, Yoshito Numata, Hiroko Togame, Hiroshi Takemoto, Hirosato Kondo et al. · 2009 · Journal of the American Chemical Society
  39. NMR Structure of the First PHD Finger of Autoimmune Regulator Protein (AIRE1)
    Matthew James Bottomley, Günter Stier, Danilo Pennacchini, Gaëlle Legube, Bernd Simon, Asifa Akhtar, Michael Sattler, Giovanna Musco · 2005 · Journal of Biological Chemistry
  40. Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to DNA
    Raphael Stoll, Brian M. Lee, Erik Debler, John H. Laity, Ian A. Wilson, H. Jane Dyson, Peter E. Wright · 2007 · Journal of Molecular Biology
  41. The Solution Structure of Molt-inhibiting Hormone from the Kuruma Prawn Marsupenaeus japonicus
    Hidekazu Katayama, Koji Nagata, Tsuyoshi Ohira, Fumiaki Yumoto, Masaru Tanokura, Hiromichi Nagasawa · 2003 · Journal of Biological Chemistry
  42. Hyaluronan modulates TRPV1 channel opening, reducing peripheral nociceptor activity and pain
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  43. Thioredoxin Fold as Homodimerization Module in the Putative Chaperone ERp29
    Edgars Liepinsh, М. Г. Барышев, A. Sharipo, Magnus Ingelman‐Sundberg, Gottfried Otting, Souren Mkrtchian · 2001 · Structure
  44. The GYF domain is a novel structural fold that is involved in lymphoid signaling through proline-rich sequences.
    Christian Freund, Gerhard Wagner, Volker Dötsch, Kazuhisa Nishizawa, Ellis L. Reinherz · 1999 · Nature Structural Biology
  45. Solution Structure of the Kaposi's Sarcoma-associated Herpesvirus K3 N-terminal Domain Reveals a Novel E2-binding C4HC3-type RING Domain
    Roger B. Dodd, Mark D. Allen, Stephanie E. Brown, Christopher M. Sanderson, Lidia M. Duncan, Paul J. Lehner, Mark Bycroft, Randy J. Read · 2004 · Journal of Biological Chemistry
  46. Insights into AMS/PCAT transporters from biochemical and structural characterization of a double Glycine motif protease
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  47. Structure-Function Analysis of Arg-Gly-Asp Helix Motifs in αvβ6 Integrin Ligands
    Danielle M. DiCara, Chiara Rapisarda, J. Sutcliffe-Goulden, Shelia M. Violette, Paul H. Weinreb, Ian R. Hart, Mark J. Howard, John F. Marshall · 2007 · Journal of Biological Chemistry
  48. Structure of Petunia hybrida Defensin 1, a Novel Plant Defensin with Five Disulfide Bonds
    Bert J. C. Janssen, Horst Joachim Schirra, Fung T. Lay, Marilyn A. Anderson, David J. Craik · 2003 · Biochemistry
  49. The βE-Domain of Wheat Ec-1 Metallothionein: A Metal-Binding Domain with a Distinctive Structure
    Estevão A. Peroza, Roland Schmucki, Peter Güntert, E. Freisinger, Oliver Zerbe · 2009 · Journal of Molecular Biology
  50. Solution structure of crotamine, a Na+ channel affecting toxin from Crotalus durissus terrificus venom
    Giuseppe Nicastro, Lorella Franzoni, Cesira de Chiara, Adriana Cristina Mancin, José R. Giglio, Alberto Spisni · 2003 · European Journal of Biochemistry
  51. NMR structure of mussel mytilin, and antiviral–antibacterial activities of derived synthetic peptides
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  52. Solution Structure ofAce-AMP1, a Potent Antimicrobial Protein Extracted from Onion Seeds. Structural Analogies with Plant Nonspecific Lipid Transfer Proteins
    Séverine Tassin, Willem F. Broekaert, Didier Marion, David P. Acland, Marius Ptak, Françoise Vovelle, Patrick Sodano · 1998 · Biochemistry
  53. The Structural and Dynamic Basis of Ets-1 DNA Binding Autoinhibition
    Lee, Gregory M., Donaldson, Logan W., Pufall, Miles A., Kang, Hyun-Seo, Pot, Isabelle, Graves, Barbara J., McIntosh, Lawrence P. · 2005 · Journal of Biological Chemistry
  54. Structural insights into adeno-associated virus serotype 5
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  55. Structure, Bioactivity, and Resistance Mechanism of Streptomonomicin, an Unusual Lasso Peptide from an Understudied Halophilic Actinomycete
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  56. Tandem hnRNP A1 RNA recognition motifs act in concert to repress the splicing of survival motor neuron exon 7
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  57. The Structure of the N-Terminus of Kindlin-1: A Domain Important for αIIbβ3 Integrin Activation
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  58. Automated Analysis of Protein NMR Assignments and Structures
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  59. Copper(I)-mediated protein-protein interactions result from suboptimal interaction surfaces.
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  60. Structural and Energetic Basis of Carbohydrate–Aromatic Packing Interactions in Proteins
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  61. The hypertrophic cardiomyopathy mutations R403Q and R663H increase the number of myosin heads available to interact with actin
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  62. Catalytic Transitions in the Human MDR1 P-Glycoprotein Drug Binding Sites
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  63. Temporin-SHf, a New Type of Phe-rich and Hydrophobic Ultrashort Antimicrobial Peptide
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  64. Solution Structure and Functional Characterization of SGTx1, a Modifier of Kv2.1 Channel Gating,
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  65. Solution Structure of the NEAT (NEAr Transporter) Domain from IsdH/HarA: the Human Hemoglobin Receptor in Staphylococcus aureus
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  66. Structural Mechanism of Transcriptional Autorepression of the Escherichia coli RelB/RelE Antitoxin/Toxin Module
    Guangyao Li, Yonglong Zhang, Masayori Inouye, Mitsuhiko Ikura · 2008 · Journal of Molecular Biology
  67. Solution Structure of Carnobacteriocin B2 and Implications for Structure−Activity Relationships among Type IIa Bacteriocins from Lactic Acid Bacteria,
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  68. The solution structure of reduced dimeric copper zinc superoxide dismutase
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  69. Solution Structure and Backbone Dynamics of the Holo Form of the Frenolicin Acyl Carrier Protein,
    Qing Li, Chaitan Khosla, Joseph Daniel Puglisi, Corey W. Liu · 2003 · Biochemistry
  70. Multiple modes of peptide recognition by the PTB domain of the cell fate determinant Numb
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  71. Elucidation of MRAS-mediated Noonan syndrome with cardiac hypertrophy
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  72. DWNN, a novel ubiquitin-like domain, implicates RBBP6 in mRNA processing and ubiquitin-like pathways
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  73. Comparison of Penetratin and Other Homeodomain-Derived Cell-Penetrating Peptides: Interaction in a Membrane-Mimicking Environment and Cellular Uptake Efficiency
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  74. Affinity and Specificity of Interactions between Nedd4 Isoforms and the Epithelial Na+ Channel
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  75. NleG Type 3 Effectors from Enterohaemorrhagic Escherichia coli Are U-Box E3 Ubiquitin Ligases
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  76. A Novel Conotoxin Inhibitor of Kv1.6 Channel and nAChR Subtypes Defines a New Superfamily of Conotoxins,
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  77. Structure of Musashi1 in a complex with target RNA: the role of aromatic stacking interactions
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  78. ZZ Domain of CBP: an Unusual Zinc Finger Fold in a Protein Interaction Module
    Glen B. Legge, Maria A. Martinez‐Yamout, David M. Hambly, Tam Trinh, Brian M. Lee, H. Jane Dyson, Peter E. Wright · 2004 · Journal of Molecular Biology
  79. Evidence for Synergy between Family 2b Carbohydrate Binding Modules in Cellulomonas fimi Xylanase 11A
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  80. Solution Structure of the Cellulose-Binding Domain of the Endoglucanase Z Secreted by Erwinia chrysanthemi,
    Emmanuel Brun, Fabrice Moriaud, Pierre Gans, Martin J Blackledge, Frédéric Barras, Dominique Marion · 1997 · Biochemistry
  81. Eurocin, a New Fungal Defensin
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  82. Biochemical and structural characterization of Cren7, a novel chromatin protein conserved among Crenarchaea
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  83. Structure of the C-terminal RING Finger from a RING-IBR-RING/TRIAD Motif Reveals a Novel Zinc-binding Domain Distinct from a RING
    Allan D. Capili, E.L. Edghill, Kenneth Kun-yu Wu, Katherine L. B. Borden · 2004 · Journal of Molecular Biology
  84. Self-assembly of MPG1, a hydrophobin protein from the rice blast fungus that forms functional amyloid coatings, occurs by a surface-driven mechanism
    Chi L.L. Pham, Anthony A. Rey, Victor Lo, Margaux Soulès, Qin Ren, Georg Meisl, Tuomas P. J. Knowles, Ann H. Kwan, Margaret Sunde · 2016 · Scientific Reports
  85. Structural comparison of the PhoB and OmpR DNA-binding/transactivation domains and the arrangement of PhoB molecules on the phosphate box
    Hideyasu Okamura, Shingo Hanaoka, Aritaka Nagadoi, Kozo Makino, Yoshifumi Nishimura · 2000 · Journal of Molecular Biology
  86. The NMR solution structure of human glutaredoxin in the fully reduced form
    Chaohong C. Sun, Marcelo J. Berardi, John Hackett Bushweller · 1998 · Journal of Molecular Biology
  87. NMR Structures and Interactions of Temporin-1Tl and Temporin-1Tb with Lipopolysaccharide Micelles
    Anirban Bhunia, Rathi Saravanan, Harini Mohanram, Maria Luisa Mangoni, Surajit Bhattacharjya · 2011 · Journal of Biological Chemistry
  88. Insights into Specific DNA Recognition during the Assembly of a Viral Genome Packaging Machine
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  89. The Internal Sequence of the Peptide-Substrate Determines Its N-Terminus Trimming by ERAP1
    Irini Evnouchidou, Frank Momburg, Athanasios Papakyriakou, Angeliki Chroni, Leondios Leondiadis, Shih‐Chung Chang, Alfred Lewis Goldberg, Efstratios Stratikos · 2008 · PLoS ONE
  90. Structural Determinants for High-Affinity Binding in a Nedd4 WW3∗ Domain-Comm PY Motif Complex
    Voula Kanelis, M. Christine Bruce, Nikolai R. Skrynnikov, Daniela Rotin, Julie Deborah Forman-Kay · 2006 · Structure
  91. Solution Structure and Lipid Membrane Partitioning of VSTx1, an Inhibitor of the KvAP Potassium Channel,
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  92. Structure of Nucleophosmin DNA-binding Domain and Analysis of Its Complex with a G-quadruplex Sequence from the c-MYC Promoter
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  93. Structural basis of death domain signaling in the p75 neurotrophin receptor
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  94. Ca2+-independent binding of an EF-hand domain to a novel motif in the alpha-actinin-titin complex.
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  95. Evidence of Reciprocal Reorientation of the Catalytic and Hemopexin-Like Domains of Full-Length MMP-12
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  96. Solution Structure of the Major DNA-binding Domain of Arabidopsis thaliana Ethylene-insensitive3-like3
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  97. Electrostatic Interaction between Oxysterol-binding Protein and VAMP-associated Protein A Revealed by NMR and Mutagenesis Studies
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  98. Role of Tryptophan−Tryptophan Interactions in Trpzip β-Hairpin Formation, Structure, and Stability
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  99. Decoding the Functional Roles of Cationic Side Chains of the Major Antimicrobial Region of Human Cathelicidin LL-37
    Guangshun Wang, Raquel F. Epand, Biswajit Mishra, Tamara Lushnikova, Vinai Chittezham Thomas, Kenneth W. Bayles, Richard M. Epand · 2011 · Antimicrobial Agents and Chemotherapy
  100. Kv1.3 channel-blocking immunomodulatory peptides from parasitic worms: implications for autoimmune diseases
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