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Conserved Helix-Flanking Prolines Modulate Intrinsically Disordered Protein
Michael D Crabtree, Wade Borcherds, Anusha Poosapati, Sarah L Shammas, Gary W Daughdrill, Jane Clarke
Mar 26, 2018
Appropriate integration of cellular signals requires a delicate balance of ligand-target binding affinities. Increasing the level of residual structure in intrinsically disordered proteins (IDPs), which are overrepresented in...
Amino Acid Sequence Animals Binding Sites Cloning Molecular Conserved Sequence Escherichia coli Gene Expression Histone-Lysine N-Methyltransferase Humans Intrinsically Disordered Proteins Membrane Proteins Mice Models Molecular Mutation Myeloid-Lymphoid Leukemia Protein Phosphoproteins Proline Protein Binding Protein Conformation alpha-Helical Protein Folding Protein Interaction Domains and Motifs Recombinant Proteins Sequence Alignment Sequence Homology Amino Acid Tumor Suppressor Protein p53
Pressure and Chemical Unfolding of an α-Helical Bundle Protein
Cécile Dubois, Vicente J Planelles-Herrero, Camille Tillatte-Tripodi, Stéphane Delbecq, Léa Mammri, Elena M Sirkia, Virginie Ropars, Christian Roumestand, Philippe Barthe
Mar 31, 2021
When combined with NMR spectroscopy, high hydrostatic pressure is an alternative perturbation method used to destabilize globular proteins that has proven to be particularly well suited for exploring the unfolding energy...
NMR high hydrostatic pressure Protein Folding Thermodynamic stability α-helical bundle Adaptor Proteins Signal Transducing Humans Kinetics Magnetic Resonance Spectroscopy Models Molecular Protein Conformation Protein Conformation alpha-Helical Protein Denaturation Protein Domains Protein Unfolding Temperature Thermodynamics
Physicochemical-guided design of cathelicidin-derived peptides generates membrane active variants with therapeutic potential.
Nelson GJ Oliveira, Marlon H Cardoso, Nadya Velikova, Marcel Giesbers, Jerry M Wells, Taia MB Rezende, Renko de Vries, Octávio L Franco
Jul 27, 2020
The spread of multi-drug resistance and the slow pace at which antibiotics come onto the market are undermining our ability to treat human infections, leading to high mortality rates. Aiming to overcome this global crisis...
Unique charge-dependent constraint on collagen recognition by integrin α10β1.
Samir W Hamaia, Daisy Luff, Emma J Hunter, Jean-Daniel Malcor, Dominique Bihan, Donald Gullberg, Richard W Farndale
Oct 31, 2016
C2C12 cells Cartilage GROGER Integrin I domain Triple-helical peptides Amino Acid Motifs Amino Acid Sequence Animals Binding Sites cations Divalent Cell Line Collagen Type II Edetic Acid Gene Expression Humans Integrin alpha Chains Magnesium Mice Models Molecular Muscle Fibers Skeletal Peptides Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Recombinant Proteins Sequence Alignment Static Electricity
Extrinsic conditions influence the self-association and structure of IF1, the regulatory protein of mitochondrial ATP synthase.
The endogenous inhibitor of ATP synthase in mitochondria, called IF1, conserves cellular energy when the proton-motive force collapses by inhibiting ATP hydrolysis. Around neutrality, the 84-amino-acid bovine IF1 is thought to...
Stoichiometric and irreversible cysteine-selective protein modification using carbonylacrylic reagents
B Bernardim, PMSD Cal, MJ Matos, BL Oliveira, N Martínez-Sáez, IS Albuquerque, E Perkins, F Corzana, ACB Burtoloso, G Jiménez-Osés, GJL Bernardes
Nov 04, 2016
Acetonitriles Acrylates Amino Acid Sequence Annexin A5 Benzoates Cross-Linking Reagents Cysteine HEK293 Cells Humans Immunoconjugates Maleimides Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Stability Receptor ErbB-2 Staining and Labeling Stereoisomerism Sulfides Trastuzumab
Structure of CYRI-B (FAM49B), a key regulator of cellular actin assembly.
In eukaryotes, numerous fundamental processes are controlled by the WAVE regulatory complex (WRC) that regulates cellular actin polymerization, crucial for cell motility, cell-cell adhesion and epithelial differentiation. Actin...
JMJD5 is a human arginyl C-3 hydroxylase.
Sarah E Wilkins, Md Saiful Islam, Joan M Gannon, Suzana Markolovic, Richard J Hopkinson, Wei Ge, Christopher J Schofield, Rasheduzzaman Chowdhury
Jun 26, 2020
Oxygenase-catalysed post-translational modifications of basic protein residues, including lysyl hydroxylations and Nε-methyl lysyl demethylations, have important cellular roles. Jumonji-C (JmjC) domain-containing protein 5...
Arginine Carrier Proteins Catalytic Domain Cloning Molecular Crystallography X-Ray Escherichia coli Gene Expression Genetic Vectors Histone Demethylases Humans Hydroxylation Kinetics Lysine Membrane Proteins Models Molecular Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Folding Protein Interaction Domains and Motifs Recombinant Proteins ribosomal protein S6 Stereoisomerism Substrate Specificity Thermodynamics
Structure of KAP1 tripartite motif identifies molecular interfaces required for retroelement silencing.
Guido A Stoll, Shun-Ichiro Oda, Zheng-Shan Chong, Minmin Yu, Stephen H McLaughlin, Yorgo Modis
Jun 19, 2019
Endogenous retrovirus epigenetic silencing transcriptional repressor transposable element ubiquitin E3 ligase Amino Acid Sequence Binding Sites Chromatin Chromatin Assembly and Disassembly Cloning Molecular Crystallography X-Ray Epigenesis Genetic Escherichia coli Gene Expression Gene Silencing Genetic Vectors Humans Models Molecular Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Protein Multimerization Recombinant Proteins Repressor Proteins Retroelements Sequence Alignment Sequence Homology Amino Acid Transcription Genetic Tripartite Motif-Containing Protein 28
Structural and calorimetric studies demonstrate that the hepatocyte nuclear factor 1β (HNF1β) transcription factor is imported into the nucleus via a monopartite NLS sequence.
Hepatocyte nuclear factor-1β (HNF1β) Importin-α Isothermal titration calorimetry Nuclear import pathway Nuclear localisation signal sequence (NLS) Site-directed mutagenesis X-ray crystallography Active Transport Cell Nucleus Animals Binding Sites Cell Line Tumor Cell Nucleus Crystallography X-Ray HEK293 Cells Hepatocyte Nuclear Factor 1-beta Humans Mice Models Molecular Nuclear Localization Signals Protein Binding Protein Conformation alpha-Helical Sequence Analysis Protein Xenopus Proteins Xenopus laevis alpha Karyopherins
MyD88 TIR domain higher-order assembly interactions revealed by microcrystal electron diffraction and serial femtosecond crystallography.
Max TB Clabbers, Susannah Holmes, Timothy W Muusse, Parimala R Vajjhala, Sara J Thygesen, Alpeshkumar K Malde, Dominic JB Hunter, Tristan I Croll, Leonie Flueckiger, Jeffrey D Nanson, Md Habibur Rahaman, Andrew Aquila, Mark S Hunter, Mengning Liang, Chun Hong Yoon, Jingjing Zhao, Nadia A Zatsepin, Brian Abbey, Emma Sierecki, Yann Gambin, Katryn J Stacey, Connie Darmanin, Bostjan Kobe, Hongyi Xu, Thomas Ve
May 06, 2021
MyD88 and MAL are Toll-like receptor (TLR) adaptors that signal to induce pro-inflammatory cytokine production. We previously observed that the TIR domain of MAL (MALTIR) forms filaments in vitro and induces formation of...
Crystallography Dimerization HEK293 Cells Humans Membrane Glycoproteins Models Molecular Molecular Dynamics Simulation Mutation Myeloid Differentiation Factor 88 Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Domains Receptors Interleukin-1 Recombinant Proteins Signal Transduction Toll-Like Receptor 4
Mitotic spindle association of TACC3 requires Aurora-A-dependent stabilization of a cryptic α-helix.
Selena G Burgess, Manjeet Mukherjee, Sarah Sabir, Nimesh Joseph, Cristina Gutiérrez-Caballero, Mark W Richards, Nicolas Huguenin-Dezot, Jason W Chin, Eileen J Kennedy, Mark Pfuhl, Stephen J Royle, Fanni Gergely, Richard Bayliss
Jul 05, 2018
Aurora-A regulates the recruitment of TACC3 to the mitotic spindle through a phospho-dependent interaction with clathrin heavy chain (CHC). Here, we describe the structural basis of these interactions, mediated by three motifs...
EXPRESS
Amide I deconvolution Savitzky–Golay adjacent averaging fast Fourier transform filter protein secondary structures signal smoothing similarity index Algorithms Fourier Analysis Hair Humans Protein Conformation alpha-Helical Protein Conformation beta-Strand Proteins spectroscopy Fourier Transform Infrared
A central cavity within the holo-translocon suggests a mechanism for membrane protein insertion.
Mathieu Botte, Nathan R Zaccai, Jelger Lycklama À Nijeholt, Remy Martin, Kèvin Knoops, Gabor Papai, Juan Zou, Aurélien Deniaud, Manikandan Karuppasamy, Qiyang Jiang, Abhishek Singha Roy, Klaus Schulten, Patrick Schultz, Juri Rappsilber, Giuseppe Zaccai, Imre Berger, Ian Collinson, Christiane Schaffitzel
Dec 01, 2017
The conserved SecYEG protein-conducting channel and the accessory proteins SecDF-YajC and YidC constitute the bacterial holo-translocon (HTL), capable of protein-secretion and membrane-protein insertion. By employing an...
Binding Sites Cloning Molecular Cryoelectron Microscopy Escherichia coli Escherichia coli Proteins Gene Expression Genetic Vectors Membrane Transport Proteins Methanocaldococcus Models Molecular neutron diffraction Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Protein Transport Recombinant Proteins SEC Translocation Channels SCATTERING Small Angle Structural Homology Protein Substrate Specificity Thermus thermophilus
MyD88 TIR domain higher-order assembly interactions revealed by microcrystal electron diffraction and serial femtosecond crystallography.
Max T B Clabbers, Susannah Holmes, Timothy W Muusse, Parimala R Vajjhala, Sara J Thygesen, Alpeshkumar K Malde, Dominic J B Hunter, Tristan I Croll, Leonie Flueckiger, Jeffrey D Nanson, Md Habibur Rahaman, Andrew Aquila, Mark S Hunter, Mengning Liang, Chun Hong Yoon, Jingjing Zhao, Nadia A Zatsepin, Brian Abbey, Emma Sierecki, Yann Gambin, Katryn J Stacey, Connie Darmanin, Bostjan Kobe, Hongyi Xu, Thomas Ve
Jun 11, 2021
MyD88 and MAL are Toll-like receptor (TLR) adaptors that signal to induce pro-inflammatory cytokine production. We previously observed that the TIR domain of MAL (MALTIR) forms filaments in vitro and induces formation...
Humans Membrane Glycoproteins Receptors Interleukin-1 Recombinant Proteins Crystallography Signal Transduction Dimerization Mutation Models Molecular Toll-Like Receptor 4 Myeloid Differentiation Factor 88 Molecular Dynamics Simulation HEK293 Cells Protein Conformation alpha-Helical Protein Domains Protein Conformation beta-Strand
Published by: Nature Communications
mCSM-PPI2
Benchmarking Binding Sites Crystallography X-Ray Datasets as Topic Humans Internet Machine Learning Mutation Missense Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Protein Interaction Mapping Proteins Software Thermodynamics
Structure and mechanotransmission mechanism of the MacB ABC transporter superfamily.
MacB is an ABC transporter that collaborates with the MacA adaptor protein and TolC exit duct to drive efflux of antibiotics and enterotoxin STII out of the bacterial cell. Here we present the structure of ATP-bound MacB and...
ABC transporter X-ray crystallography tripartite efflux pump ATP-Binding Cassette Transporters Adenosine Triphosphate Aggregatibacter actinomycetemcomitans Bacterial Outer Membrane Proteins Binding Sites Biological Transport Cell Cycle Proteins Crystallography X-Ray Cystic Fibrosis Transmembrane Conductance Regulator Escherichia coli Escherichia coli Proteins Gene Expression Models Molecular Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Protein Multimerization Recombinant Proteins Substrate Specificity
mCSM–NA
Binding Sites DNA DNA-Binding Proteins Humans Internet Machine Learning Models Molecular Models Statistical Mutation Missense Protein Binding Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Protein Stability RNA-Binding Proteins Reverse Genetics Software Thermodynamics
Collagen-Inspired Self-Assembly of Twisted Filaments.
Collagen consists of three peptides twisted together through a periodic array of hydrogen bonds. Here we use this as inspiration to find design rules for programmed specific interactions for self-assembling synthetic...
Cryo-EM structure of the Rhodospirillum rubrum RC-LH1 complex at 2.5 Å.
Pu Qian, Tristan I Croll, David JK Swainsbury, Pablo Castro-Hartmann, Nigel W Moriarty, Kasim Sader, C Neil Hunter
Nov 10, 2021
The reaction centre light-harvesting 1 (RC-LH1) complex is the core functional component of bacterial photosynthesis. We determined the cryo-electron microscopy (cryo-EM) structure of the RC-LH1 complex from Rhodospirillum...
Carotenoids cryo-electron microscopy light-harvesting Photosynthesis Quinone reaction centre Bacterial Proteins Bacteriochlorophylls Benzoquinones Binding Sites Cryoelectron Microscopy Crystallization Electron Transport Complex III Hydrogen Bonding Hydroquinones Ligands Light-Harvesting Protein Complexes Phospholipids Protein Conformation alpha-Helical Rhodospirillum rubrum
The Knotted Protein UCH-L1 Exhibits Partially Unfolded Forms under Native Conditions that Share Common Structural Features with Its Kinetic Folding Intermediates.
Shih-Chi Lou, Svava Wetzel, Hongyu Zhang, Elizabeth W Crone, Yun-Tzai Lee, Sophie E Jackson, Shang-Te Danny Hsu
Apr 27, 2016
folding intermediate folding pathway knotted protein partially unfolded form ubiquitin C-terminal hydrolase Deuterium Deuterium Exchange Measurement Humans Hydrogen Hydrogen-Ion Concentration Kinetics Magnetic Resonance Spectroscopy Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Denaturation Protein Folding Ubiquitin Thiolesterase
Periphilin self-association underpins epigenetic silencing by the HUSH complex.
Daniil M Prigozhin, Christopher H Douse, Laura E Farleigh, Anna Albecka, Iva A Tchasovnikarova, Richard T Timms, Shun-Ichiro Oda, Frank Adolf, Stefan MV Freund, Sarah Maslen, Paul J Lehner, Yorgo Modis
Sep 08, 2020
Heat treatment of thioredoxin fusions increases the purity of α-helical transmembrane protein constructs.
Membrane proteins play key roles in cellular signaling and transport, represent the majority of drug targets, and are implicated in many diseases. Their relevance renders them important subjects for structural, biophysical, and...
Heat treatment Membrane Proteins Protein purification thioredoxin ATP Synthetase Complexes Bacterial Proteins Cloning Molecular Cystic Fibrosis Transmembrane Conductance Regulator Escherichia coli Fusobacteria Gene Expression Genetic Vectors Hot Temperature Humans Models Molecular Protein Conformation alpha-Helical Protein Conformation beta-Strand Protein Interaction Domains and Motifs Protein Subunits Recombinant Fusion Proteins Solubility Thioredoxins
Amyloid-like Fibrils from an α-Helical Transmembrane Protein
Karen Stroobants, Janet R Kumita, Nicola J Harris, Dimitri Y Chirgadze, Christopher M Dobson, Paula J Booth, Michele Vendruscolo
Apr 06, 2018
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