3.9 Article

Interaction between the C-terminal region of human myelin basic protein and calmodulin:: analysis of complex formation and solution structure

期刊

BMC STRUCTURAL BIOLOGY
卷 8, 期 -, 页码 -

出版社

BIOMED CENTRAL LTD
DOI: 10.1186/1472-6807-8-10

关键词

-

向作者/读者索取更多资源

Background: The myelin sheath is a multilamellar membrane structure wrapped around the axon, enabling the saltatory conduction of nerve impulses in vertebrates. Myelin basic protein, one of the most abundant myelin-specific proteins, is an intrinsically disordered protein that has been shown to bind calmodulin. In this study, we focus on a 19-mer synthetic peptide from the predicted calmodulin-binding segment near the C-terminus of human myelin basic protein. Results: The interaction of native human myelin basic protein with calmodulin was confirmed by affinity chromatography. The binding of the myelin basic protein peptide to calmodulin was tested with isothermal titration calorimetry (ITC) in different temperatures, and K(d) was observed to be in the low mu M range, as previously observed for full-length myelin basic protein. Surface plasmon resonance showed that the peptide bound to calmodulin, and binding was accompanied by a conformational change; furthermore, gel filtration chromatography indicated a decrease in the hydrodynamic radius of calmodulin in the presence of the peptide. NMR spectroscopy was used to map the binding area to reside mainly within the hydrophobic pocket of the C-terminal lobe of calmodulin. The solution structure obtained by small-angle X-ray scattering indicates binding of the myelin basic protein peptide into the interlobal groove of calmodulin, while calmodulin remains in an extended conformation. Conclusion: Taken together, our results give a detailed structural insight into the interaction of calmodulin with a C-terminal segment of a major myelin protein, the myelin basic protein. The used 19-mer peptide interacts mainly with the C-terminal lobe of calmodulin, and a conformational change accompanies binding, suggesting a novel mode of calmodulin-target protein interaction. Calmodulin does not collapse and wrap around the peptide tightly; instead, it remains in an extended conformation in the solution structure. The observed affinity can be physiologically relevant, given the high abundance of both binding partners in the nervous system.

作者

我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。

评论

主要评分

3.9
评分不足

次要评分

新颖性
-
重要性
-
科学严谨性
-
评价这篇论文

推荐

Article Biochemistry & Molecular Biology

EFAMIX, a tool to decompose inline chromatography SAXS data from partially overlapping components

Petr Konarev, Melissa A. Graewert, Cy M. Jeffries, Masakazu Fukuda, Taisiia A. Cheremnykh, Vladimir V. Volkov, Dmitri Svergun

Summary: SAXS is commonly used for structural analysis of biological macromolecules in solution, and combining SAXS with chromatography setups has become popular in research. The computer program EFAMIX, based on evolving factor analysis (EFA), efficiently restores scattering and concentration profiles of components from mixed SAXS data, proving useful for interpretation and analysis of fractions in the sample.

PROTEIN SCIENCE (2022)

Article Biochemistry & Molecular Biology

Structural insights into Charcot-Marie-Tooth disease-linked mutations in human GDAP1

Aleksi Sutinen, Giang Thi Tuyet Nguyen, Arne Raasakka, Gopinath Muruganandam, Remy Loris, Emil Ylikallio, Henna Tyynismaa, Luca Bartesaghi, Salla Ruskamo, Petri Kursula

Summary: This study investigates the biochemical and structural properties of GDAP1 gene mutations causing Charcot-Marie-Tooth disease. The findings reveal that these mutations lead to alterations in GDAP1 structure and decreased thermal stability, resulting in insufficient neuronal function.

FEBS OPEN BIO (2022)

Correction Biochemistry & Molecular Biology

Structure of the Complete Dimeric Human GDAP1 Core Domain Provides Insights Into Ligand Binding and Clustering of Disease Mutations (vol 7, 631232, 2021)

Giang Thi Tuyet Nguyen, Aleksi Sutinen, Arne Raasakka, Gopinath Muruganandam, Remy Loris, Petri Kursula

FRONTIERS IN MOLECULAR BIOSCIENCES (2022)

Article Biochemistry & Molecular Biology

Human myelin proteolipid protein structure and lipid bilayer stacking

Salla Ruskamo, Arne Raasakka, Jan Skov Pedersen, Anne Martel, Karel Skubnik, Tamim Darwish, Lionel Porcar, Petri Kursula

Summary: This study characterized the three-dimensional structure and functional differences of the most abundant protein in myelin, PLP, and its isoform DM20, and revealed the mechanisms of their interactions with lipids. Reconstituted PLP and DM20 spontaneously induced the formation of multi-layered membrane structures similar to myelin in the lipid bilayers. These findings contribute to a better understanding of the organization and function of proteins in compact myelin in the central nervous system.

CELLULAR AND MOLECULAR LIFE SCIENCES (2022)

Article Multidisciplinary Sciences

High-affinity anti-Arc nanobodies provide tools for structural and functional studies

Sigurbjorn Markusson, Erik Hallin, Helene J. Bustad, Arne Raasakka, Ju Xu, Gopinath Muruganandam, Remy Loris, Aurora Martinez, Clive R. Bramham, Petri Kursula

Summary: Activity-regulated cytoskeleton-associated protein (Arc) plays a vital role in synaptic plasticity and memory formation. This study used high-affinity anti-Arc nanobodies to investigate the structure and function of Arc. The results suggest that the N-terminal domain of Arc is involved in membrane binding, while the C-terminal domain binds to postsynaptic protein ligands. Furthermore, the NTD and CTD are important for Arc oligomerisation and assembly of capsids.

PLOS ONE (2022)

Article Biophysics

Assessment of core-shell nanoparticles surface structure heterogeneity by SAXS contrast variation and ab initio modeling

I. S. Vaskan, A. T. Prikhodko, M. V. Petoukhov, E. V. Shtykova, N. V. Bovin, A. B. Tuzikov, V. A. Oleinikov, A. V. Zalygin

Summary: The detailed analysis of the surface structure of nanoparticles is essential for the rational design of drug delivery systems. However, characterizing the surface structure under physiological conditions is challenging. In this study, the combination of SAXS contrast variation and ab initio bead modeling was used to investigate nanoparticle surface structure. By gradually increasing the solvent electron density, the shell coating thickness and uniformity around the nanoparticle core were assessed.

COLLOIDS AND SURFACES B-BIOINTERFACES (2023)

Article Biochemistry & Molecular Biology

Determinants of receptor tyrosine phosphatase homophilic adhesion: Structural comparison of PTPRK and PTPRM extracellular domains

Iain M. Hay, Maria Shamin, Eve R. Caroe, Ahmed S. A. Mohanned, Dmitri I. Svergun, Cy M. Jeffries, Stephen C. Graham, Hayley J. Sharpe, Janet E. Deane

Summary: Type IIB receptor protein tyrosine phosphatases mediate cell adhesion and signaling through their extracellular and cytoplasmic domains, respectively. The crystal structure of PTPRK has revealed an intermembrane adhesion mode consistent with other family members. Comparison with PTPRM structure suggests that conformational differences between the domains may contribute to homophilic specificity. Analysis of the full-length PTPRM and PTPRK proteins using small-angle X-ray scattering reveals rigid extended conformations and one residue difference at the interaction interface that affects dimer formation.

JOURNAL OF BIOLOGICAL CHEMISTRY (2023)

Article Chemistry, Physical

Conformational multiplicity of bacterial ferric binding protein revealed by small angle x-ray scattering and molecular dynamics calculations

Goksin Liu, Erhan Ekmen, Farzaneh Jalalypour, Haydyn D. T. Mertens, Cy M. Jeffries, Dmitri Svergun, Ali Rana Atilgan, Canan Atilgan, Zehra Sayers

Summary: This study combines molecular dynamics (MD) simulations with small angle x-ray scattering (SAXS) measurements to investigate the range of conformations and populations of a pH/ionic strength (IS) sensitive protein. The protein studied is the periplasmic ferric binding protein A (FbpA) involved in iron capture from higher organisms by bacteria. The study reveals the detectable changes in conformational distribution of FbpA under different conditions, but detection of conformational changes due to point mutation D52A and changes in ionic strength has been challenging.

JOURNAL OF CHEMICAL PHYSICS (2023)

Article Biochemistry & Molecular Biology

X-ray structure and function of fibronectin domains two and three of the neural cell adhesion molecule L1

Gabriela Guedez, Gabriele Loers, Cy M. Jeffries, Sandra Kozak, Rob Meijers, Dmitri I. Svergun, Melitta Schachner, Christian Loew

Summary: The cell adhesion molecule L1 plays crucial roles in neural development, regeneration, synaptic plasticity, and tumor cell migration. L1 is a member of the immunoglobulin superfamily and consists of Ig-like domains and fibronectin type III homologous repeats. The second Ig-like domain is involved in cell binding, and the fibronectin type III homologous repeats contribute to signal transduction.

FASEB JOURNAL (2023)

Article Multidisciplinary Sciences

Conserved intramolecular networks in GDAP1 are closely connected to CMT-linked mutations and protein stability

Aleksi Sutinen, Dirk Paffenholz, Giang Thi Tuyet Nguyen, Salla Ruskamo, Andrew E. Torda, Petri Kursula

Summary: Charcot-Marie-Tooth disease (CMT) is the most common inherited peripheral polyneuropathy in humans, and its subtypes are linked to mutations in dozens of different genes, including the gene coding for ganglioside-induced differentiation-associated protein 1 (GDAP1). The etiology of GDAP1-linked CMT is poorly understood at the protein level, despite implications for mitochondrial fission and fusion, cytoskeletal interactions, and response to reactive oxygen species. Structural and biophysical analyses on several CMT-linked GDAP1 protein variants have been carried out, and new crystal structures of these variants have been described.

PLOS ONE (2023)

Article Biochemical Research Methods

Small conformational changes in IgG1 detected as acidic charge variants by cation exchange chromatography

Masakazu Fukuda, Melissa A. Graewert, Cy M. Jeffries, Dmitri I. Svergun, Tadao Yamazaki, Akiko Koga, Yuji Yamanaka

Summary: This study investigates the acidic variants of therapeutic monoclonal antibodies (mAbs) using a refolding approach. The results showed that these acidic variants are conformational variants with minor and localized conformational changes.

ANALYTICAL BIOCHEMISTRY (2023)

Article Biochemistry & Molecular Biology

Structural Plasticity of NFU1 Upon Interaction with Binding Partners: Insights into the Mitochondrial [4Fe-4S] Cluster Pathway

Stefano Da Vela, Giovanni Saudino, Francesca Lucarelli, Lucia Banci, Dmitri I. Svergun, Simone Ciofi-Baffoni

Summary: In humans, the biosynthesis and trafficking of mitochondrial [4Fe-4S]2+ clusters is a highly coordinated process that requires a complex protein machinery. Two [2Fe-2S]2+ clusters are converted into a [4Fe-4S]2+ cluster on an ISCA1-ISCA2 complex. NFU1 is the accessory protein that first receives the [4Fe-4S]2+ cluster from the ISCA1-ISCA2 complex.

JOURNAL OF MOLECULAR BIOLOGY (2023)

Article Biochemistry & Molecular Biology

Identification of structural determinants of nicotinamide phosphoribosyl transferase (NAMPT) activity and substrate selectivity

Dorothee Houry, Arne Raasakka, Eugenio Ferrario, Marc Niere, Ersilia Bifulco, Petri Kursula, Mathias Ziegler

Summary: In this study, the mechanism of increased substrate affinity of phosphorylated NAMPT is revealed, which includes the coordination of Mg2+ by phospho-His247 to stabilize PRPP in a position favorable for catalysis. Additionally, a stretch of 10 amino acids found only in NAMPTs from deuterostomes is shown to enhance conformational plasticity and stabilize the chemically unstable phosphorylation of His247. Overall, this study provides a structural basis for the important function of NAMPT in recycling Nicotinamide into NAD biosynthesis with high affinity.

JOURNAL OF STRUCTURAL BIOLOGY (2023)

Article Biochemistry & Molecular Biology

The intrinsically disordered protein glue of the myelin major dense line: Linking AlphaFold2 predictions to experimental data

Oda C. Krokengen, Arne Raasakka, Petri Kursula

Summary: Numerous human proteins, known as intrinsically disordered proteins (IDPs), lack high-resolution structural information due to their physicochemical properties. However, IDPs can adopt local ordered structures upon interaction with other proteins or lipid membranes. Using AlphaFold2 predictions and experimental data, we have found that the predicted models of two myelin-specific IDPs closely match their membrane-binding sites. These artificial intelligence-based models provide insight into the ligand-bound state of IDPs and are crucial for understanding the role of IDPs in diseases.

BIOCHEMISTRY AND BIOPHYSICS REPORTS (2023)

Article Biochemistry & Molecular Biology

Effect of the Coat Protein N-Terminal Domain Structure on the Structure and Physicochemical Properties of Virions of Potato Virus X and Alternanthera Mosaic Virus

Alexander L. L. Ksenofontov, Maxim V. V. Petoukhov, Vladimir V. V. Matveev, Natalia V. V. Fedorova, Pavel I. I. Semenyuk, Alexander M. M. Arutyunyan, Tatiana I. I. Manukhova, Ekaterina A. A. Evtushenko, Nikolai A. A. Nikitin, Olga K. V. Karpova, Eleonora V. V. Shtykova

Summary: The amino acid sequences of the coat proteins (CPs) of PVX and AltMV share about 40% identity. The N-terminal domains of these proteins differ in sequence and the presence of an N-terminal fragment in PVX CP. The N-terminal domain of PVX CP contributes to the higher thermal stability and ordered structure of PVX virions compared to AltMV.

BIOCHEMISTRY-MOSCOW (2023)

暂无数据