3.8 Review

Computational studies of the mitochondrial carrier family SLC25. Present status and future perspectives

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemical Research Methods

Atomistic and coarse-grained simulations of membrane proteins: A practical guide

Damien Jefferies et al.

Summary: Membrane proteins are amphipathic macromolecules with diverse chemical compositions and biological functions. Traditional experimental techniques and molecular modeling software, especially molecular dynamics algorithms, can provide comprehensive insights into the properties and dynamic behaviors of membrane proteins.

METHODS (2021)

Article Biochemistry & Molecular Biology

Function-related asymmetry of the specific cardiolipin binding sites on the mitochondrial ADP/ATP carrier

Xiaoting Mao et al.

Summary: The ADP/ATP carrier binds cardiolipin (CL) at three specific sites, with the binding process influenced by basic and polar residues. The asymmetry in binding modes among different sites suggests that the dynamic equilibrium of CL binding may play a crucial role in adapting to movements during state transitions.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2021)

Article Biochemistry & Molecular Biology

Congenital myasthenic syndrome with mild intellectual disability caused by a recurrent SLC25A1 variant

Sunitha Balaraju et al.

EUROPEAN JOURNAL OF HUMAN GENETICS (2020)

Article Biophysics

Molecular Insights from Conformational Ensembles via Machine Learning

Oliver Fleetwood et al.

BIOPHYSICAL JOURNAL (2020)

Letter Genetics & Heredity

Missense mutations in SLC25A1 are associated with congenital myasthenic syndrome type 23

Amna Al-Futaisi et al.

CLINICAL GENETICS (2020)

Article Multidisciplinary Sciences

Improved protein structure prediction using potentials from deep learning

Andrew W. Senior et al.

NATURE (2020)

Article Multidisciplinary Sciences

Improved protein structure prediction using predicted interresidue orientations

Jianyi Yang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2020)

Article Chemistry, Multidisciplinary

Molecular Dynamics Simulations of the Elusive Matrix-open State of Mitochondrial ADP/ATP Carrier

Sanja Skulj et al.

ISRAEL JOURNAL OF CHEMISTRY (2020)

Article Chemistry, Physical

Rethinking Metadynamics: From Bias Potentials to Probability Distributions

Michele Invernizzi et al.

JOURNAL OF PHYSICAL CHEMISTRY LETTERS (2020)

Review Biochemistry & Molecular Biology

Diseases Caused by Mutations in Mitochondrial Carrier Genes SLC25: A Review

Ferdinando Palmieri et al.

BIOMOLECULES (2020)

Article Multidisciplinary Sciences

SLC25A51 is a mammalian mitochondrial NAD+ transporter

Timothy S. Luongo et al.

NATURE (2020)

Article Biochemistry & Molecular Biology

The human uncoupling proteins 5 and 6 (UCP5/SLC25A14 and UCP6/SLC25A30) transport sulfur oxyanions, phosphate and dicarboxylates

Ruggiero Gorgoglione et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2019)

Article Multidisciplinary Sciences

H+ transport is an integral function of the mitochondrial ADP/ATP carrier

Ambre M. Bertholet et al.

NATURE (2019)

Editorial Material Biochemical Research Methods

Promoting transparency and reproducibility in enhanced molecular simulations

Massimiliano Bonomi et al.

NATURE METHODS (2019)

Article Biochemistry & Molecular Biology

A further leap of improvement in tertiary structure prediction in CASP13 prompts new routes for future assessments

Luciano A. Abriata et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2019)

Article Multidisciplinary Sciences

BCAA catabolism in brown fat controls energy homeostasis through SLC25A44

Takeshi Yoneshiro et al.

NATURE (2019)

Article Multidisciplinary Sciences

Distance-based protein folding powered by deep learning

Jinbo Xu

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

Article Biochemistry & Molecular Biology

Evaluation of template-based modeling in CASP13

Tristan I. Croll et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2019)

Article Biochemistry & Molecular Biology

Protein structure prediction using multiple deep neural networks in the 13th Critical Assessment of Protein Structure Prediction (CASP13)

Andrew W. Senior et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2019)

Article Biochemistry & Molecular Biology

The Molecular Mechanism of Transport by the Mitochondrial ADP/ATP Carrier

Jonathan J. Ruprecht et al.

Review Chemistry, Multidisciplinary

Computational Modeling of Realistic Cell Membranes

Siewert J. Marrink et al.

CHEMICAL REVIEWS (2019)

Article Biochemistry & Molecular Biology

SLC25A10 biallelic mutations in intractable epileptic encephalopathy with complex I deficiency

Giuseppe Punzi et al.

HUMAN MOLECULAR GENETICS (2018)

Article Biochemistry & Molecular Biology

The mammalian phosphate carrier SLC25A3 is a mitochondrial copper transporter required for cytochrome c oxidase biogenesis

Aren Boulet et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2018)

Article Biochemistry & Molecular Biology

Assessment of hard target modeling in CASP12 reveals an emerging role of alignment-based contact prediction methods

Luciano A. Abriata et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2018)

Article Biochemistry & Molecular Biology

Cardiolipin dynamics and binding to conserved residues in the mitochondrial ADP/ATP carrier

Anna L. Duncan et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2018)

Review Biochemistry & Molecular Biology

Conformational landscapes of membrane proteins delineated by enhanced sampling molecular dynamics simulations

Tyler J. Harpole et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2018)

Article Biochemistry & Molecular Biology

Inhibition of mitochondrial UCP1 and UCP3 by purine nucleotides and phosphate

Gabriel Macher et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2018)

Article Genetics & Heredity

Expanding the phenotype of SLC25A42-associated mitochondrial encephalomyopathy

M. Almannai et al.

CLINICAL GENETICS (2018)

Article Biochemistry & Molecular Biology

Structure refinement of membrane proteins via molecular dynamics simulations

Bercem Dutagaci et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2018)

Article Multidisciplinary Sciences

Experimental accuracy in protein structure refinement via molecular dynamics simulations

Lim Heo et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)

Article Biochemistry & Molecular Biology

Modelling the free energy profile of the mitochondrial ADP/ATP carrier

Roger Springett et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2017)

Article Biochemistry & Molecular Biology

Asymmetric dimethylarginine is transported by the mitochondrial carrier SLC25A2

Vito Porcelli et al.

AMINO ACIDS (2016)

Article Biochemistry & Molecular Biology

The switching mechanism of the mitochondrial ADP/ATP carrier explored by free-energy landscapes

Adriana Pietropaolo et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2016)

Review Biochemistry & Molecular Biology

Discoveries, metabolic roles and diseases of mitochondrial carriers: A review

Ferdinando Palmieri et al.

BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH (2016)

Article Medicine, Research & Experimental

SLC25A46 is required for mitochondrial lipid homeostasis and cristae maintenance and is responsible for Leigh syndrome

Alexandre Janer et al.

EMBO MOLECULAR MEDICINE (2016)

Article Biochemistry & Molecular Biology

Characterization of Human and Yeast Mitochondrial Glycine Carriers with Implications for Heme Biosynthesis and Anemia

Paola Lunetti et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2016)

Letter Clinical Neurology

SLC25A46 Mutations Underlie Progressive Myoclonic Ataxia With Optic Atrophy and Neuropathy

Gavin Charlesworth et al.

MOVEMENT DISORDERS (2016)

Letter Medicine, General & Internal

SLC25A32 Mutations and Riboflavin-Responsive Exercise Intolerance

Manuel Schiff et al.

NEW ENGLAND JOURNAL OF MEDICINE (2016)

Article Genetics & Heredity

Intra-mitochondrial Methylation Deficiency Due to Mutations in SLC25A26

Yoshihito Kishita et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2015)

Article Biochemistry & Molecular Biology

Trends in Thermostability Provide Information on the Nature of Substrate, Inhibitor, and Lipid Interactions with Mitochondrial Carriers

Paul G. Crichton et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2015)

Article Genetics & Heredity

Mutations in SLC25A46, encoding a UGO1-like protein, cause an optic atrophy spectrum disorder

Alexander J. Abrams et al.

NATURE GENETICS (2015)

Article Biochemistry & Molecular Biology

I-TASSER server: new development for protein structure and function predictions

Jianyi Yang et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Biochemistry & Molecular Biology

The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides

Konstantinos D. Tsirigos et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Computer Science, Interdisciplinary Applications

PLUMED 2: New feathers for an old bird

Gareth A. Tribello et al.

COMPUTER PHYSICS COMMUNICATIONS (2014)

Article Biochemistry & Molecular Biology

The Human SLC25A33 and SLC25A36 Genes of Solute Carrier Family 25 Encode Two Mitochondrial Pyrimidine Nucleotide Transporters

Maria Antonietta Di Noia et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2014)

Article Biochemistry & Molecular Biology

The Human Gene SLC25A29, of Solute Carrier Family 25, Encodes a Mitochondrial Transporter of Basic Amino Acids

Vito Porcelli et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2014)

Article Chemistry, Multidisciplinary

CHARMM-GUI Membrane Builder Toward Realistic Biological Membrane Simulations

Emilia L. Wu et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2014)

Article Endocrinology & Metabolism

Mitochondrial transporters of the SLC25 family and associated diseases: a review

Ferdinando Palmieri

JOURNAL OF INHERITED METABOLIC DISEASE (2014)

Article Multidisciplinary Sciences

UCP2 transports C4 metabolites out of mitochondria, regulating glucose and glutamine oxidation

Angelo Vozza et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Multidisciplinary Sciences

Structures of yeast mitochondrial ADP/ATP carriers support a domain-based alternating-access transport mechanism

Jonathan J. Ruprecht et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)

Article Clinical Neurology

SLC25A22 Is a Novel Gene for Migrating Partial Seizures in Infancy

Annapurna Poduri et al.

ANNALS OF NEUROLOGY (2013)

Article Chemistry, Multidisciplinary

Dangerous Liaisons between Detergents and Membrane Proteins. The Case of Mitochondrial Uncoupling Protein 2

Manuela Zoonens et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2013)

Review Biochemistry & Molecular Biology

Lipids of mitochondria

Susanne E. Horvath et al.

PROGRESS IN LIPID RESEARCH (2013)

Article Biochemistry & Molecular Biology

The human gene SLC25A17 encodes a peroxisomal transporter of coenzyme A, FAD and NAD+

Gennaro Agrimi et al.

BIOCHEMICAL JOURNAL (2012)

Article Biochemistry & Molecular Biology

Substrate Specificity of the Two Mitochondrial Ornithine Carriers Can Be Swapped by Single Mutation in Substrate Binding Site

Magnus Monne et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2012)

Article Genetics & Heredity

Complete loss of expression of the ANT1 gene causing cardiomyopathy and myopathy

Andoni Echaniz-Laguna et al.

JOURNAL OF MEDICAL GENETICS (2012)

Article Chemistry, Physical

Markov models of molecular kinetics: Generation and validation

Jan-Hendrik Prinz et al.

JOURNAL OF CHEMICAL PHYSICS (2011)

Article Multidisciplinary Sciences

Mitochondrial uncoupling protein 2 structure determined by NMR molecular fragment searching

Marcelo J. Berardi et al.

NATURE (2011)

Article Biophysics

Protein Thermostability Calculations Using Alchemical Free Energy Simulations

Daniel Seeliger et al.

BIOPHYSICAL JOURNAL (2010)

Article Clinical Neurology

SLC25A19 Mutation as a Cause of Neuropathy and Bilateral Striatal Necrosis

Ronen Spiegel et al.

ANNALS OF NEUROLOGY (2009)

Article Biochemistry & Molecular Biology

Characterization of SCaMC-3-like/slc25a41, a novel calcium-independent mitochondrial ATP-Mg/Pi carrier

Javier Traba et al.

BIOCHEMICAL JOURNAL (2009)

Review Biochemistry & Molecular Biology

Cardiolipin and mitochondrial carriers

Martin Klingenberg

BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2009)

Article Biochemistry & Molecular Biology

Regulation of Mitochondrial Iron Import through Differential Turnover of Mitoferrin 1 and Mitoferrin 2

Prasad N. Paradkar et al.

MOLECULAR AND CELLULAR BIOLOGY (2009)

Article Medicine, General & Internal

AGC1 Deficiency Associated with Global Cerebral Hypomyelination

Rolf Wibom et al.

NEW ENGLAND JOURNAL OF MEDICINE (2009)

Review Biochemistry & Molecular Biology

The ADP and ATP transport in mitochondria and its carrier

Martin Klingenberg

BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2008)

Article Chemistry, Physical

Adaptive biasing force method for scalar and vector free energy calculations

Eric Darve et al.

JOURNAL OF CHEMICAL PHYSICS (2008)

Article Chemistry, Multidisciplinary

Binding of ADP in the mitochondrial ADP/ATP carrier is driven by an electrostatic funnel

Francois Dehez et al.

JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2008)

Letter Medicine, General & Internal

An adult with type 2 citrullinemia presenting in Europe

Giuseppe Fiermonte et al.

NEW ENGLAND JOURNAL OF MEDICINE (2008)

Article Physics, Multidisciplinary

Well-tempered metadynamics: A smoothly converging and tunable free-energy method

Alessandro Barducci et al.

PHYSICAL REVIEW LETTERS (2008)

Article Multidisciplinary Sciences

Electrostatic funneling of substrate in mitochondrial inner membrane carriers

Yi Wang et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Article Multidisciplinary Sciences

The mechanism of transport by mitochondrial carriers based on analysis of symmetry

Alan J. Robinson et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Article Genetics & Heredity

Mitochondrial phosphate-carrier deficiency:: A novel disorder of oxidative phosphorylation

Johannes A. Mayr et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2007)

Review Biochemical Research Methods

Setting up and running molecular dynamics simulations of membrane proteins

Christian Kandt et al.

METHODS (2007)

Article Biochemistry & Molecular Biology

Structural dynamics of the mitochondrial ADP/ATP carrier revealed by molecular dynamics simulation studies

M. Falconi et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2006)

Article Biochemistry & Molecular Biology

The conserved substrate binding site of mitochondrial carriers

Edmund R. S. Kunji et al.

BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS (2006)

Article Chemistry, Physical

Efficient reconstruction of complex free energy landscapes by multiple walkers metadynamics

P Raiteri et al.

JOURNAL OF PHYSICAL CHEMISTRY B (2006)

Article Multidisciplinary Sciences

Mitochondrial carriers in the cytoplasmic state have a common substrate binding site

AJ Robinson et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Genetics & Heredity

Impaired mitochondrial glutamate transport in autosomal recessive neonatal myoclonic epilepsy

F Molinari et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2005)

Article Genetics & Heredity

Response to therapy in carnitine/acylcarnitine translocase (CACT) deficiency due to a novel missense mutation

V Iacobazzi et al.

AMERICAN JOURNAL OF MEDICAL GENETICS PART A (2004)

Article Chemistry, Multidisciplinary

UCSF chimera - A visualization system for exploratory research and analysis

EF Pettersen et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2004)

Article Multidisciplinary Sciences

Structure of mitochondrial ADP/ATP carrier in complex with carboxyatractyloside

E Pebay-Peyroula et al.

NATURE (2003)

Article Multidisciplinary Sciences

Escaping free-energy minima

A Laio et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)

Article Genetics & Heredity

Mutant deoxynucleotide carrier is associated with congenital microcephaly

MJ Rosenberg et al.

NATURE GENETICS (2002)

Review Biochemistry & Molecular Biology

Molecular dynamics simulations of biomolecules

M Karplus et al.

NATURE STRUCTURAL BIOLOGY (2002)

Article Biochemistry & Molecular Biology

Citrin and aralar1 are Ca2+-stimulated aspartate/glutamate transporters in mitochondria

L Palmieri et al.

EMBO JOURNAL (2001)

Article Genetics & Heredity

Neonatal presentation of adult-onset type II citrullinemia

T Ohura et al.

HUMAN GENETICS (2001)

Article Multidisciplinary Sciences

Role of adenine nucleotide translocator 1 in mtDNA maintenance

J Kaukonen et al.

SCIENCE (2000)