M. Machius

发表

Metal-mediated affinity and orientation specificity in a computationally designed protein homodimer.

Bryan S. Der, B. Kuhlman, T. Szyperski, 2012, Journal of the American Chemical Society.

Increasing sequence diversity with flexible backbone protein design: the complete redesign of a protein hydrophobic core.

B. Kuhlman, T. Szyperski, M. Machius, 2012, Structure.

Computational design of a symmetric homodimer using β-strand assembly

Brian Kuhlman, Ashutosh Tripathy, B. Kuhlman, 2011, Proceedings of the National Academy of Sciences.

Hyperthermostabilization of Bacillus licheniformis α-amylase and modulation of its stability over a 50°C temperature range

Robert Huber, R. Huber, C. Gaillardin, 2003 .

Kinetic Stabilization of Bacillus licheniformis α-Amylase through Introduction of Hydrophobic Residues at the Surface*

Robert Huber, R. Huber, M. Machius, 2003, The Journal of Biological Chemistry.

Probing structural determinants specifying high thermostability in Bacillus licheniformis alpha-amylase.

R. Huber, C. Gaillardin, M. Machius, 2000, Journal of molecular biology.

Crystal structure of calcium-depleted Bacillus licheniformis alpha-amylase at 2.2 A resolution.

R. Huber, M. Machius, G. Wiegand, 1995, Journal of molecular biology.

Computational design of the sequence and structure of a protein-binding peptide.

Brian Kuhlman, Glenn L. Butterfoss, David P. Siderovski, 2011, Journal of the American Chemical Society.

The Crystal Structure of a Self-Activating G Protein α Subunit Reveals Its Distinct Mechanism of Signal Initiation

Alan M. Jones, H. Dohlman, M. Machius, 2011, Science Signaling.

Computational de novo design of a four‐helix bundle protein—DND_4HB

Thomas Szyperski, Brian Kuhlman, Bryan S. Der, 2015, Protein science : a publication of the Protein Society.

Highly Conserved Molecular Features in IgLONs Contrast their Distinct Structural and Biological Outcomes.

M. Machius, G. Rudenko, S. Rush, 2020, Journal of molecular biology.

Discovery of Macrocyclic Pyrimidines as MerTK‐Specific Inhibitors

S. Frye, M. Machius, M. Miley, 2017, ChemMedChem.

Discovery of Mer specific tyrosine kinase inhibitors for the treatment and prevention of thrombosis.

S. Frye, W. Janzen, M. Machius, 2013, Journal of medicinal chemistry.

Structural Evidence That the 32-Kilodalton Lipoprotein (Tp32) of Treponema pallidum Is an l-Methionine-binding Protein*

M. Machius, D. Tomchick, C. Brautigam, 2004, Journal of Biological Chemistry.

Structural and Biochemical Basis for Polyamine Binding to the Tp0655 Lipoprotein of Treponema pallidum

M. Machius, D. Tomchick, C. Brautigam, 2008 .

Molecular mechanism for regulation of the human mitochondrial branched-chain alpha-ketoacid dehydrogenase complex by phosphorylation.

Jun Li, D. Chuang, M. Machius, 2004, Structure.

Chemically targeting the redox switch in AP1 transcription factor ΔFOSB

S. Haggarty, E. Nestler, Wen-Ning Zhao, 2022, Nucleic acids research.

Mechanism of Rab geranylgeranylation: formation of the catalytic ternary complex.

J. Deisenhofer, K. Westover, M. Machius, 1998, Biochemistry.

Activation of Bacillus licheniformis alpha-amylase through a disorder-->order transition of the substrate-binding site mediated by a calcium-sodium-calcium metal triad.

R. Huber, M. Machius, N. Declerck, 1998, Structure.

Diffraction data analysis in the presence of radiation damage

Zbyszek Otwinowski, Wladek Minor, Marcin Cymborowski, 2010, Acta crystallographica. Section D, Biological crystallography.

Structural biology: a high-tech tool for biomedical research

M. Machius, Mischa Machius, 2003, Current opinion in nephrology and hypertension.

Structural basis for inactivation of the human pyruvate dehydrogenase complex by phosphorylation: role of disordered phosphorylation loops.

Jun Li, Jun Li, D. Chuang, 2008, Structure.

Structural analyses to identify selective inhibitors of glyceraldehyde 3-phosphate dehydrogenase-S, a sperm-specific glycolytic enzyme.

D. A. O’Brien, M. Machius, M. Miley, 2016, Molecular human reproduction.

The Two Active Sites in Human Branched-chain α-Keto Acid Dehydrogenase Operate Independently without an Obligatory Alternating-site Mechanism*

Jun Li, D. Chuang, M. Machius, 2007, Journal of Biological Chemistry.

Heterotrimeric G-protein Signaling Is Critical to Pathogenic Processes in Entamoeba histolytica

M. Machius, D. Siderovski, F. Willard, 2012, PLoS pathogens.

Structural basis for the inhibition of the LSD1 histone demethylase by the antidepressant trans-2-phenylcyclopropylamine.

M. Machius, P. Cole, Hongtao Yu, 2007, Biochemistry.

Structural basis for CoREST-dependent demethylation of nucleosomes by the human LSD1 histone demethylase.

Z. Otwinowski, M. Machius, Hongtao Yu, 2006, Molecular cell.

Structural Basis for the Inhibition of the LSD 1 Histone Demethylase by the Antidepressant rans-2-Phenylcyclopropylamine

M. Machius, P. Cole, Hongtao Yu, 2022 .

Structural basis of histone demethylation by LSD1 revealed by suicide inactivation

M. Machius, P. Cole, Hongtao Yu, 2007, Nature Structural &Molecular Biology.

Artificial ligand binding within the HIF2α PAS-B domain of the HIF2 transcription factor

Kevin H. Gardner, K. Gardner, M. Machius, 2009, Proceedings of the National Academy of Sciences.

Interplay between hevin, SPARC, and MDGAs: modulators of neurexin-neuroligin transsynaptic bridges.

M. Machius, G. Rudenko, Shanghua Fan, 2021, Structure.

TIR-only protein RBA1 recognizes a pathogen effector to regulate cell death in Arabidopsis

Ryan G. Anderson, M. Nishimura, J. Dangl, 2017, Proceedings of the National Academy of Sciences.

The nucleotide excision repair protein UvrB, a helicase-like enzyme with a catch.

M. Machius, B. Van Houten, C. Kisker, 2000, Mutation research.

Crystal structure of the DNA nucleotide excision repair enzyme UvrB from Thermus thermophilus.

J. Deisenhofer, M. Machius, L. Henry, 1999, Proceedings of the National Academy of Sciences of the United States of America.

Structural and Energetic Mechanisms of Cooperative Autoinhibition and Activation of Vav1

Michael K. Rosen, Martin E. Fernandez-Zapico, Gaya K. Amarasinghe, 2010, Cell.

Crystal structure of the TAO2 kinase domain: activation and specificity of a Ste20p MAP3K.

E. Goldsmith, M. Machius, M. Cobb, 2004, Structure.

Munc 13 C 2 B domain is an activity-dependent Ca 2 + regulator of synaptic exocytosis

T. Südhof, J. Rizo, Christian Rosenmund, 2010 .

Changes at the KinA PAS-A dimerization interface influence histidine kinase function.

Klaas J. Hellingwerf, Kevin H. Gardner, Remco Kort, 2008, Biochemistry.

Structural and biochemical basis for polyamine binding to the Tp0655 lipoprotein of Treponema pallidum: putative role for Tp0655 (TpPotD) as a polyamine receptor.

Z. Otwinowski, M. Machius, D. Tomchick, 2007, Journal of molecular biology.

A proximal arginine R206 participates in switching of the Bradyrhizobium japonicum FixL oxygen sensor.

M. Machius, M. Gilles-Gonzalez, Constancio González, 2006, Journal of molecular biology.

A versatile conformational switch regulates reactivity in human branched-chain alpha-ketoacid dehydrogenase.

Jun Li, Chad A Brautigam, Jun Li, 2006, Structure.

Self-assembly of the bZIP transcription factor ΔFosB

E. Nestler, M. Machius, Z. Yin, 2019, Current research in structural biology.

Monovalent cation dependence and preference of GHKL ATPases and kinases 1

M. Machius, Wei Yang, Xiaojian Hu, 2003, FEBS letters.

Side chain and backbone contributions of Phe508 to CFTR folding

Chad A Brautigam, M. Machius, P. Thomas, 2005, Nature Structural &Molecular Biology.

Crystal structure of human dihydrolipoamide dehydrogenase: NAD+/NADH binding and the structural basis of disease-causing mutations.

D. Chuang, M. Machius, D. Tomchick, 2005, Journal of molecular biology.

Structure and substrate recruitment of the human spindle checkpoint kinase Bub1.

Chao Zhang, K. Shokat, M. Machius, 2008, Molecular cell.

Engineering the thermostability of Bacillus licheniformis alpha-amylase

R. Huber, C. Gaillardin, M. Machius, 2002 .

Crystal structure of a T cell receptor Valpha11 (AV11S5) domain: new canonical forms for the first and second complementarity determining regions.

J. Deisenhofer, M. Machius, E. Ward, 2001, Journal of molecular biology.

Structural insight into interactions between dihydrolipoamide dehydrogenase (E3) and E3 binding protein of human pyruvate dehydrogenase complex.

Chad A Brautigam, D. Chuang, M. Machius, 2006, Structure.

Engineering the thermostability of Bacillus licheniformis -amylase

R. Huber, C. Gaillardin, M. Machius, 2002 .

Hyperthermostable mutants of Bacillus licheniformis alpha-amylase: thermodynamic studies and structural interpretation.

R. Huber, C. Gaillardin, M. Machius, 1997, Protein engineering.

Crystal structure of a 12 ANK repeat stack from human ankyrinR

Peter Michaely, M. Machius, D. Tomchick, 2002, The EMBO journal.

Structure and mechanism of a eukaryotic FMN adenylyltransferase.

N. Grishin, M. Machius, D. Borek, 2009, Journal of molecular biology.

Localization and Structure of the Ankyrin-binding Site on β2-Spectrin*

M. Machius, D. Tomchick, C. Brautigam, 2009, Journal of Biological Chemistry.

Pseudo-cyclization through intramolecular hydrogen bond enables discovery of pyridine substituted pyrimidines as new Mer kinase inhibitors.

S. Frye, W. Janzen, M. Machius, 2013, Journal of medicinal chemistry.

Discovery of Novel Small Molecule Mer Kinase Inhibitors for the Treatment of Pediatric Acute Lymphoblastic Leukemia.

S. Frye, W. Janzen, M. Machius, 2012, ACS medicinal chemistry letters.

Discovery of Small Molecule Mer Kinase Inhibitors for the Treatment of Pediatric Acute Lymphoblastic Leukemia

Amy Lynnette Van Deusen, S. Frye, W. Janzen, 2012 .

Structural basis of Rho GTPase-mediated activation of the formin mDia1.

M. Machius, D. Tomchick, M. Rosen, 2005, Molecular cell.

Structural basis for the evolutionary inactivation of Ca2+ binding to synaptotagmin 4

T. Südhof, J. Rizo, M. Machius, 2004, Nature Structural &Molecular Biology.

A single active-site mutation of P450BM-3 dramatically enhances substrate binding and rate of product formation.

M. Machius, J. Humphreys, Weiqiang Zhao, 2011, Biochemistry.

Structural Basis for a Munc13–1 Homodimer to Munc13–1/RIM Heterodimer Switch

T. Südhof, I. Dulubova, J. Rizo, 2006, PLoS biology.

p31comet Blocks Mad2 Activation through Structural Mimicry

J. Rizo, M. Machius, Hongtao Yu, 2007, Cell.

Structure of the photolyase-like domain of cryptochrome 1 from Arabidopsis thaliana.

Chad A Brautigam, J. Deisenhofer, M. Machius, 2004, Proceedings of the National Academy of Sciences of the United States of America.

Activator Protein-1: redox switch controlling structure and DNA-binding

E. Nestler, M. Machius, Z. Yin, 2017, Nucleic acids research.

Three-Dimensional Structure of the Complexin/SNARE Complex

T. Südhof, J. Rizo, M. Machius, 2002, Neuron.

Structural Insight into Interactions between Dihydrolipoamide Dehydrogenase ( E 3 ) and E 3 Binding Protein of Human Pyruvate Dehydrogenase Complex

D. Chuang, M. Machius, D. Tomchick, 2022 .

Carbohydrate and protein-based inhibitors of porcine pancreatic alpha-amylase: structure analysis and comparison of their binding characteristics.

R. Huber, M. Machius, G. Wiegand, 1996, Journal of molecular biology.

Biophysical and Bioinformatic Analyses Implicate the Treponema pallidum Tp34 Lipoprotein (Tp0971) in Transition Metal Homeostasis

M. Machius, D. Tomchick, C. Brautigam, 2012, Journal of bacteriology.

Structure of rat BCKD kinase: Nucleotide-induced domain communication in a mitochondrial protein kinase

D. Chuang, M. Machius, D. Tomchick, 2001, Proceedings of the National Academy of Sciences of the United States of America.

Roles of His291-α and His146-β′ in the Reductive Acylation Reaction Catalyzed by Human Branched-chain α-Ketoacid Dehydrogenase

Jun Li, Jun Li, D. Chuang, 2003, Journal of Biological Chemistry.

Roles of His291-alpha and His146-beta' in the reductive acylation reaction catalyzed by human branched-chain alpha-ketoacid dehydrogenase: refined phosphorylation loop structure in the active site.

Jun Li, Jun Li, D. Chuang, 2003, The Journal of biological chemistry.

Structural basis of actin filament nucleation and processive capping by a formin homology 2 domain

Michael K. Rosen, M. Machius, D. Tomchick, 2005, Nature.

Crystal structures of the effector‐binding domain of repressor Central glycolytic gene Regulator from Bacillus subtilis reveal ligand‐induced structural changes upon binding of several glycolytic intermediates

Zbyszek Otwinowski, Andrzej Joachimiak, A. Joachimiak, 2008, Molecular microbiology.

Munc13 C2B-Domain – an Activity-Dependent Ca2+-Regulator of Synaptic Exocytosis

T. Südhof, J. Rizo, Christian Rosenmund, 2010, Nature Structural &Molecular Biology.

Molecular Mechanism of MDGA1: Regulation of Neuroligin 2:Neurexin Trans-synaptic Bridges

M. Machius, G. Rudenko, S. Seshadrinathan, 2017, Neuron.

Crystal Structure of the Tp34 (TP0971) Lipoprotein of Treponema pallidum

M. Machius, D. Tomchick, C. Brautigam, 2007, Journal of Biological Chemistry.

Insights into Mad2 Regulation in the Spindle Checkpoint Revealed by the Crystal Structure of the Symmetric Mad2 Dimer

J. Rizo, M. Machius, Hongtao Yu, 2008, PLoS biology.

Crystal Structure of the RIM1α C2B Domain at 1.7 Å Resolution

T. Südhof, I. Dulubova, J. Rizo, 2007 .

Crystal Structure of the RIM 1 R C 2 B Domain at 1 . 7 Å Resolution

T. Südhof, I. Dulubova, J. Rizo, 2022 .

Pivotal role of water in the mechanism of P450BM-3.

M. Machius, D. Tomchick, J. Peterson, 2001, Biochemistry.

Structural Basis for a Munc13-1 Homodimer - Munc13-1 - RIM Heterodimer Switch: C2-domains as Versatile Protein-Protein Interaction Modules

T. Südhof, I. Dulubova, J. Rizo, 2006 .

Insights into Mad 2 Regulation in the Spindle Checkpoint Revealed by the Crystal Structure of the Symmetric Mad 2 Dimer

J. Rizo, M. Machius, Hongtao Yu, 2008 .

Functional analysis of rare variants found in schizophrenia implicates a critical role for GIT1–PAK3 signaling in neuroplasticity

S. Mccarroll, S. Haggarty, S. Purcell, 2017, Molecular Psychiatry.

Structural Analysis of Xanthomonas XopD Provides Insights into Substrate Specificity of Ubiquitin-like Protein Proteases*

M. Machius, K. Orth, D. Tomchick, 2007, Journal of Biological Chemistry.

Crystal Structure of the Formin mDia1 in Autoinhibited Conformation

M. Machius, D. Tomchick, M. Rosen, 2010, PloS one.

Designer molecules of the synaptic organizer MDGA1 reveal 3D conformational control of biological function

M. Machius, G. Rudenko, Hideto Takahashi, 2023, The Journal of biological chemistry.

Crystal structure of inhibitor-bound P450BM-3 reveals open conformation of substrate access channel.

M. Machius, D. Tomchick, J. Peterson, 2008, Biochemistry.

Its Distinct Mechanism of Signal Initiation The Crystal Structure of a Self-Activating G Protein { alpha } Subunit Reveals

Alan M. Jones, M. Machius, Henrik, 2011 .

Crystal Structure of the 47-kDa Lipoprotein of Treponema pallidum Reveals a Novel Penicillin-binding Protein*

M. Machius, D. Tomchick, M. Norgard, 2002, The Journal of Biological Chemistry.

The PnrA (Tp0319; TmpC) Lipoprotein Represents a New Family of Bacterial Purine Nucleoside Receptor Encoded within an ATP-binding Cassette (ABC)-like Operon in Treponema pallidum*

M. Machius, D. Tomchick, C. Brautigam, 2006, Journal of Biological Chemistry.

Cross-talk between Thiamin Diphosphate Binding and Phosphorylation Loop Conformation in Human Branched-chain α-Keto Acid Decarboxylase/Dehydrogenase*

Jun Li, D. Chuang, M. Machius, 2004, Journal of Biological Chemistry.

Interactions of substrates at the surface of P450s can greatly enhance substrate potency.

M. Machius, D. Tomchick, J. Peterson, 2007, Biochemistry.

Crystal structure of the RIM2 C2A-domain at 1.4 A resolution.

T. Südhof, J. Rizo, M. Machius, 2005, Biochemistry.

Design and Synthesis of Novel Macrocyclic Mer Tyrosine Kinase Inhibitors.

S. Frye, M. Machius, M. Miley, 2016, ACS medicinal chemistry letters.

Primary Role of Functional Ischemia, Quantitative Evidence for the Two-Hit Mechanism, and Phosphodiesterase-5 Inhibitor Therapy in Mouse Muscular Dystrophy

T. Südhof, I. Dulubova, J. Rizo, 2007, PloS one.

The PnrA (Tp0319; TmpC) Lipoprotein Represents a New Family of Bacterial Purine Nucleoside Receptor Encoded within an ATP-binding Cassette (ABC)-like Operon in Treponema pallidum*

M. Machius, D. Tomchick, C. Brautigam, 2006, Journal of Biological Chemistry.

Computational design of a symmetric homodimer using β-strand assembly

B. Kuhlman, P. B. Stranges, M. Machius, 2011, Proceedings of the National Academy of Sciences.

Computational de novo design of a four‐helix bundle protein—DND_4HB

Bryan S. Der, Surya V. S. R. K. Pulavarti, B. Kuhlman, 2015, Protein science : a publication of the Protein Society.

Metal-mediated affinity and orientation specificity in a computationally designed protein homodimer.

Bryan S. Der, B. Kuhlman, T. Szyperski, 2012, Journal of the American Chemical Society.

Structural Determinants of Affinity Enhancement between GoLoco Motifs and G-Protein α Subunit Mutants*

B. Kuhlman, D. Sammond, M. Machius, 2010, The Journal of Biological Chemistry.

Discovery of Mer specific tyrosine kinase inhibitors for the treatment and prevention of thrombosis.

S. Frye, M. Machius, M. Miley, 2013, Journal of medicinal chemistry.

Discovery of Macrocyclic Pyrimidines as MerTK‐Specific Inhibitors

S. Frye, M. Machius, M. Miley, 2017, ChemMedChem.

Crystal Structure of the 47-Kilodalton Lipoprotein of Treponema pallidum Reveals a Novel Penicillin-Binding Protein

M. Machius, D. Tomchick, M. Norgard, 2002 .

Structure and mechanism of a eukaryotic FMN adenylyltransferase.

N. Grishin, M. Machius, D. Borek, 2009, Journal of molecular biology.