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VitroJet: new features and case studies
Acta Crystallogr D Struct Biol 2024 Apr 1.
Henderikx RJM;Mann D;Domanska A;Dong J;Shahzad S;Lak B;Filopoulou A;Ludig D;Grininger M;Momoh J;Laanto E;Oksanen HM;Bisikalo K;Williams PA;Butcher SJ;Peters PJ;Beulen BWAMM;
Mechanism of proton-powered c-ring rotation in a mitochondrial ATP synthase
Using cryo-EM to understand the assembly pathway of respiratory complex I
Acta Crystallogr D Struct Biol 2024 Mar 1;80(Pt 3):159-173.
Laube E;Schiller J;Zickermann V;Vonck J;
Hierarchical Assembly of Single-Stranded RNA
Three-step docking by WIPI2, ATG16L1, and ATG3 delivers LC3 to the phagophore
Sci Adv 2024 Feb 9;10(6):eadj8027.
Rao S;Skulsuppaisarn M;Strong LM;Ren X;Lazarou M;Hurley JH;Hummer G;
Direct structural analysis of a single acyl carrier protein domain in fatty acid synthase from the fungus Saccharomyces cerevisiae
Commun Biol 2024 Jan 12;7(1):92.
Samani EK;Chen AC;Lou JW;Dai DL;Keszei AFA;Tan G;Boone C;Grininger M;Mazhab-Jafari MT;
Machine-guided path sampling to discover mechanisms of molecular self-organization
Nat Comput Sci 2023 Apr;3(4):334-345.
Jung H;Covino R;Arjun A;Leitold C;Dellago C;Bolhuis PG;Hummer G;
Creating new-to-nature carbon fixation: A guide
Metab Eng 2024 Mar:82:12-28.
Schulz-Mirbach H;Dronsella B;He H;Erb TJ;
One More for Light-triggered Conformational Changes in Cryptochromes: CryP from Phaeodactylum tricornutum
J Mol Biol 2024 Mar 1;436(5):168408.
Saft M;Schneider L;Ho CC;Maiterth E;Menke J;Sendker F;Steinchen W;Essen LO;
Neighbor List Artifacts in Molecular Dynamics Simulations
Machine Learning-Supported Enzyme Engineering toward Improved CO2-Fixation of Glycolyl-CoA Carboxylase
ACS Synth Biol 2023 Dec 15;12(12):3521-3530.
Marchal DG;Schulz L;Schuster I;Ivanovska J;Paczia N;Prinz S;Zarzycki J;Erb TJ;
Archaeal GPN-loop GTPases involve a lock-switch-rock mechanism for GTP hydrolysis
mBio 2023 Nov 14;14(6):e0085923.
Korf L;Ye X;Vogt MS;Steinchen W;Watad M;van der Does C;Tourte M;Sivabalasarma S;Albers S-V;Essen L-O;
Epitope characterization of proteins and aptamers with mass spectrometry
Cryo-electron tomography reveals the binding and release states of the major adhesion complex from Mycoplasma genitalium
PLoS Pathog 2023 Nov 8;19(11):e1011761.
Sprankel L;Scheffer MP;Manger S;Ermel UH;Frangakis AS;
Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides
Nat Commun 2023 Nov 8;14(1):7197.
Pandi A;Adam D;Zare A;Trinh VT;Schaefer SL;Burt M;Klabunde B;Bobkova E;Kushwaha M;Foroughijabbari Y;Braun P;Spahn C;Preußer C;Pogge von Strandmann E;Bode HB;von Buttlar H;Bertrams W;Jung AL;Abendroth F;Schmeck B;Hummer G;Vázquez O;Erb TJ;
How Acyl Carrier Proteins (ACPs) Direct Fatty Acid and Polyketide Biosynthesis
Angew Chem Int Ed Engl 2024 Jan 22;63(4):e202312476.
Buyachuihan L;Stegemann F;Grininger M;
Efficient generation of random rotation matrices in four dimensions
Phys Rev E 2023 Sep;108(3-2):035307.
Bullerjahn JT;Fábián B;Hummer G;
Photosynthesis 2.0: Realizing New-to-Nature CO2-Fixation to Overcome the Limits of Natural Metabolism
Two conformations of the Tom20 preprotein receptor in the TOM holo complex
Proc Natl Acad Sci U S A 2023 Aug 22;120(34):e2301447120.
Ornelas P;Bausewein T;Martin J;Morgner N;Nussberger S;Kühlbrandt W;
Guidelines for Optimizing Type S Nonribosomal Peptide Synthetases
ACS Synth Biol 2023 Aug 18;12(8):2432-2443.
Abbood N;Effert J;Bozhueyuek KAJ;Bode HB;
easyPACId, a Simple Method for Induced Production, Isolation, Identification, and Testing of Natural Products from Proteobacteria
Bio Protoc 2023 Jul 5;13(13):e4709.
Bode E;Assmann D;Happel P;Meyer E;Münch K;Rössel N;Bode HB;
CryoEM analysis of the essential native UDP-glucose pyrophosphorylase from Aspergillus nidulans reveals key conformations for activity regulation and function
mBio 2023 Aug 31;14(4):e0041423.
Han X;D'Angelo C;Otamendi A;Cifuente JO;de Astigarraga E;Ochoa-Lizarralde B;Grininger M;Routier FH;Guerin ME;Fuehring J;Etxebeste O;Connell SR;
Docking Domain Engineering in a Modular Polyketide Synthase and Its Impact on Structure and Function
ACS Chem Biol 2023 Jul 21;18(7):1500-1509.
Buyachuihan L;Zhao Y;Schelhas C;Grininger M;
Draft genomes, phylogenomic reconstruction and comparative genome analysis of three Xenorhabdus strains isolated from soil-dwelling nematodes in Kenya
Access Microbiol 2023 May 22;5(5):acmi000531.v4.
Awori RM;Waturu CN;Pidot SJ;Amugune NO;Bode HB;
Functional Degeneracy in Paracoccus denitrificans Pd1222 Is Coordinated via RamB, Which Links Expression of the Glyoxylate Cycle to Activity of the Ethylmalonyl-CoA Pathway
Appl Environ Microbiol 2023 Jul 26;89(7):e0023823.
Kremer K;Meier D;Theis L;Miller S;Rost-Nasshan A;Naing YT;Zarzycki J;Paczia N;Serrania J;Blumenkamp P;Goesmann A;Becker A;Thanbichler M;Hochberg GKA;Carter MS;Erb TJ;
Exploring alternative pathways for the in vitro establishment of the HOPAC cycle for synthetic CO2 fixation
Sci Adv 2023 Jun 16;9(24):eadh4299.
McLean R;Schwander T;Diehl C;Cortina NS;Paczia N;Zarzycki J;Erb TJ;
Unwrapping NPT Simulations to Calculate Diffusion Coefficients
J Chem Theory Comput 2023 Jun 13;19(11):3406-3417.
Bullerjahn JT;von Bülow S;Heidari M;Hénin J;Hummer G;
Enhancing the Substrate Specificity of Clostridium Succinyl-CoA Reductase for Synthetic Biology and Biocatalysis
Biochemistry 2023 Jun 6;62(11):1786-1793.
Pfister P;Diehl C;Hammarlund E;Carrillo M;Erb TJ;
A Practical Guideline to Engineering Nonribosomal Peptide Synthetases
Methods Mol Biol 2023:2670:219-234.
Abbood N;Präve L;Bozhueyuek KAJ;Bode HB;
Engineering a new-to-nature cascade for phosphate-dependent formate to formaldehyde conversion in vitro and in vivo
Nat Commun 2023 May 9;14(1):2682.
Nattermann M;Wenk S;Pfister P;He H;Lee SH;Szymanski W;Guntermann N;Zhu F;Nickel L;Wallner C;Zarzycki J;Paczia N;Gaißert N;Franciò G;Leitner W;Gonzalez R;Erb TJ;
An optimized reverse β-oxidation pathway to produce selected medium-chain fatty acids in Saccharomyces cerevisiae
Biotechnol Biofuels Bioprod 2023 Apr 26;16(1):71.
Garces Daza F;Haitz F;Born A;Boles E;
Development of vitamin B12 dependency in Saccharomyces cerevisiae
Enzymology of assembly line synthesis by modular polyketide synthases
Peroxisomal metabolic coupling improves fatty alcohol production from sole methanol in yeast
Structural and dynamic effects of pseudouridine modifications on noncanonical interactions in RNA
RNA 2023 Jun;29(6):790-807.
Vögele J;Duchardt-Ferner E;Kruse H;Zhang Z;Sponer J;Krepl M;Wöhnert J;
Optimal Bond Constraint Topology for Molecular Dynamics Simulations of Cholesterol
Essential protein P116 extracts cholesterol and other indispensable lipids for Mycoplasmas
Nat Struct Mol Biol 2023 Mar;30(3):321-329.
Sprankel L;Vizarraga D;Martín J;Manger S;Meier-Credo J;Marcos M;Julve J;Rotllan N;Scheffer MP;Escolà-Gil JC;Langer JD;Piñol J;Fita I;Frangakis AS;
Implementation of the β-hydroxyaspartate cycle increases growth performance of Pseudomonas putida on the PET monomer ethylene glycol
Metab Eng 2023 Mar:76:97-109.
Schada von Borzyskowski L;Schulz-Mirbach H;Troncoso Castellanos M;Severi F;Gómez-Coronado PA;Paczia N;Glatter T;Bar-Even A;Lindner SN;Erb TJ;
Antibody accessibility determines location of spike surface mutations in SARS-CoV-2 variants
PLoS Comput Biol 2023 Jan 24;19(1):e1010822.
von Bülow S;Sikora M;Blanc FEC;Covino R;Hummer G;
Structural and Functional Analysis of a Prokaryotic (6-4) Photolyase from the Aquatic Pathogen Vibrio Cholerae†
Photochem Photobiol 2023 Sep-Oct;99(5):1248-1257.
Emmerich HJ;Schneider L;Essen LO;
Analysis of the conformational heterogeneity of the Rieske iron-sulfur protein in complex III2 by cryo-EM
IUCrJ 2023 Jan 1;10(Pt 1):27-37.
Wieferig JP;Kühlbrandt W;
Engineering of Specific Single-Module Nonribosomal Peptide Synthetases of the RXP Type for the Production of Defined Peptides
Structural Basis for a Cork-Up Mechanism of the Intra-Molecular Mesaconyl-CoA Transferase
Biochemistry 2023 Jan 3;62(1):75-84.
Pfister P;Zarzycki J;Erb TJ;
Synthetic anaplerotic modules for the direct synthesis of complex molecules from CO2
Nat Chem Biol 2023 Feb;19(2):168-175.
Diehl C;Gerlinger PD;Paczia N;Erb TJ;
Structural ensembles of disordered proteins from hierarchical chain growth and simulation
Curr Opin Struct Biol 2023 Feb:78:102501.
Pietrek LM;Stelzl LS;Hummer G;
Complexes++: Efficient and versatile coarse-grained simulations of protein complexes and their dense solutions
J Chem Phys 2022 Nov 28;157(20):204802.
Linke M;Quoika PK;Bramas B;Köfinger J;Hummer G;
Conformational changes in mitochondrial complex I of the thermophilic eukaryote Chaetomium thermophilum
Sci Adv 2022 Nov 25;8(47):eadc9952.
Laube E;Meier-Credo J;Langer JD;Kühlbrandt W;
Multiple Functions of the Type II Thioesterase Associated with the Phoslactomycin Polyketide Synthase
Biochemistry 2022 Dec 6;61(23):2662-2671.
Geyer K;Hartmann S;Singh RR;Erb TJ;
Sublytic gasdermin-D pores captured in atomistic molecular simulations
Elife 2022 Nov 14:11:e81432.
Schaefer SL;Hummer G;
TriMem: A parallelized hybrid Monte Carlo software for efficient simulations of lipid membranes
J Chem Phys 2022 Nov 7;157(17):174801.
Siggel M;Kehl S;Reuter K;Köfinger J;Hummer G;
Concluding remarks: Challenges and future developments in biological electron cryo-microscopy
ArtiaX: An electron tomography toolbox for the interactive handling of sub-tomograms in UCSF ChimeraX
Protein Sci 2022 Dec;31(12):e4472.
Ermel UH;Arghittu SM;Frangakis AS;
Genome Mining Enabled by Biosynthetic Characterization Uncovers a Class of Benzoxazolinate-Containing Natural Products in Diverse Bacteria
Angew Chem Int Ed Engl 2022 Dec 19;61(51):e202206106.
Shi YM;Crames JJ;Czech L;Bozhüyük KAJ;Shi YN;Hirschmann M;Lamberth S;Claus P;Paczia N;Rückert C;Kalinowski J;Bange G;Bode HB;
Nanoporous Membranes of Densely Packed Carbon Nanotubes Formed by Lipid-Mediated Self-Assembly
ACS Appl Bio Mater 2024 Feb 19;7(2):528-534.
Vögele M;Köfinger J;Hummer G;
A New Control Strategy for High-Pressure Homogenization to Improve the Safety of Injectable Lipid Emulsions
Pharmaceutics 2022 Jul 31;14(8):1603.
Grumbach C;Krüger V;Czermak P;
Chemoenzymatic synthesis of fluorinated polyketides
Nat Chem 2022 Sep;14(9):1000-1006.
Rittner A;Joppe M;Schmidt JJ;Mayer LM;Reiners S;Heid E;Herzberg D;Sherman DH;Grininger M;
Small ionic radii limit time step in Martini 3 molecular dynamics simulations
J Chem Phys 2022 Jul 21;157(3):034101.
Fábián B;Thallmair S;Hummer G;
Cleavage Off-Loading and Post-assembly-Line Conversions Yield Products with Unusual Termini during Biosynthesis
ACS Chem Biol 2022 Aug 19;17(8):2221-2228.
Shi YM;Hirschmann M;Shi YN;Bode HB;
Pathway and protein engineering for biosynthesis
A versatile active learning workflow for optimization of genetic and metabolic networks
Nat Commun 2022 Jul 5;13(1):3876.
Pandi A;Diehl C;Yazdizadeh Kharrazi A;Scholz SA;Bobkova E;Faure L;Nattermann M;Adam D;Chapin N;Foroughijabbari Y;Moritz C;Paczia N;Cortina NS;Faulon JL;Erb TJ;
LILBID-MS: using lasers to shed light on biomolecular architectures
Structural insights into the mechanism of archaellar rotational switching
Nat Commun 2022 May 23;13(1):2857.
Altegoer F;Quax TEF;Weiland P;Nußbaum P;Giammarinaro PI;Patro M;Li Z;Oesterhelt D;Grininger M;Albers SV;Bange G;
Hot-Water Hemicellulose Extraction from Fruit Processing Residues
ACS Omega 2022 Apr 12;7(16):13436-13447.
Wolf M;Berger F;Hanstein S;Weidenkaff A;Endreß HU;Oestreich AM;Ebrahimi M;Czermak P;
Global analysis of biosynthetic gene clusters reveals conserved and unique natural products in entomopathogenic nematode-symbiotic bacteria
Nat Chem 2022 Jun;14(6):701-712.
Shi YM;Hirschmann M;Shi YN;Ahmed S;Abebew D;Tobias NJ;Grün P;Crames JJ;Pöschel L;Kuttenlochner W;Richter C;Herrmann J;Müller R;Thanwisai A;Pidot SJ;Stinear TP;Groll M;Kim Y;Bode HB;
Screening for Biofilm-Stimulating Factors in the Freshwater Planctomycete Planctopirus limnophila to Improve Sessile Growth in a Chemically Defined Medium
Global Structure of the Intrinsically Disordered Protein Tau Emerges from Its Local Structure
JACS Au 2022 Mar 1;2(3):673-686.
Stelzl LS;Pietrek LM;Holla A;Oroz J;Sikora M;Köfinger J;Schuler B;Zweckstetter M;Hummer G;
Forty years in cryoEM of membrane proteins
Bacterial F-type ATP synthases follow a well-choreographed assembly pathway
Nat Commun 2022 Mar 8;13(1):1218.
Vu Huu K;Zangl R;Hoffmann J;Just A;Morgner N;
A Combined Ultrafiltration/Diafiltration Process for the Purification of Oncolytic Measles Virus
Membranes (Basel) 2022 Jan 18;12(2):105.
Loewe D;Dieken H;Grein TA;Salzig D;Czermak P;
1H, 13C and 15N chemical shift assignment of the stem-loops 5b + c from the 5'-UTR of SARS-CoV-2
Biomol NMR Assign 2022 Apr;16(1):17-25.
Mertinkus KR;Grün JT;Altincekic N;Bains JK;Ceylan B;Ferner JP;Frydman L;Fürtig B;Hengesbach M;Hohmann KF;Hymon D;Kim J;Knezic B;Novakovic M;Oxenfarth A;Peter SA;Qureshi NS;Richter C;Scherf T;Schlundt A;Schnieders R;Schwalbe H;Stirnal E;Sudakov A;Vögele J;Wacker A;Weigand JE;Wirmer-Bartoschek J;Martin MAW;Wöhnert J;
Type S Non-Ribosomal Peptide Synthetases for the Rapid Generation of Tailormade Peptide Libraries
Chemistry 2022 May 6;28(26):e202103963.
Abbood N;Duy Vo T;Watzel J;Bozhueyuek KAJ;Bode HB;
Mean curvature motion facilitates the segmentation and surface visualization of electron tomograms
Process intensification for the continuous production of an antimicrobial peptide in stably-transformed Sf-9 insect cells
Sci Rep 2022 Jan 20;12(1):1086.
Käßer L;Rotter M;Coletta L;Salzig D;Czermak P;
Uncovering Nematicidal Natural Products from Xenorhabdus Bacteria
J Agric Food Chem 2022 Jan 19;70(2):498-506.
Abebew D;Sayedain FS;Bode E;Bode HB;
Solution Structure and Conformational Flexibility of a Polyketide Synthase Module
JACS Au 2021 Oct 18;1(12):2162-2171.
Klaus M;Rossini E;Linden A;Paithankar KS;Zeug M;Ignatova Z;Urlaub H;Khosla C;Köfinger J;Hummer G;Grininger M;
A novel class of Candida glabrata cell wall proteins with β-helix fold mediates adhesion in clinical isolates
PLoS Pathog 2021 Dec 28;17(12):e1009980.
Reithofer V;Fernández-Pereira J;Alvarado M;de Groot P;Essen LO;
Conformational changes in the yeast mitochondrial ABC transporter Atm1 during the transport cycle
Sci Adv 2021 Dec 24;7(52):eabk2392.
Ellinghaus TL;Marcellino T;Srinivasan V;Lill R;Kühlbrandt W;
It's noisy out there! A review of denoising techniques in cryo-electron tomography
Conformational Change of Tetratricopeptide Repeats Region Triggers Activation of Phytochrome-Associated Protein Phosphatase 5
In situ purification and enrichment of fructo-oligosaccharides by fermentative treatment with Bacillus coagulans and selective catalysis using immobilized fructosyltransferase
Bioresour Technol 2021 Dec:342:125969.
Fan R;Dresler J;Tissen D;Wen L;Czermak P;
Engineering a Highly Efficient Carboligase for Synthetic One-Carbon Metabolism
ACS Catal 2021 May 7;11(9):5396-5404.
Nattermann M;Burgener S;Pfister P;Chou A;Schulz L;Lee SH;Paczia N;Zarzycki J;Gonzalez R;Erb TJ;
Binding of SARS-CoV-2 Fusion Peptide to Host Endosome and Plasma Membrane
Maximum likelihood estimates of diffusion coefficients from single-particle tracking experiments
Correction: Engineering strategies for rational polyketide synthase design
Influence of Ceramic Membrane Surface Characteristics on the Flux Behavior of a Complex Fermentation Broth
Membranes (Basel) 2021 May 28;11(6):402.
Maguire NAP;Ebrahimi M;Fan R;Gießelmann S;Ehlen F;Schütz S;Czermak P;
Synthetic Zippers as an Enabling Tool for Engineering of Non-Ribosomal Peptide Synthetases*
Angew Chem Int Ed Engl 2021 Aug 2;60(32):17531-17538.
Bozhueyuek KAJ;Watzel J;Abbood N;Bode HB;
Impfstoffe für alle? Dodecin als Impfstoffplattform
Biospektrum (Heidelb) 2021;27(3):250-253.
Bourdeaux F;Rittner A;Grininger M;
Ultrafast photoreduction dynamics of a new class of CPD photolyases
Photochem Photobiol Sci 2021 Jun;20(6):733-746.
Lacombat F;Espagne A;Dozova N;Plaza P;Müller P;Emmerich HJ;Saft M;Essen LO;
A Modular In Vitro Platform for the Production of Terpenes and Polyketides from CO2
Angew Chem Int Ed Engl 2021 Jul 19;60(30):16420-16425.
Sundaram S;Diehl C;Cortina NS;Bamberger J;Paczia N;Erb TJ;
Dual nature of human ACE2 glycosylation in binding to SARS-CoV-2 spike
Cooperation between a T Domain and a Minimal C-Terminal Docking Domain to Enable Specific Assembly in a Multiprotein NRPS
Angew Chem Int Ed Engl 2021 Jun 14;60(25):14171-14178.
Watzel J;Duchardt-Ferner E;Sarawi S;Bode HB;Wöhnert J;
Molecular landscape of etioplast inner membranes in higher plants
Nat Plants 2021 Apr;7(4):514-523.
Floris D;Kühlbrandt W;
Computational epitope map of SARS-CoV-2 spike protein
PLoS Comput Biol 2021 Apr 1;17(4):e1008790.
Sikora M;von Bülow S;Blanc FEC;Gecht M;Covino R;Hummer G;
Devitrification reduces beam-induced movement in cryo-EM
IUCrJ 2021 Mar 1;8(Pt 2):186-194.
Wieferig JP;Mills DJ;Kühlbrandt W;
Current limitations to high-resolution structure determination by single-particle cryoEM
Q Rev Biophys 2021 Mar 11:54:e4.
D'Imprima E;Kühlbrandt W;
Structure and biosynthesis of deoxy-polyamine in Xenorhabdus bovienii
J Ind Microbiol Biotechnol 2021 Jun 4;48(3-4):kuab006.
Wenski SL;Berghaus N;Keller N;Bode HB;
NMR resonance assignments for a docking domain pair with an attached thiolation domain from the PAX peptide-producing NRPS from Xenorhabdus cabanillasii
Biomol NMR Assign 2021 Apr;15(1):229-234.
Watzel J;Sarawi S;Duchardt-Ferner E;Bode HB;Wöhnert J;
Ex vivo visualization of RNA polymerase III-specific gene activity with electron microscopy
Commun Biol 2021 Feb 19;4(1):234.
Manger S;Ermel UH;Frangakis AS;
Microbial Cationic Peptides as a Natural Defense Mechanism against Insect Antimicrobial Peptides
ACS Chem Biol 2021 Mar 19;16(3):447-451.
Vo TD;Spahn C;Heilemann M;Bode HB;
FAM134B-RHD Protein Clustering Drives Spontaneous Budding of Asymmetric Membranes
J Phys Chem Lett 2021 Feb 25;12(7):1926-1931.
Siggel M;Bhaskara RM;Moesser MK;D Ikić I;Hummer G;
Light-powered CO(2) fixation in a chloroplast mimic with natural and synthetic parts
Science 2020 May 8;368(6491):649-654
Miller TE, Beneyton T, Schwander T, Diehl C, Girault M, McLean R, Chotel T, Claus P, Cortina NS, Baret JC, Erb TJ
Non-ribosomal peptides produced by minimal and engineered synthetases with terminal reductase domains
Chembiochem 2020 May 7
Tietze A, Shi YN, Kronenwerth M, Bode HB
Artificial Splitting of a Non-Ribosomal Peptide Synthetase by Inserting Natural Docking Domains
The role of the iterative modules in polyketide synthase evolution
Understanding Substrate Selectivity of Phoslactomycin Polyketide Synthase by Using Reconstituted in Vitro Systems
Chembiochem 2020 Mar 30
Geyer K, Sundaram S, Sušnik P, Koert U, Erb TJ
A New Docking Domain Type in the Peptide-Antimicrobial-Xenorhabdus Peptide Producing Nonribosomal Peptide Synthetase from Xenorhabdus bovienii
ACS Chem Biol 2020 Apr 17;15(4):982-989
Watzel J, Hacker C, Duchardt-Ferner E, Bode HB, Wöhnert J
The resolution revolution in cryoEM requires high-quality sample preparation: a rapid pipeline to a high-resolution map of yeast fatty acid synthase
IUCrJ 2020 Jan 25;7(Pt 2):220-227
Joppe M, D'Imprima E, Salustros N, Paithankar KS, Vonck J, Grininger M, Kühlbrandt W
Reply to Desikan et al
: Micelle formation among various mechanisms of toxin pore formation Proc Natl Acad Sci U S A
Vögele M, Bhaskara RM, Mulvihill E, van Pee K, Yildiz Ö, Kühlbrandt W, Müller DJ, Hummer G
Innovative Optical-Sensing Technology for the Online Fouling Characterization of Silicon Carbide Membranes during the Treatment of Oily Water
Sensors (Basel) 2020 Feb 20;20(4)
Ebrahimi M, Schmidt AA, Kaplan C, Schmitz O, Czermak P
Analysis of the co-translational assembly of the fungal fatty acid synthase (FAS)
Sci Rep 2020 Jan 21;10(1):895
Fischer M, Joppe M, Mulinacci B, Vollrath R, Konstantinidis K, Kötter P, Ciccarelli L, Vonck J, Oesterhelt D, Grininger M
Opportunities to debottleneck the downstream processing of the oncolytic measles virus
Crit Rev Biotechnol 2020 Mar;40(2):247-264
Loewe D, Dieken H, Grein TA, Weidner T, Salzig D, Czermak P
Oxalyl-CoA Decarboxylase Enables Nucleophilic One-Carbon Extension of Aldehydes to Chiral α-Hydroxy Acids
Identification of the 3-amino-3-carboxypropyl (acp) transferase enzyme responsible for acp3U formation at position 47 in Escherichia coli tRNAs
Nucleic Acids Res 2020 Feb 20;48(3):1435-1450
Meyer B, Immer C, Kaiser S, Sharma S, Yang J, Watzinger P, Weiß L, Kotter A, Helm M, Seitz HM, Kötter P, Kellner S, Entian KD, Wöhnert J
Turbidimetry and Dielectric Spectroscopy as Process Analytical Technologies for Mammalian and Insect Cell Cultures
Methods Mol Biol 2020;2095:335-364
Käßer L, Zitzmann J, Grein T, Weidner T, Salzig D, Czermak P
Ion Binding and Selectivity of the Na(+)/H(+) Antiporter MjNhaP1 from Experiment and Simulation
J Phys Chem B 2020 Jan 16;124(2):336-344
Warnau J, Wöhlert D, Okazaki KI, Yildiz Ö, Gamiz-Hernandez AP, Kaila VRI, Kühlbrandt W, Hummer G
Phototemtide A, a Cyclic Lipopeptide Heterologously Expressed from Photorhabdus temperata Meg1, Shows Selective Antiprotozoal Activity
Chembiochem 2020 May 4;21(9):1288-1292
Zhao L, Vo TD, Kaiser M, Bode HB
Type I fatty acid synthase trapped in the octanoyl-bound state
Protein Sci 2020 Feb;29(2):589-605
Rittner A, Paithankar KS, Himmler A, Grininger M
Hierarchical Ensembles of Intrinsically Disordered Proteins at Atomic Resolution in Molecular Dynamics Simulations
J Chem Theory Comput 2020 Jan 14;16(1):725-737
Pietrek LM, Stelzl LS, Hummer G
Crystal structure of the translation recovery factor Trf from Sulfolobus solfataricus
FEBS Open Bio 2019 Dec 5
Kaiser M, Wurm JP, Märtens B, Bläsi U, Pogoryelov D, Wöhnert J
Structure, Biosynthesis, and Bioactivity of Photoditritide from Photorhabdus temperata Meg1
J Nat Prod 2019 Dec 27;82(12):3499-3503
Zhao L, Awori RM, Kaiser M, Groß J, Opatz T, Bode HB
Tangential Flow Filtration for the Concentration of Oncolytic Measles Virus: The Influence of Filter Properties and the Cell Culture Medium
Membranes (Basel) 2019 Nov 29;9(12)
Loewe D, Grein TA, Dieken H, Weidner T, Salzig D, Czermak P
High-resolution EPR distance measurements on RNA and DNA with the non-covalent Ǵ spin label
Nucleic Acids Res 2020 Jan 24;48(2):924-933
Heinz M, Erlenbach N, Stelzl LS, Thierolf G, Kamble NR, Sigurdsson ST, Prisner TF, Hummer G
Structure of an RNA aptamer in complex with the fluorophore tetramethylrhodamine
Nucleic Acids Res 2020 Jan 24;48(2):949-961
Duchardt-Ferner E, Juen M, Bourgeois B, Madl T, Kreutz C, Ohlenschläger O, Wöhnert J
Revolutionizing agriculture with synthetic biology
Nat Plants 2019 Dec;5(12):1207-1210
Wurtzel ET, Vickers CE, Hanson AD, Millar AH, Cooper M, Voss-Fels KP, Nikel PI, Erb TJ
Marine Proteobacteria metabolize glycolate via the β-hydroxyaspartate cycle
Nature 2019 Nov;575(7783):500-504
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Viruses 2019 Aug 7;11(8)
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Chem Sci 2019 May 14;10(25):6341-6349
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Microbiology 2019 Oct;165(10):1095-1106
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Front Bioeng Biotechnol 2019 Jun 27;7:150
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Science 2019 Jun 21;364(6446)
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Proc Natl Acad Sci U S A 2019 Jul 2;116(27):13352-13357
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Nat Chem 2019 Jul;11(7):653-661
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Nat Commun 2019 May 30;10(1):2370
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Nat Chem Biol 2019 Apr;15(4):331-339
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Sci Rep 2018 Oct 5;8(1):14864
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J Phys Chem B 2018 Dec 13;122(49):11626-11639
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Delocalized hole transport coupled to sub-ns tryptophanyl deprotonation promotes photoreduction of class II photolyases
Phys Chem Chem Phys 2018 Oct 10;20(39):25446-25457
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Chem Commun (Camb) 2018 Oct 11;54(82):11606-11609
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LILBID and nESI: Different Native Mass Spectrometry Techniques as Tools in Structural Biology
J Am Soc Mass Spectrom 2019 Jan;30(1):181-191
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InhA, the enoyl-thioester reductase from Mycobacterium tuberculosis forms a covalent adduct during catalysis
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Sci Rep 2018 Aug 10;8(1):11985
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Bayesian inference of rotor ring stoichiometry from electron microscopy images of archaeal ATP synthase
Microscopy (Oxf) 2018 Oct 1;67(5):266-273
Cossio P, Allegretti M, Mayer F, Müller V, Vonck J, Hummer G
Structure of the bifunctional cryptochrome aCRY from Chlamydomonas reinhardtii
Nucleic Acids Res 2018 Sep 6;46(15):8010-8022
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RNA 2018 Oct;24(10):1390-1402
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Hydrodynamics of Diffusion in Lipid Membrane Simulations
Phys Rev Lett 2018 Jun 29;120(26):268104
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Single-cell cloning enables the selection of more productive Drosophila melanogaster S2 cells for recombinant protein expression
Biotechnol Rep (Amst) 2018 Jul 3;19:e00272
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Molecular dynamics simulations of carbon nanotube porins in lipid bilayers
Faraday Discuss 2018 Sep 28;209(0):341-358
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Engineering strategies for rational polyketide synthase design
NMR resonance assignments for a ProQ homolog from Legionella pneumophila
Biomol NMR Assign 2018 Oct;12(2):319-322
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An engineered fatty acid synthase combined with a carboxylic acid reductase enables de novo production of 1-octanol in Saccharomyces cerevisiae
Biotechnol Biofuels 2018 Jun 1;11:150
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Characterization of the small flavin-binding dodecin in the roseoflavin producer Streptomyces davawensis
Microbiology 2018 Jun;164(6):908-919
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Refining the Natural Product Repertoire in Entomopathogenic Bacteria
Trends Microbiol 2018 Oct;26(10):833-840
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Rotational Diffusion Depends on Box Size in Molecular Dynamics Simulations
J Phys Chem Lett 2018 Jun 7;9(11):2874-2878
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Structure, mechanism, and regulation of the chloroplast ATP synthase
Science 2018 May 11;360(6389)
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Combining Promiscuous Acyl-CoA Oxidase and Enoyl-CoA Carboxylase/Reductases for Atypical Polyketide Extender Unit Biosynthesis
Cell Chem Biol 2018 Jul 19;25(7):833-839
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Sub-nanosecond tryptophan radical deprotonation mediated by a protein-bound water cluster in class II DNA photolyases
Chem Sci 2017 Dec 11;9(5):1200-1212
Müller P, Ignatz E, Kiontke S, Brettel K, Essen LO
Combined Approach of Backbone Amide Linking and On-Resin N-Methylation for the Synthesis of Bioactive and Metabolically Stable Peptides
J Med Chem 2018 May 10;61(9):3930-3938
Wesche F, Adihou H, Kaiser A, Wurglics M, Schubert-Zsilavecz M, Kaiser M, Bode HB
An engineered Calvin-Benson-Bassham cycle for carbon dioxide fixation in Methylobacterium extorquens AM1
Metab Eng 2018 May;47:423-433
Schada von Borzyskowski L, Carrillo M, Leupold S, Glatter T, Kiefer P, Weishaupt R, Heinemann M, Erb TJ
Flavin Storage and Sequestration by Mycobacterium tuberculosis Dodecin
ACS Infect Dis 2018 Jul 13;4(7):1082-1092
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The benzodiazepine-like natural product tilivalline is produced by the entomopathogenic bacterium Xenorhabdus eapokensis
Likelihood-based structural analysis of electron microscopy images
Dielectric Spectroscopy and Optical Density Measurement for the Online Monitoring and Control of Recombinant Protein Production in Stably Transformed Drosophila melanogaster S2 Cells
Sensors (Basel) 2018 Mar 18;18(3)
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Structure of the catalytic F(1) head of the F(1)-F(o) ATP synthase from Trypanosoma brucei
Conserved in situ arrangement of complex I and III(2) in mitochondrial respiratory chain supercomplexes of mammals, yeast, and plants
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Georatusin, a Specific Antiparasitic Polyketide-Peptide Hybrid from the Fungus Geomyces auratus
Org Lett 2018 Mar 16;20(6):1563-1567
Shi YM, Richter C, Challinor VL, Grün P, Girela Del Rio A, Kaiser M, Schüffler A, Piepenbring M, Schwalbe H, Bode HB
Cryo-electron tomography analyses of terminal organelle mutants suggest the motility mechanism of Mycoplasma genitalium
Mol Microbiol 2018 May;108(3):319-329
Seybert A, Gonzalez-Gonzalez L, Scheffer MP, Lluch-Senar M, Mariscal AM, Querol E, Matthaeus F, Piñol J, Frangakis AS
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Subcell Biochem 2018;87:167-227
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Nat Chem 2018 Mar;10(3):275-281
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Metabolomics-based chemotaxonomy of root endophytic fungi for natural products discovery
Environ Microbiol 2018 Mar;20(3):1253-1270
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J Phys Chem B 2018 May 31;122(21):5630-5639
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Chemical language and warfare of bacterial natural products in bacteria-nematode-insect interactions
Engineering of hydroxymandelate synthases and the aromatic amino acid pathway enables de novo biosynthesis of mandelic and 4-hydroxymandelic acid with Saccharomyces cerevisiae
Metab Eng 2018 Jan;45:246-254
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Characterization of the Polyspecific Transferase of Murine Type I Fatty Acid Synthase (FAS) and Implications for Polyketide Synthase (PKS) Engineering
ACS Chem Biol 2018 Mar 16;13(3):723-732
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High titer oncolytic measles virus production process by integration of dielectric spectroscopy as online monitoring system
Biotechnol Bioeng 2018 May;115(5):1186-1194
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Molecular Basis for Converting (2S)-Methylsuccinyl-CoA Dehydrogenase into an Oxidase
Molecules 2017 Dec 28;23(1)
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Elife 2017 Dec 6;6
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FEMS Yeast Res 2017 Dec 1;17(8)
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Crit Rev Biotechnol 2018 Aug;38(5):729-744
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Classical Molecular Dynamics with Mobile Protons
Scaffolding the cup-shaped double membrane in autophagy
PLoS Comput Biol 2017 Oct 24;13(10):e1005817
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Dynamic Histogram Analysis To Determine Free Energies and Rates from Biased Simulations
J Chem Theory Comput 2017 Dec 12;13(12):6328-6342
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J Chem Phys 2017 Oct 21;147(15):152716
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Anal Chem 2017 Nov 21;89(22):12314-12318
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Nat Microbiol 2017 Dec;2(12):1676-1685
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Environ Microbiol 2017 Nov;19(11):4564-4575
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Non-invasive Raman Spectroscopy and Quantitative Real-Time PCR Distinguish Among Undifferentiated Human Mesenchymal Stem Cells and Redifferentiated Nucleus Pulposus Cells and Chondrocytes In Vitro
Open Biomed Eng J 2017 Jul 31;11:72-84
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Nicotinamide Adenine Dinucleotides Arrest Photoreduction of Class II DNA Photolyases in FADH(˙) State
Photochem Photobiol 2018 Jan;94(1):81-87
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Baculovirus-induced recombinant protein expression in human mesenchymal stromal stem cells: A promoter study
N Biotechnol 2017 Oct 25;39(Pt B):161-166
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Cryo-EM Structure of the TOM Core Complex from Neurospora crassa
Cell 2017 Aug 10;170(4):693-700
Bausewein T, Mills DJ, Langer JD, Nitschke B, Nussberger S, Kühlbrandt W
Resolving the Conformational Dynamics of DNA with Ångstrom Resolution by Pulsed Electron-Electron Double Resonance and Molecular Dynamics
J Am Chem Soc 2017 Aug 30;139(34):11674-11677
Stelzl LS, Erlenbach N, Heinz M, Prisner TF, Hummer G
Changes of mitochondrial ultrastructure and function during ageing in mice and Drosophila
Elife 2017 Jul 12;6
Brandt T, Mourier A, Tain LS, Partridge L, Larsson NG, Kühlbrandt W
Strategies in megasynthase engineering - fatty acid synthases (FAS) as model proteins
Structural characterization of the NAP; the major adhesion complex of the human pathogen Mycoplasma genitalium
Mol Microbiol 2017 Sep;105(6):869-879
Scheffer MP, Gonzalez-Gonzalez L, Seybert A, Ratera M, Kunz M, Valpuesta JM, Fita I, Querol E, Piñol J, Martín-Benito J, Frangakis AS
LuxS-dependent AI-2 production is not involved in global regulation of natural product biosynthesis in Photorhabdus and Xenorhabdus
PeerJ 2017 Jun 26;5:e3471
Heinrich AK, Hirschmann M, Neubacher N, Bode HB
Kinetics from Replica Exchange Molecular Dynamics Simulations
Identification and occurrence of the hydroxamate siderophores aerobactin, putrebactin, avaroferrin and ochrobactin C as virulence factors from entomopathogenic bacteria
Environ Microbiol 2017 Oct;19(10):4080-4090
Hirschmann M, Grundmann F, Bode HB
Structure and in situ organisation of the Pyrococcus furiosus archaellum machinery
Elife 2017 Jun 27;6
Daum B, Vonck J, Bellack A, Chaudhury P, Reichelt R, Albers SV, Rachel R, Kühlbrandt W
Secretion of 2,3-dihydroxyisovalerate as a limiting factor for isobutanol production in Saccharomyces cerevisiae
FEMS Yeast Res 2017 May 1;17(3)
Generoso WC, Brinek M, Dietz H, Oreb M, Boles E
A conserved threonine prevents self-intoxication of enoyl-thioester reductases
Nat Chem Biol 2017 Jul;13(7):745-749
Rosenthal RG, Vögeli B, Wagner T, Shima S, Erb TJ
Position-Dependent Diffusion Tensors in Anisotropic Media from Simulation: Oxygen Transport in and through Membranes
J Chem Theory Comput 2017 Jun 13;13(6):2962-2976
Ghysels A, Venable RM, Pastor RW, Hummer G
Anaerobic Membrane Bioreactor for Continuous Lactic Acid Fermentation
Membranes (Basel) 2017 May 3;7(2)
Fan R, Ebrahimi M, Czermak P
Microbiology: A new language for small talk
Solid-phase enrichment and analysis of electrophilic natural products
Structure and Biosynthesis of Isatropolones, Bioactive Amine-Scavenging Fluorescent Natural Products from Streptomyces Gö66
Angew Chem Int Ed Engl 2017 Apr 24;56(18):4945-4949
Cai X, Shi YM, Pöhlmann N, Revermann O, Bahner I, Pidot SJ, Wesche F, Lackner H, Büchel C, Kaiser M, Richter C, Schwalbe H, Stinear TP, Zeeck A, Bode HB
De novo biosynthesis of trans-cinnamic acid derivatives in Saccharomyces cerevisiae
Appl Microbiol Biotechnol 2017 Jun;101(12):4883-4893
Gottardi M, Knudsen JD, Prado L, Oreb M, Branduardi P, Boles E
Entomopathogenic bacteria use multiple mechanisms for bioactive peptide library design
Nat Chem 2017 Apr;9(4):379-386
Cai X, Nowak S, Wesche F, Bischoff I, Kaiser M, Fürst R, Bode HB
Engineering fungal de novo fatty acid synthesis for short chain fatty acid production
Nat Commun 2017 Mar 10;8:14650
Gajewski J, Pavlovic R, Fischer M, Boles E, Grininger M
The Global Regulators Lrp, LeuO, and HexA Control Secondary Metabolism in Entomopathogenic Bacteria
Front Microbiol 2017 Feb 17;8:209
Engel Y, Windhorst C, Lu X, Goodrich-Blair H, Bode HB
Engineering fatty acid synthases for directed polyketide production
Nat Chem Biol 2017 Apr;13(4):363-365
Gajewski J, Buelens F, Serdjukow S, Janßen M, Cortina N, Grubmüller H, Grininger M
Expanding the product portfolio of fungal type I fatty acid synthases
Nat Chem Biol 2017 Apr;13(4):360-362
Zhu Z, Zhou YJ, Krivoruchko A, Grininger M, Zhao ZK, Nielsen J
A high-throughput expression screening platform to optimize the production of antimicrobial peptides
Microb Cell Fact 2017 Feb 13;16(1):29
Schreiber C, Müller H, Birrenbach O, Klein M, Heerd D, Weidner T, Salzig D, Czermak P
Biosynthesis of the Antibiotic Nematophin and Its Elongated Derivatives in Entomopathogenic Bacteria
Org Lett 2017 Feb 17;19(4):806-809
Cai X, Challinor VL, Zhao L, Reimer D, Adihou H, Grün P, Kaiser M, Bode HB
Optimized expression of the antimicrobial protein Gloverin from Galleria mellonella using stably transformed Drosophila melanogaster S2 cells
Cytotechnology 2017 Apr;69(2):371-389
Zitzmann J, Weidner T, Czermak P
Carbon Nanotubes Mediate Fusion of Lipid Vesicles
ACS Nano 2017 Feb 28;11(2):1273-1280
Bhaskara RM, Linker SM, Vögele M, Köfinger J, Hummer G
Natural Products from Photorhabdus and Other Entomopathogenic Bacteria
Curr Top Microbiol Immunol 2017;402:55-79
Bozhüyük KAJ, Zhou Q, Engel Y, Heinrich A, Pérez A, Bode HB
Analyzing native membrane protein assembly in nanodiscs by combined non-covalent mass spectrometry and synthetic biology
Elife 2017 Jan 9;6
Henrich E, Peetz O, Hein C, Laguerre A, Hoffmann B, Hoffmann J, Dötsch V, Bernhard F, Morgner N
Screening different host cell lines for the dynamic production of measles virus
Biotechnol Prog 2017 Jul;33(4):989-997
Grein TA, Schwebel F, Kress M, Loewe D, Dieken H, Salzig D, Weidner T, Czermak P
A Stably Protonated Adenine Nucleotide with a Highly Shifted pK(a) Value Stabilizes the Tertiary Structure of a GTP-Binding RNA Aptamer
Angew Chem Int Ed Engl 2017 Jan 2;56(1):401-404
Wolter AC, Weickhmann AK, Nasiri AH, Hantke K, Ohlenschläger O, Wunderlich CH, Kreutz C, Duchardt-Ferner E, Wöhnert J
NMR resonance assignments for the tetramethylrhodamine binding RNA aptamer 3 in complex with the ligand 5-carboxy-tetramethylrhodamine
Biomol NMR Assign 2017 Apr;11(1):29-34
Duchardt-Ferner E, Juen M, Kreutz C, Wöhnert J
Photorhabdus-nematode symbiosis is dependent on hfq-mediated regulation of secondary metabolites
Environ Microbiol 2017 Jan;19(1):119-129
Tobias NJ, Heinrich AK, Eresmann H, Wright PR, Neubacher N, Backofen R, Bode HB
Three-dimensional CTF correction improves the resolution of electron tomograms