Publications of the Kollmar group
Kliche W, Fujita-Becker S, Kollmar M, Manstein DJ, Kull FJ (2001)
Structure of a genetically engineered molecular motor.
EMBO Journal 20, 40-46
Kollmar M, Goldfuss B, Reggelin M, Rominger F, Helmchen G (2001)
(Phosphanyloxazoline)palladium complexes, part I: (η3-1,3-dialkylallyl)(phosphanyloxazoline)palladium complexes: X-ray crystallographic studies, NMR investigations, and quantum-chemical calculations.
Chemistry 7, 4913-4927
Kollmar M, Parlitz R, Oevers ST, Helmchen G (2002)
2-Amino-3-fluoro-benzoic acid.
Organic Syntheses 78, 196-203
Kollmar M, Dürrwang U, Kliche W, Manstein DJ, Kull FJ (2002)
Crystal structure of the motor domain of a class-I myosin.
EMBO Journal 21, 2517-2525
Kollmar M, Steinhagen H, Janssen JP, Goldfuss B, Malinovskaya SA, Vazquez J, Rominger F, Helmchen G (2002)
(η3-phenylallyl)(phosphanyloxazoline)palladium complexes: X-ray crystallographic studies, NMR investigations, and Ab initio/DFT calculations.
Chemistry 8, 3103-3114
Kollmar M, Helmchen G (2002)
An (η1-Allyl)Pd Complex of a Chiral Bidentate Ligand: Crystallographic and NMR Studies on a (η1-3,3-Diphenylallyl)(phosphinooxazoline)palladium Complex.
Organometallics 21, 4771-4775
Kollmar M, Glöckner G (2003)
Identification and phylogenetic characterisation of Dictyostelium discoideum kinesin proteins.
BMC Genomics 4, 47
Kollmar M (2006)
Use of the myosin motor domain as large-affinity tag for the expression and purification of proteins in Dictyostelium discoideum.
International Journal of Biological Macromolecules 39, 37-44
Kollmar M (2006)
Thirteen is enough: The myosins of Dictyostelium discoideum and their light chains.
BMC Genomics 7, 183
Odronitz F, Kollmar M (2006)
Pfarao: A web application for protein family analysis customized for cytoskeletal and motor proteins (CyMoBase).
BMC Genomics 7, 300
Odronitz F, Hellkamp M, Kollmar M (2007)
diArk – a resource for eukaryotic genome research.
BMC Genomics 8, 103
Odronitz F, Kollmar M (2007)
Drawing the tree of eukaryotic life based on the analysis of 2269 manually annotated myosins from 328 species.
Genome Biology 8, R196
Odronitz F, Kollmar M (2008)
Comparative genomic analysis of the arthropod muscle myosin heavy chain genes allows ancestral gene reconstruction and reveals a new type of partially processed pseudogene.
BMC Molecular Biology 9, 21
Keller O, Odronitz F, Stanke M, Kollmar M, Waack S (2008)
Scipio: Using protein sequences to determine the precise exon/intron structures of genes and their orthologs in closely related species.
BMC Bioinformatics 9, 278
Odronitz F, Pillmann H, Keller O, Waack S, Kollmar M (2008)
WebScipio: An online tool for the determination of gene structures using protein sequences.
BMC Genomics 9, 422
Odronitz F, Becker S, Kollmar M (2009)
Reconstructing the phylogeny of 21 completely sequenced arthropod species based on their motor proteins.
BMC Genomics 10, 173
Keller O, Stanke M, Kollmar M, Waack S (2011)
A novel hybrid gene prediction method employing protein multiple sequence alignments.
Bioinformatics 27, 757-763
Hatje K, Keller O, Hammesfahr B, Pillmann H, Waack S, Kollmar M (2011)
Cross-species protein sequence and gene structure prediction with fine-tuned Webscipio 2.0 and Scipio.
BMC Research Notes 4, 265
Pillmann H, Hatje K, Odronitz F, Hammesfahr B, Kollmar M (2011)
Predicting mutually exclusive spliced exons based on exon length, splice site and reading frame conservation, and exon sequence homology.
BMC Bioinformatics 12, 270
Hammesfahr B, Odronitz F, Hellkamp M, Kollmar M (2011)
diArk 2.0 provides detailed analyses of the ever increasing eukaryotic genome sequencing data.
BMC Research Notes 4, 338
Eckert C, Hammesfahr B, Kollmar M (2011)
A holistic phylogeny of the coronin gene family reveals an ancient origin of the tandem-coronin, defines a new subfamily, and predicts protein function.
BMC Evolutionary Biology 11, 268
Hatje K, Kollmar M (2011)
Predicting tandemly arrayed gene duplicates with WebScipio.
Gene duplication, 59-76
Kollmar M, Lbik D, Enge S (2012)
Evolution of the eukaryotic ARP2/3 activators of the WASP family: WASP, WAVE, WASH, and WHAMM, and the proposed new family members WAWH and WAML.
BMC Research Notes 5, 88
Eckert C, Goretzki A, Faberova M, Kollmar M (2012)
Conservation and divergence between cytoplasmic and muscle-specific actin capping proteins: insights from the crystal structure of cytoplasmic Cap32/34 from Dictyostelium discoideum.
BMC Structural Biology 11, 12
Hammesfahr B, Kollmar M (2012)
Evolution of the eukaryotic dynactin complex, the activator of cytoplasmic dynein.
BMC Evolutionary Biology 12, 95
Hatje K, Kollmar M (2012)
A phylogenetic analysis of the brassicales clade based on an alignment-free sequence comparison method.
Frontiers in Plant Science 3, 192
Schneider R, Odronitz F, Hammesfahr B, Hellkamp M, Kollmar M (2013)
Peakr: Simulating solid-state NMR spectra of proteins.
Bioinformatics 29, 1134-1140
Hammesfahr B, Odronitz F, Mühlhausen S, Waack, S, Kollmar M (2013)
GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures.
BMC Bioinformatics 14, 77
Hatje K, Hammesfahr B, Kollmar M (2013)
WebScipio: reconstructing alternative splice variants of eukaryotic proteins.
Nucleic Acids Research 41, W504-W509
Mazur A, Hammesfahr B, Griesinger C, Lee D, Kollmar M (2013)
ShereKhan—calculating exchange parameters in relaxation dispersion data from CPMG experiments.
Bioinformatics 29, 1819-1820
Samwer M, Dehne H-J, Spira F, Kollmar M, Gerlich D, Urlaub H, Görlich D (2013)
The nuclear F-actin interactome of Xenopus oocytes reveals an actin-bundling kinesin that is essential for meiotic cytokinesis.
EMBO Journal 32, 1886-1902
Hatje K, Kollmar M (2013)
Expansion of the mutually exclusive spliced exome in Drosophila.
Nature Communications 4, 2460
Mühlhausen S, Kollmar M (2013)
Whole genome duplication events in plant evolution reconstructed and predicted using myosin motor proteins.
BMC Evolutionary Biology 13, 202
Hatje K, Kollmar M (2014)
Kassiopeia: A database and web application for the analysis of mutually exclusive exomes of eukaryotes.
BMC Genomics 15, 115
Kollmar M, Hatje K (2014)
Shared gene structures and clusters of mutually exclusive spliced exons within the metazoan muscle myosin heavy chain genes.
PLoS One 9, e88111
Mühlhausen S, Kollmar M (2014)
Molecular phylogeny of sequenced Saccharomycetes reveals polyphyly of the Alternative Yeast Codon Usage.
Genome Biology and Evolution 6, 3222–3237
Horwege S, Lindner S, Boden S, Hatje K, Kollmar M, Leimeister C-A, Morgenstern B (2014)
Spaced words and kmacs: fast alignment-free sequence comparison based on inexact word matches.
Nucleic Acids Research 42, W7-11
Mühlhausen S, Kollmar M (2014)
Predicting the fungal CUG codon translation with Bagheera.
BMC Genomics 15, 411
Findeisen P, Mühlhausen S, Dempewolf S, Hertzog J, Zietlow A, Carlomagno T, Kollmar M (2014)
Six subgroups and extensive recent duplications characterize the evolution of the eukaryotic tubulin protein family.
Genome Biology and Evolution 6, 2274-2288
Simm D, Hatje K, Kollmar M (2015)
Waggawagga: comparative visualization of coiled-coil predictions and detection of stable single α-helices (SAH domains).
Bioinformatics 31, 767-769
Kollmar M, Kollmar L, Hammesfahr B, Simm D (2015)
diArk – the database for eukaryotic genome and transcriptome assemblies in 2014.
Nucleic Acids Research 43, D1107-1112
Mühlhausen S, Hellkamp M, Kollmar M (2015)
GenePainter v. 2.0 resolves the taxonomic distribution of intron positions.
Bioinformatics 31, 1302-1304
Kollmar M (2015)
Polyphyly of nuclear lamin genes indicates an early eukaryotic origin of the metazoan-type intermediate filament proteins.
Scientific Reports 5, 10652
Mühlhausen S, Findeisen P, Plessmann U, Urlaub H, Kollmar M (2016)
A novel nuclear genetic code alteration in yeasts and the evolution of codon reassignment in eukaryotes.
Genome Research 26, 945-955
Seehusen F, Kiel K, Jottini S, Wohlsein P, Habierski A, Seibel K, Vogel T, Urlaub H, Kollmar M, Baumgärtner W, Teichmann U (2016)
Axonopathy in the Central Nervous System Is the Hallmark of Mice with a Novel Intragenic Null Mutation of Dystonin.
Genetics 204, 191-203
Pylypenko O, Welz T, Tittel J, Kollmar M, Chardon F, Malherbe G, Weiss S, Michel CI, Samol-Wolf A, Grasskamp AT, Hume A, Goud B, Baron B, England P, Titus MA, Schwille P, Weidemann T, Houdusse A, Kerkhoff E (2016)
Coordinated recruitment of Spir actin nucleators and myosin V motors to Rab11 vesicle membranes.
eLife 5, e17523
Kollmar M (2016)
Fine-Tuning Motile Cilia and Flagella: Evolution of the Dynein Motor Proteins from Plants to Humans at High Resolution.
Molecular Biology and Evolution 33, 3249-3267
Kollmar M, Mühlhausen S (2017)
How tRNAs dictate nuclear codon reassignments: Only a few can capture non-cognate codons.
RNA Biology 14, 293-299
Kollmar M, Mühlhausen S (2017)
Nuclear codon reassignments in the genomics era and mechanisms behind their evolution.
BioEssays 39
Simm D, Hatje K, Kollmar M (2017)
Distribution and evolution of stable single α-helices (SAH domains) in myosin motor proteins.
PLoS One 12, e0174639
Pearce SL, Clarke DF, East PD, Elfekih S, Gordon KHJ, Jermiin LS, McGaughran A, Oakeshott JG, Papanikolaou A, Perera OP, Rane RV, Richards S, Tay WT, Walsh TK, Anderson A, Anderson CJ, Asgari S, Board PG, Bretschneider A, Campbell PM, Chertemps T, Christeller JT, Coppin CW, Downes SJ, Duan G, Farnsworth CA, Good RT, Han LB, Han YC, Hatje K, Horne I, Huang YP, Hughes DST, Jacquin-Joly E, James W, Jhangiani S, Kollmar M, Kuwar SS, Li S, Liu NY, Maibeche MT, Miller JR, Montagne N, Perry T, Qu J, Song SV, Sutton GG, Vogel H, Walenz BP, Xu W, Zhang HJ, Zou Z, Batterham P, Edwards OR, Feyereisen R, Gibbs RA, Heckel DG, McGrath A, Robin C, Scherer SE, Worley KC, Wu YD (2017)
Genomic innovations, transcriptional plasticity and gene loss underlying the evolution and divergence of two highly polyphagous and invasive Helicoverpa pest species.
BMC Biology 15, 63
Kollmar M, Mühlhausen S (2017)
Myosin repertoire expansion coincides with eukaryotic diversification in the Mesoproterozoic era.
BMC Evolutionary Biology 17, 211
Hatje K, Rahman RU, Vidal RO, Simm D, Hammesfahr B, Bansal V, Rajput A, Mickael ME, Sun T, Bonn S, Kollmar M (2017)
The landscape of human mutually exclusive splicing.
Molecular Systems Biology 13, 959
Simm D, Kollmar M (2018)
Waggawagga-CLI: A command-line tool for predicting stable single α-helices (SAH-domains), and the SAH-domain distribution across eukaryotes.
PLoS One 13, e0191924
Kollmar M, Simm D (2018)
Identifying Sequenced Eukaryotic Genomes and Transcriptomes with diArk.
Methods in Molecular Biology 1757, 1-19
Mühlhausen S, Schmitt HD, Pan KT, Plessmann U, Urlaub H, Hurst LD, Kollmar M (2018)
Endogenous Stochastic Decoding of the CUG Codon by Competing Ser- and Leu-tRNAs in Ascoidea asiatica.
Current Biology 28, 2046-2057