Publications

Publications from following years are available: 2010, 2009, 2008, 2007, 2006, 2005, 2004, 2003, 2002

Members of our department are marked with italic letters.

2010

Autoinhibition of GEF activity in Intersectin1L is mediated by the short SH3-DH domain linker.
Kintscher C, Wuertenberger S, Eylenstein R, Uhlendorf T, Groemping Y.
Protein Sci. 2010 Sep 14. [Epub ahead of print]

Trafficking through COPII stabilises cell polarity and drives secretion during Drosophila epidermal differentiation.
Norum M, Tång E, Chavoshi T, Schwarz H, Linke D, Uv A, Moussian B.
PLoS One. 2010 May 24;5(5):e10802.
(PubMed, pdf)

Structure and evolution of mitochondrial outer membrane proteins of beta-barrel topology.
Zeth K.
Biochim Biophys Acta. 2010 June - July;1797(6-7):1292-1299. Epub 2010 May 5.
(PubMed, pdf)

Homology of SMP domains to the TULIP superfamily of lipid-binding proteins provides a structural basis for lipid exchange between ER and mitochondria.
Kopec KO, Alva V, Lupas AN.
Bioinformatics. 2010 Jun 16. [Epub ahead of print]
(PubMed, pdf)

A novel signal transduction protein P(II) variant from Synechococcus elongatus PCC 7942 indicates a two-step process for NAGK- P(II) complex formation.
Fokina O, Chellamuthu VR, Zeth K, Forchhammer K.
J Mol Biol. 2010 Apr 15. [Epub ahead of print]
(PubMed, pdf)

The bacterial N-end rule pathway: expect the unexpected.
Dougan DA, Truscott KN, Zeth K.
Mol Microbiol. 2010 May;76(3):545-58. Epub 2010 Mar 30.
(PubMed, pdf)

Omp85 from the thermophilic cyanobacterium thermosynechococcus elongatus differs from proteobacterial Omp85 in structure and domain composition.
Arnold T, Zeth K, Linke D.
J Biol Chem. 2010 Jun 4;285(23):18003-15. Epub 2010 Mar 29.
(PubMed, pdf)

Trimer stability of YadA is critical for virulence of Yersinia enterocolitica.
Schütz M, Weiss EM, Schindler M, Hallström T, Zipfel PF, Linke D, Autenrieth IB.
Infect Immun. 2010 Mar 22. [Epub ahead of print]
(PubMed, pdf)

Molecular details of Bax activation, oligomerization, and membrane insertion.
Bleicken S, Classen M, Padmavathi PV, Ishikawa T, Zeth K, Steinhoff HJ, Bordignon E.
J Biol Chem. 2010 Feb 26;285(9):6636-47. Epub 2009 Dec 12.
(PubMed, pdf)

Comprehensive Analysis of HAMP Domains: Implications for Transmembrane Signal Transduction.
Dunin-Horkawicz S, Lupas AN.
J Mol Biol. 2010 Apr 16;397(5):1156-74. Epub 2010 Feb 23.
(PubMed, pdf)

A transition from strong right-handed to canonical left-handed supercoiling in a conserved coiled-coil segment of trimeric autotransporter adhesins.
Alvarez BH, Gruber M, Ursinus A, Dunin-Horkawicz S, Lupas AN, Zeth K.
J Struct Biol. 2010 May;170(2):236-45. Epub 2010 Feb 21.
(PubMed, pdf)

A polycystin-2 (TRPP2) dimerization domain essential for the function of heteromeric polycystin complexes.
Giamarchi A, Feng S, Rodat-Despoix L, Xu Y, Bubenshchikova E, Newby LJ, Hao J, Gaudioso C, Crest M, Lupas AN, Honoré E, Williamson MP, Obara T, Ong AC, Delmas P.
EMBO J. 2010 Feb 18. [Epub ahead of print]
(PubMed, pdf)

Measuring the conformational space of square four-helical bundles with the program samCC.
Dunin-Horkawicz S, Lupas AN.
J Struct Biol. 2010 May;170(2):226-35. Epub 2010 Feb 6.
(PubMed, pdf)

Diagonal-Free 3D/4D HN,HN-TROSY-NOESY-TROSY.
Diercks T, Truffault V, Coles M, Millet O.
J Am Chem Soc. 2010 Feb 1. [Epub ahead of print]
(PubMed, pdf)

Evolution of outer membrane {beta}-barrels from an ancestral {beta}{beta} hairpin.
Remmert M, Biegert A, Linke D, Lupas AN, Söding J.
Mol Biol Evol. 2010 Jun;27(6):1348-58. Epub 2010 Jan 27.
(PubMed, pdf)

A galaxy of folds.
Alva V, Remmert M, Biegert A, Lupas AN, Söding J.
Protein Sci. 2010 Jan;19(1):124-30.
(PubMed, pdf)

2009

Detergents: an overview.
Linke D.
Methods Enzymol. 2009;463:603-17. Review.

Commentary: never trust your word processor.
Linke D
Biochemistry and Molecular Biology Education 37: 377.

Duplication of fgfr1 permits Fgf signaling to serve as a target for selection during domestication.
Rohner N, Bercsényi M, Orbán L, Kolanczyk ME, Linke D, Brand M, Nüsslein-Volhard C, Harris MP.
Curr Biol. 2009 Oct 13;19(19):1642-7. Epub 2009 Sep 3.
(PubMed, pdf)

A coiled-coil motif that sequesters ions to the hydrophobic core.
Hartmann MD, Ridderbusch O, Zeth K, Albrecht R, Testa O, Woolfson DN, Sauer G, Dunin-Horkawicz S, Lupas AN, Alvarez BH
Proc Natl Acad Sci U S A. 2009 Sep 23;
(PubMed, pdf)

The GD box: A widespread non-contiguous supersecondary structural element.
Alva V, Dunin-Horkawicz S, Habeck M, Coles M, Lupas AN.
Protein Sci. 2009 Jul 16.
(PubMed, pdf)

Emergence of carbapenem-non-susceptible extended-spectrum beta-lactamase-producing Klebsiella pneumoniae isolates at the university hospital of Tübingen, Germany.
Gröbner S, Linke D, Schütz W, Fladerer C, Madlung J, Autenrieth IB, Witte W, Pfeifer Y.
J Med Microbiol. 2009 Jul;58(Pt 7):912-22. Epub 2009 Jun 5.
(PubMed, pdf)

Structure and activity of the N-terminal substrate recognition domains in proteasomal ATPases.
Djuranovic S, Hartmann MD, Habeck M, Ursinus A, Zwickl P, Martin J, Lupas AN, Zeth K.
Mol Cell. 2009 Jun 12;34(5):580-90. Epub 2009 May 28.
(PubMed, pdf)

HHomp--prediction and classification of outer membrane proteins.
Remmert M, Linke D, Lupas AN, Söding J.
Nucleic Acids Res. 2009 Jul 1;37(Web Server issue):W446-51. Epub 2009 May 8.
(PubMed, pdf)

Isoform-selective interaction of the adaptor protein Tks5/FISH with Sos1 and dynamins.
Rufer AC, Rumpf J, von Holleben M, Beer S, Rittinger K, Groemping Y.
J Mol Biol. 2009 Jul 31;390(5):939-50. Epub 2009 May 21.
(PubMed, pdf)

Influence of different assignment conditions on the determination of symmetric homodimeric structures with ARIA.
Bardiaux B, Bernard A, Rieping W, Habeck M, Malliavin TE, Nilges M.
Proteins. 2009 May 15;75(3):569-85.
(PubMed, pdf)

Structural basis of N-end rule substrate recognition in Escherichia coli by the ClpAP adaptor protein ClpS.
Schuenemann VJ, Kralik SM, Albrecht R, Spall SK, Truscott KN, Dougan DA, Zeth K.
EMBO Rep. 2009 May;10(5):508-14. Epub 2009 Apr 17. Erratum in: EMBO Rep. 2009 Jun;10(6):662.
(PubMed, pdf)

SimShiftDB; local conformational restraints derived from chemical shift similarity searches on a large synthetic database.
Ginzinger SW, Coles M.
J Biomol NMR. 2009 Mar;43(3):179-85. Epub 2009 Feb 18.
(PubMed, pdf)

Characterisation of the nucleotide exchange factor ITSN1L: evidence for a  kinetic discrimination of GEF-stimulated nucleotide release from Cdc42.
Kintscher C, Groemping Y.
J Mol Biol. 2009 Mar 27;387(2):270-83. Epub 2009 Feb 3.
(PubMed, pdf)

Crystal Structure of SpoVT, the Final Modulator of Gene Expression during Spore Development in Bacillus subtilis.
Asen I, Djuranovic S, Lupas AN, Zeth K.
J Mol Biol. 2009 Mar 6;386(4):962-75. Epub 2008 Oct 30.
(PubMed, pdf)

Structure and function of colicin S4, a colicin with a duplicated receptor binding domain.
Arnold T, Zeth K, Linke D
Journal of Biological Chemistry 2009 Mar 6;284(10):6403-13. Epub 2008 Dec 4.
(PubMed, pdf free)

Conformational changes and protein stability of the pro-apoptotic protein Bax.
Bleicken S, Zeth K.
J Bioenerg Biomembr. 2009 Feb;41(1):29-40. Epub 2009 Mar 3.
(PubMed, pdf)

Two unique membrane-bound AAA proteins from Sulfolobus solfataricus.
Serek-Heuberger J, Hobel CF, Dunin-Horkawicz S, Rockel B, Martin J, Lupas AN
Biochem Soc Trans. 2009 Feb;37(Pt 1):118-22.
(PubMed, pdf)

2008

Functional mapping of YadA- and Ail-mediated binding of human factor H to Yersinia enterocolitica serotype O:3.
Biedzka-Sarek M, Salmenlinna S, Gruber M, Lupas AN, Meri S, Skurnik M.
Infect Immun. 2008 Nov;76(11):5016-27. Epub 2008 Sep 2.
(PubMed, pdf)

Similar modes of interaction enable Trailer Hitch and EDC3 to associate with DCP1 and Me31B in distinct protein complexes.
Tritschler F, Eulalio A, Helms S, Schmidt S, Coles M, Weichenrieder O, Izaurralde E, Truffault V.
Mol Cell Biol. 2008 Nov;28(21):6695-708. Epub 2008 Sep 2.
(PubMed, pdf)

The solution structure of BMPR-IA reveals a local disorder-to-order transition upon BMP-2 binding.
Klages J, Kotzsch A, Coles M, Sebald W, Nickel J, Müller T, Kessler H.
Biochemistry. 2008 Nov 18;47(46):11930-9. Epub 2008 Oct 21.
(PubMed, pdf)

The head of Bartonella adhesin A is crucial for host cell interaction of Bartonella henselae.
Kaiser PO, Riess T, Wagner CL, Linke D, Lupas AN, Schwarz H, Raddatz G, Schäfer A, Kempf VA.
Cell Microbiol. 2008 Nov;10(11):2223-34. Epub 2008 Jul 7.
(PubMed, pdf)

Use of Bartonella adhesin A (BadA) in serodiagnosis of Bartonella henselae infections.
Wagner C, Riess T, Linke D, Eberhardt C, Schäfer A, Reutter S, Maggi R, Kempf V
International Journal of Medical Microbiology 2008 Oct;298(7-8):579-90. Epub 2008 May 22.
(PubMed, pdf)

Structure of the human voltage-dependent anion channel.
Bayrhuber M, Meins T, Habeck M, Becker S, Giller K, Villinger S, Vonrhein C, Griesinger C, Zweckstetter M, Zeth K.
Proc Natl Acad Sci U S A. 2008 Oct 7;105(40):15370-5. Epub 2008 Oct 1.
(PubMed, pdf free)

Mixture models for protein structure ensembles.
Hirsch M, Habeck M.
Bioinformatics. 2008 Oct 1;24(19):2184-92. Epub 2008 Jul 28.
(PubMed, pdf)

Influence of different assignment conditions on the determination of symmetric homodimeric structures with ARIA.
Bardiaux B, Bernard A, Rieping W, Habeck M, Malliavin TE, Nilges M.
Proteins. 2008 Sep 24.
(PubMed, pdf)

Accurate NMR structures through minimization of an extended hybrid energy.
Nilges M, Bernard A, Bardiaux B, Malliavin T, Habeck M, Rieping W.
Structure. 2008 Sep 10;16(9):1305-12.
(PubMed, pdf)

Structure of the head of the Bartonella adhesin BadA.
Szczesny P, Linke D, Ursinus A, Bär K, Schwarz H, Riess TM, Kempf VA, Lupas AN, Martin J, Zeth K.
PLoS Pathog. 2008 Aug 8;4(8):e1000119.
(PubMed, pdf) 

The use of detergents to purify membrane proteins.
Arnold T, Linke D
Curr Protoc Protein Sci. 2008 Aug;Chapter 4:Unit 4.8.1-4.8.30.
(PubMed, pdf)

The long coming of computational structural biology.
Lupas AN.
J Struct Biol. 2008 Sep;163(3):254-7. Epub 2008 Mar 7.
(PubMed, pdf)

Cradle-loop barrels and the concept of metafolds in protein classification by natural descent.
Alva V, Koretke KK, Coles M, Lupas AN.
Curr Opin Struct Biol. 2008 Jun;18(3):358-65. Epub 2008 May 3.
(PubMed, pdf)

Graphical analysis of NMR structural quality and interactive contact map of NOE assignments in ARIA.
Bardiaux B, Bernard A, Rieping W, Habeck M, Malliavin TE, Nilges M.
BMC Struct Biol. 2008 Jun 5;8:30.
(PubMed, pdf)

Approaching the structure of human VDAC1, a key molecule in mitochondrial cross-talk.
Zeth K, Meins T, Vonrhein C.
J Bioenerg Biomembr. 2008 Jun;40(3):127-32.
(PubMed, pdf)

Domain annotation of trimeric autotransporter adhesins--daTAA.
Szczesny P, Lupas A.
Bioinformatics. 2008 May 15;24(10):1251-6. Epub 2008 Apr 8.
(PubMed, pdf)

ISD: a software package for Bayesian NMR structure calculation.
Rieping W, Nilges M, Habeck M.
Bioinformatics. 2008 Apr 15;24(8):1104-5. Epub 2008 Feb 28.
(PubMed, pdf)

De novo identification of highly diverged protein repeats by probabilistic consistency.
Biegert A, Söding J.
Bioinformatics. 2008 Mar 15;24(6):807-14. Epub 2008 Feb 1.
(PubMed, pdf)

Prediction of protein functional residues from sequence by probability density estimation.
Fischer JD, Mayer CE, Söding J.
Bioinformatics. 2008 Mar 1;24(5):613-20. Epub 2008 Jan 2.
(PubMed, pdf)

The Sulfolobus solfataricus AAA protein Sso0909, a homologue of the eukaryotic ESCRT Vps4 ATPase.
Hobel CF, Albers SV, Driessen AJ, Lupas AN.
Biochem Soc Trans. 2008 Feb;36(Pt 1):94-8.
(PubMed, pdf)

A unifying probabilistic framework for analyzing residual dipolar couplings.
Habeck M, Nilges M, Rieping W.
J Biomol NMR. 2008 Feb;40(2):135-44. Epub 2007 Dec 20.
(PubMed, pdf)

Comparative analysis of structural and dynamic properties of the loaded and unloaded hemophore HasA: functional implications.
Wolff N, Izadi-Pruneyre N, Couprie J, Habeck M, Linge J, Rieping W, Wandersman C, Nilges M, Delepierre M, Lecroisey A.
J Mol Biol. 2008 Feb 15;376(2):517-25. Epub 2007 Dec 4.
(PubMed, pdf)

A new expression system for protein crystallization using trimeric coiled-coil adaptors.
Hernandez Alvarez B, Hartmann MD, Albrecht R, Lupas AN, Zeth K, Linke D.
Protein Eng Des Sel. 2008 Jan;21(1):11-8. Epub 2007 Dec 18.
(PubMed, pdf)

2007

A divergent Sm fold in EDC3 proteins mediates DCP1 binding and P-body targeting.
Tritschler F, Eulalio A, Truffault V, Hartmann MD, Helms S, Schmidt S, Coles M, Izaurralde E, Weichenrieder O.
Mol Cell Biol. 2007 Dec;27(24):8600-11. Epub 2007 Oct 8.
(PubMed, pdf)

A CTP-dependent archaeal riboflavin kinase forms a bridge in the evolution of cradle-loop barrels.
Ammelburg M, Hartmann MD, Djuranovic S, Alva V, Koretke KK, Martin J, Sauer G, Truffault V, Zeth K, Lupas AN, Coles M.
Structure. 2007 Dec;15(12):1577-90.
(PubMed, pdf)

A conserved glycine residue of trimeric autotransporter domains plays a key role in Yersinia adhesin A autotransport.
Grosskinsky U, Schütz M, Fritz M, Schmid Y, Lamparter MC, Szczesny P, Lupas AN, Autenrieth IB, Linke D.
J Bacteriol. 2007 Dec;189(24):9011-9. Epub 2007 Oct 5
(PubMed, pdf)

Phase separation in the isolation and purification of membrane proteins.
Arnold T, Linke D
Biotechniques. 2007 Oct;43(4):427-30, 432, 434 passim. Review. Erratum in: Biotechniques. 2007 Dec;43(6):4 p following 745.
(PubMed, pdf)

prlF and yhaV encode a new toxin-antitoxin system in Escherichia coli.
Schmidt O, Schuenemann VJ, Hand NJ, Silhavy TJ, Martin J, Lupas AN, Djuranovic S.
J Mol Biol. 2007 Sep 28;372(4):894-905. Epub 2007 Jul 21.
(PubMed, pdf)

Salmonella Pathogenicity Island 4 encodes a giant non-fimbrial adhesin and the cognate type 1 secretion system.
Gerlach RG, Jäckel D, Stecher B, Wagner C, Lupas A, Hardt WD, Hensel M.
Cell Microbiol. 2007 Jul;9(7):1834-50. Epub 2007 Mar 26.
(PubMed, pdf)

Citrate sensing by the C4-dicarboxylate/citrate sensor kinase DcuS of Escherichia coli: binding site and conversion of DcuS to a C4-dicarboxylate- or citrate-specific sensor.
Krämer J, Fischer JD, Zientz E, Vijayan V, Griesinger C, Lupas A, Unden G.
J Bacteriol. 2007 Jun;189(11):4290-8. Epub 2007 Apr 6.
(PubMed, pdf)

Evolution of the beta-propeller fold.
Chaudhuri I, Söding J, Lupas AN.
Proteins. 2008 May 1;71(2):795-803.
(PubMed, pdf)

Bayesian reconstruction of the density of states.
Habeck M.
Phys Rev Lett. 2007 May 18;98(20):200601. Epub 2007 May 14.
(PubMed, pdf)

ScbA from Streptomyces coelicolor A3(2) has homology to fatty acid synthases and is able to synthesize gamma-butyrolactones.
Hsiao NH, Söding J, Linke D, Lange C, Hertweck C, Wohlleben W, Takano E.
Microbiology. 2007 May;153(Pt 5):1394-404.
(PubMed, pdf)

Inherent chaperone-like activity of aspartic proteases reveals a distant evolutionary relation to double-psi barrel domains of AAA-ATPases.
Hulko M, Lupas AN, Martin J.
Protein Sci. 2007 Apr;16(4):644-53.
(PubMed, pdf)

On the origin of the histone fold.
Alva V, Ammelburg M, Söding J, Lupas AN.
BMC Struct Biol. 2007 Mar 28;7:17.
(PubMed, pdf)

Gene duplication of the eight-stranded beta-barrel OmpX produces a functional pore: a scenario for the evolution of transmembrane beta-barrels.
Arnold T, Poynor M, Nussberger S, Lupas AN, Linke D.
J Mol Biol. 2007 Mar 2;366(4):1174-84. Epub 2006 Dec 16.
(PubMed, pdf)

ARIA2: automated NOE assignment and data integration in NMR structure calculation.
Rieping W, Habeck M, Bardiaux B, Bernard A, Malliavin TE, Nilges M.
Bioinformatics. 2007 Feb 1;23(3):381-2. Epub 2006 Nov 22.
(PubMed, pdf)

TPRpred: a tool for prediction of TPR-, PPR- and SEL1-like repeats from protein sequences.
Karpenahalli MR, Lupas AN, Söding J.
BMC Bioinformatics. 2007 Jan 3;8:2.
(PubMed, pdf)

Analysis of Bartonella adhesin A expression reveals differences between various B. henselae strains.
Riess T, Raddatz G, Linke D, Schäfer A, Kempf V
Infection and Immunity 2007 Jan;75(1):35-43. Epub 2006 Oct 23.
(PubMed, pdf free)

2006

Structure validation of the Josephin domain of ataxin-3: conclusive evidence for an open conformation.
Nicastro G, Habeck M, Masino L, Svergun DI, Pastore A.
J Biomol NMR. 2006 Dec;36(4):267-77. Epub 2006 Nov 10.
(PubMed, pdf)

NMR in the SPINE Structural Proteomics project.
Ab E, Atkinson AR, Banci L, Bertini I, Ciofi-Baffoni S, Brunner K, Diercks T, Dötsch V, Engelke F, Folkers GE, Griesinger C, Gronwald W, Günther U, Habeck M, de Jong RN, Kalbitzer HR, Kieffer B, Leeflang BR, Loss S, Luchinat C, Marquardsen T, Moskau D, Neidig KP, Nilges M, Piccioli M, Pierattelli R, Rieping W, Schippmann T, Schwalbe H, Travé G, Trenner J, Wöhnert J, Zweckstetter M, Kaptein R.
Acta Crystallogr D Biol Crystallogr. 2006 Oct;62(Pt 10):1150-61. Epub 2006 Sep 19. Review.
(PubMed, pdf)

Common evolutionary origin of swapped-hairpin and double-psi beta barrels.
Coles M, Hulko M, Djuranovic S, Truffault V, Koretke K, Martin J, Lupas AN.
Structure. 2006 Oct;14(10):1489-98.
(PubMed, pdf)

The HAMP domain structure implies helix rotation in transmembrane signaling.
Hulko M, Berndt F, Gruber M, Linder JU, Truffault V, Schultz A, Martin J, Schultz JE, Lupas AN, Coles M.
Cell. 2006 Sep 8;126(5):929-40.
(PubMed, pdf)

Bartonella quintana variably expressed outer membrane proteins mediate vascular endothelial growth factor secretion but not host cell adherence.
Schulte B, Linke D, Klumpp S, Schaller M, Riess T, Autenrieth I, Kempf V
Infection and Immunity 2006 Sep;74(9):5003-13.
(PubMed, pdf free)

Comparative analysis of coiled-coil prediction methods.
Gruber M, Söding J, Lupas AN.
J Struct Biol. 2006 Aug;155(2):140-5. Epub 2006 Mar 31.
(PubMed, pdf)

Error distribution derived NOE distance restraints.
Nilges M, Habeck M, O'Donoghue SI, Rieping W.
Proteins. 2006 Aug 15;64(3):652-64.
(PubMed, pdf)

HHsenser: exhaustive transitive profile search using HMM-HMM comparison.
Söding J, Remmert M, Biegert A, Lupas AN.
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W374-8.
(PubMed, pdf)

HHrep: de novo protein repeat detection and the origin of TIM barrels.
Söding J, Remmert M, Biegert A.
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W137-42.
(PubMed, pdf)

The MPI Bioinformatics Toolkit for protein sequence analysis.
Biegert A, Mayer C, Remmert M, Söding J, Lupas AN.
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W335-9
(PubMed, pdf)

Classification of AAA+ proteins.
Ammelburg M, Frickey T, Lupas AN.
J Struct Biol. 2006 Oct;156(1):2-11. Epub 2006 May 26.
(PubMed, pdf)

Modeling AAA+ ring complexes from monomeric structures.
Diemand AV, Lupas AN.
J Struct Biol. 2006 Oct;156(1):230-43. Epub 2006 May 7.
(PubMed, pdf)

Characterization of AMA, a new AAA protein from Archaeoglobus and methanogenic archaea.
Djuranovic S, Rockel B, Lupas AN, Martin J.
J Struct Biol. 2006 Oct;156(1):130-8. Epub 2006 Apr 18.
(PubMed, pdf)

Trimeric autotransporter adhesins: variable structure, common function.
Linke D, Riess T, Autenrieth IB, Lupas A, Kempf VA.
Trends Microbiol. 2006 Jun;14(6):264-70. Epub 2006 May 5.
(PubMed, pdf)

Model structure of the prototypical non-fimbrial adhesin YadA of Yersinia enterocolitica.
Koretke KK, Szczesny P, Gruber M, Lupas AN.
J Struct Biol. 2006 Aug;155(2):154-61. Epub 2006 Apr 3.
(PubMed, pdf)

Purification of the YadA membrane anchor for secondary structure analysis and crystallization.
Wollmann P, Zeth K, Lupas AN, Linke D.
Int J Biol Macromol. 2006 Aug 15;39(1-3):3-9. Epub 2006 Jan 6.
(PubMed, pdf)

Expression, crystallization and preliminary X-ray crystallographic studies of the outer membrane protein OmpW from Escherichia coli.
Albrecht R, Zeth K, Söding J, Lupas A, Linke D.
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Apr 1;62(Pt 4):415-8. Epub 2006 Mar 25.
(PubMed, pdf)

Weighting of experimental evidence in macromolecular structure determination.
Habeck M, Rieping W, Nilges M.
Proc Natl Acad Sci U S A. 2006 Feb 7;103(6):1756-61. Epub 2006 Jan 30.
(PubMed, pdf)

2005

The HHpred interactive server for protein homology detection and structure prediction.
Söding J, Biegert A, Lupas AN.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W244-8.
(PubMed, pdf)

REPPER--repeats and their periodicities in fibrous proteins.
Gruber M, Söding J, Lupas AN.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W239-43.
(PubMed, pdf)

Retroactive, a membrane-anchored extracellular protein related to vertebrate snake neurotoxin-like proteins, is required for cuticle organization in the larva of Drosophila melanogaster.
Moussian B, Söding J, Schwarz H, Nüsslein-Volhard C.
Dev Dyn. 2005 Jul;233(3):1056-63.
(PubMed, pdf)

AbrB-like transcription factors assume a swapped hairpin fold that is evolutionarily related to double-psi beta barrels.
Coles M, Djuranovic S, Söding J, Frickey T, Koretke K, Truffault V, Martin J, Lupas AN.
Structure. 2005 Jun;13(6):919-28.
(PubMed, pdf)

Protein homology detection by HMM-HMM comparison.
Söding J.
Bioinformatics. 2005 Apr 1;21(7):951-60. Epub 2004 Nov 5. Erratum in: Bioinformatics. 2005 May 1;21(9):2144.
(PubMed, pdf)

The structure of alpha-helical coiled coils.
Lupas AN, Gruber M.
Adv Protein Chem. 2005;70:37-78. Review.
(PubMed, pdf)

2004

WIPI-1alpha (WIPI49), a member of the novel 7-bladed WIPI protein family, is aberrantly expressed in human cancer and is linked to starvation-induced autophagy.
Proikas-Cezanne T, Waddell S, Gaugel A, Frickey T, Lupas A, Nordheim A.
Oncogene. 2004 Dec 16;23(58):9314-25.
(PubMed, pdf)

Thermoplasma acidophilum TAA43 is an archaeal member of the eukaryotic meiotic branch of AAA ATPases.
Santos L, Frickey T, Peters J, Baumeister W, Lupas A, Zwickl P.
Biol Chem. 2004 Nov;385(11):1105-11.
(PubMed, pdf)

Bartonella adhesin a mediates a proangiogenic host cell response.
Riess T, Andersson SG, Lupas A, Schaller M, Schäfer A, Kyme P, Martin J, Wälzlein JH, Ehehalt U, Lindroos H, Schirle M, Nordheim A, Autenrieth IB, Kempf VA.
J Exp Med. 2004 Nov 15;200(10):1267-78. Epub 2004 Nov 8.
(PubMed, pdf)

Chaperonin function – effects of crowding and confinement.
Martin J.
J Mol Recognit. 2004 Sep-Oct;17(5):465-72. Review.
(PubMed, pdf)

PhyloGenie: automated phylome generation and analysis.
Frickey T, Lupas AN.
Nucleic Acids Res. 2004 Sep 30;32(17):5231-8. Print 2004.
(PubMed, pdf)

Coiled coils meet the chaperone world.
Martin J, Gruber M, Lupas AN.
Trends Biochem Sci. 2004 Sep;29(9):455-8. Review.
(PubMed, pdf)

The genome of Desulfotalea psychrophila, a sulfate-reducing bacterium from permanently cold Arctic sediments.
Rabus R, Ruepp A, Frickey T, Rattei T, Fartmann B, Stark M, Bauer M, Zibat A, Lombardot T, Becker I, Amann J, Gellner K, Teeling H, Leuschner WD, Glöckner FO, Lupas AN, Amann R, Klenk HP.
Environ Microbiol. 2004 Sep;6(9):887-902.
(PubMed, pdf)

CLANS: a Java application for visualizing protein families based on pairwise similarity.
Frickey T, Lupas A.
Bioinformatics. 2004 Dec 12;20(18):3702-4. Epub 2004 Jul 29.
(PubMed, pdf)

Phylogenetic analysis of AAA proteins.
Frickey T, Lupas AN.
J Struct Biol. 2004 Apr-May;146(1-2):2-10.
(PubMed, pdf)

2003

Historical review: another 50th anniversary--new periodicities in coiled coils.
Gruber M, Lupas AN.
Trends Biochem Sci. 2003 Dec;28(12):679-85. Review.
(PubMed, pdf)

More than the sum of their parts: on the evolution of proteins from peptides.
Söding J, Lupas AN.
Bioessays. 2003 Sep;25(9):837-46. Review.
(PubMed, pdf)

Barentsz, a new component of the Staufen-containing ribonucleoprotein particles in mammalian cells, interacts with Staufen in an RNA-dependent manner.
Macchi P, Kroening S, Palacios IM, Baldassa S, Grunewald B, Ambrosino C, Goetze B, Lupas A, St Johnston D, Kiebler M.
J Neurosci. 2003 Jul 2;23(13):5778-88.
(PubMed, pdf)

Nested cooperativity and salt dependence of the ATPase activity of the archaeal chaperonin Mm-cpn.
Kusmierczyk, A.R. and Martin, J.
FEBS Lett. 2003 Jul 17;547(1-3):201-4.
(PubMed, pdf)

Nucleotide-dependant protein folding in the type II chaperonin from the mesophilic archaeon Methanococcus maripaludis.
Kusmierczyk AR, Martin J.
Biochem J. 2003 May 1;371(Pt 3):669-73.
(PubMed, pdf)

Bioinformatic analysis of ClpS, a protein module involved in prokaryotic and eukaryotic protein degradation.
Lupas AN, Koretke KK.
J Struct Biol. 2003 Jan;141(1):77-83.
(PubMed, pdf)

2002

AAA proteins.
Lupas AN, Martin J.
Curr Opin Struct Biol. 2002 Dec;12(6):746-53. Review.
(PubMed, pdf)

Requirement for GroEL/GroES-dependent protein folding under non-permissive conditions of macromolecular crowding.
Martin J.
Biochemistry. 2002 Apr 16;41(15):5050-5.
(PubMed, pdf)