EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany

E-mail: ezgi.karaca@embl.de


Total: 17 publication(s)


van Zundert GC, Rodrigues JP, Trellet M, Schmitz C, Kastritis PL, Karaca E, Melquiond AS, van Dijk M, de Vries SJ, Bonvin AM. (2015)

The HADDOCK2.2 web server: User-friendly integrative modeling of biomolecular complexes.

J Mol Biol doi: 10.1016/j.jmb.2015.09.014
Europe PMC | doi

Rodrigues JPGLM, Karaca E, Bonvin AMJJ. (2015)

Information-Driven Structural Modelling of Protein–Protein Interactions

Methods Mol Biol 1215:399-424. doi: 10.1007/978-1-4939-1465-4_18
Europe PMC | doi


Lensink MF, Moal IH, Bates PA, Kastritis PL, Melquiond ASJ, Karaca E at al. (2014)

Blind prediction of interfacial water positions in CAPRI

Proteins 82(4):620-632. doi: 10.1002/prot.24439


Karaca E. (2013)

Dissecting Biomolecular Interactions by Integrative Modeling - PhD Thesis

Karaca E, Bonvin AMJJ. (2013)

Advances in integrative modeling of biomolecular complexes

Methods 59(3) doi: 10.1016/j.ymeth.2012.12.004

Karaca E, Bonvin AMJJ. (2013)

On the usefulness of ion-mobility mass spectrometry and SAXS data in scoring docking decoys

Acta Crystallogr. D Biol. Crystallogr. 69(5):683-694. doi: 10.1107/S0907444913007063

Rodrigues JPGLM, Melquiond ASJ, Karaca E, Trellet M, van Dijk M, Zundert GCP, Schmitz C, Vries SJ, Bordogna A, Bonati L, Kastritis PL, Bonvin AMJJ. (2013)

Defining the limits of homology modeling in information‐driven protein docking

Proteins doi: 10.1002/prot.24382


Rodrigues JP, Trellet M, Schmitz C, Kastritis P, Karaca E, Melquiond AS, Bonvin AM. (2012)

Clustering biomolecular complexes by residue contacts similarity

Proteins 80(7):1810-1817. doi: 10.1002/prot.24078
Europe PMC | doi

Melquiond AS, Karaca E, Kastritis PL, Bonvin AM. (2012)

Next challenges in protein-protein docking: from proteome to interactome and beyond

Wiley Interdiscip Rev Comput Mol Sci 2(4) doi: 10.1002/wcms.91

Schmitz C, Melquiond AS, Vries SJ, Karaca E, Dijk M, Kastritis PL, Bonvin AM. (2012)

Protein-Protein Docking with HADDOCK

In: Ivano Bertini, Kathleen S. McGreevy, Giacomo Parigi, NMR of Biomolecules: Towards Mechanistic Systems Biology. Wiley-VCH Verlag GmbH & Co. KGaA. pp 520-535.doi: 10.1002/9783527644506


Karaca E, Bonvin AMJJ. (2011)

A multidomain flexible docking approach to deal with large conformational changes in the modeling of biomolecular complexes

Structure 19(5):555-565. doi: 10.1016/j.str.2011.01.014

Karaca E, Tozluoglu M, Nussinov R, Haliloglu T. (2011)

Alternative allosteric mechanisms can regulate the substrate and E2 in SUMO conjugation

PLoS Computational Biology 406(4) doi: 10.1016/j.jmb.2010.12.044


de Vries SJ, Melquiond AS, Kastritis PL, Karaca E, Bordogna A, van Dijk M, Rodrigues JP, Bonvin AM. (2010)

Strengths and weaknesses of data-driven docking in critical assessment of prediction of interactions

Proteins 78(15):3242-3249. doi: 10.1002/prot.22814
Europe PMC | doi

Karaca E, Melquiond AS, Vries SJ, Kastritis PL, Bonvin AM. (2010)

Building Macromolecular Assemblies by Information-driven Docking INTRODUCING THE HADDOCK MULTIBODY DOCKING SERVER

Molecular and Cellular Proteomics 9(8) doi: 10.1074/mcp.M000051-MCP201

Nicastro G, Todi SV, Karaca E, Bonvin AM, Paulson HL, Pastore A. (2010)

Understanding the role of the Josephin domain in the PolyUb binding and cleavage properties of ataxin-3

PLoS ONE 5(8) doi: 10.1371/journal.pone.0012430

Tozluoglu M, Karaca E, Nussinov R, Haliloglu T. (2010)

A Mechanistic View of the Role of E3 in Sumoylation

PLoS Computational Biology 6(8) doi: 10.1371/journal.pcbi.1000913


Tozluoglu M, Karaca E, Haliloglu T, Nussinov R. (2008)

Cataloging and organizing p73 interactions in cell cycle arrest and apoptosis

Nucleic Acids Research 36(15) doi: 10.1093/nar/gkn481