The PPI3D web server for searching, analyzing and modeling protein‐protein interactions in the context of 3D structures
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Kliment Olechnovic | Mindaugas Margelevicius | Ceslovas Venclovas | Justas Dapkunas | Albertas Timinskas | Rytis Diciunas | Č. Venclovas | Mindaugas Margelevičius | J. Dapkūnas | A. Timinskas | Kliment Olechnovič | Rytis Diciunas
[1] Zhe Chen,et al. Activated RhoA Binds to the Pleckstrin Homology (PH) Domain of PDZ-RhoGEF, a Potential Site for Autoregulation*♦ , 2010, The Journal of Biological Chemistry.
[2] M. Lidstrom,et al. Refined crystal structure of methylamine dehydrogenase from Paracoccus denitrificans at 1.75 A resolution. , 1998, Journal of molecular biology.
[3] J. Otlewski,et al. The crystal structure of RhoA in complex with the DH/PH fragment of PDZRhoGEF, an activator of the Ca(2+) sensitization pathway in smooth muscle. , 2004, Structure.
[4] M. Milburn,et al. The crystal structures of human steroidogenic factor-1 and liver receptor homologue-1. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[5] Roderick E Hubbard,et al. Delineation of a unique protein-protein interaction site on the surface of the estrogen receptor. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[6] Frank Claessens,et al. Looking at nuclear receptors from a new angle , 2014, Molecular and Cellular Endocrinology.
[7] P. Griffin,et al. Antidiabetic phospholipid–nuclear receptor complex reveals the mechanism for phospholipid-driven gene regulation , 2012, Nature Structural &Molecular Biology.
[8] K. Katoh,et al. MAFFT version 5: improvement in accuracy of multiple sequence alignment , 2005, Nucleic acids research.
[9] Eric T Baldwin,et al. Developing Adnectins that target SRC co-activator binding to PXR: a structural approach toward understanding promiscuity of PXR. , 2015, Journal of molecular biology.
[10] Burkhard Rost,et al. Alternative Protein-Protein Interfaces Are Frequent Exceptions , 2012, PLoS Comput. Biol..
[11] Takeshi Kawabata. HOMCOS: an updated server to search and model complex 3D structures , 2016, Journal of Structural and Functional Genomics.
[12] D. Svergun,et al. Insights into the Molecular Activation Mechanism of the RhoA-specific Guanine Nucleotide Exchange Factor, PDZRhoGEF* , 2011, The Journal of Biological Chemistry.
[13] Herbert Edelsbrunner,et al. Interface surfaces for protein-protein complexes , 2004, JACM.
[14] J. Janin,et al. Revisiting the Voronoi description of protein–protein interfaces , 2006, Protein science : a publication of the Protein Society.
[15] Adam Godzik,et al. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences , 2006, Bioinform..
[16] R. Russell,et al. The relationship between sequence and interaction divergence in proteins. , 2003, Journal of molecular biology.
[17] Darko Butina,et al. Unsupervised Data Base Clustering Based on Daylight's Fingerprint and Tanimoto Similarity: A Fast and Automated Way To Cluster Small and Large Data Sets , 1999, J. Chem. Inf. Comput. Sci..
[18] M. Lambert,et al. Coactivator binding promotes the specific interaction between ligand and the pregnane X receptor. , 2003, Journal of molecular biology.
[19] Kliment Olechnovič,et al. CAD‐score: A new contact area difference‐based function for evaluation of protein structural models , 2013, Proteins.
[20] L. Moore,et al. Human PXR forms a tryptophan zipper-mediated homodimer. , 2006, Biochemistry.
[21] Yang Zhang,et al. Template-based structure modeling of protein-protein interactions. , 2014, Current opinion in structural biology.
[22] Patrick R. Cushing,et al. Stereochemical preferences modulate affinity and selectivity among five PDZ domains that bind CFTR: comparative structural and sequence analyses. , 2014, Structure.
[23] Kliment Olechnovic,et al. Voronota: A fast and reliable tool for computing the vertices of the Voronoi diagram of atomic balls , 2014, J. Comput. Chem..
[24] J. Thornton,et al. Satisfying hydrogen bonding potential in proteins. , 1994, Journal of molecular biology.
[25] D. Ohlendorf,et al. Structure of protocatechuate 3,4-dioxygenase from Pseudomonas aeruginosa at 2.15 A resolution. , 1994, Journal of molecular biology.
[26] Ilya A Vakser,et al. Protein–protein alternative binding modes do not overlap , 2013, Protein science : a publication of the Protein Society.
[27] Steven E. Brenner,et al. SCOPe: Structural Classification of Proteins—extended, integrating SCOP and ASTRAL data and classification of new structures , 2013, Nucleic Acids Res..
[28] M. D. Topal,et al. Structure of NaeI–DNA complex reveals dual-mode DNA recognition and complete dimer rearrangement , 2001, Nature Structural Biology.
[29] Nicholas Sawyer,et al. Protein–protein interactions: General trends in the relationship between binding affinity and interfacial buried surface area , 2013, Protein science : a publication of the Protein Society.
[30] Jean-Christophe Nebel,et al. Progress and challenges in predicting protein interfaces , 2015, Briefings Bioinform..
[31] Chenghua Shao,et al. Trendspotting in the Protein Data Bank , 2013, FEBS letters.
[32] Ning Ma,et al. BLAST+: architecture and applications , 2009, BMC Bioinformatics.