TY - JOUR AU - Phizicky, E. M. AU - Fields, S. PY - 1995 DA - 1995// TI - Protein-protein interactions: methods for detection and analysis JO - Microbiol Rev VL - 59 ID - Phizicky1995 ER - TY - JOUR AU - Bader, G. D. AU - Betel, D. AU - Hogue, C. W. PY - 2003 DA - 2003// TI - BIND: the Biomolecular Interaction Network Database JO - Nucleic Acids Res VL - 31 UR - https://doi.org/10.1093/nar/gkg056 DO - 10.1093/nar/gkg056 ID - Bader2003 ER - TY - JOUR AU - Zanzoni, A. AU - Montecchi-Palazzi, L. AU - Quondam, M. AU - Ausiello, G. AU - Helmer-Citterich, M. AU - Cesareni, G. PY - 2002 DA - 2002// TI - MINT: a Molecular INTeraction database JO - FEBS Lett VL - 513 UR - https://doi.org/10.1016/S0014-5793(01)03293-8 DO - 10.1016/S0014-5793(01)03293-8 ID - Zanzoni2002 ER - TY - JOUR AU - Xenarios, I. AU - Salwinski, L. AU - Duan, X. J. AU - Higney, P. AU - Kim, S. M. AU - Eisenberg, D. PY - 2002 DA - 2002// TI - DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions JO - Nucleic Acids Res VL - 30 UR - https://doi.org/10.1093/nar/30.1.303 DO - 10.1093/nar/30.1.303 ID - Xenarios2002 ER - TY - JOUR AU - Argos, P. PY - 1988 DA - 1988// TI - An investigation of protein subunit and domain interfaces JO - Protein Eng VL - 2 UR - https://doi.org/10.1093/protein/2.2.101 DO - 10.1093/protein/2.2.101 ID - Argos1988 ER - TY - JOUR AU - Janin, J. AU - Miller, S. AU - Chothia, C. PY - 1988 DA - 1988// TI - Surface, subunit interfaces and interior of oligomeric proteins JO - J Mol Biol VL - 204 UR - https://doi.org/10.1016/0022-2836(88)90606-7 DO - 10.1016/0022-2836(88)90606-7 ID - Janin1988 ER - TY - JOUR AU - Tsai, C. J. AU - Lin, S. L. AU - Wolfson, H. J. AU - Nussinov, R. PY - 1996 DA - 1996// TI - Protein-protein interfaces: architectures and interactions in protein-protein interfaces and in protein cores. Their similarities and differences JO - Crit Rev Biochem Mol Biol VL - 31 UR - https://doi.org/10.3109/10409239609106582 DO - 10.3109/10409239609106582 ID - Tsai1996 ER - TY - JOUR AU - Jones, S. AU - Thornton, J. M. PY - 1996 DA - 1996// TI - Principles of protein-protein interactions JO - Proc Natl Acad Sci USA VL - 93 UR - https://doi.org/10.1073/pnas.93.1.13 DO - 10.1073/pnas.93.1.13 ID - Jones1996 ER - TY - JOUR AU - Lo Conte, L. AU - Chothia, C. AU - Janin, J. PY - 1999 DA - 1999// TI - The atomic structure of protein-protein recognition sites JO - J Mol Biol VL - 285 UR - https://doi.org/10.1006/jmbi.1998.2439 DO - 10.1006/jmbi.1998.2439 ID - Lo Conte1999 ER - TY - JOUR AU - Park, J. AU - Lappe, M. AU - Teichmann, S. A. PY - 2001 DA - 2001// TI - Mapping protein family interactions: intramolecular and intermolecular protein family interaction repertoires in the PDB and yeast JO - J Mol Biol VL - 307 UR - https://doi.org/10.1006/jmbi.2001.4526 DO - 10.1006/jmbi.2001.4526 ID - Park2001 ER - TY - JOUR AU - Aloy, P. AU - Ceulemans, H. AU - Stark, A. AU - Russell, R. B. PY - 2003 DA - 2003// TI - The relationship between sequence and interaction divergence in proteins JO - J Mol Biol VL - 332 UR - https://doi.org/10.1016/j.jmb.2003.07.006 DO - 10.1016/j.jmb.2003.07.006 ID - Aloy2003 ER - TY - JOUR AU - Keskin, O. AU - Tsai, C. J. AU - Wolfson, H. AU - Nussinov, R. PY - 2004 DA - 2004// TI - A new, structurally nonredundant, diverse data set of protein-protein interfaces and its implications JO - Protein Sci VL - 13 UR - https://doi.org/10.1110/ps.03484604 DO - 10.1110/ps.03484604 ID - Keskin2004 ER - TY - JOUR AU - Valdar, W. S. AU - Thornton, J. M. PY - 2001 DA - 2001// TI - Conservation helps to identify biologically relevant crystal contacts JO - J Mol Biol VL - 313 UR - https://doi.org/10.1006/jmbi.2001.5034 DO - 10.1006/jmbi.2001.5034 ID - Valdar2001 ER - TY - JOUR AU - Ofran, Y. AU - Rost, B. PY - 2003 DA - 2003// TI - Analysing six types of protein-protein interfaces JO - J Mol Biol VL - 325 UR - https://doi.org/10.1016/S0022-2836(02)01223-8 DO - 10.1016/S0022-2836(02)01223-8 ID - Ofran2003 ER - TY - JOUR AU - Caffrey, D. R. AU - Somaroo, S. AU - Hughes, J. D. AU - Mintseris, J. AU - Huang, E. S. PY - 2004 DA - 2004// TI - Are protein-protein interfaces more conserved in sequence than the rest of the protein surface? JO - Protein Sci VL - 13 UR - https://doi.org/10.1110/ps.03323604 DO - 10.1110/ps.03323604 ID - Caffrey2004 ER - TY - JOUR AU - Jones, S. AU - Marin, A. AU - Thornton, J. M. PY - 2000 DA - 2000// TI - Protein domain interfaces: characterization and comparison with oligomeric protein interfaces JO - Protein Eng VL - 13 UR - https://doi.org/10.1093/protein/13.2.77 DO - 10.1093/protein/13.2.77 ID - Jones2000 ER - TY - CHAP AU - Stein, A. AU - Russell, R. B. AU - Aloy, P. PY - 2005 DA - 2005// TI - 3did: interacting protein domains of known three-dimensional structure BT - Nucleic Acids Res ID - Stein2005 ER - TY - JOUR AU - Davis, F. P. AU - Sali, A. PY - 2005 DA - 2005// TI - PIBASE: a comprehensive database of structurally defined protein interfaces JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti277 DO - 10.1093/bioinformatics/bti277 ID - Davis2005 ER - TY - JOUR AU - Finn, R. D. AU - Marshall, M. AU - Bateman, A. PY - 2005 DA - 2005// TI - iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti011 DO - 10.1093/bioinformatics/bti011 ID - Finn2005 ER - TY - JOUR AU - Gong, S. AU - Yoon, G. AU - Jang, I. AU - Bolser, D. AU - Dafas, P. AU - Schroeder, M. AU - Choi, H. AU - Cho, Y. AU - Han, K. AU - Lee, S. AU - Choi, H. AU - Lappe, M. AU - Holm, L. AU - Kim, S. AU - Oh, D. AU - Bhak, J. PY - 2005 DA - 2005// TI - PSIbase: a database of Protein Structural Interactome map (PSIMAP) JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti366 DO - 10.1093/bioinformatics/bti366 ID - Gong2005 ER - TY - JOUR AU - Gong, S. AU - Park, C. AU - Choi, H. AU - Ko, J. AU - Jang, I. AU - Lee, J. AU - Bolser, D. M. AU - Oh, D. AU - Kim, D. S. AU - Bhak, J. PY - 2005 DA - 2005// TI - A protein domain interaction interface database: InterPare JO - BMC Bioinformatics VL - 6 UR - https://doi.org/10.1186/1471-2105-6-207 DO - 10.1186/1471-2105-6-207 ID - Gong2005 ER - TY - STD TI - Ogmen U, Keskin O, Aytuna AS, Nussinov R, Gursoy A: PRISM: protein interactions by structural matching.Nucleic Acids Res 2005, (33 Web Server):W331–336. 10.1093/nar/gki585 ID - ref22 ER - TY - JOUR AU - Zeng, J. PY - 2000 DA - 2000// TI - Mini-review: computational structure-based design of inhibitors that target protein surfaces JO - Comb Chem High Throughput Screen VL - 3 UR - https://doi.org/10.2174/1386207003331490 DO - 10.2174/1386207003331490 ID - Zeng2000 ER - TY - JOUR AU - Pawson, T. PY - 2004 DA - 2004// TI - Specificity in signal transduction: from phosphotyrosine-SH2 domain interactions to complex cellular systems JO - Cell VL - 116 UR - https://doi.org/10.1016/S0092-8674(03)01077-8 DO - 10.1016/S0092-8674(03)01077-8 ID - Pawson2004 ER - TY - JOUR AU - Castagnoli, L. AU - Costantini, A. AU - Dall'Armi, C. AU - Gonfloni, S. AU - Montecchi-Palazzi, L. AU - Panni, S. AU - Paoluzi, S. AU - Santonico, E. AU - Cesareni, G. PY - 2004 DA - 2004// TI - Selectivity and promiscuity in the interaction network mediated by protein recognition modules JO - FEBS Lett VL - 567 UR - https://doi.org/10.1016/j.febslet.2004.03.116 DO - 10.1016/j.febslet.2004.03.116 ID - Castagnoli2004 ER - TY - JOUR AU - Levy, Y. AU - Onuchic, J. N. PY - 2004 DA - 2004// TI - Water and proteins: a love-hate relationship JO - Proc Natl Acad Sci USA VL - 101 UR - https://doi.org/10.1073/pnas.0400157101 DO - 10.1073/pnas.0400157101 ID - Levy2004 ER - TY - JOUR AU - Palencia, A. AU - Cobos, E. S. AU - Mateo, P. L. AU - Martinez, J. C. AU - Luque, I. PY - 2004 DA - 2004// TI - Thermodynamic dissection of the binding energetics of proline-rich peptides to the Abl-SH3 domain: implications for rational ligand design JO - J Mol Biol VL - 336 UR - https://doi.org/10.1016/j.jmb.2003.12.030 DO - 10.1016/j.jmb.2003.12.030 ID - Palencia2004 ER - TY - JOUR AU - Janin, J. PY - 1999 DA - 1999// TI - Wet and dry interfaces: the role of solvent in protein-protein and protein-DNA recognition JO - Structure Fold Des VL - 7 UR - https://doi.org/10.1016/S0969-2126(00)88333-1 DO - 10.1016/S0969-2126(00)88333-1 ID - Janin1999 ER - TY - JOUR AU - Levitt, M. AU - Park, B. H. PY - 1993 DA - 1993// TI - Water: now you see it, now you don't JO - Structure VL - 1 UR - https://doi.org/10.1016/0969-2126(93)90011-5 DO - 10.1016/0969-2126(93)90011-5 ID - Levitt1993 ER - TY - JOUR AU - Papoian, G. A. AU - Ulander, J. AU - Wolynes, P. G. PY - 2003 DA - 2003// TI - Role of water mediated interactions in protein-protein recognition landscapes JO - J Am Chem Soc VL - 125 UR - https://doi.org/10.1021/ja034729u DO - 10.1021/ja034729u ID - Papoian2003 ER - TY - JOUR AU - Petukhov, M. AU - Rychkov, G. AU - Firsov, L. AU - Serrano, L. PY - 2004 DA - 2004// TI - H-bonding in protein hydration revisited JO - Protein Sci VL - 13 UR - https://doi.org/10.1110/ps.04748404 DO - 10.1110/ps.04748404 ID - Petukhov2004 ER - TY - STD TI - [http://jmol.sourceforge.net] UR - http://jmol.sourceforge.net ID - ref32 ER - TY - STD TI - [http://www.rcsb.org/pdb] UR - http://www.rcsb.org/pdb ID - ref33 ER - TY - STD TI - [http://scop.mrc-lmb.cam.ac.uk] UR - http://scop.mrc-lmb.cam.ac.uk ID - ref34 ER - TY - JOUR AU - Dafas, P. AU - Bolser, D. AU - Gomoluch, J. AU - Park, J. AU - Schroeder, M. PY - 2004 DA - 2004// TI - Using convex hulls to extract interaction interfaces from known structures JO - Bioinformatics VL - 20 UR - https://doi.org/10.1093/bioinformatics/bth106 DO - 10.1093/bioinformatics/bth106 ID - Dafas2004 ER - TY - JOUR AU - Rodier, F. AU - Bahadur, R. P. AU - Chakrabarti, P. AU - Janin, J. PY - 2005 DA - 2005// TI - Hydration of protein-protein interfaces JO - Proteins VL - 60 UR - https://doi.org/10.1002/prot.20478 DO - 10.1002/prot.20478 ID - Rodier2005 ER -