메뉴 건너뛰기




Volumn 60, Issue 2, 2005, Pages 302-307

Progress in computation and amide hydrogen exchange for prediction of protein-protein complexes

Author keywords

Amide hydrogen exchange; Molecular recognition; Protein protein docking

Indexed keywords

AMIDE; CYCLIC AMP DEPENDENT PROTEIN KINASE; DEUTERIUM; HYDROGEN; PROTON;

EID: 21644480271     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.20574     Document Type: Conference Paper
Times cited : (8)

References (30)
  • 3
    • 0038359612 scopus 로고    scopus 로고
    • Finding needles in haystacks: Reranking DOT results by using shape complementarity, cluster analysis, and biological information
    • Law DS, Ten Eyck LF, Katzenelson O, Tsigelny I, Roberts VA, Pique ME, Mitchell JC. Finding needles in haystacks: reranking DOT results by using shape complementarity, cluster analysis, and biological information. Proteins 2003;52:33-40.
    • (2003) Proteins , vol.52 , pp. 33-40
    • Law, D.S.1    Ten Eyck, L.F.2    Katzenelson, O.3    Tsigelny, I.4    Roberts, V.A.5    Pique, M.E.6    Mitchell, J.C.7
  • 4
    • 0031552370 scopus 로고    scopus 로고
    • Determination of atomic desolvation energies from the structures of crystallized proteins
    • Zhang C, Vasmatzis G, Cornette JL, DeLisi C. Determination of atomic desolvation energies from the structures of crystallized proteins. J Mol Biol 1996;267:707-726.
    • (1996) J Mol Biol , vol.267 , pp. 707-726
    • Zhang, C.1    Vasmatzis, G.2    Cornette, J.L.3    Delisi, C.4
  • 6
    • 0038021436 scopus 로고    scopus 로고
    • Assessment of blind predictions of protein-protein interactions: Current status of docking methods
    • Méndez R, Leplae R, De Maria L, Wodak SJ. Assessment of blind predictions of protein-protein interactions: current status of docking methods. Proteins 2003;52:51-67.
    • (2003) Proteins , vol.52 , pp. 51-67
    • Méndez, R.1    Leplae, R.2    De Maria, L.3    Wodak, S.J.4
  • 7
    • 21644469377 scopus 로고    scopus 로고
    • Assessment of CAPRI predictions in Rounds 3-5 shows progress in docking procedures
    • Méndez R, Leplae R, Lensink MF, Wodak SJ. Assessment of CAPRI predictions in Rounds 3-5 shows progress in docking procedures. Proteins 2005;60:150-169.
    • (2005) Proteins , vol.60 , pp. 150-169
    • Méndez, R.1    Leplae, R.2    Lensink, M.F.3    Wodak, S.J.4
  • 11
    • 0037189507 scopus 로고    scopus 로고
    • Three camelid VHH domains in complex with porcine pancreatic alpha-amylase-inhibition and versatility of binding topology
    • Desmyter A, Spinelli S, Payan F, Lauwereys M, Wyns L, Muyldermans S, Cambillau C. Three camelid VHH domains in complex with porcine pancreatic alpha-amylase-inhibition and versatility of binding topology. J Biol Chem 2002;277:23645-23650.
    • (2002) J Biol Chem , vol.277 , pp. 23645-23650
    • Desmyter, A.1    Spinelli, S.2    Payan, F.3    Lauwereys, M.4    Wyns, L.5    Muyldermans, S.6    Cambillau, C.7
  • 12
    • 0036091233 scopus 로고    scopus 로고
    • Structures of two streptococcal superantigens bound to TCR beta chains reveal diversity in the architecture of T cell signaling complexes
    • Sundberg EJ, Li HM, Liera AS, McCormick JK, Tormo J, Schlievert PM, Karjalainen K, Mariuzza RA. Structures of two streptococcal superantigens bound to TCR beta chains reveal diversity in the architecture of T cell signaling complexes. Structure 2002;10:687-699.
    • (2002) Structure , vol.10 , pp. 687-699
    • Sundberg, E.J.1    Li, H.M.2    Liera, A.S.3    McCormick, J.K.4    Tormo, J.5    Schlievert, P.M.6    Karjalainen, K.7    Mariuzza, R.A.8
  • 13
    • 0041858013 scopus 로고    scopus 로고
    • Complex between nidogen and laminin fragments reveals a paradigmatic beta-propeller interface
    • Takagi J, Yang YT, Liu JH, Wang JH, Springer TA. Complex between nidogen and laminin fragments reveals a paradigmatic beta-propeller interface. Nature 2003;424:969-974.
    • (2003) Nature , vol.424 , pp. 969-974
    • Takagi, J.1    Yang, Y.T.2    Liu, J.H.3    Wang, J.H.4    Springer, T.A.5
  • 14
    • 17644378441 scopus 로고    scopus 로고
    • Activation of the LicT transcriptional antiterminator involves a domain swing/lock mechanism provoking massive structural changes
    • Graille M, Xhou CZ, Receveur-Brechot V, Colinet B, Declerck N, van Tilbeurgh H. Activation of the LicT transcriptional antiterminator involves a domain swing/lock mechanism provoking massive structural changes. J Biol Chem 2005;280:14780-14789.
    • (2005) J Biol Chem , vol.280 , pp. 14780-14789
    • Graille, M.1    Xhou, C.Z.2    Receveur-Brechot, V.3    Colinet, B.4    Declerck, N.5    Van Tilbeurgh, H.6
  • 18
  • 19
    • 4143057133 scopus 로고    scopus 로고
    • Structural basis for inhibition of Aspergillus niger xylanase by Triticum aestivum xylanase inhibitor-I
    • Sansen S, De Ranter CJ, Gebruers K, Brijs K, Courtin CM, Delcour JA, Rabijns A. Structural basis for inhibition of Aspergillus niger xylanase by Triticum aestivum xylanase inhibitor-I. J Biol Chem 2004;279:36022-36028.
    • (2004) J Biol Chem , vol.279 , pp. 36022-36028
    • Sansen, S.1    De Ranter, C.J.2    Gebruers, K.3    Brijs, K.4    Courtin, C.M.5    Delcour, J.A.6    Rabijns, A.7
  • 23
    • 0032428378 scopus 로고    scopus 로고
    • Identification of protein-protein interfaces by decreased amide proton solvent accessibility
    • Mandell JG, Falick AM, Komives EA. Identification of protein-protein interfaces by decreased amide proton solvent accessibility. Proc Natl Acad Sci USA 1998;95:14705-14710.
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 14705-14710
    • Mandell, J.G.1    Falick, A.M.2    Komives, E.A.3
  • 24
    • 0032186122 scopus 로고    scopus 로고
    • Measurement of amide hydrogen exchange by MALDI-TOF mass spectrometry
    • Mandell JG, Falick AM, Komives EA. Measurement of amide hydrogen exchange by MALDI-TOF mass spectrometry. Anal Chem 1998;70:3987-3995.
    • (1998) Anal Chem , vol.70 , pp. 3987-3995
    • Mandell, J.G.1    Falick, A.M.2    Komives, E.A.3
  • 25
    • 0344405702 scopus 로고    scopus 로고
    • Dynamics of cAPK type II beta activation revealed by enhanced amide H/H-2 exchange mass spectrometry (DXMS)
    • Hamuro Y, Zawadzki KM, Kim JS, Stranz DD, Taylor SS, Woods VL. Dynamics of cAPK type II beta activation revealed by enhanced amide H/H-2 exchange mass spectrometry (DXMS). J Mol Biol 2003;327:1065-1076.
    • (2003) J Mol Biol , vol.327 , pp. 1065-1076
    • Hamuro, Y.1    Zawadzki, K.M.2    Kim, J.S.3    Stranz, D.D.4    Taylor, S.S.5    Woods, V.L.6
  • 26
    • 0035753065 scopus 로고    scopus 로고
    • High resolution, high-throughput amide deuterium exchange-mass spectrometry (DXMS) determination of protein binding site structure and dynamics: Utility in pharmaceutical design
    • Woods VL, Hamuro Y. High resolution, high-throughput amide deuterium exchange-mass spectrometry (DXMS) determination of protein binding site structure and dynamics: utility in pharmaceutical design. J Cell Biochem 2001:89-98.
    • (2001) J Cell Biochem , pp. 89-98
    • Woods, V.L.1    Hamuro, Y.2
  • 27
    • 13244291292 scopus 로고    scopus 로고
    • Crystal structure of a complex between the catalytic and regulatory (RIα) subunits of PKA
    • Kim C, Xuong NH, Taylor SS. Crystal structure of a complex between the catalytic and regulatory (RIα) subunits of PKA. Science 2005;307:690-696.
    • (2005) Science , vol.307 , pp. 690-696
    • Kim, C.1    Xuong, N.H.2    Taylor, S.S.3
  • 30
    • 0038161052 scopus 로고    scopus 로고
    • Protein-protein docking with simultaneous optimization of rigid body dispalcement and side-chain conformations
    • Gray JJ, Moughan SE, Wang C, Schueler-Furman O, Kuhlman B, Rohl CA, Baker D. Protein-protein docking with simultaneous optimization of rigid body dispalcement and side-chain conformations. J Mol Biol 2003;331:281-299.
    • (2003) J Mol Biol , vol.331 , pp. 281-299
    • Gray, J.J.1    Moughan, S.E.2    Wang, C.3    Schueler-Furman, O.4    Kuhlman, B.5    Rohl, C.A.6    Baker, D.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.