xdeupi's library 420 articles Export

	A G protein-coupled receptor at work: the rhodopsin model. [My Copy] Trends in biochemical sciences, Vol. 34, No. 11. (15 November 2009), pp. 540-552. by Klaus Peter P. Hofmann, Patrick Scheerer, Peter W. Hildebrand, et al.Hui-Woog W. Choe, Jung Hee H. Park, Martin Heck, Oliver P. Ernst posted to rhodopsin review gpcr activation by xdeupi on 2009-11-09 14:10:06 as along with 1 person lymxz
	Retinylidene Ligand Structure in Bovine Rhodopsin, Metarhodopsin-I, and 10-Methylrhodopsin from Internuclear Distance Measurements Using 13C-Labeling and 1-D Rotational Resonance MAS NMR† [My Copy] Biochemistry, Vol. 38, No. 35. (1 August 1999), pp. 11316-11324. by P. J. E. Verdegem, P. H. M. Bovee-Geurts, W. J. de Grip, J. Lugtenburg, H. J. M. de Groot posted to rhodopsin retinal nmr metai induced_fit activation by xdeupi on 2009-11-06 10:42:33 as
	Visual pigment: G-protein-coupled receptor for light signals [My Copy] Cellular and Molecular Life Sciences, Vol. 54, No. 12. (19 December 1998), pp. 1299-1315. by Y. Shichida, H. Imai posted to rhodopsin review pathway energy_landscape activation by xdeupi on 2009-10-29 11:43:58 as
	Large-scale allosteric conformational transitions of adenylate kinase appear to involve a population-shift mechanism. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 47. (20 November 2007), pp. 18496-18501. by Karunesh Arora, Charles L. Brooks posted to switch kinetics energy_landscape conformational_changes activation by xdeupi on 2009-10-28 13:38:02 as along with 7 people and 2 groups jrperillaj barry allmensch cactus sobolevnrm jlh64 karunesh structural_bioinformatics baker-group
	Simple Energy Landscape Model for the Kinetics of Functional Transitions in Proteins [My Copy] The Journal of Physical Chemistry B, Vol. 109, No. 5. (1 February 2005), pp. 1959-1969. by Osamu Miyashita, Peter G. Wolynes, Jose N. Onuchic posted to pathways kinetics energy_landscape dynamics conformational_changes active-state activation by xdeupi on 2009-10-28 12:45:14 as along with 2 people abovell aqeel
	Asymmetric Kinetics of Protein Structural Changes [My Copy] Accounts of Chemical Research, Vol. 42, No. 6. (16 June 2009), pp. 778-787. by Stéphane Marchal, Josep Font, Marc Ribó, et al.Maria Vilanova, Robert S. Phillips, Reinhard Lange, Joan Torrent posted to pathway kinetics energy_landscape dynamics conformational_changes binding_kinetics active-state activation by xdeupi on 2009-10-28 09:14:43 as along with 1 person paulschlesinger
	Low-frequency vibrational modes and infrared absorbance of red, blue and green opsin. [My Copy] Journal of molecular modeling, Vol. 15, No. 8. (August 2009), pp. 959-969. by Saravana Prakash P. Thirumuruganandham, Herbert M. Urbassek posted to membrane_proteins md flexibility energy_landscape dynamics disorder by xdeupi on 2009-10-25 11:22:15 as along with 2 people saravan gcaltabiano
	Identification of Specific Transmembrane Residues and Ligand-Induced Interface Changes Involved In Homo-Dimer Formation of A Yeast G Protein-Coupled Receptor. [My Copy] Biochemistry (19 October 2009) by Heejung Kim, Byung-Kwon K. Lee, Fred Robert R. Naider, Jeffrey Marvin M. Becker posted to tm7 tm1 oligomerization gpcrs dimerization cys_scanning crosslinking by xdeupi on 2009-10-25 11:19:22 as
	The fifth transmembrane domain of angiotensin II type 1 receptor participates in the formation of the ligand binding pocket and undergoes a counterclockwise rotation upon receptor activation. [My Copy] The Journal of biological chemistry (22 September 2009) by Ivana Domazet, Stephane S. Martin, Brian J. Holleran, et al.Marie-Eve E. Morin, Patrick Lacasse, Pierre Lavigne, Emanuel Escher, Richard Leduc, Gaetan Guillemette posted to tm5 cys_scanning angiotensin activation by xdeupi on 2009-10-23 16:17:52 as
	The second transmembrane domain of the human type 1 angiotensin II receptor participates in the formation of the ligand binding pocket and undergoes integral pivoting movement during the process of receptor activation. [My Copy] The Journal of biological chemistry, Vol. 284, No. 18. (1 May 2009), pp. 11922-11929. by Ivana Domazet, Brian J. Holleran, Stéphane S. Martin, et al.Pierre Lavigne, Richard Leduc, Emanuel Escher, Gaétan Guillemette posted to tm2 cys_scanning binding angiotensin activation by xdeupi on 2009-10-23 16:14:47 as
	Modern Homology Modeling of G-Protein Coupled Receptors: Which Structural Template to Use? [My Copy] Journal of Medicinal Chemistry, Vol. 52, No. 16. (27 August 2009), pp. 5207-5216. by Juan C. Mobarec, Roberto Sanchez, Marta Filizola posted to theory modeling gpcr docking by xdeupi on 2009-10-08 16:39:12 as along with 1 person reyez
	Long-timescale molecular dynamics simulations of protein structure and function. [My Copy] Current opinion in structural biology, Vol. 19, No. 2. (08 April 2009), pp. 120-127. by John L. Klepeis, Kresten Lindorff-Larsen, Ron O. Dror, David E. Shaw posted to review md by xdeupi on 2009-10-08 11:13:56 as along with 11 people and 1 group agrossfield allmensch bmduggan r2s2 apaydin kiekyon Borelli idoerg sobolevnrm edws paulschlesinger baker-group
	Identification of two distinct inactive conformations of the beta2-adrenergic receptor reconciles structural and biochemical observations. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 12. (24 March 2009), pp. 4689-4694. by Ron O. Dror, Daniel H. Arlow, David W. Borhani, Morten Ø. Jensen, Stefano Piana, David E. Shaw posted to theory structure modeling md flexibility dynamics b2ar activation by xdeupi on 2009-10-08 11:13:04 as along with 2 people dimka agrossfield
	Conformational selection or induced fit: A flux description of reaction mechanism [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 33. (18 August 2009), pp. 13737-13741. by Gordon G. Hammes, Yu-Chu Chang, Terrence G. Oas posted to pathway binding_kinetics binding activation by xdeupi on 2009-10-07 10:24:54 as along with 4 people and 1 group chemrahul82 anuragsethi pmung barry McCammon
	Modeling G protein-coupled receptors for structure-based drug discovery using low-frequency normal modes for refinement of homology models: Application to H3 antagonists. [My Copy] Proteins (12 August 2009) by Brajesh K. Rai, Gregory J. Tawa, Alan H. Katz, Christine Humblet posted to theory modeling md gpcr by xdeupi on 2009-10-06 19:31:07 as
	Exploring Molecular Mechanisms of Ligand Recognition by Opioid Receptors with Metadynamics. [My Copy] Biochemistry (28 September 2009) by Davide Provasi, Andrea Bortolato, Marta Filizola posted to pathways md binding_kinetics binding by xdeupi on 2009-10-06 19:30:24 as
	Ligand-regulated oligomerization of beta(2)-adrenoceptors in a model lipid bilayer. [My Copy] The EMBO journal (17 September 2009) by Juan José J. Fung, Xavier Deupi, Leonardo Pardo, et al.Xiao Jie J. Yao, Gisselle A. Velez-Ruiz, Brian T. Devree, Roger K. Sunahara, Brian K. Kobilka posted to oligomerization inverse_agonist fret b2ar antagonist agonist by xdeupi on 2009-10-06 19:26:56 as
	Hetero-oligomerization of CCR2, CCR5 and CXCR4 and the protean effects of "selective"-antagonists. [My Copy] The Journal of biological chemistry (15 September 2009) by Denis Sohy, Hideaki Yano, Patricia de Nadai, et al.Eneko Urizar, Aude Guillabert, Jonathan A. Javitch, Marc Parmentier, Jean-Yves Y. Springael posted to oligomerization drug chemokine antagonist by xdeupi on 2009-10-06 19:26:05 as
	Comparative sequence and structural analyses of G-protein-coupled receptor crystal structures and implications for molecular models. [My Copy] PloS one, Vol. 4, No. 9. (2009) by Catherine L. Worth, Gunnar Kleinau, Gerd Krause posted to structure sequence review modeling gpcr by xdeupi on 2009-10-06 19:24:07 as
	Computational analysis of membrane proteins: the largest class of drug targets. [My Copy] Drug discovery today (3 September 2009) by Yalini Arinaminpathy, Ekta Khurana, Donald M. Engelman, Mark B. Gerstein posted to theory membrane_proteins drug by xdeupi on 2009-10-06 19:23:18 as
	Retinal dynamics during light activation of rhodopsin revealed by solid-state NMR spectroscopy. [My Copy] Biochimica et biophysica acta (28 August 2009) by Michael F. Brown, Gilmar F. Salgado, Andrey V. Struts posted to rhodopsin retinal nmr activation by xdeupi on 2009-10-06 19:22:22 as
	Mapping the human membrane proteome: a majority of the human membrane proteins can be classified according to function and evolutionary origin. [My Copy] BMC biology, Vol. 7, No. 1. (2009), 50. by Markus Sällman S. Almén, Karl J. Nordström, Robert Fredriksson, Helgi B. Schiöth posted to phylogeny membrane_proteins evolution by xdeupi on 2009-10-06 19:21:46 as along with 1 person neilswainston
	Allosteric communication between protomers of dopamine class A GPCR dimers modulates activation. [My Copy] Nature chemical biology, Vol. 5, No. 9. (September 2009), pp. 688-695. by Yang Han, Irina S. Moreira, Eneko Urizar, Harel Weinstein, Jonathan A. Javitch posted to dimerization activation by xdeupi on 2009-10-06 19:20:24 as
	Conserved waters mediate structural and functional activation of family A (rhodopsin-like) G protein-coupled receptors. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 21. (26 May 2009), pp. 8555-8560. by Thomas E. Angel, Mark R. Chance, Krzysztof Palczewski posted to water structure review gpcr activation by xdeupi on 2009-10-06 18:17:17 as along with 1 person agrossfield
	Structural and kinetic modeling of an activating helix switch in the rhodopsin-transducin interface. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 26. (30 June 2009), pp. 10660-10665. by Patrick Scheerer, Martin Heck, Andrean Goede, et al.Jung Hee H. Park, Hui-Woog W. Choe, Oliver P. Ernst, Klaus Peter P. Hofmann, Peter W. Hildebrand posted to transducin switch structure rhodopsin modeling kinetics helix activation by xdeupi on 2009-10-06 18:16:43 as
	Homology modeling of GPCRs. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 552 (2009), pp. 97-113. by John Simms, Nathan E. Hall, Polo H. Lam, et al.Laurence J. Miller, Arthur Christopoulos, Ruben Abagyan, Patrick M. Sexton posted to theory review modeling gpcr by xdeupi on 2009-10-06 18:14:40 as
	FRET-based measurement of GPCR conformational changes. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 552 (2009), pp. 253-268. by Sébastien Granier, Samuel Kim, Juan José J. Fung, Michael P. Bokoch, Charles Parnot posted to gpcr fret conformational_changes by xdeupi on 2009-10-06 18:13:38 as
	Rhodopsin activation switches in a native membrane environment. [My Copy] Photochemistry and photobiology, Vol. 85, No. 2. (r 2009), pp. 437-441. by Steffen Lüdeke, Mohana Mahalingam, Reiner Vogel posted to switch rhodopsin activation by xdeupi on 2009-10-06 18:12:45 as
	Instability of a class a G protein-coupled receptor oligomer interface. [My Copy] Molecular pharmacology, Vol. 75, No. 6. (June 2009), pp. 1296-1299. by Jacqueline M. Fonseca, Nevin A. Lambert posted to dimerization by xdeupi on 2009-10-06 18:12:07 as
	Predicting helix-helix interactions from residue contacts in membrane proteins [My Copy] Bioinformatics, Vol. 25, No. 8. (15 April 2009), pp. 996-1003. by Allan Lo, Yi-Yuan Chiu, Einar A. Rodland, Ping-Chiang Lyu, Ting-Yi Sung, Wen-Lian Hsu posted to tmhs networks membrane_proteins helix by xdeupi on 2009-10-06 18:10:55 as along with 6 people ChanghuiYan george_g friendpine neils zwang phoenixzxl
	Building a new conceptual framework for receptor heteromers. [My Copy] Nature chemical biology, Vol. 5, No. 3. (March 2009), pp. 131-134. by Sergi Ferré, Ruben Baler, Michel Bouvier, et al.Marc G. Caron, Lakshmi A. Devi, Thierry Durroux, Kjell Fuxe, Susan R. George, Jonathan A. Javitch, Martin J. Lohse, Ken Mackie, Graeme Milligan, Kevin D. Pfleger, Jean-Philippe P. Pin, Nora D. Volkow, Maria Waldhoer, Amina S. Woods, Rafael Franco posted to review dimerization by xdeupi on 2009-10-06 18:10:13 as along with 1 person sschurer
	Constitutive dimerization of the G-protein coupled receptor, neurotensin receptor 1, reconstituted into phospholipid bilayers. [My Copy] Biophysical journal, Vol. 96, No. 3. (February 2009), pp. 964-973. by Peter J. Harding, Helen Attrill, Jonas Boehringer, et al.Simon Ross, George H. Wadhams, Eleanor Smith, Judith P. Armitage, Anthony Watts posted to dimerization by xdeupi on 2009-10-06 18:09:11 as
	Using sequence similarity networks for visualization of relationships across diverse protein superfamilies. [My Copy] PloS one, Vol. 4, No. 2. (3 February 2009), e4345. by Holly J. Atkinson, John H. Morris, Thomas E. Ferrin, Patricia C. Babbitt posted to theory sequence phylogeny networks by xdeupi on 2009-10-06 18:08:37 as along with 4 people robert85 Keywan druvus oteri
	Comparative analysis of GPCR crystal structures. [My Copy] Photochemistry and photobiology, Vol. 85, No. 2. (r 2009), pp. 425-430. by David T. Lodowski, Thomas E. Angel, Krzysztof Palczewski posted to structure review gpcr by xdeupi on 2009-10-06 18:07:41 as
	Structural and dynamic effects of cholesterol at preferred sites of interaction with rhodopsin identified from microsecond length molecular dynamics simulations. [My Copy] Proteins, Vol. 76, No. 2. (1 August 2009), pp. 403-417. by George Khelashvili, Alan Grossfield, Scott E. Feller, Michael C. Pitman, Harel Weinstein posted to theory rhodopsin md cholesterol by xdeupi on 2009-10-06 18:06:55 as along with 1 person and 1 group sobolevnrm baker-group
	Forster resonance energy transfer measurements of transmembrane helix dimerization energetics. [My Copy] Methods in enzymology, Vol. 450 (2008), pp. 107-127. by Mikhail Merzlyakov, Kalina Hristova posted to fret by xdeupi on 2009-10-06 18:06:01 as
	On the origins of arrestin and rhodopsin. [My Copy] BMC evolutionary biology, Vol. 8 (29 July 2008), 222. by Carlos E. Alvarez posted to rhodopsin evolution arrestin by xdeupi on 2009-10-06 18:03:23 as along with 1 person ckenaley
	gpDB: a database of GPCRs, G-proteins, effectors and their interactions. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 12. (15 June 2008), pp. 1471-1472. by Margarita C. Theodoropoulou, Pantelis G. Bagos, Ioannis C. Spyropoulos, Stavros J. Hamodrakas posted to webserver theory gproteins gpcr by xdeupi on 2009-10-06 18:02:45 as along with 1 person guhjy
	MemBrain: improving the accuracy of predicting transmembrane helices. [My Copy] PloS one, Vol. 3, No. 6. (2008) by Hongbin Shen, James J. Chou posted to webserver tmhs theory membrane_proteins helix by xdeupi on 2009-10-06 18:00:49 as
	Ligand entry and exit pathways in the beta2-adrenergic receptor. [My Copy] Journal of molecular biology, Vol. 392, No. 4. (2 October 2009), pp. 1102-1115. by Ting Wang, Yong Duan posted to pathway binding_kinetics binding b2ar by xdeupi on 2009-10-06 17:54:54 as
	Position of helical kinks in membrane protein crystal structures and the accuracy of computational prediction. [My Copy] Journal of molecular graphics & modelling, Vol. 27, No. 8. (June 2009), pp. 944-950. by Spencer E. Hall, Kyle Roberts, Nagarajan Vaidehi posted to theory proline membrane_proteins kinks helix by xdeupi on 2009-10-06 17:52:20 as
	Exploring the mechanism of agonist efficacy: a relationship between efficacy and agonist dissociation rate at the muscarinic M3 receptor. [My Copy] Molecular pharmacology, Vol. 76, No. 3. (September 2009), pp. 543-551. by David A. Sykes, Mark R. Dowling, Steven J. Charlton posted to efficacy drug binding_kinetics binding agonist by xdeupi on 2009-10-06 17:50:31 as
	New vistas in GPCR 3D structure prediction [My Copy] Journal of Molecular Modeling by Anwar Rayan posted to theory sequence_alignment sequence modeling gpcr by xdeupi on 2009-10-06 17:47:03 as along with 1 person arnaucordomi
	A conserved tyrosine residue (Y601) in transmembrane domain 5 of the human thyrotropin receptor serves as a molecular switch to determine G-protein coupling. [My Copy] The FASEB journal : official publication of the Federation of American Societies for Experimental Biology, Vol. 12, No. 14. (November 1998), pp. 1461-1471. by H. Biebermann, T. Schöneberg, A. Schulz, et al.G. Krause, A. Grüters, G. Schultz, T. Gudermann posted to tm5 switch plasticity by xdeupi on 2009-10-06 17:45:13 as
	Definition of the G Protein-Coupled Receptor Transmembrane Bundle Binding Pocket and Calculation of Receptor Similarities for Drug Design [My Copy] Journal of Medicinal Chemistry, Vol. 52, No. 14. (23 July 2009), pp. 4429-4442. by David E. Gloriam, Steven M. Foord, Frank E. Blaney, Stephen L. Garland posted to theory gpcr drug binding_site by xdeupi on 2009-10-06 17:42:06 as
	Location of the retinal chromophore in the activated state of rhodopsin. [My Copy] The Journal of biological chemistry*, Vol. 284, No. 15. (10 April 2009), pp. 10190-10201. by Shivani Ahuja, Evan Crocker, Markus Eilers, et al.Viktor Hornak, Amiram Hirshfeld, Martine Ziliox, Natalie Syrett, Philip J. Reeves, H. Gobind Khorana, Mordechai Sheves, Steven O. Smith posted to rhodopsin retinal nmr activation by xdeupi on 2009-10-06 01:16:33 as
	Helix movement is coupled to displacement of the second extracellular loop in rhodopsin activation. [My Copy] Nature structural & molecular biology, Vol. 16, No. 2. (01 February 2009), pp. 168-175. by Shivani Ahuja, Viktor Hornak, Elsa C. Yan, et al.Natalie Syrett, Joseph A. Goncalves, Amiram Hirshfeld, Martine Ziliox, Thomas P. Sakmar, Mordechai Sheves, Philip J. Reeves, Steven O. Smith, Markus Eilers posted to rhodopsin nmr ecl2 activation by xdeupi on 2009-10-06 01:12:54 as
	6-s-cis Conformation and Polar Binding Pocket of the Retinal Chromophore in the Photoactivated State of Rhodopsin. [My Copy] Journal of the American Chemical Society (1 October 2009) by Shivani Ahuja, Markus Eilers, Amiram Hirshfeld, et al.Elsa C. Yan, Martine Ziliox, Thomas P. Sakmar, Mordechai Sheves, Steven O. Smith posted to rhodopsin retinal nmr activation by xdeupi on 2009-10-06 01:12:06 as
	Location of Trp265 in metarhodopsin II: implications for the activation mechanism of the visual receptor rhodopsin. [My Copy] Journal of molecular biology, Vol. 357, No. 1. (17 March 2006), pp. 163-172. by Evan Crocker, Markus Eilers, Shivani Ahuja, et al.Viktor Hornak, Amiram Hirshfeld, Mordechai Sheves, Steven O. Smith posted to trp tm6 rhodopsin nmr activation by xdeupi on 2009-10-06 00:45:51 as along with 1 person viktor21614
	Are specific nonannular cholesterol binding sites present in G-protein coupled receptors? [My Copy] Biochimica et Biophysica Acta (BBA) - Biomembranes, Vol. 1788, No. 2. (February 2009), pp. 295-302. by Yamuna D. Paila, Shrish Tiwari, Amitabha Chattopadhyay posted to gpcrs cholesterol by xdeupi on 2009-10-05 19:38:35 as

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activation	171
gpcr	110
structure	89
rhodopsin	79
review	64
modeling	62
b2ar	58
dynamics	56
helix	50
transmembrane	47
agonist	46
binding	44
theory	42
ligands	41
drug	36
md	35
switch	34
membrane_proteins	31
crystallography	30
nmr	30
pharmacology	30
membrane	26
gproteins	23
dimer	20
fluorescence	18
sequence	17
ser	17
active-state	15
folding	14
fret	14
genome	14
loops	14
pro-kink	14
flexibility	13
disease	12
tm6	12
cterm	11
mutation	11
retinal	11
amber	10
evolution	10
toggle	10
docking	9
energy_landscape	9
kinetics	9
lipids	9
neurokinin	9
tm5	9
arrestin	8
chemokine	8
gpcrs	8
hbond	8
helix8	8
imaging	8
bimane	7
cancer	7
channel	7
ecl2	7
gly	7
icl3	7
ionic	7
lmc_101	7
plasticity	7
protonation	7
tm3	7
w648	7
cation-pi	6
ccr5	6
cys_scanning	6
d250	6
internalization	6
npxxy	6
opioid	6
thyrotropin	6
tm2	6
xray	6
amine	5
binding_kinetics	5
conformational_changes	5
dimerization	5
dry	5
expression	5
lock	5
polymorphism	5
spectroscopy	5
thr	5
trp	5
antagonist	4
cam	4
cholesterol	4
disorder	4
hormone	4
n749	4
nterm	4
pathway	4
tm7	4
water	4
angiotensin	3
biased_agonism	3
cxcr1	3
grk	3
histamine	3
n745	3
oligomerization	3
spin_labeling	3
toac	3
webserver	3
5ht1a	2
chimera	2
crosslinking	2
em	2
leukotriene	2
lhr	2
networks	2
pathways	2
phylogeny	2
s542	2
solvation	2
tm1	2
tmhs	2
txp	2
b1ar	1
binding_site	1
class_c	1
efficacy	1
gaba	1
induced_fit	1
inverse_agonist	1
kinase	1
kinks	1
metai	1
oligomers	1
peptide	1
priviledged_structures	1
proline	1
protein_docking	1
sequence_alignment	1
tm4	1
transducin	1
vasopressin	1

xdeupi's library 420 articles Export

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