Group: baker-group - with tag structure [at least 200 articles] Export

Recent papers posted by members of the baker-group group with tag structure

	Geometric considerations in virus capsid size specificity, auxiliary requirements, and buckling [My Copy] Proceedings of the National Academy of Sciences (13 May 2009) by Ranjan V. Mannige, Charles L. Brooks posted to mechanics structure virus by sobolevnrm to the group baker-group on 2009-05-29 12:18:15 as along with 2 people tapioka kshundyak
	Static and Dynamic Properties of Phospholipid Bilayer Nanodiscs [My Copy] Journal of the American Chemical Society, Vol. 0, No. 0. (0000) by Minoru Nakano, Masakazu Fukuda, Takayuki Kudo, et al.Masakazu Miyazaki, Yusuke Wada, Naoya Matsuzaki, Hitoshi Endo, Tetsurou Handa posted to biomembranes nanotech structure by sobolevnrm to the group baker-group on 2009-05-26 12:45:17 as along with 1 person birte
	Biophysical dissection of membrane proteins [My Copy] Nature, Vol. 459, No. 7245. (20 May 2009), pp. 344-346. by Stephen H. White posted to biomembranes protein-membrane_interactions review structure by sobolevnrm to the group baker-group on 2009-05-21 12:08:19 as along with 9 people and 2 groups amoszlj rph girayenkavi ColumbusLabs viktor21614 kevinchannon hsekiguc barry paulschlesinger structural_bioinformatics McCammon
	The origin of the electrostatic perturbation in acetoacetate decarboxylase [My Copy] Nature, Vol. 459, No. 7245. (21 May 2009), pp. 393-397. by Meng-Chiao Ho, Jean-Francois Menetret, Hiro Tsuruta, Karen N. Allen posted to electrostatics pka solvation structure by sobolevnrm to the group baker-group on 2009-05-21 12:08:07 as along with 2 people girayenkavi flbarroso
	Characterization of Large Conformational Changes and Autoproteolysis in the Maturation of a T=4 Virus Capsid [My Copy] J. Virol., Vol. 83, No. 2. (15 January 2009), pp. 1126-1134. by Tsutomu Matsui, Gabriel Lander, John E. Johnson posted to electrostatics pka structure virus by sobolevnrm to the group baker-group on 2009-05-19 11:59:51 as
	Evolutionary Trace Annotation Server: automated enzyme function prediction in protein structures using 3D templates. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 11. (1 June 2009), pp. 1426-1427. by R. Matthew Ward, Eric Venner, Bryce Daines, et al.Stephen Murray, Serkan Erdin, David M. Kristensen, Olivier Lichtarge posted to bioinformatics software structure by sobolevnrm to the group baker-group on 2009-05-15 12:47:23 as along with 1 person jwm
	Remarks about protein structure precision [My Copy] Acta Crystallographica Section D, Vol. 55, No. 3. (Mar 1999), pp. 583-601. by D. W. J. Cruickshank posted to experimental_methodology review structure by sobolevnrm to the group baker-group on 2009-04-30 12:16:20 as
	Remarks about protein structure precision. Erratum [My Copy] Acta Crystallographica Section D, Vol. 55, No. 5. (May 1999), 1108. by D. W. J. Cruickshank posted to experimental_methodology review structure by sobolevnrm to the group baker-group on 2009-04-30 12:16:10 as
	Rearrangement of Cruickshank's formulae for the diffraction-component precision index [My Copy] Acta Crystallographica Section D, Vol. 58, No. 5. (May 2002), pp. 792-797. by D. M. Blow posted to experimental_methodology review structure by sobolevnrm to the group baker-group on 2009-04-30 12:16:00 as
	Protein crystallography for non-crystallographers, or how to get the best (but not more) from published macromolecular structures [My Copy] FEBS Journal, Vol. 275, No. 1. (January 2008), pp. 1-21. by Wlodawer, Alexander, Minor, et al. Wladek, Dauter, Zbigniew, Jaskolski, Mariusz posted to experimental_methodology review structure by sobolevnrm to the group baker-group on 2009-04-30 12:15:51 as along with 6 people and 2 groups klexa nanonan barry ae1054 aisyahrehan rph structural_bioinformatics McCammon
	Nothing about protein structure classification makes sense except in the light of evolution [My Copy] Current Opinion in Structural Biology, Vol. 19, No. 3. (24 June 2009), pp. 329-334. by Ruben E. Valas, Song Yang, Philip E. Bourne posted to bioinformatics review structure by sobolevnrm to the group baker-group on 2009-04-28 12:23:16 as along with 13 people and 2 groups dfdong mkotlyar skywalkerus02 dgront nyyu robfsouza apaydin barry coela Zephyrus zwang friendpine paulschlesinger structural_bioinformatics R.E.A.D
	The interpretation of protein structures: Total volume, group volume distributions and packing density [My Copy] Journal of Molecular Biology, Vol. 82, No. 1. (5 January 1974), pp. 1-14. by Frederic M. Richards posted to geometry solvation structure by sobolevnrm to the group baker-group on 2009-04-27 11:37:24 as along with 1 person timg
	Applications of computational geometry to the molecular simulation of interfaces [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 79, No. 4. (2009), 046709. by Florencio B. Usabiaga, Daniel Duque posted to geometry protein-ligand_interactions protein-protein_interactions review structure by sobolevnrm to the group baker-group on 2009-04-23 12:30:13 as
	Computational Methods for Predicting Sites of Functionally Important Dynamics [My Copy] The Journal of Physical Chemistry B, Vol. 0, No. 0. (0000) by Adam D. Schuyler, Heather A. Carlson, Eva L. Feldman posted to bioinformatics quasiharmonic_models structure by sobolevnrm to the group baker-group on 2009-04-21 12:31:19 as along with 5 people skywalkerus02 agrossfield ubcg08l higueruelo barry
	Conservation of Side-Chain Dynamics Within a Protein Family [My Copy] Journal of the American Chemical Society, Vol. 0, No. 0. (0000) by Anthony B. Law, Ernesto J. Fuentes, Andrew L. Lee posted to bioinformatics molecular_dynamics nmr structure by sobolevnrm to the group baker-group on 2009-04-20 12:33:39 as along with 4 people and 2 groups anuragsethi skywalkerus02 pablocarb barry structural_bioinformatics McCammon
	Protein Dynamism and Evolvability [My Copy] Science, Vol. 324, No. 5924. (10 April 2009), pp. 203-207. by Nobuhiko Tokuriki, Dan S. Tawfik posted to bioinformatics protein-ligand_interactions review structure by sobolevnrm to the group baker-group on 2009-04-16 12:35:35 as along with 20 people and 2 groups dfdong tomhebbron anuragsethi ahmetbakan kevinchannon klexa lauresultan dbikard ibuch ramiro2k barry pablocarb ramanuja biomcgary hsekiguc VGreiff phoenixzxl zwang jdoconnell paulschlesinger structural_bioinformatics McCammon
	Identification of DNA-binding proteins using structural, electrostatic and evolutionary features [My Copy] Journal of Molecular Biology (20 February 2009) by Guy Nimrod, András Szilágyi, Christina Leslie, Nir Ben-Tal posted to bioinformatics electrostatics protein-nucleic_acid_interactions structure by sobolevnrm to the group baker-group on 2009-03-28 16:16:45 as along with 1 person reyez
	The homology recognition well as an innate property of DNA structure [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 12. (24 March 2009), pp. 4683-4688. by Alexei A. Kornyshev, Aaron Wynveen posted to bioinformatics electrostatics nucleic_acids structure by sobolevnrm to the group baker-group on 2009-03-28 16:13:22 as
	Protein classification combining surface analysis and primary structure [My Copy] Protein Engineering, Design and Selection, Vol. 22, No. 4. (1 April 2009), pp. 267-272. by Loris Nanni, Saveria Mazzara, Linda Pattini, Alessandra Lumini posted to bioinformatics structure by sobolevnrm to the group baker-group on 2009-03-27 11:55:35 as along with 1 person nickolay
	Is protein classification necessary? Toward alternative approaches to function annotation [My Copy] Current Opinion in Structural Biology, Vol. 19, No. 3. (5 June 2009), pp. 363-368. by Donald Petrey, Barry Honig posted to bioinformatics structure by sobolevnrm to the group baker-group on 2009-03-26 11:34:01 as along with 8 people and 3 groups dfdong sconlan robfsouza davidalee janasont idoerg fgibson barry Orengo Group Journal Picks structural_bioinformatics Bioinformatics
	Protein Functional Surfaces: Global Shape Matching and Local Spatial Alignments of Ligand Binding Sites [My Copy] BMC Structural Biology, Vol. 8 (27 October 2008), 45. by Andrew T. Binkowski, Andrzej Joachimiak posted to bioinformatics protein-ligand_interactions structure by sobolevnrm to the group baker-group on 2009-03-23 11:52:44 as along with 2 people and 2 groups GeeSharpMinor barry structural_bioinformatics Bioinformatics
	Predicting Protein Function and Binding Profile via Matching of Local Evolutionary and Geometric Surface Patterns [My Copy] Journal of Molecular Biology, Vol. 387, No. 2. (27 March 2009), pp. 451-464. by Yan Y. Tseng, Joseph Dundas, Jie Liang posted to bioinformatics protein-ligand_interactions structure by sobolevnrm to the group baker-group on 2009-03-23 11:52:33 as along with 3 people and 3 groups pablocarb nickolay barry structural_bioinformatics McCammon Bioinformatics
	Do viral proteins possess unique biophysical features? [My Copy] Trends in biochemical sciences (3 December 2008) by Nobuhiko Tokuriki, Christopher J J. Oldfield, Vladimir N N. Uversky, Igor N N. Berezovsky, Dan S S. Tawfik posted to bioinformatics structure by sobolevnrm to the group baker-group on 2009-03-22 14:04:45 as along with 2 people and 1 group higueruelo barry McCammon
	ShaEP: Molecular Overlay Based on Shape and Electrostatic Potential [My Copy] Journal of Chemical Information and Modeling, Vol. 49, No. 2. (23 February 2009), pp. 492-502. by Mikko J. Vainio, Santeri J. Puranen, Mark S. Johnson posted to bioinformatics electrostatics structure by sobolevnrm to the group baker-group on 2009-03-20 11:51:15 as along with 3 people superpyrin ubcg08l sschurer
	A Novel Main Chain Motif in Proteins Bridged by Cationic Groups: The Niche☆ [My Copy] Journal of Molecular Biology, Vol. 385, No. 4. (30 January 2009), pp. 1076-1086. by G. Torrance, D. Leader, D. Gilbert, E. Milnerwhite posted to bioinformatics protein-ligand_interactions structure by sobolevnrm to the group baker-group on 2009-03-20 11:50:40 as
	Viewing the Bilayer Hydrocarbon Core Using Neutron Diffraction [My Copy] Journal of Membrane Biology by Xue Han, Kalina Hristova posted to biomembranes structure by sobolevnrm to the group baker-group on 2009-03-19 12:08:17 as
	Shelling the Voronoi interface of protein-protein complexes reveals patterns of residue conservation, dynamics, and composition [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 76, No. 3. (23 January 2009), pp. 677-692. by Benjamin Bouvier, Raik Grünberg, Michael Nilges, Frédéric Cazals posted to bioinformatics geometry protein-protein_interactions structure by sobolevnrm to the group baker-group on 2009-03-19 12:08:08 as along with 2 people richardbickerton higueruelo
	HOLLOW: Generating Accurate Representations of Channel and Interior Surfaces in Molecular Structures [My Copy] BMC Structural Biology, Vol. 8 (14 November 2008), 49. by Bosco K. Ho, Franz Gruswitz2 posted to bioinformatics structure by sobolevnrm to the group baker-group on 2009-03-18 11:24:06 as along with 1 person and 1 group jmccammon McCammon
	The Capsid Proteins of a Large, Icosahedral dsDNA Virus [My Copy] Journal of Molecular Biology, Vol. 385, No. 4. (30 January 2009), pp. 1287-1299. by X. Yan, Z. Yu, P. Zhang, et al.A. Battisti, H. Holdaway, P. Chipman, C. Bajaj, M. Bergoin, M. Rossmann, T. Baker posted to geometry structure visualization by sobolevnrm to the group baker-group on 2009-03-18 11:22:55 as along with 1 person shicy
	Similarity Measures for Protein Ensembles [My Copy] PLoS ONE, Vol. 4, No. 1. (15 January 2009), e4203. by Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg posted to bioinformatics clustering molecular_simulation quasiharmonic_models structure by sobolevnrm to the group baker-group on 2009-03-18 11:22:13 as along with 8 people and 2 groups anuragsethi klexa apaydin gane5h barry jmccammon reyez biehl structural_bioinformatics McCammon
	Predicting protein p<I>K</I><SUB><FONT SIZE='-1'>a</FONT></SUB> by environment similarity [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2009), NA. by Francesca Milletti, Loriano Storchi, Gabriele Cruciani posted to bioinformatics pka structure by sobolevnrm to the group baker-group on 2009-03-16 11:57:03 as along with 1 person boris_aguilar
	Three-dimensional Modeling of Thrombin-Fibrinogen Interaction [My Copy] J. Biol. Chem., Vol. 277, No. 21. (17 May 2002), pp. 18875-18880. by Thierry Rose, Enrico Di Cera posted to protein-ligand_interactions structure thrombin by sobolevnrm to the group baker-group on 2009-03-16 11:53:59 as
	Structure of lipid bilayers [My Copy] Biochimica et Biophysica Acta (BBA) - Reviews on Biomembranes, Vol. 1469, No. 3. (10 November 2000), pp. 159-195. by J. Nagle posted to biomembranes structure by sobolevnrm to the group baker-group on 2009-03-16 11:52:19 as
	Pattern recognition strategies for molecular surfaces. II. Surface complementarity [My Copy] Journal of Computational Chemistry, Vol. 23, No. 12. (2002), pp. 1188-1197. by Thomas E. Exner, Matthias Keil, Jürgen Brickmann posted to bioinformatics electrostatics structure by sobolevnrm to the group baker-group on 2009-03-13 11:21:39 as
	Flexibility and packing in proteins [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 99, No. 3. (5 February 2002), pp. 1274-1279. by Bertil Halle posted to bioinformatics quasiharmonic_models structure by sobolevnrm to the group baker-group on 2009-03-13 11:20:58 as along with 7 people and 2 groups Diego_Prada edws barry ana aqeel allmensch hmk structural_bioinformatics Bioinformatics
	Identification of direct residue contacts in protein–protein interaction by message passing [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 1. (6 January 2009), pp. 67-72. by Martin Weigt, Robert A. White, Hendrik Szurmant, James A. Hoch, Terence Hwa posted to allostery bioinformatics correlated_mutations structure by sobolevnrm to the group baker-group on 2009-03-05 12:34:10 as along with 6 people and 1 group orr cactus haisent sjcockell akraemer hmk KeatingJClub
	Solvent dramatically affects protein structure refinement [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 51. (23 December 2008), pp. 20239-20244. by Gaurav Chopra, Christopher M. Summa, Michael Levitt posted to molecular_simulation solvation structure by sobolevnrm to the group baker-group on 2009-03-04 13:06:56 as along with 7 people and 3 groups rabio pavanghatty mijam dgront barry biehl itmeson structural_bioinformatics McCammon Bioinformatics
	PocketMatch: A new algorithm to compare binding sites in protein structures [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 543. by Kalidas Yeturu, Nagasuma Chandra posted to bioinformatics protein-ligand_interactions structure by sobolevnrm to the group baker-group on 2009-03-03 15:52:04 as along with 9 people cdsouthan nanonan pauldobson jteyra kshameer reyez tny higueruelo druvus
	Merging chemical and biological space: Structural mapping of enzyme binding pocket space [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 76, No. 2. (1 August 2009), pp. 317-330. by Nils Weskamp, Eyke Hüllermeier, Gerhard Klebe posted to bioinformatics protein-ligand_interactions structure by sobolevnrm to the group baker-group on 2009-02-28 21:52:17 as along with 4 people barmak7282 nanonan jteyra richardbickerton
	Resolving a distribution of charge into intrinsic multipole moments: A rankwise distributed multipole analysis [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 78, No. 6. (2008) by Apostol Gramada, Philip E. Bourne posted to bioinformatics electrostatics structure by sobolevnrm to the group baker-group on 2009-02-28 21:49:25 as
	A Natural Prothrombin Mutant Reveals an Unexpected Influence of A-chain Structure on the Activity of Human alpha-Thrombin [My Copy] J. Biol. Chem., Vol. 279, No. 13. (26 March 2004), pp. 13035-13043. by Raimondo De Cristofaro, Sepideh Akhavan, Cosimo Altomare, Andrea Carotti, Flora Peyvandi, Pier M. Mannucci posted to structure thrombin by sobolevnrm to the group baker-group on 2009-02-18 12:28:01 as
	The refined 1.9-A X-ray crystal structure of D-Phe-Pro-Arg chloromethylketone-inhibited human alpha-thrombin: structure analysis, overall structure, electrostatic properties, detailed active-site geometry, and structure-function relationships. [My Copy] Protein science : a publication of the Protein Society, Vol. 1, No. 4. (April 1992), pp. 426-471. by W. Bode, D. Turk, A. Karshikov posted to structure thrombin by sobolevnrm to the group baker-group on 2009-02-18 12:23:49 as along with 2 people flbarroso pgasper
	Crystal structure of the thrombin mutant D221A/D222K: the Asp222:Arg187 ion-pair stabilizes the fast form [My Copy] Biophysical Chemistry, Vol. 112, No. 2-3. (20 December 2004), pp. 253-256. by A. Pineda, E. Zhang, E. Guinto, S. Savvides, A. Tulinsky, E. Dicera posted to structure thrombin by sobolevnrm to the group baker-group on 2009-02-18 12:22:35 as
	Interesting Structures: Education and Outreach at the RCSB Protein Data Bank [My Copy] PLoS Biology, Vol. 6, No. 5. (1 May 2008), e117. by Christine Zardecki posted to database structure teaching by sobolevnrm to the group baker-group on 2008-07-25 11:50:16 as along with 1 person reyez
	Modest stabilization by most hydrogen-bonded side-chain interactions in membrane proteins [My Copy] Nature, Vol. 453, No. 7199. (25 May 2008), pp. 1266-1270. by Nathan H. Joh, Andrew Min, Salem Faham, et al.Julian P. Whitelegge, Duan Yang, Virgil L. Woods, James U. Bowie posted to protein_engineering protein_folding structure by sobolevnrm to the group baker-group on 2008-07-24 12:12:58 as along with 1 person hc5428
	Structural analysis of the essential self-cleaving type III secretion proteins EscU and SpaS [My Copy] Nature, Vol. 453, No. 7191., pp. 124-127. by Raz Zarivach, Wanyin Deng, Marija Vuckovic, et al.Heather B. Felise, Hai V. Nguyen, Samuel I. Miller, Brett B. Finlay, Natalie C. J. Strynadka posted to apbs structure by sobolevnrm to the group baker-group on 2008-07-24 12:11:50 as along with 1 person neils
	Functionally Linked Hydration Changes in Escherichia coli Aspartate Transcarbamylase and Its Catalytic Subunit [My Copy] Biochemistry, Vol. 36, No. 33. (19 August 1997), pp. 10161-10167. by V. J. Licata, N. M. Allewell posted to solvation structure by sobolevnrm to the group baker-group on 2008-06-30 15:39:25 as
	The interdependence of protein surface topography and bound water molecules revealed by surface accessibility and fractal density measures [My Copy] Journal of Molecular Biology, Vol. 228, No. 1. (5 November 1992), pp. 13-22. by Leslie A. Kuhn, Michael A. Siani, Michael E. Pique, Cindy L. Fisher, Elizabeth D. Getzoff, John A. Tainer posted to bioinformatics solvation structure by sobolevnrm to the group baker-group on 2008-06-30 15:25:55 as
	Areas, Volumes, Packing, and Protein Structure [My Copy] Annual Review of Biophysics and Bioengineering, Vol. 6, No. 1. (1977), pp. 151-176. by F. M. Richards posted to electrostatics solvation structure by sobolevnrm to the group baker-group on 2008-06-30 12:39:51 as along with 3 people scampos flbarroso Lombardo_7
	Visualization of unfavorable interactions in protein folds [My Copy] Bioinformatics, Vol. 24, No. 9. (1 May 2008), pp. 1206-1207. by Christian X. Weichenberger, Piotr Byzia, Manfred J. Sippl posted to bioinformatics software structure by sobolevnrm to the group baker-group on 2008-06-06 11:24:32 as

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protein	1108
rna	663
review	410
prediction	392
binding	338
evolution	322
bioinformatics	301
algorithm	243
secondary	209
modelling	195
function	181
alignment	180
nmr	177
sequence	164
dynamics	154
database	153
membrane	152
water	152
complexes	136
interaction	135
networks	135
network	132
embl	115
docking	96
dna	90
classification	88
proj_assembly	86
crystal	83
folding	82
modeling	82
ribosome	80
software	79
simulation	78
fold-evolution	77
gpcr	76
colloids	72
theory	72
analysis	71
complex	71
crystallography	71
domain	71
disorder	70
classic	69
ppi	69
statistics	67
experimental	63
social	61
design	58
model	58
molecular	58
experiment	57
population	57
rhodopsin	57
helix	54
virus	53
scp	51
algorithms	49
influenza	49
activation	48
community	47
motif	47
transmembrane	46
glass	45
amyloid	44
biophysics	44
fold	44
mutation	44
drug	43
learning	43
membrane_proteins	43
yeast	43
chemistry	42
clustering	42
assembly	40
mechanism	40
paper1	40
bayesian	38
coiled-coils	38
pseudoknots	38
sp-a	38
proj_interprets	37
biology	36
interface	36
ligand	36
proj_disocons	36
data	35
genomics	35
electrostatics	34
neural	34
chemical	33
graph	33
graphene	33
x-ray	33
mc1r	32
data_integration	31
em	31
gene	31
md	31
recognition	31
web	31

Group: baker-group - with tag structure [at least 200 articles] Export

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