Tag pocket [34 articles] Export

Recent papers classified by the tag pocket.

	A novel and efficient tool for locating and characterizing protein cavities and binding sites [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (11 September 2009), NA. by Ashutosh Tripathi, Glen E. Kellogg posted to shape ppi pocket interface 2009 by higueruelo on 2009-11-03 16:48:01 as along with 2 people nickolay ahmetbakan
	Definition and display of steric, hydrophobic, and hydrogen-bonding properties of ligand binding sites in proteins using Lee and Richards accessible surface: validation of a high-resolution graphical tool for drug design. [My Copy] Journal of medicinal chemistry, Vol. 35, No. 10. (15 May 1992), pp. 1671-1684. by R. S. Bohacek, C. McMartin posted to thermo scissors pocket 1992 by higueruelo on 2009-08-12 13:43:30 as
	Automated site preparation in physics-based rescoring of receptor ligand complexes. [My Copy] Proteins, Vol. 77, No. 1. (October 2009), pp. 52-61. by Chaya S. Rapp, Cheryl Schonbrun, Matthew P. Jacobson, Chakrapani Kalyanaraman, Niu Huang posted to structure scoring sbdd protein-ligand pocket binding aug09 by klexa on 2009-08-11 19:38:16 as along with 3 people and 1 group oteri jmccammon RamuAnandakrishnan McCammon
	Computational fragment-based binding site identification by ligand competitive saturation. [My Copy] PLoS computational biology, Vol. 5, No. 7. (10 July 2009), e1000435. by Olgun Guvench, Alexander D. MacKerell posted to 2009 fragments interface pocket by higueruelo on 2009-08-10 16:28:39 as along with 5 people and 2 groups oteri NickFurnham TRHvidsten barry riffraff structural_bioinformatics McCammon
	Cavities in protein-DNA and protein-RNA interfaces [My Copy] Nucl. Acids Res., Vol. 37, No. 14. (1 August 2009), pp. 4613-4620. by Shrihari Sonavane, Pinak Chakrabarti posted to 2009 bipa pocket by higueruelo on 2009-07-06 18:02:33 as along with 1 person reyez
	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 pocket by nanonan on 2009-06-17 11:41:45 as along with 9 people and 1 group cdsouthan pauldobson sobolevnrm jteyra kshameer reyez tny higueruelo druvus baker-group
	Accurate Prediction of Peptide Binding Sites on Protein Surfaces [My Copy] PLoS Comput Biol, Vol. 5, No. 3. (27 March 2009), e1000335. by Evangelia Petsalaki, Alexander Stark, Eduardo García-Urdiales, Robert B. Russell posted to 2009 peptides pocket ppi by higueruelo on 2009-04-17 15:17:50 as along with 8 people and 1 group dfdong pablocarb nickolay phoenixzxl neils idoerg sobolevnrm paulschlesinger baker-group
	Site-directed Mutagenesis Identifies Residues Involved in Ligand Recognition in the Human A[IMAGE] Adenosine Receptor [My Copy] J. Biol. Chem., Vol. 270, No. 23. (9 June 1995), pp. 13987-13997. by Jeongho Kim, Jürgen Wess, Michiel A. van Rhee, Torsten Schöneberg, Kenneth A. Jacobson posted to histidine hydrophobic ligand pocket by dsmueller on 2009-04-09 13:51:26 as
	Binding site detection and druggability index from first principles. [My Copy] Journal of medicinal chemistry, Vol. 52, No. 8. (23 April 2009), pp. 2363-2371. by Jesus Seco, F. Javier Luque, Xavier Barril posted to 2009 druggable pocket ppi by higueruelo on 2009-04-01 08:46:56 as along with 3 people ubcg08l sschurer Klapampfer
	Prediction of Interacting Single-Stranded RNA Bases by Protein-Binding Patterns [My Copy] Journal of Molecular Biology, Vol. 379, No. 2. (29 May 2008), pp. 299-316. by Alexandra Shulman-Peleg, Maxim Shatsky, Ruth Nussinov, Haim J. Wolfson posted to binding classification dinucleotide pocket prediction protein-rna by svozil on 2009-03-31 09:28:48 as along with 3 people balewis psique marck
	Construction and psychometric properties of a novel test for body representational neglect (Vest Test). [My Copy] Restorative neurology and neuroscience, Vol. 24, No. 4-6. (2006), pp. 303-317. by D. Glocker, P. Bittl, G. Kerkhoff posted to blindfold body_neglect body_representational_neglect brn catherine_berego_scale cbs cohort_study germany neurologyphysical_therapy perceptionscreening pocket rehabilitation reliable significant vest_test by DFellNeuroPT to the group Neurology Physical Therapy on 2009-03-08 02:38:44 as
	Binding Site Similarity Analysis for the Functional Classification of the Protein Kinase Family [My Copy] Journal of Chemical Information and Modeling, Vol. 49, No. 2. (23 February 2009), pp. 318-329. by Sarah L. Kinnings, Richard M. Jackson posted to analysis pocket by Klapampfer on 2009-02-25 09:41:46 as along with 5 people mnishimu nickolay carlosjavierna jerome reyez
	Identifying protein–protein interaction sites in transient complexes with temperature factor, sequence profile and accessible surface area [My Copy] Amino Acids by Rong Liu, Wenchao Jiang, Yanhong Zhou posted to 2009 bfactor interface pocket ppi by higueruelo on 2009-02-17 13:43:10 as
	Prediction of Protein–Protein Interaction Sites in Sequences and 3D Structures by Random Forests [My Copy] PLoS Comput Biol, Vol. 5, No. 1. (30 January 2009), e1000278. by Mile Šikić, Sanja Tomić, Kristian Vlahoviček posted to 2009 interface pocket ppi by higueruelo on 2009-02-02 12:19:21 as along with 7 people and 2 groups roys svozil marti barry grahamc kshameer neils structural_bioinformatics McCammon
	Detection of 3D atomic similarities and their use in the discrimination of small molecule protein-binding sites [My Copy] Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i105-111. by Rafael Najmanovich, Natalja Kurbatova, Janet Thornton posted to analysis cleft modeling pocket protein-ligand by krapnik on 2008-12-03 17:07:55 as along with 7 people iaolier ramensky apaydin tjimenez neils reyez nickolay
	Predicting druggable binding sites at the protein-protein interface. [My Copy] Drug discovery today (25 November 2008) by Jonathan C C. Fuller, Nicholas J J. Burgoyne, Richard M M. Jackson posted to 2008 druggable pocket ppi review sm xf by higueruelo on 2008-12-02 13:02:38 as along with 4 people flbarroso tbinbal sschurer pslee
	CAVER: a new tool to explore routes from protein clefts, pockets and cavities [My Copy] BMC Bioinformatics, Vol. 7 (22 June 2006), 316. by Martin Petrek, Michal Otyepka, Pavel Banas, Pavlina Kosinova, Jaroslav Koca, Jiri Damborsky posted to cleft pocket protein by krapnik on 2008-11-28 13:45:39 as along with 1 person and 2 groups jwm Radiation_Damage Stressosome
	Interaction Model Based on Local Protein Substructures Generalizes to the Entire Structural Enzyme-Ligand Space [My Copy] Journal of Chemical Information and Modeling, Vol. 48, No. 11. (24 November 2008), pp. 2278-2288. by Helena Strömbergsson, Pawel Daniluk, Andriy Kryshtafovych, et al.Krzysztof Fidelis, Jarl E. S. Wikberg, Gerard J. Kleywegt, Torgeir R. Hvidsten posted to binding descriptor pocket protein qsar similarity svm by zimbo1 on 2008-10-27 07:54:08 as along with 1 person TRHvidsten
	What induces pocket openings on protein surface patches involved in protein-protein interactions? [My Copy] Journal of computer-aided molecular design (6 September 2008) by Susanne Eyrisch, Volkhard Helms posted to 2008 dynamics flexibility nma pocket ppi xf by higueruelo on 2008-09-10 15:58:12 as along with 2 people and 1 group allmensch jmccammon McCammon
	Automated clustering of probe molecules from solvent mapping of protein surfaces: new algorithms applied to hot-spot mapping and structure-based drug design. [My Copy] Journal of computer-aided molecular design (5 August 2008) by Michael G. Lerner, Kristin L. Meagher, Heather A. Carlson posted to 2008 hotspots pocket ppi probes xf by higueruelo on 2008-08-29 13:31:17 as along with 2 people and 1 group jmccammon sschurer McCammon
	Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design. [My Copy] Protein Sci, Vol. 7, No. 9. (September 1998), pp. 1884-1897. by J. Liang, H. Edelsbrunner, C. Woodward posted to 1998 pocket shape by higueruelo on 2008-07-07 13:39:33 as along with 2 people tjimenez nickolay
	Analytical shape computation of macromolecules: II. Inaccessible cavities in proteins. [My Copy] Proteins, Vol. 33, No. 1. (1 October 1998), pp. 18-29. by J. Liang, H. Edelsbrunner, P. Fu, P. V. Sudhakar, S. Subramaniam posted to 1998 pocket shape by higueruelo on 2008-07-07 13:38:05 as along with 1 person tjimenez
	Analytical shape computation of macromolecules: I. Molecular area and volume through alpha shape. [My Copy] Proteins, Vol. 33, No. 1. (1 October 1998), pp. 1-17. by J. Liang, H. Edelsbrunner, P. Fu, P. V. Sudhakar, S. Subramaniam posted to 1998 pocket shape by higueruelo on 2008-07-07 13:37:24 as along with 1 person tjimenez
	On the definition and the construction of pockets in macromolecules. [My Copy] Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (1996), pp. 272-287. by H. Edelsbrunner, M. Facello, J. Liang posted to 1996 pocket by higueruelo on 2008-07-07 13:35:55 as
	Active Site Pressurization: A New Tool for Structure-Guided Drug Design and Other Studies of Protein Flexibility [My Copy] J. Chem. Inf. Model. (14 June 2008) by Ian M. Withers, Michael P. Mazanetz, Hao Wang, Peter M. Fischer, Charles A. Laughton posted to 2008 dynamics flexibility pocket by higueruelo on 2008-06-24 18:41:56 as
	Protein Surface Conservation in Binding Sites [My Copy] J. Chem. Inf. Model. (14 May 2008) by Nejc Carl, Janez Konc, Dušanka Janežič posted to 2008 interface pocket ppi by higueruelo on 2008-05-20 08:33:33 as
	A taxonomy for English nouns and verbs [My Copy] In Proceedings of the 19th annual meeting on Association for Computational Linguistics (1981), pp. 133-138. by Robert A. Amsler posted to amsler dictionary dissertation merriam-webster mpd pocket taxonomy by amsler on 2008-02-02 20:35:35 as
	A robust and efficient algorithm for the shape description of protein structures and its application in predicting ligand binding sites. [My Copy] BMC Bioinformatics, Vol. 8 Suppl 4 (2007) by L. Xie, P. E. Bourne posted to 2007 pocket shape xf by higueruelo on 2008-02-02 19:34:56 as along with 2 people iaolier tjimenez
	Fast dynamics perturbation analysis for prediction of protein functional sites [My Copy] BMC Structural Biology, Vol. 8 (30 January 2008), 5. by Dengming Ming, Judith D. Cohn, Michael E. Wall posted to 2008 dynamics pocket by higueruelo on 2008-02-02 19:32:01 as along with 1 person tjimenez
	Method for comparing the structures of protein ligand-binding sites and application for predicting protein-drug interactions [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Ryoichi Minai, Yo Matsuo, Hiroyuki Onuki, Hiroshi Hirota posted to 2008 pocket sm-prot by higueruelo on 2008-01-26 12:55:08 as along with 6 people reyez ramensky tjimenez massivemayhem jteyra mingzhi
	Computational active site analysis of molecular pathways to improve functional classification of enzymes [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 72, No. 1. (23 January 2008), pp. 184-196. by A. Sinem Ozyurt, Thomas L. Selby posted to 2008 pocket sm-prot by higueruelo on 2008-01-26 12:24:20 as along with 1 person barmak7282
	Large scale analysis of protein-binding cavities using self-organizing maps and wavelet-based surface patches to describe functional properties, selectivity discrimination, and putative cross-reactivity. [My Copy] Proteins, Vol. 71, No. 3. (15 May 2008), pp. 1288-1306. by Katrin Kupas, Alfred Ultsch, Gerhard Klebe posted to 2007 druggable pocket by higueruelo on 2007-12-06 12:27:46 as along with 4 people and 1 group rschulz nickolay sobolevnrm carlescorbi baker-group
	Binding Response: A Descriptor for Selecting Ligand Binding Site on Protein Surfaces [My Copy] J. Chem. Inf. Model., Vol. 47, No. 6. (26 November 2007), pp. 2303-2315. by S. Zhong, A. D. Mackerell posted to 2007 druggable interface pocket by higueruelo on 2007-12-06 12:07:07 as
	A method for localizing ligand binding pockets in protein structures. [My Copy] Proteins, Vol. 62, No. 2. (1 February 2006), pp. 479-488. by F. Glaser, R. J. Morris, R. J. Najmanovich, R. A. Laskowski, J. M. Thornton posted to binding cleft detection pocket by sriram_s on 2006-03-25 00:12:46 as along with 4 people tjimenez nickolay bilab jwm

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2008	9
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1998	3
2007	3
analysis	3
cleft	3
protein	3
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blindfold	2
body_neglect	2
body_representational_neglect	2
brn	2
catherine_berego_scale	2
cbs	2
cohort_study	2
flexibility	2
fragments	2
germany	2
hotspots	2
neurologyphysical_therapy	2
nma	2
perceptionscreening	2
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similarity	1
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Tag pocket [34 articles] Export

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