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	From The Cover: Global mapping of the protein structure space and application in structure-based inference of protein function [My Copy] PNAS, Vol. 102, No. 10. (8 March 2005), pp. 3651-3656. by Jingtong Hou, Se-Ran Jun, Chao Zhang, Sung-Hou Kim posted to algorithms bioinformatics clustering protein_structure by marcius on 2006-10-26 08:42:48 as along with 1 person and 2 groups tny BioinfoCIPF SGU-CIPF
	Recent advances in the development and application of implicit solvent models in biomolecule simulations [My Copy] Current Opinion in Structural Biology, Vol. 14, No. 2. (April 2004), pp. 217-224. by M. Feig posted to biophysics foce_field folding protein_structure review by marcius on 2006-10-02 10:50:01 as along with 6 people and 2 groups flbarroso LamBras apostola ttjoseph gane5h RamuAnandakrishnan BioinfoCIPF SGU-CIPF
	Effective energy functions for protein structure prediction. [My Copy] Curr Opin Struct Biol, Vol. 10, No. 2. (April 2000), pp. 139-145. by T. Lazaridis, M. Karplus posted to biophysics foce_field folding protein_structure review by marcius on 2006-10-02 10:49:24 as along with 2 people and 2 groups karbak nigham BioinfoCIPF SGU-CIPF
	Empirical force fields for biological macromolecules: overview and issues. [My Copy] Journal of computational chemistry, Vol. 25, No. 13. (1 October 2004), pp. 1584-1604. by A. D. Mackerell posted to biophysics foce_field folding protein_structure review by marcius on 2006-10-02 10:47:07 as along with 7 people and 3 groups flbarroso whitead BragilMassoud dgront loison mirzazadeh AndreaColetta Jiang Research Group BioinfoCIPF SGU-CIPF
	Force fields for protein simulations. [My Copy] Adv Protein Chem, Vol. 66 (2003), pp. 27-85. by J. W. Ponder, D. A. Case posted to biophysics foce_field folding protein_structure review by marcius on 2006-10-02 10:46:40 as along with 4 people and 2 groups pavanghatty karbak papatonyhill hmk BioinfoCIPF SGU-CIPF
	Thermodynamics of protein folding: a microscopic view. [My Copy] Biophys Chem, Vol. 100, No. 1-3. (2003), pp. 367-395. by T. Lazaridis, M. Karplus posted to biophysics foce_field folding protein_structure review by marcius on 2006-10-02 10:46:31 as along with 1 person and 2 groups karbak BioinfoCIPF SGU-CIPF
	Choosing SNPs Using Feature Selection. [My Copy] Proc IEEE Comput Syst Bioinform Conf (2005), pp. 301-309. by T. M. Phuong, Z. Lin, R. B. Altman posted to function prediction protein_structure snp by marcius on 2006-09-07 17:40:06 as along with 2 groups BioinfoCIPF SGU-CIPF
	Structural characterization of proteins using residue environments. [My Copy] Proteins, Vol. 61, No. 4. (1 December 2005), pp. 741-747. by S. D. Mooney, M. H. Liang, R. DeConde, R. B. Altman posted to function prediction protein_structure by marcius on 2006-09-07 17:39:29 as along with 1 person and 2 groups nickolay BioinfoCIPF SGU-CIPF
	Assigning new GO annotations to protein data bank sequences by combining structure and sequence homology. [My Copy] Proteins, Vol. 58, No. 4. (1 March 2005), pp. 855-865. by J. V. Ponomarenko, P. E. Bourne, I. N. Shindyalov posted to bioinformatics evolution protein_function protein_structure by marcius on 2006-09-07 17:24:49 as along with 2 groups BioinfoCIPF SGU-CIPF
	The RCSB PDB information portal for structural genomics. [My Copy] Nucleic acids research, Vol. 34, No. Database issue. (1 January 2006) by Andrei Kouranov, Lei Xie, Joanna de la Cruz, et al.Li Chen, John Westbrook, Philip E. Bourne, Helen M. Berman posted to databases protein_structure structural_genomics by marcius on 2006-09-07 17:21:33 as along with 2 people and 2 groups mgomes kumar_physics BioinfoCIPF SGU-CIPF
	Crystal structure of TM1367 from Thermotoga maritima at 1.90 A resolution reveals an atypical member of the cyclophilin (peptidylprolyl isomerase) fold. [My Copy] Proteins, Vol. 63, No. 4. (1 June 2006), pp. 1112-1118. by K. K. Jin, S. S. Krishna, R. Schwarzenbacher, et al.D. McMullan, P. Abdubek, S. Agarwalla, E. Ambing, H. Axelrod, J. M. Canaves, H. J. Chiu, A. M. Deacon, M. DiDonato, M. A. Elsliger, J. Feuerhelm, A. Godzik, C. Grittini, S. K. Grzechnik, J. Hale, E. Hampton, J. Haugen, M. Hornsby, L. Jaroszewski, H. E. Klock, M. W. Knuth, E. Koesema, A. Kreusch, P. Kuhn, S. A. Lesley, M. D. Miller, K. Moy, E. Nigoghossian, L. Okach, S. Oommachen, J. Paulsen, K. Quijano, R. Reyes, C. Rife, R. C. Stevens, G. Spraggon, H. van den Bedem, J. Velasquez, A. White, G. Wolf, G. W. Han, Q. Xu, K. O. Hodgson, J. Wooley, I. A. Wilson posted to protein_structure by marcius on 2006-09-07 17:14:18 as along with 1 person and 2 groups JCSGpublications BioinfoCIPF SGU-CIPF
	Crystal structure of a glycerate kinase (TM1585) from Thermotoga maritima at 2.70 A resolution reveals a new fold. [My Copy] Proteins, Vol. 65, No. 1. (1 October 2006), pp. 243-248. by R. Schwarzenbacher, D. McMullan, S. S. Krishna, et al.Q. Xu, M. D. Miller, J. M. Canaves, M. A. Elsliger, R. Floyd, S. K. Grzechnik, L. Jaroszewski, H. E. Klock, E. Koesema, J. S. Kovarik, A. Kreusch, P. Kuhn, T. M. McPhillips, A. T. Morse, K. Quijano, G. Spraggon, R. C. Stevens, H. van den Bedem, G. Wolf, K. O. Hodgson, J. Wooley, A. M. Deacon, A. Godzik, S. A. Lesley, I. A. Wilson posted to protein_structure by marcius on 2006-09-07 17:12:58 as along with 2 groups BioinfoCIPF SGU-CIPF
	Structural biologyProteins downhill all the way [My Copy] Nature, Vol. 442, No. 7100. (19 July 2006), pp. 255-256. by Jeffery W. Kelly posted to biophysics folding news protein_structure views by marcius on 2006-07-20 10:06:15 as along with 2 groups BioinfoCIPF SGU-CIPF
	Atom-by-atom analysis of global downhill protein folding [My Copy] Nature, Vol. 442, No. 7100. (14 June 2006), pp. 317-321. by Mourad Sadqi, David Fushman, Victor Muñoz posted to biophysics folding protein_structure by marcius on 2006-07-20 10:05:38 as along with 4 people and 2 groups wouterboomsma choonpeng gisle huyun110 BioinfoCIPF SGU-CIPF
	How different amino acid sequences determine similar protein structures: The structure and evolutionary dynamics of the globins [My Copy] Journal of Molecular Biology, Vol. 136, No. 3. (25 January 1980), pp. 225-230. by Arthur M. Lesk, Cyrus Chothia posted to biophysics comparative_modeling evolution protein_structure by marcius on 2006-04-30 01:12:36 as along with 2 people and 4 groups ana barry structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
	PDB-UF: database of predicted enzymatic functions for unannotated protein structures from structural genomics. [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (6 February 2006) by Marcin von Grotthuss, Dariusz Plewczynski, Krzysztof Ginalski, Leszek Rychlewski, Eugene I. Shakhnovich posted to bioinformatics databases protein_function protein_structure by marcius on 2006-02-27 20:16:54 as along with 2 people and 3 groups caporaso sim82 biomedical-nlp BioinfoCIPF SGU-CIPF
	High-resolution protein folding with a transferable potential [My Copy] PNAS, Vol. 102, No. 52. (27 December 2005), pp. 18914-18919. by Isaac A. Hubner, Eric J. Deeds, Eugene I. Shakhnovich posted to ab-initio biophysics protein_structure structure_prediction by marcius on 2006-02-07 02:17:31 as along with 2 groups BioinfoCIPF SGU-CIPF
	The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. [My Copy] Bioinformatics (Oxford, England), Vol. 22, No. 2. (15 January 2006), pp. 195-201. by K. Arnold, L. Bordoli, J. Kopp, T. Schwede posted to algorithms protein_structure servers structure_prediction by marcius on 2006-02-02 05:48:58 as along with 4 people and 2 groups flbarroso hervelequere chad_davis ffranca BioinfoCIPF SGU-CIPF
	Residue-rotamer-reduction algorithm for the protein side-chain conformation problem [My Copy] Bioinformatics, Vol. 22, No. 2. (15 January 2006), pp. 188-194. by Wei Xie, Nikolaos V. Sahinidis posted to ab-initio biophysics protein_structure rotamers by marcius on 2006-02-02 05:47:25 as along with 4 people and 2 groups dfgreen bicko bluvsh1 carlk BioinfoCIPF SGU-CIPF
	'Protein Peeling': an approach for splitting a 3D protein structure into compact fragments [My Copy] Bioinformatics, Vol. 22, No. 2. (15 January 2006), pp. 129-133. by Jean-Christophe Gelly, Alexandre G. de Brevern, Serge Hazout posted to algorithms bioinformatics protein_fragments protein_structure by marcius on 2006-02-02 05:44:16 as along with 6 people and 4 groups ana barry dimka ttjoseph nickolay choonpeng structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
	Grow to Fit Molecular Dynamics (G2FMD): an ab initio method for protein side-chain assignment and refinement [My Copy] Protein Engineering, Design and Selection, Vol. 19, No. 2. (February 2006), pp. 55-65. by Wei Zhang, Yong Duan posted to ab-initio algorithms biophysics computational_biology protein_structure structure_prediction by marcius on 2006-01-27 01:13:40 as along with 2 groups BioinfoCIPF SGU-CIPF
	Knowledge-based potential functions in protein design. [My Copy] Curr Opin Struct Biol, Vol. 12, No. 4. (August 2002), pp. 447-452. by W. P. Russ, R. Ranganathan posted to biophysics model_assessment protein_structure review by marcius on 2006-01-20 23:02:36 as along with 1 person and 2 groups gbart BioinfoCIPF SGU-CIPF
	Prediction of protein thermostability with a direction- and distance-dependent knowledge-based potential. [My Copy] Protein Sci, Vol. 14, No. 10. (October 2005), pp. 2682-2692. by C. Hoppe, D. Schomburg posted to model_assessment protein_structure protein_threading by marcius on 2006-01-19 19:51:53 as along with 2 groups BioinfoCIPF SGU-CIPF
	PMUT: a web-based tool for the annotation of pathological mutations on proteins. [My Copy] Bioinformatics, Vol. 21, No. 14. (15 July 2005), pp. 3176-3178. by C. Ferrer-Costa, J. L. Gelpí, L. Zamakola, I. Parraga, X. de la Cruz, M. Orozco posted to protein protein_structure servers snp by marcius on 2006-01-17 19:14:25 as along with 3 groups References for 3DSim paper BioinfoCIPF SGU-CIPF
	Characterization of disease-associated single amino acid polymorphisms in terms of sequence and structure properties. [My Copy] Journal of molecular biology, Vol. 315, No. 4. (25 January 2002), pp. 771-786. by Carles Ferrer-Costa, Modesto Orozco, Xavier de la Cruz posted to bioinformatics classification protein protein_structure snp by marcius on 2006-01-17 19:13:45 as along with 1 person and 4 groups caporaso References for 3DSim paper biomedical-nlp BioinfoCIPF SGU-CIPF
	The SWISS-MODEL Repository: new features and functionalities. [My Copy] Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006) by J. Kopp, T. Schwede posted to databases protein_structure structure_prediction by marcius on 2006-01-13 23:58:03 as along with 1 person and 2 groups miguel BioinfoCIPF SGU-CIPF
	Evolutionary information for specifying a protein fold [My Copy] Nature, Vol. 437, No. 7058., pp. 512-518. by Michael Socolich, Steve W. Lockless, William P. Russ, Heather Lee, Kevin H. Gardner, Rama Ranganathan posted to bioinformatics protein_folding protein_structure software by marcius on 2005-12-28 14:04:37 as along with 16 people and 5 groups dfdong ucbcjbm ana barry lna bpb Einat balajis gbart analogAI nirfriedman caporaso massivemayhem mingzhi bethbromley ca3295 structural_bioinformatics Bioinformatics biomedical-nlp BioinfoCIPF SGU-CIPF
	The evolution of protein structures. [My Copy] Cold Spring Harb Symp Quant Biol, Vol. 52 (1987), pp. 399-405. by C. Chothia, A. M. Lesk posted to classification evolution protein_structure by marcius on 2005-12-28 11:49:42 as along with 1 person and 2 groups penka BioinfoCIPF SGU-CIPF
	A tour of structural genomics [My Copy] Nat Rev Genet, Vol. 2, No. 10. (October 2001), pp. 801-809. by Steven E. Brenner posted to protein_structure review structural_genomics by marcius on 2005-12-22 06:50:22 as along with 2 people and 2 groups flbarroso penka BioinfoCIPF SGU-CIPF
	Protein Structure Prediction: Inroads to Biology [My Copy] Molecular Cell, Vol. 20, No. 6. (22 December 2005), pp. 811-819. by Donald Petrey, Barry Honig posted to bioinformatics folding protein_structure review structure_prediction by marcius on 2005-12-22 00:53:03 as along with 4 people and 2 groups pansapiens vavi penka Haggan BioinfoCIPF SGU-CIPF
	Improvement in protein functional site prediction by distinguishing structural and functional constraints on protein family evolution using computational design. [My Copy] Nucleic Acids Res, Vol. 33, No. 18. (2005), pp. 5861-5867. by Gong Cheng, Bin Qian, Ram Samudrala, David Baker posted to biophysics evolution protein_function protein_structure by marcius on 2005-11-02 09:14:59 as along with 6 people and 3 groups bicko Einat alexg nickolay sriram_s ladab structural_bioinformatics BioinfoCIPF SGU-CIPF
	Structural similarity to bridge sequence space: finding new families on the bridges. [My Copy] Protein science : a publication of the Protein Society, Vol. 14, No. 5. (May 2005), pp. 1305-1314. by Parantu K. Shah, Patrick Aloy, Peer Bork, Robert B. Russell posted to bioinformatics classification clustering protein_structure structural_genomics by marcius on 2005-10-28 19:11:21 as along with 3 people and 2 groups yuslinaz eweaver drastic BioinfoCIPF SGU-CIPF
	Fragnostic: walking through protein structure space. [My Copy] Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005) by I. Friedberg, A. Godzik posted to bioinformatics classification clustering protein_fragments protein_structure by marcius on 2005-10-23 09:49:10 as along with 8 people and 4 groups dfdong ana barry pansapiens aalibes Einat alexg eweaver structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
	How do side chains orient globally in protein structures? [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 61, No. 3. (8 September 2005), pp. 513-522. by Aimin Yan, Robert L. Jernigan posted to classification computational_biology protein_structure side_chains by marcius on 2005-10-23 02:54:16 as along with 2 people and 2 groups aqeel blackbart BioinfoCIPF SGU-CIPF
	Comparative molecular dynamics-Similar folds and similar motions? [My Copy] Proteins (17 October 2005) by Andrew Pang, Yalini Arinaminpathy, Mark S P S. Sansom, Philip C C. Biggin posted to biophysics computational_biology molecular_dynamics protein_structure by marcius on 2005-10-22 16:56:55 as along with 2 people and 2 groups edvin ubcg08l BioinfoCIPF SGU-CIPF
	Protein loop structure prediction with flexible stem geometries. [My Copy] Proteins (12 October 2005) by M Mönnigmann, C A A. Floudas posted to cafasp casp loop_modeling protein_structure structure_prediction by marcius on 2005-10-22 09:06:47 as along with 1 person and 2 groups vavi BioinfoCIPF SGU-CIPF
	Assessment of predictions submitted for the CASP6 comparative modelling category. [My Copy] Proteins (26 September 2005) by Michael Tress, Iakes Ezkurdia, Osvaldo Graña, Gonzalo López, Alfonso Valencia posted to cafasp casp comparative_modeling protein_structure structure_prediction by marcius on 2005-10-22 08:59:31 as along with 3 people and 2 groups nigham ffranca magia215 BioinfoCIPF SGU-CIPF
	Prediction of novel and analogous folds using fragment assembly and fold recognition. [My Copy] Proteins (26 September 2005) by D T T. Jones, K Bryson, A Coleman, et al.L J J. McGuffin, M I I. Sadowski, J S S. Sodhi, J J J. Ward posted to cafasp casp comparative_modeling model_assessment protein_fragments protein_structure structure_prediction by marcius on 2005-10-22 08:57:29 as along with 2 groups BioinfoCIPF SGU-CIPF
	SPARKS 2 and SP(3) servers in CASP 6. [My Copy] Proteins (26 September 2005) by Hongyi Zhou, Yaoqi Zhou posted to cafasp casp comparative_modeling model_assessment protein_structure structure_prediction by marcius on 2005-10-22 08:56:27 as along with 1 person and 2 groups j3xucite BioinfoCIPF SGU-CIPF
	Evaluating the usefulness of protein structure models for molecular replacement. [My Copy] Bioinformatics, Vol. 21, No. suppl_2. (1 September 2005) by Alejandro Giorgetti, Domenico Raimondo, Adriana Erica E. Miele, Anna Tramontano posted to comparative_modeling protein_structure by marcius on 2005-10-22 08:54:54 as along with 1 person and 2 groups ffranca BioinfoCIPF SGU-CIPF
	Improvement of comparative model accuracy by free-energy optimization along principal components of natural structural variation. [My Copy] Proc Natl Acad Sci U S A, Vol. 101, No. 43. (26 October 2004), pp. 15346-15351. by B. Qian, A. R. Ortiz, D. Baker posted to biophysics clustering comparative_modeling protein_structure structure_prediction by marcius on 2005-10-22 05:00:32 as along with 5 people and 4 groups aqeel ana barry lna dgront structural_bioinformatics Bioinformatics BioinfoCIPF SGU-CIPF
	Structure prediction of membrane proteins. [My Copy] Genomics Proteomics Bioinformatics, Vol. 2, No. 1. (February 2004), pp. 1-5. by C. Zhou, Y. Zheng, Y. Zhou posted to membrane_protein protein_structure structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	State-of-the-art in membrane protein prediction. [My Copy] Appl Bioinformatics, Vol. 1, No. 1. (2002), pp. 21-35. by C. P. Chen, B. Rost posted to membrane_protein protein_structure review structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	Hamiltonians for protein tertiary structure prediction based on three-dimensional environment principles. [My Copy] J Mol Biol, Vol. 233, No. 3. (October 1993), pp. 480-487. by T. Madej, M. C. Mossing posted to algorithms computational_biology protein_structure structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	Computational analysis of alpha-helical membrane protein structure: implications for the prediction of 3D structural models. [My Copy] Protein Eng Des Sel, Vol. 17, No. 8. (August 2004), pp. 613-624. by T. A. Eyre, L. Partridge, J. M. Thornton posted to computational_biology membrane_protein protein_structure structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	Assembly of a polytopic membrane protein structure from the solution structures of overlapping peptide fragments of bacteriorhodopsin. [My Copy] Biophys J, Vol. 81, No. 2. (August 2001), pp. 1029-1036. by M. Katragadda, J. L. Alderfer, P. L. Yeagle posted to membrane_protein protein_structure structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	Protein complexes: structure prediction challenges for the 21(st) century. [My Copy] Curr Opin Struct Biol, Vol. 15, No. 1. (February 2005), pp. 15-22. by P. Aloy, M. Pichaud, R. B. Russell posted to protein_complexes protein_structure review structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	Recoverable one-dimensional encoding of protein three-dimensional structures. [My Copy] Bioinformatics (February 2005) by Akira R. R. Kinjo, Ken Nishikawa posted to structure_prediction computational_biology protein_structure by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	PROTEIN REFINEMENT: A NEW CHALLENGE FOR CASP IN ITS 10TH ANNIVERSARY [My Copy] Bioinformatics, Vol. 21, No. 3. (February 2005), 277. by Alfonso Valencia posted to casp protein_structure structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF
	Empirical limits for template-based protein structure prediction: the CASP5 example. [My Copy] FEBS Lett, Vol. 579, No. 5. (February 2005), pp. 1203-1207. by Contreras B. Moreira, I. Ezkurdia, M. L. Tress, A. Valencia posted to casp protein_structure structure_prediction by marcius on 2005-10-22 03:09:41 as along with 2 groups BioinfoCIPF SGU-CIPF

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rna	213
bioinformatics	196
review	127
biophysics	90
protein_structure	86
structure	86
evolution	86
structure_prediction	64
algorithms	56
computational_biology	53
secondary_structure	53
protein	43
folding	41
classification	38
ncrna	35
casp	35
drug	32
docking	32
protein_interactions	31
genome	30
function	29
microrna	27
cafasp	26
sequence_alignment	25
protein_function	24
software	23
views	22
servers	22
comparative_modeling	19
model_assessment	19
statistical_potentials	19
biology	18
structural_genomics	18
databases	17
ribosome	16
nmr	16
disease	16
protein_domains	15
ligand	15
protein_folding	15
bioengineering	14
clustering	14
protein_fragments	14
ab-initio	12
structure_alignment	11
genes	11
prediction	11
dna	10
statistics	9
snp	9
alignment	9
model_evaluation	8
membrane_protein	7
experimental	7
gene_expression	6
systems_biology	6
microarray	6
phylogeny	6
virus	5
mechano_receptors	5
foce_field	5
sequence	5
protein_threading	5
motif	5
molecular_dynamics	5
text_mining	4
ribozyme	4
discovery	4
rotamers	4
sequence-structure	4
protein_complexes	3
cancer	3
comparative_docking	3
server	3
news	3
human	3
interaction	3
meeting	3
immunology	2
programming	2
hypotesis	2
allosteric	2
proteomics	2
editorial	2
pleiotropy	2
pdb	2
hts	2
trypsin	1
ontology	1
loop_modeling	1
proteases	1
metabolomics	1
opensourcebiology	1
nucleosome	1
side_chains	1
protein_disorder	1
protein_design	1
nanotechnology	1
membrane	1
stability	1
disulfide	1
position	1
web20	1
malaria	1
congress	1
synthetic_biology	1
fold	1
glyco	1
dynamics	1
machine_learning	1
mysql	1
aminoacid_alphabets	1
metagenomics	1
php	1
molecular_mimicry	1
stem_cells	1
consensus	1
plant	1

marcius's protein_structure [86 articles] Export

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