nickolay's application [13 articles] Export

Recent papers added to nickolay's library classified by the tag application. You can also see everyone's application.

	Fold Independent Structural Comparisons of Protein-Ligand Binding Sites for Exploring Functional Relationships [My Copy] Journal of Molecular Biology, Vol. 355, No. 5. (3 February 2006), pp. 1112-1124. by Nicola D. Gold, Richard M. Jackson posted to application bs-similarity database geometric-hashing moad protein-ligand structure-searching by nickolay on 2006-06-28 20:53:13 as
	Automated analysis of interatomic contacts in proteins. [My Copy] Bioinformatics, Vol. 15, No. 4. (April 1999), pp. 327-332. by V. Sobolev, A. Sorokine, J. Prilusky, E. E. Abola, M. Edelman posted to application protein-ligand by nickolay on 2006-03-22 02:18:06 as along with 2 people bicko massivemayhem
	TESS: a geometric hashing algorithm for deriving 3D coordinate templates for searching structural databases. Application to enzyme active sites. [My Copy] Protein Sci, Vol. 6, No. 11. (November 1997), pp. 2308-2323. by A. C. Wallace, N. Borkakoti, J. M. Thornton posted to algorithm application geometric-hashing pdb structure-searching by nickolay on 2005-12-09 20:34:22 as along with 3 people shadowman tjimenez jwm
	Three-dimensional profiles: a new tool to identify protein surface similarities. [My Copy] J Mol Biol, Vol. 284, No. 4. (11 December 1998), pp. 1211-1221. by M. de Rinaldis, G. Ausiello, G. Cesareni, M. Helmer-Citterich posted to algorithm application msa pattern pdb structure-searching surface by nickolay on 2005-12-08 23:39:24 as along with 1 person dgront
	Annotation in three dimensions. PINTS: Patterns in Non-homologous Tertiary Structures. [My Copy] Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3341-3344. by A. Stark, R. B. Russell posted to algorithm application pattern structure-function structure-searching by nickolay on 2005-12-08 23:30:47 as along with 2 people karbak chad_davis
	Recognition of spatial motifs in protein structures. [My Copy] J Mol Biol, Vol. 285, No. 4. (29 January 1999), pp. 1887-1897. by G. J. Kleywegt posted to algorithm application pattern by nickolay on 2005-12-08 23:11:18 as along with 2 people shadowman martainn
	Relibase: design and development of a database for comprehensive analysis of protein-ligand interactions. [My Copy] J Mol Biol, Vol. 326, No. 2. (14 February 2003), pp. 607-620. by M. Hendlich, A. Bergner, J. Günther, G. Klebe posted to application binding database moad pdb protein-ligand by nickolay on 2005-12-06 02:10:41 as along with 2 people blackbart massivemayhem
	PostDOCK: a structural, empirical approach to scoring protein ligand complexes. [My Copy] J Med Chem, Vol. 48, No. 22. (3 November 2005), pp. 6821-6831. by C. Springer, H. Adalsteinsson, M. M. Young, P. W. Kegelmeyer, D. C. Roe posted to application docking machine-learning pdb protein-ligand surface by nickolay on 2005-12-06 01:52:55 as along with 1 person and 2 groups sangeetha Bioinformatics insilicodrug
	Computational tools for the analysis and visualization of multiple protein-ligand complexes [My Copy] Journal of Molecular Graphics and Modelling, Vol. 24, No. 3. (December 2005), pp. 186-194. by Sean E. O'Brien, David G. Brown, James E. Mills, Chris Phillips, Gregg Morris posted to aa-propensity algorithm application binding dd industry protein-ligand by nickolay on 2005-12-06 01:39:18 as along with 1 person and 1 group yongzhao TSRI_MGL
	From protein structure to biochemical function? [My Copy] J Struct Funct Genomics, Vol. 4, No. 2-3. (2003), pp. 167-177. by Roman A. Laskowski, James D. Watson, Janet M. Thornton posted to application bibtex-import binding prediction structure-function by nickolay on 2005-12-05 16:19:05 as
	Identification of protein functions from a molecular surface database, eF-site. [My Copy] J Struct Funct Genomics, Vol. 2, No. 1. (2002), pp. 9-22. by Kengo Kinoshita, Jun'ichi Furui, Haruki Nakamura posted to application bibtex-import binding clique database graph-theory structure-function surface by nickolay on 2005-12-05 16:18:20 as
	Generation and analysis of a protein-protein interface data set with similar chemical and spatial patterns of interactions. [My Copy] Proteins, Vol. 61, No. 1. (Oct 2005), pp. 6-20. by Shira Mintz, Alexandra S. Peleg, Haim J. Wolfson, Ruth Nussinov posted to algorithm application bibtex-import pattern protein-protein structure-function by nickolay on 2005-12-05 16:16:24 as
	ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. [My Copy] Bioinformatics, Vol. 19, No. 1. (Jan 2003), pp. 163-164. by Fabian Glaser, Tal Pupko, Inbal Paz, et al.Rachel E. Bell, Dalit B. Shental, Eric Martz, Nir B. Tal posted to algorithm application bibtex-import protein-protein residue-conservation structure-function by nickolay on 2005-12-05 16:16:01 as

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p2	56
binding	47
protein	42
algorithm	34
protein-ligand	32
to-be-tagged	31
structure	29
site	28
prediction	25
bibtex-import	22
structure-function	17
database	16
docking	16
surface	16
bsc	14
review	14
application	13
ligand	13
nov09	13
protein-protein	13
p1	12
identification	11
alignment	10
binding-site-analysis	9
comparison	9
method	9
pattern	9
pdb	9
residue-conservation	9
aa-propensity	8
flexibility	8
moad	8
similarity	8
bs-similarity	7
wrmsd	7
hot-spots	6
geometric-hashing	5
msa	5
props	5
scoring-functions	5
sep09	5
structure-searching	5
thermodynamics	5
amino-acids	4
cheminformatics	4
domain-classification	4
drug	4
function	4
geometric	4
geometry-based	4
interaction	4
network	4
protein-interface	4
side-chains	4
software	4
structure-classification	4
affinity	3
cadd	3
enzyme	3
evolution	3
force-field	3
graph-theory	3
lead_discovery	3
molecular_dynamics	3
oct09	3
printed	3
sequence	3
small	3
superposition	3
aug09	2
chemistry	2
clique	2
concavity	2
dd	2
dds	2
information-theory	2
insulin	2
insulin-sensitivity	2
knowledge-based-potentials	2
lead_optimization	2
machine-learning	2
moe	2
molecule	2
physicochemical	2
similarity-network	2
solvent	2
structural	2
structural-conservation	2
structure-activity	2
virtual-screening	2
action	1
allostery	1
amber	1
aromatics	1
basal-glucose	1
beta-cells	1
binding_site	1
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biological_relevance	1
calatytic	1
catalysis	1
charmm	1
classification	1
classifier	1
clustering	1
cmoparison	1
compound_libraries	1
computational	1
conservation	1
data	1
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de-novo	1
distance	1
drug_discovery_and_development	1
electrostatics	1
energy_minimization	1
fingerprint	1
folding	1
gi	1
gometry-based	1
gpcr	1
graph	1
hinge	1
hot_spots	1
hyfrophobic-effect	1
indentification	1
industry	1
itc	1
kinase	1
lab	1
ligand-volume	1
localization	1
mapping	1
mc	1
metabolism	1
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metric	1
mining	1
model	1
multiple	1
multiple_structural_alignment	1
neural	1
ontology	1
opinion	1
package	1
pathway	1
pca	1
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property	1
python	1
qsar	1
r	1
residue	1
scoring	1
screening	1
server	1
simulation	1
tanimoto	1
target	1
topology	1
visualization	1
web-based	1

nickolay's application [13 articles] Export

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