共 11 条
DoGSiteScorer: a web server for automatic binding site prediction, analysis and druggability assessment
被引:413
作者:

Volkamer, Andrea
论文数: 0 引用数: 0
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机构:
Univ Hamburg, Ctr Bioinformat, D-64293 Darmstadt, Germany Univ Hamburg, Ctr Bioinformat, D-64293 Darmstadt, Germany

Kuhn, Daniel
论文数: 0 引用数: 0
h-index: 0
机构:
Merck KGaA, Merck Serono, Global Computat Chem, D-64293 Darmstadt, Germany Univ Hamburg, Ctr Bioinformat, D-64293 Darmstadt, Germany

Rippmann, Friedrich
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h-index: 0
机构:
Merck KGaA, Merck Serono, Global Computat Chem, D-64293 Darmstadt, Germany Univ Hamburg, Ctr Bioinformat, D-64293 Darmstadt, Germany

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机构:
[1] Univ Hamburg, Ctr Bioinformat, D-64293 Darmstadt, Germany
[2] Merck KGaA, Merck Serono, Global Computat Chem, D-64293 Darmstadt, Germany
关键词:
SPATIAL-PATTERNS;
POCKETS;
D O I:
10.1093/bioinformatics/bts310
中图分类号:
Q5 [生物化学];
学科分类号:
071010 ;
081704 ;
摘要:
Motivation: Many drug discovery projects fail because the underlying target is finally found to be undruggable. Progress in structure elucidation of proteins now opens up a route to automatic structure-based target assessment. DoGSiteScorer is a newly developed automatic tool combining pocket prediction, characterization and druggability estimation and is now available through a web server.
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页码:2074 / 2075
页数:2
相关论文
共 11 条
[1]
A threading-based method (FINDSITE) for ligand-binding site prediction and functional annotation
[J].
Brylinski, Michal
;
Skolnick, Jeffrey
.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,
2008, 105 (01)
:129-134

Brylinski, Michal
论文数: 0 引用数: 0
h-index: 0
机构:
Georgia Inst Technol, Ctr Study Syst Biol, Sch Biol, Atlanta, GA 30318 USA Georgia Inst Technol, Ctr Study Syst Biol, Sch Biol, Atlanta, GA 30318 USA

Skolnick, Jeffrey
论文数: 0 引用数: 0
h-index: 0
机构:
Georgia Inst Technol, Ctr Study Syst Biol, Sch Biol, Atlanta, GA 30318 USA Georgia Inst Technol, Ctr Study Syst Biol, Sch Biol, Atlanta, GA 30318 USA
[2]
Identifying and Characterizing Binding Sites and Assessing Druggability
[J].
Halgren, Thomas A.
.
JOURNAL OF CHEMICAL INFORMATION AND MODELING,
2009, 49 (02)
:377-389

Halgren, Thomas A.
论文数: 0 引用数: 0
h-index: 0
机构:
Schrodinger Inc, New York, NY 10036 USA Schrodinger Inc, New York, NY 10036 USA
[3]
ProBiS: a web server for detection of structurally similar protein binding sites
[J].
Konc, Janez
;
Janezic, Dusanka
.
NUCLEIC ACIDS RESEARCH,
2010, 38
:W436-W440

Konc, Janez
论文数: 0 引用数: 0
h-index: 0
机构:
Natl Inst Chem, Ljubljana 1000, Slovenia Natl Inst Chem, Ljubljana 1000, Slovenia

论文数: 引用数:
h-index:
机构:
[4]
SiteComp: a server for ligand binding site analysis in protein structures
[J].
Lin, Yingjie
;
Yoo, Seungyeul
;
Sanchez, Roberto
.
BIOINFORMATICS,
2012, 28 (08)
:1172-1173

Lin, Yingjie
论文数: 0 引用数: 0
h-index: 0
机构:
Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA

Yoo, Seungyeul
论文数: 0 引用数: 0
h-index: 0
机构:
Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA

Sanchez, Roberto
论文数: 0 引用数: 0
h-index: 0
机构:
Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA
[5]
Understanding and Predicting Druggability. A High-Throughput Method for Detection of Drug Binding Sites
[J].
Schmidtke, Peter
;
Barril, Xavier
.
JOURNAL OF MEDICINAL CHEMISTRY,
2010, 53 (15)
:5858-5867

Schmidtke, Peter
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Barcelona, Fac Farm, Dept Quim Fis, E-08028 Barcelona, Spain Univ Barcelona, Fac Farm, Dept Quim Fis, E-08028 Barcelona, Spain

论文数: 引用数:
h-index:
机构:
[6]
fpocket: online tools for protein ensemble pocket detection and tracking
[J].
Schmidtke, Peter
;
Le Guilloux, Vincent
;
Maupetit, Julien
;
Tuffery, Pierre
.
NUCLEIC ACIDS RESEARCH,
2010, 38
:W582-W589

Schmidtke, Peter
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Barcelona, Fac Farm, Dept Fisicoquim, E-08028 Barcelona, Spain
Univ Barcelona, Fac Farm, Inst Biomed IBUB, E-08028 Barcelona, Spain Univ Paris 07, INSERM, MTi, UMR S973, F-75205 Paris, France

Le Guilloux, Vincent
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Orleans, ICOA, Orleans, France Univ Paris 07, INSERM, MTi, UMR S973, F-75205 Paris, France

论文数: 引用数:
h-index:
机构:

Tuffery, Pierre
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Paris 07, INSERM, MTi, UMR S973, F-75205 Paris, France
Univ Paris 07, RPBS, F-75205 Paris, France Univ Paris 07, INSERM, MTi, UMR S973, F-75205 Paris, France
[7]
Drug-like Density: A Method of Quantifying the "Bindability" of a Protein Target Based on a Very Large Set of Pockets and Drug-like Ligands from the Protein Data Bank
[J].
Sheridan, Robert P.
;
Maiorov, Vladimir N.
;
Holloway, M. Katharine
;
Cornell, Wendy D.
;
Gao, Ying-Duo
.
JOURNAL OF CHEMICAL INFORMATION AND MODELING,
2010, 50 (11)
:2029-2040

Sheridan, Robert P.
论文数: 0 引用数: 0
h-index: 0
机构:
Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA

Maiorov, Vladimir N.
论文数: 0 引用数: 0
h-index: 0
机构:
Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA

Holloway, M. Katharine
论文数: 0 引用数: 0
h-index: 0
机构:
Merck Res Labs, Chem Modeling & Informat Dept, West Point, PA 19486 USA Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA

Cornell, Wendy D.
论文数: 0 引用数: 0
h-index: 0
机构:
Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA

Gao, Ying-Duo
论文数: 0 引用数: 0
h-index: 0
机构:
Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA Merck Res Labs, Chem Modeling & Informat Dept, Rahway, NJ 07065 USA
[8]
fPOP: footprinting functional pockets of proteins by comparative spatial patterns
[J].
Tseng, Yan Yuan
;
Chen, Z. Jeffrey
;
Li, Wen-Hsiung
.
NUCLEIC ACIDS RESEARCH,
2010, 38
:D288-D295

Tseng, Yan Yuan
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA

Chen, Z. Jeffrey
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Texas Austin, Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA

Li, Wen-Hsiung
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA
Acad Sinica, Biodivers Res Ctr, Taipei 115, Taiwan Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA
[9]
SplitPocket: identification of protein functional surfaces and characterization of their spatial patterns
[J].
Tseng, Yan Yuan
;
Dupree, Craig
;
Chen, Z. Jeffrey
;
Li, Wen-Hsiung
.
NUCLEIC ACIDS RESEARCH,
2009, 37
:W384-W389

Tseng, Yan Yuan
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA

Dupree, Craig
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Texas Austin, Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA

Chen, Z. Jeffrey
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Texas Austin, Ctr Computat Biol & Bioinformat, Austin, TX 78712 USA Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA

Li, Wen-Hsiung
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA
Acad Sinica, Biodivers Res Ctr, Taipei 115, Taiwan Univ Chicago, Dept Ecol & Evolut, Chicago, IL 60637 USA
[10]
Combining Global and Local Measures for Structure-Based Druggability Predictions
[J].
Volkamer, Andrea
;
Kuhn, Daniel
;
Grombacher, Thomas
;
Rippmann, Friedrich
;
Rarey, Matthias
.
JOURNAL OF CHEMICAL INFORMATION AND MODELING,
2012, 52 (02)
:360-372

Volkamer, Andrea
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Hamburg, Ctr Bioinformat, D-20146 Hamburg, Germany Univ Hamburg, Ctr Bioinformat, D-20146 Hamburg, Germany

Kuhn, Daniel
论文数: 0 引用数: 0
h-index: 0
机构:
Merck KGaA, Merck Serono, Global Computat Chem, D-64293 Darmstadt, Germany Univ Hamburg, Ctr Bioinformat, D-20146 Hamburg, Germany

Grombacher, Thomas
论文数: 0 引用数: 0
h-index: 0
机构:
Merck KGaA, Merck Serono, Bioinformat, D-64293 Darmstadt, Germany Univ Hamburg, Ctr Bioinformat, D-20146 Hamburg, Germany

Rippmann, Friedrich
论文数: 0 引用数: 0
h-index: 0
机构:
Merck KGaA, Merck Serono, Global Computat Chem, D-64293 Darmstadt, Germany Univ Hamburg, Ctr Bioinformat, D-20146 Hamburg, Germany

论文数: 引用数:
h-index:
机构: