Outcome of a Workshop on Applications of Protein Models in Biomedical Research

被引：109

作者：

Schwede, Torsten ^{[1
]}

Sali, Andrej ^{[2
]}

Honig, Barry ^{[3
]}

Levitt, Michael ^{[4
]}

Berman, Helen M. ^{[5
]}

Jones, David ^{[6
]}

Brenner, Steven E. ^{[7
]}

Burley, Stephen K. ^{[8
]}

Das, Rhiju ^{[9
]}

Dokholyan, Nikolay V. ^{[10
]}

Dunbrack, Roland L., Jr. ^{[11
]}

Fidelis, Krzysztof ^{[12
]}

Fiser, Andras ^{[13
]}

Godzik, Adam ^{[14
]}

Huang, Yuanpeng Janet ^{[15
]}

Humblet, Christine ^{[16
]}

Jacobson, Matthew P. ^{[17
]}

Joachimiak, Andrzej ^{[18
,19
]}

Krystek, Stanley R., Jr. ^{[20
]}

Kortemme, Tanja ^{[21
]}

Kryshtafovych, Andriy ^{[22
]}

Montelione, Gaetano T. ^{[15
]}

Moult, John ^{[23
]}

Murray, Diana ^{[24
]}

Sanchez, Roberto ^{[25
]}

Sosnick, Tobin R. ^{[26
]}

Standley, Daron M. ^{[27
]}

Stouch, Terry

Vajda, Sandor ^{[28
]}

Vasquez, Max

Westbrook, John D. ^{[5
,29
]}

Wilson, Ian A. ^{[30
]}

机构：

[1] Univ Basel, Biozentrum, Swiss Inst Bioinformat, CH-4056 Basel, Switzerland

[2] Univ Calif San Francisco, Calif Inst Quantitat Biosci, Dept Pharmaceut Chem, Dept Biopharmaceut Sci, San Francisco, CA 94158 USA

[3] Columbia Univ, Howard Hughes Med Inst, Ctr Computat Biol & Bioinformat, Dept Biochem & Mol Biophys, New York, NY 10032 USA

[4] Stanford Univ, Sch Med, Dept Biol Struct, Stanford, CA 94305 USA

[5] Rutgers State Univ, Prot Data Bank, Res Collaboratory Struct Bioinformat, Piscataway, NJ 08854 USA

[6] UCL, Dept Comp Sci, London WC1E 6BT, England

[7] Univ Calif Berkeley, Dept Plant & Microbial Biol, Berkeley, CA 94720 USA

[8] SGX Pharmaceut Inc, San Diego, CA 92121 USA

[9] Univ Washington, Dept Biochem, Seattle, WA 98195 USA

[10] Univ N Carolina, Dept Biochem & Biophys, Chapel Hill, NC 27599 USA

[11] Fox Chase Canc Ctr, Inst Canc Res, Philadelphia, PA 19111 USA

[12] Univ Calif Davis, Genome & Biomed Sci Facil, Davis, CA 95616 USA

[13] Albert Einstein Coll Med, Bronx, NY 10461 USA

[14] Burnham Inst Med Res, Bioinformat & Syst Biol Program, La Jolla, CA 92037 USA

[15] Rutgers State Univ, Ctr Adv Res Biotechnol, Dept Biochem & Mol Biol, Piscataway, NJ 08854 USA

[16] Wyeth Ayerst Res, Compuatat Chem Cheminformat Chem & Screening Sci, Monmouth Jct, NJ 08852 USA

[17] Univ Calif San Francisco, Dept Pharmaceut Chem, San Francisco, CA 94158 USA

[18] Argonne Natl Lab, Biosci Div, Midwest Ctr Struct Genom, Argonne, IL 60439 USA

[19] Argonne Natl Lab, Biosci Div, Struct Biol Ctr, Argonne, IL 60439 USA

[20] Bristol Myers Squibb Co, Res & Discovery, Princeton, NJ 08543 USA

[21] Univ Calif San Francisco, Dept Biopharmaceut Sci, San Francisco, CA 94143 USA

[22] Univ Calif Davis, Prot Struct Predict Ctr, Davis, CA 95616 USA

[23] Univ Maryland, Maryland Biotechnol Inst, Ctr Adv Res Biotechnol, Rockville, MD 20850 USA

[24] Columbia Univ, Ctr Compuatat Biol & Bioinformat, New York, NY 10032 USA

[25] Mt Sinai Sch Med, Dept Struct & Chem Biol, New York, NY 10029 USA

[26] Univ Chicago, Chicago, IL 60637 USA

[27] Osaka Univ, Syst Immunol Lab, Immunol Frontier Res Ctr, Suita, Osaka 5650871, Japan

[28] Boston Univ, Biomed Engn Struct Bioinformat Lab, Boston, MA 02215 USA

[29] Bocarca, Palo Alto, CA 94306 USA

[30] Scripps Res Inst, Joint Ctr Struct Genom, La Jolla, CA 92037 USA

来源：

STRUCTURE | 2009年 / 17卷 / 02期

关键词：

MASS-SPECTROMETRY DATA; STRUCTURAL GENOMICS; STRUCTURE PREDICTION; COUPLED RECEPTOR; HOMOLOGY MODELS; HIGH-THROUGHPUT; BIOCHEMICAL-CHARACTERIZATION; MACROMOLECULAR ASSEMBLIES; SACCHAROMYCES-CEREVISIAE; 3-DIMENSIONAL STRUCTURE;

D O I：

10.1016/j.str.2008.12.014

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We describe the proceedings and conclusions from the "Workshop on Applications of Protein Models in Biomedical Research" (the Workshop) that was held at the University of California, San Francisco on 11 and 12 July, 2008. Atthe Workshop, international scientists involved with structure modeling explored (i) how models are currently used in biomedical research, (ii) the requirements and challenges for different applications, and (iii) how the interaction between the computational and experimental research communities could be strengthened to advance the field.

引用

页码：151 / 159

页数：9

共 98 条

[1] Integrating diverse data for structure determination of macromolecular assemblies [J].

Alber, Frank ;

Foerster, Friedrich ;

Korkin, Dmitry ;

Topf, Maya ;

Sali, Andrej .

ANNUAL REVIEW OF BIOCHEMISTRY, 2008, 77 :443-477

[2] The molecular architecture of the nuclear pore complex [J].

Alber, Frank ;

Dokudovskaya, Svetlana ;

Veenhoff, Liesbeth M. ;

Zhang, Wenzhu ;

Kipper, Julia ;

Devos, Damien ;

Suprapto, Adisetyantari ;

Karni-Schmidt, Orit ;

Williams, Rosemary ;

Chait, Brian T. ;

Sali, Andrej ;

Rout, Michael P. .

NATURE, 2007, 450 (7170) :695-701

[3] Determining the architectures of macromolecular assemblies [J].

Alber, Frank ;

Dokudovskaya, Svetlana ;

Veenhoff, Liesbeth M. ;

Zhang, Wenzhu ;

Kipper, Julia ;

Devos, Damien ;

Suprapto, Adisetyantari ;

Karni-Schmidt, Orit ;

Williams, Rosemary ;

Chait, Brian T. ;

Rout, Michael P. ;

Sali, Andrej .

NATURE, 2007, 450 (7170) :683-694

[4] The cold-active lipase of Pseudomonas fragi -: Heterologous expression, biochemical characterization and molecular modeling [J].

Alquati, C ;

De Gioia, L ;

Santarossa, G ;

Alberghina, L ;

Fantucci, P ;

Lotti, M .

EUROPEAN JOURNAL OF BIOCHEMISTRY, 2002, 269 (13) :3321-3328

[5] Membrane targeting of C2 domains of phospholipase C-δ isoforms [J].

Ananthanarayanan, B ;

Das, S ;

Rhee, SG ;

Murray, D ;

Cho, W .

JOURNAL OF BIOLOGICAL CHEMISTRY, 2002, 277 (05) :3568-3575

[6]

Arnold Konstantin, 2009, Journal of Structural and Functional Genomics, V10, P1, DOI 10.1007/s10969-008-9048-5

[7] Introduction - Living in societies [J].

Ash, Caroline ;

Chin, Gilbert ;

Pennisi, Elizabeth ;

Sugden, Andrew .

SCIENCE, 2007, 317 (5843) :1337-1337

[8] Comprehensive mechanistic analysis of hits from high-throughput and docking screens against β-lactamase [J].

Babaoglu, Kerim ;

Simeonov, Anton ;

Lrwin, John J. ;

Nelson, Michael E. ;

Feng, Brian ;

Thomas, Craig J. ;

Cancian, Laura ;

Costi, M. Paola ;

Maltby, David A. ;

Jadhav, Ajit ;

Inglese, James ;

Austin, Christopher P. ;

Shoichet, Brian K. .

JOURNAL OF MEDICINAL CHEMISTRY, 2008, 51 (08) :2502-2511

[9] QMEAN: A comprehensive scoring function for model quality assessment [J].

Benkert, Pascal ;

Tosatto, Silvio C. E. ;

Schomburg, Dietmar .

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 2008, 71 (01) :261-277

[10] Announcing the worldwide Protein Data Bank [J].

Berman, H ;

Henrick, K ;

Nakamura, H .

NATURE STRUCTURAL BIOLOGY, 2003, 10 (12) :980-980

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