DOI: 10.1016/j.str.2004.05.018. Systematic Analysis of Added-Value in Simple Comparative Models of Protein Structure

Systematic Analysis of Added-Value in Simple Comparative Models of Protein Structure

10.1016/j.str.2004.05.018

Crossref journal-article

Elsevier BV

Structure (78)

Bibliography

Chakravarty, S., & Sanchez, R. (2004). Systematic Analysis of Added-Value in Simple Comparative Models of Protein Structure. Structure, 12(8), 1461â1470.

Authors 2

Suvobrata Chakravarty (first)
Roberto Sanchez (additional)

References 34 Referenced 17

10.1093/nar/25.17.3389 / Nucleic Acids Res. / Gapped BLAST and PSI-BLAST by Altschul (1997)
10.1107/S0907444902003451 / Acta Crystallogr. D Biol. Crystallogr. / The Protein Data Bank by Berman (2002)
10.1023/A:1008124202956 / J. Comput. Aided Mol. Des. / Fast prediction and visualization of protein binding pockets with PASS by Brady (2000)
10.1021/bi025523t / Biochemistry / Elucidation of factors responsible for enhanced thermal stability of proteins by Chakravarty (2002)
10.1016/0022-2836(76)90191-1 / J. Mol. Biol. / The nature of the accessible and buried surfaces in proteins by Chothia (1976)
10.1016/S0969-2126(96)00119-0 / Structure / A structural explanation for the twilight zone of protein sequence homology by Chung (1996)
10.1093/nar/gkg543 / Nucleic Acids Res. / Tools for comparative protein structure modeling and analysis by Eswar (2003)
10.1093/bioinformatics/17.12.1242 / Bioinformatics / Eva by Eyrich (2001)
10.1002/prot.10538 / Proteins Suppl. / CAFASP3 by Fischer (2003)
Fiser, A., Kinh Gian Do, R., and Sali, A. (2000). Modeling of loops in protein structures. Protein Sci., 1753–1773. (10.1110/ps.9.9.1753)
10.1093/protein/3.8.659 / Protein Eng. / Predicting surface exposure of amino acids from protein sequence by Holbrook (1990)
Hubbard, S.J., and Thornton, J. (1993). NACCESS (computer program). Department of Biochemistry and Molecular Biology, University College London.
10.1016/0263-7855(96)00009-4 / J. Mol. Graph. / Molmol by Koradi (1996)
10.1016/0022-2836(71)90324-X / J. Mol. Biol. / The interpretation of protein structures by Lee (1971)
10.1002/pro.5560070905 / Protein Sci. / Anatomy of protein pockets and cavities by Liang (1998)
10.1021/bi00231a019 / Biochemistry / Contribution to the thermodynamics of protein folding from the reduction in water-accessible nonpolar surface area by Livingstone (1991)
10.1146/annurev.biophys.29.1.291 / Annu. Rev. Biophys. Biomol. Struct. / Comparative protein structure modeling of genes and genomes by Marti-Renom (2000)
10.1016/S0969-2126(02)00731-1 / Structure (Camb) / Reliability of assessment of protein structure prediction methods by Marti-Renom (2002)
10.1002/prot.340110407 / Proteins / Protein folding and association by Nicholls (1991)
10.1517/14622416.1.3.257 / Pharmacogenomics / Automated protein modelling—the proteome in 3D by Peitsch (2000)
10.1093/nar/30.1.255 / Nucleic Acids Res. / MODBASE, a database of annotated comparative protein structure models by Pieper (2002)
{'year': '1992', 'series-title': 'Numerical Recipes in C', 'author': 'Press', 'key': '10.1016/j.str.2004.05.018_BIB22'} / Numerical Recipes in C by Press (1992)
10.1006/jmbi.1993.1626 / J. Mol. Biol. / Comparative protein modelling by satisfaction of spatial restraints by Sali (1993)
10.1016/S0021-9258(18)52973-2 / J. Biol. Chem. / Three-dimensional models of four mouse mast cell chymases. Identification of proteoglycan binding regions and protease-specific antigenic epitopes by Sali (1993)
10.1002/(SICI)1097-0134(1997)1+<50::AID-PROT8>3.0.CO;2-S / Proteins Suppl. / Evaluation of comparative protein structure modeling by MODELLER-3 by Sanchez (1997)
10.1073/pnas.95.23.13597 / Proc. Natl. Acad. Sci. USA / Large-scale protein structure modeling of the Saccharomyces cerevisiae genome by Sanchez (1998)
10.1038/80776 / Nat. Struct. Biol. Suppl. / Protein structure modeling for structural genomics by Sanchez (2000)
10.1093/protein/11.9.739 / Protein Eng. / Protein structure alignment by incremental combinatorial extension (CE) of the optimal path by Shindyalov (1998)
10.1126/science.8303294 / Science / Coupling of local folding to site-specific binding of proteins to DNA by Spolar (1994)
10.1038/80784 / Nat. Struct. Biol. Suppl. / From structure to function by Thornton (2000)
10.1002/prot.10543 / Proteins Suppl. / Assessment of homology-based predictions in CASP5 by Tramontano (2003)
10.1002/prot.10530 / Proteins Suppl. / Assessment of progress over the CASP experiments by Venclovas (2003)
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Dates

Type	When
Created	21 years ago (Aug. 11, 2004, 10:34 a.m.)
Deposited	1 year, 6 months ago (Feb. 10, 2024, 11:50 a.m.)
Indexed	6 months, 1 week ago (Feb. 21, 2025, 12:07 a.m.)
Issued	21 years ago (Aug. 1, 2004)
Published	21 years ago (Aug. 1, 2004)
Published Print	21 years ago (Aug. 1, 2004)

Funders 2

Icahn School of Medicine at Mount Sinai 10.13039/100007277
Region: Americas
gov (Universities (academic only))
Labels4
1. The Icahn School of Medicine at Mount Sinai
2. Icahn MSSM
3. Mount Sinai School of Medicine
4. ISMMS
Awards1
1. 1P01GM066531-01
National Institutes of Health 10.13039/100000002
Region: Americas
gov (National government)
Labels3
1. Institutos Nacionales de la Salud
2. US National Institutes of Health
3. NIH

BibTeX

@article{Chakravarty_2004, title={Systematic Analysis of Added-Value in Simple Comparative Models of Protein Structure}, volume={12}, ISSN={0969-2126}, url={http://dx.doi.org/10.1016/j.str.2004.05.018}, DOI={10.1016/j.str.2004.05.018}, number={8}, journal={Structure}, publisher={Elsevier BV}, author={Chakravarty, Suvobrata and Sanchez, Roberto}, year={2004}, month=aug, pages={1461–1470} }

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