S. Holbrook

Most-cited papers

Prediction of protein folding class using global description of amino acid sequence.
I. Dubchak, I. Muchnik, S. Holbrook, Sung-Hou Kim
1995Proceedings of the National Academy of Sciences of the United States of America596 citations Open access
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Crystal structure of an RNA double helix incorporating a track of non-Watson–Crick base pairs
S. Holbrook, C. Cheong, I. Tinoco, Sung-Hou Kim
1991Nature269 citations
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A structure-factor least-squares refinement procedure for macromolecular structures using constrained and restrained parameters
J. Sussman, S. Holbrook, G. Church, Sung-Hou Kim
1977228 citations Open access
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RNA structural motifs: building blocks of a modular biomolecule
D. K. Hendrix, S. Brenner, S. Holbrook
2005Quarterly Reviews of Biophysics (print)221 citations Open access
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Crystal structure of a bacterial ribonuclease P RNA.
A. V. Kazantsev, A. Krivenko, D. Harrington, S. Holbrook +2 more
2005Proceedings of the National Academy of Sciences of the United States of America215 citations Open access
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A computational approach to identify genes for functional RNAs in genomic sequences.
R. Carter, I. Dubchak, S. Holbrook
2001Nucleic Acids Research211 citations Open access
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Action mechanism of ABC excision nuclease on a DNA substrate containing a psoralen crosslink at a defined position.
B. Van Houten, H. Gamper, S. Holbrook, J. Hearst +1 more
1986Proceedings of the National Academy of Sciences of the United States of America184 citations Open access
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RNA structure: the long and the short of it
S. Holbrook
2005Current Opinion in Structural Biology138 citations Open access
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SCOR: a Structural Classification of RNA database
P. S. Klosterman, Makio Tamura, S. Holbrook, S. Brenner
2002Nucleic Acids Res.128 citations Open access
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Predicting surface exposure of amino acids from protein sequence.
S. Holbrook, Steven M. Muskal, Sung-Hou Kim
1990Protein Engineering118 citations
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SCOR: Structural Classification of RNA, version 2.0
Makio Tamura, D. K. Hendrix, P. S. Klosterman, Nancy R. B. Schimmelman +2 more
2004Nucleic Acids Res.110 citations Open access
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Structural principles from large RNAs.
S. Holbrook
2008Annual Review of Biophysics107 citations
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Structure of an RNA double helix including uracil-uracil base pairs in an internal loop
K. Baeyens, H. D. De Bondt, S. Holbrook
1995Nature Structural Biology105 citations
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Sequence and structural conservation in RNA ribose zippers.
Makio Tamura, S. Holbrook
2002Journal of Molecular Biology97 citations
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A curved RNA helix incorporating an internal loop with G.A and A.A non-Watson-Crick base pairing.
K. Baeyens, H. D. De Bondt, Arthur Pardi, S. Holbrook
1996Proceedings of the National Academy of Sciences of the United States of America92 citations Open access
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Identification of Functional Modules in Protein Complexes via Hyperclique Pattern Discovery
Hui Xiong, Xiao-Feng He, C. Ding, Ya Zhang +2 more
2004Pacific Symposium on Biocomputing84 citations
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High-resolution structure of RNase P protein from Thermotoga maritima
A. V. Kazantsev, A. Krivenko, D. Harrington, R. Carter +3 more
2003Proceedings of the National Academy of Sciences of the United States of America80 citations Open access
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The RNA Ontology Consortium: an open invitation to the RNA community.
N. Leontis, R. Altman, H. Berman, S. Brenner +11 more
2006RNA: A publication of the RNA Society79 citations Open access
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Mechanism of damage recognition by Escherichia coli DNA photolyase.
Intisar Husain, G. B. Sancar, S. Holbrook, A. Sancar
1987Journal of Biological Chemistry76 citations Open access
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Prediction of protein folding class from amino acid composition
I. Dubchak, S. Holbrook, Sung-Hou Kim
1993Proteins: Structure, Function, and Bioinformatics74 citations
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Three-dimensional motifs from the SCOR, structural classification of RNA database: extruded strands, base triples, tetraloops and U-turns.
P. S. Klosterman, D. K. Hendrix, Makio Tamura, S. Holbrook +1 more
2004Nucleic Acids Research70 citations Open access
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MeRNA: a database of metal ion binding sites in RNA structures
Liliana R. Stefan, Rui Zhang, A. Levitan, D. K. Hendrix +2 more
2005Nucleic Acids Res.65 citations Open access
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Genome analysis PSoL : a positive sample only learning algorithm for finding non-coding RNA genes
Chun-Lin Wang, C. Ding, Richard F. Meraz, S. Holbrook
200657 citations
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Classification of Non-Coding RNA Using Graph Representations of Secondary Structure
Yan Karklin, Richard F. Meraz, S. Holbrook
2004Pacific Symposium on Biocomputing55 citations Open access
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The crystal structure of the Rev binding element of HIV-1 reveals novel base pairing and conformational variability.
L. Hung, E. L. Holbrook, S. Holbrook
2000Proceedings of the National Academy of Sciences of the United States of America53 citations Open access
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Anisotropic thermal‐parameter refinement of the DNA dodecamer CGCGAATTCGCG by the segmented rigid‐body method
S. Holbrook, R. Dickerson, Sung-Hou Kim
198548 citations
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Biclustering Protein Complex Interactions with a Biclique Finding Algorithm
C. Ding, Ya Zhang, Tao Li, S. Holbrook
2006Industrial Conference on Data Mining39 citations Open access
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A generalized affine gap model significantly improves protein sequence alignment accuracy
Marcus A. Zachariah, G. Crooks, S. Holbrook, S. Brenner
2004Proteins: Structure, Function, and Bioinformatics34 citations
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Consistent dissection of the protein interaction network by combining global and local metrics
Chun-Lin Wang, Chris H. Q. Ding, Qiao-Feng Yang, S. Holbrook
2007Genome Biology33 citations Open access
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MAO: a Multiple Alignment Ontology for nucleic acid and protein sequences
J. Thompson, S. Holbrook, K. Katoh, P. Koehl +3 more
2005Nucleic Acids Research33 citations Open access
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A unified representation of multiprotein complex data for modeling interaction networks
C. Ding, Xiao-Feng He, Richard F. Meraz, S. Holbrook
2004Proteins: Structure, Function, and Bioinformatics33 citations
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Transitive closure and metric inequality of weighted graphs: detecting protein interaction modules using cliques
C. Ding, Xiao-Feng He, Hui Xiong, Hanchuan Peng +1 more
2006International Journal of Data Mining and Bioinformatics32 citations Open access
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Local mobility of nucleic acids as determined from crystallographic data. III. A daunomycin-DNA complex.
S. Holbrook, A. Wang, Alexander Rich, Sung-Hou Kim
1988Journal of Molecular Biology30 citations
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Structural Genomics of Minimal Organisms and Protein Fold Space
Sung-Hou Kim, D. Shin, Jin-Yu Liu, V. Oganesyan +23 more
2005Journal of Structural and Functional Genomics26 citations
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The crystal structure of an RNA oligomer incorporating tandem adenosine-inosine mismatches.
R. Carter, K. Baeyens, J. SantaLucia, D. Turner +1 more
1997Nucleic Acids Research25 citations Open access
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Structural studies of the Nudix hydrolase DR1025 from Deinococcus radiodurans and its ligand complexes.
W. Ranatunga, E. Hill, J. Mooster, E. L. Holbrook +5 more
2004Journal of Molecular Biology24 citations
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Use of low-molecular-weight polyethylene glycol in the crystallization of RNA oligomers.
K. Baeyens, J. Jancarik, S. Holbrook
1994Acta Crystallographica Section D: Biological Crystallography23 citations
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Comparative mapping of sequence-based and structure-based protein domains
Ya Zhang, J. Chandonia, C. Ding, S. Holbrook
2005BMC Bioinformatics21 citations Open access
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Crystallization of Nucleic Acids
E. L. Holbrook, S. Holbrook
200120 citations
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SYNTHESIS AND CHARACTERIZATION OF A MnIII PORPHYRIN CATION RADICAL AND ITS CONVERSION TO MnIV BY LIGAND METATHESIS
S. Holbrook
201318 citations
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Structures of two RNA octamers containing tandem G.A base pairs.
Se-Bok Jang, K. Baeyens, M. Jeong, J. SantaLucia +2 more
2004Acta Crystallographica Section D: Biological Crystallography17 citations
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Estimating support for protein-protein interaction data with applications to function prediction.
E. Zeng, C. Ding, G. Narasimhan, S. Holbrook
2008Computational systems bioinformatics. Computational Systems Bioinformatics Conference13 citations Open access
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Absence of correlation between base-pair sequence and RNA conformation.
S. Holbrook, J. Sussman, S. Kim
1981Science12 citations
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Predicting protein structural features with artificial neural networks
S. Holbrook, Steven M. Muskal, Sung-Hou Kim
199311 citations
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[151 Crystallization and heavy-atom derivatives of polynucleotides
S. Holbrook, Sung-Hou Kim
198510 citations
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Novel crystal form of the ColE1 Rom protein.
S. Jang, M. Jeong, R. Carter, E. L. Holbrook +2 more
2006Acta Crystallographica Section D: Biological Crystallography9 citations
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A Macintosh computer program for designing DNA sequences that code for specific peptides and proteins.
T. Tamura, S. Holbrook, Sung-Hou Kim
1991BioTechniques9 citations
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Faculty Opinions recommendation of HIV-1 RNA dimerization initiation site is structurally similar to the ribosomal A site and binds aminoglycoside antibiotics.
S. Holbrook
20038 citations
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Solution structure of hypothetical nudix hydrolase DR0079 from extremely radiation‐resistant Deinococcus radiodurans bacterium
G. Buchko, S. Ni, S. Holbrook, Michael A. Kennedy
2004Proteins: Structure, Function, and Bioinformatics5 citations
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Neutral reactions of haloacetaldehydes with polynucleotides: mechanisms, monomer and polymer products.
B. Singer, S. Holbrook, H. Fraenkel-Conrat, J. Kuśmierek
1986IARC scientific publications5 citations
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