Research Output 1968 2019

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2019

Identification of Protein Homologs and Domain Boundaries by Iterative Sequence Alignment

Schaeffer, D. & Grishin, N. V., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 277-286 10 p. (Methods in Molecular Biology; vol. 1851).

Research output: Chapter in Book/Report/Conference proceedingChapter

Sequence Alignment
Information Storage and Retrieval
Libraries
Software
Databases
1 Citation (Scopus)

Isotopic Labeling of Eukaryotic Membrane Proteins for NMR Studies of Interactions and Dynamics

Dikiy, I., Clark, L. D., Gardner, K. H. & Rosenbaum, D. M., Jan 1 2019, Methods in Enzymology. Wand, A. J. (ed.). Academic Press Inc., p. 37-65 29 p. (Methods in Enzymology; vol. 614).

Research output: Chapter in Book/Report/Conference proceedingChapter

Labeling
Membrane Proteins
Nuclear magnetic resonance
G-Protein-Coupled Receptors
Adenosine A2A Receptors
2017
7 Citations (Scopus)

Reconstitution of TCR signaling using supported lipid bilayers

Su, X., Ditlev, J. A., Rosen, M. K. & Vale, R. D., 2017, Methods in Molecular Biology. Humana Press Inc., Vol. 1584. p. 65-76 12 p. (Methods in Molecular Biology; vol. 1584).

Research output: Chapter in Book/Report/Conference proceedingChapter

Lipid Bilayers
Eph Family Receptors
T-Lymphocytes
Death Domain Receptors
Proteins
1 Citation (Scopus)

The Human Orexin/Hypocretin receptor crystal structures

Yin, J. & Rosenbaum, D. M., 2017, Current Topics in Behavioral Neurosciences. Springer Verlag, Vol. 33. p. 1-16 16 p. (Current Topics in Behavioral Neurosciences; vol. 33).

Research output: Chapter in Book/Report/Conference proceedingChapter

Orexin Receptors
G-Protein-Coupled Receptors
Neuropeptides
Lateral Hypothalamic Area
Drug Discovery
2016
2 Citations (Scopus)

In Silico Chemogenomics Knowledgebase and Computational System Neuropharmacology Approach for Cannabinoid Drug Research

Xie, X. Q., Wang, L., Wang, J., Xie, Z., Yang, P. & Ouyang, Q., May 13 2016, General Processes and Mechanisms, Prescription Medications, Caffeine and Areca, Polydrug Misuse, Emerging Addictions and Non-Drug Addictions. Elsevier Inc., Vol. 3. p. 183-195 13 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Neuropharmacology
Knowledge Bases
Cannabinoids
Polypharmacology
Computer Simulation
2015
123 Citations (Scopus)

Calculations and Publication-Quality Illustrations for Analytical Ultracentrifugation Data

Brautigam, C. A., 2015, Methods in Enzymology. Academic Press Inc., Vol. 562. p. 109-133 25 p. (Methods in Enzymology; vol. 562).

Research output: Chapter in Book/Report/Conference proceedingChapter

Ultracentrifugation
Sedimentation
Publications
Isotherms
Detergents

Eukaryotic Ribosome Assembly and Export

Panse, V. G. & Weirich, C. S., Jan 1 2015, Functional Cell Biology. Elsevier Inc., Vol. 3. p. 297-306 10 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Ribosomes
Cell Nucleus Active Transport
Saccharomycetales
Trans-Activators
DNA-Directed RNA Polymerases
2014
4 Citations (Scopus)

Biochemical reconstitution of the WAVE regulatory complex

Chen, B., Padrick, S. B., Henry, L. & Rosen, M. K., 2014, Methods in Enzymology. Academic Press Inc., Vol. 540. p. 55-72 18 p. (Methods in Enzymology; vol. 540).

Research output: Chapter in Book/Report/Conference proceedingChapter

Actins
Actin-Related Protein 2-3 Complex
Membranes
Crystallization
Purification
98 Citations (Scopus)

PROMALS3D: Multiple protein sequence alignment enhanced with evolutionary and three-dimensional structural information

Pei, J. & Grishin, N. V., 2014, Methods in Molecular Biology. Humana Press Inc., Vol. 1079. p. 263-271 9 p. (Methods in Molecular Biology; vol. 1079).

Research output: Chapter in Book/Report/Conference proceedingChapter

Sequence Alignment
Computational Biology
Proteins
Databases
Protein Databases

PROMALS3D: Multiple protein sequence alignment enhanced with evolutionary and three-dimensional structural information

Pei, J. & Grishin, N. V., 2014, Methods in Molecular Biology. Vol. 1079. p. 263-271 9 p. (Methods in Molecular Biology; vol. 1079).

Research output: Chapter in Book/Report/Conference proceedingChapter

Sequence Alignment
Computational Biology
Proteins
Databases
Protein Databases
2013
1 Citation (Scopus)

Everything happens at once - Deconvolving systematic effects in X-ray data processing

Borek, D. & Otwinowski, Z., 2013, NATO Science for Peace and Security Series A: Chemistry and Biology. p. 105-112 8 p. (NATO Science for Peace and Security Series A: Chemistry and Biology).

Research output: Chapter in Book/Report/Conference proceedingChapter

X-Rays
Deconvolution
Radiation
X rays
Signal-To-Noise Ratio
22 Citations (Scopus)

Evolution-based design of proteins

Reynolds, K. A., Russ, W. P., Socolich, M. & Ranganathan, R., 2013, Methods in Enzymology. Vol. 523. p. 213-235 23 p. (Methods in Enzymology; vol. 523).

Research output: Chapter in Book/Report/Conference proceedingChapter

Proteins
Protein Sequence Analysis
Testing
Statistical methods
Amino Acids
22 Citations (Scopus)

Measurement and analysis of in vitro actin polymerization

Doolittle, L. K., Rosen, M. K. & Padrick, S. B., 2013, Methods in Molecular Biology. Humana Press Inc., Vol. 1046. p. 273-293 21 p. (Methods in Molecular Biology; vol. 1046).

Research output: Chapter in Book/Report/Conference proceedingChapter

Polymerization
Actins
Actin Cytoskeleton
In Vitro Techniques
Fluorescence
5 Citations (Scopus)

Purification of Arp2/3 complex from saccharomyces cerevisiae

Doolittle, L. K., Rosen, M. K. & Padrick, S. B., 2013, Methods in Molecular Biology. Humana Press Inc., Vol. 1046. p. 251-271 21 p. (Methods in Molecular Biology; vol. 1046).

Research output: Chapter in Book/Report/Conference proceedingChapter

Actin-Related Protein 2-3 Complex
Saccharomyces cerevisiae
Actins
Actin Cytoskeleton
Saccharomycetales
4 Citations (Scopus)

Purification of native Arp2/3 complex from bovine thymus

Doolittle, L. K., Rosen, M. K. & Padrick, S. B., 2013, Methods in Molecular Biology. Humana Press Inc., Vol. 1046. p. 231-250 20 p. (Methods in Molecular Biology; vol. 1046).

Research output: Chapter in Book/Report/Conference proceedingChapter

Actin-Related Protein 2-3 Complex
Biological Phenomena
Actin Cytoskeleton
Thymus Gland
Cell Movement

Vacuoles

Stefan, C. J., Henne, W. M. & Emr, S. D., Feb 15 2013, Encyclopedia of Biological Chemistry: Second Edition. Elsevier Inc., p. 331-336 6 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Vacuoles
Lysosomes
Organelles
Membrane Proteins
Neurodegenerative diseases
2010

Mechanistic features of cell-surface adhesion receptors

Almo, S. C., Bresnick, A. R. & Zhang, X., 2010, Handbook of Cell Signaling, 2/e. Elsevier Inc., Vol. 1. p. 63-69 7 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Cell Surface Receptors
Cell Adhesion
Ligands
Military electronic countermeasures
Surface states
1 Citation (Scopus)

SNAREs

Rizo-Rey, J., 2010, Encyclopedia of Neuroscience. Elsevier Ltd, p. 11-19 9 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Proteins
Vesicle-Associated Membrane Protein 2
Syntaxin 1
SNARE Proteins
Intracellular Membranes
5 Citations (Scopus)

Structure and Modeling of GPCRs: Implications for Drug Discovery

Reynolds, K. A., Katritch, V. & Abagyan, R., Jul 15 2010, GPCR Molecular Pharmacology and Drug Targeting: Shifting Paradigms and New Directions. John Wiley and Sons, p. 385-433 49 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Drug Discovery

The γ2 adrenergic receptor as a model for g-protein-coupled receptor structure and activation by diffusible hormones

Rosenbaum, D. M., Rasmussen, S. G. F. & Kobilka, B. K., 2010, Handbook of Cell Signaling, 2/e. Elsevier Inc., Vol. 1. p. 163-169 7 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Adrenergic Receptors
Chemical activation
G-Protein-Coupled Receptors
Hormones
Proteins
2009

Crystal structures of the β2-adrenergic receptor

Weis, W. I., Rosenbaum, D. M., Rasmussen, S. G. F., Choi, H. J., Thian, F. S., Kobilka, T. S., Yao, X. J., Day, P. W., Parnot, C., Fung, J. J., Ratnala, V. R. P., Kobilka, B. K., Cherezov, V., Hanson, M. A., Kuhn, P., Stevens, R. C., Edwards, P. C., Schertler, G. F. X., Burghammer, M., Sanishvili, R. & 3 others, Fischetti, R. F., Masood, A. & Rohrer, D. K., 2009, NATO Security through Science Series C: Environmental Security. p. 217-230 14 p. (NATO Security through Science Series C: Environmental Security).

Research output: Chapter in Book/Report/Conference proceedingChapter

crystal structure
ligand
protein
hormone
membrane
12 Citations (Scopus)

The Regulation of Axonemal Bending

Wirschell, M., Nicastro, D., Porter, M. E. & Sale, W. S., Dec 1 2009, The Chlamydomonas Sourcebook 3-Vol set. Elsevier Inc., Vol. 3. p. 253-282 30 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Dyneins
Chlamydomonas
microtubules
phosphotransferases (kinases)
proteins
2007
7 Citations (Scopus)

Electron Microscopy of Microtubule-Based Cytoskeletal Machinery

Hoenger, A. & Nicastro, D., Feb 28 2007, Cellular Electron Microscopy. 79 ed. Vol. 2007. p. 437-462 26 p. (Methods in Cell Biology; vol. 2007, no. 79).

Research output: Chapter in Book/Report/Conference proceedingChapter

Cryoelectron Microscopy
Secondary Protein Structure
Protein Conformation
Microtubule-Associated Proteins
Cytoskeleton
2006
3 Citations (Scopus)

A putative RNA-interference-based immune system in prokaryotes: The epitome of prokaryotic genomic diversity

Koonin, E. V., Makarova, K. S., Grishin, N. V. & Wolf, Y. I., Jan 1 2006, Prokaryotic Diversity: Mechanisms and Significance: Published for the Society for General Microbiology. Cambridge University Press, p. 39-64 26 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

RNA Interference
Immune System
Operon
Genes
Gene Order
2005
7 Citations (Scopus)

Microtubule Nucleation

Moritz, M., Rice, L. M. & Agard, D. A., Jun 17 2005, Centrosomes in Development and Disease. Wiley Blackwell, p. 27-41 15 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Microtubules
2003
1 Citation (Scopus)

C2-Domains in Ca2+-Signaling

Südhof, T. C. & Rizo-Rey, J., Nov 7 2003, Handbook of Cell Signaling. Elsevier Inc., Vol. 2-3. p. 95-100 6 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Mechanistic Features of Cell-Surface Adhesion Receptors

Almo, S. C., Bresnick, A. R. & Zhang, X., Nov 7 2003, Handbook of Cell Signaling. Elsevier Inc., Vol. 1-3. p. 71-77 7 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Cell Surface Receptors
Cell Adhesion
adhesion receptor