Research Output 1979 2019

Filter
Article
2009
19 Citations (Scopus)
Aryl Hydrocarbon Receptor Nuclear Translocator
Point Mutation
Proteins
Pliability
124 Citations (Scopus)

Artificial ligand binding within the HIF2α PAS-B domain of the HIF2 transcription factor

Scheuermann, T. H., Tomchick, D. R., Machius, M., Guo, Y., Bruick, R. K. & Gardner, K. H., Jan 13 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 2, p. 450-455 6 p.

Research output: Contribution to journalArticle

Aryl Hydrocarbon Receptor Nuclear Translocator
Transcription Factors
Ligands
Basic Helix-Loop-Helix Transcription Factors
Oxygen
51 Citations (Scopus)

Bowl-shaped oligomeric structures on membranes as DegP's new functional forms in protein quality control

Shen, Q. T., Bai, X. C., Chang, L. F., Wu, Y., Wang, H. W. & Sui, S. F., Mar 24 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 12, p. 4858-4863 6 p.

Research output: Contribution to journalArticle

Quality Control
Membranes
Periplasm
Proteins
Poisons

Cargo and dynamin regulate clathrin-coated pit maturation

Loerke, D., Mettlen, M., Yarar, D., Jaqaman, K., Jaqaman, H., Danuser, G. & Schmid, S. L., Mar 2009, In : PLoS Biology. 7, 3, p. 628-639 12 p.

Research output: Contribution to journalArticle

Dynamins
clathrin
Clathrin
Dynamin I
Dynamin II
239 Citations (Scopus)

Cargo and Dynamin Regulate Clathrin-Coated Pit Maturation

Loerke, D., Mettlen, M., Yarar, D., Jaqaman, K., Jaqaman, H., Danuser, G. & Schmid, S. L., Mar 2009, In : PLoS Biology. 7, 3, e1000057.

Research output: Contribution to journalArticle

Dynamins
clathrin
Clathrin
Dynamin I
Dynamin II
20 Citations (Scopus)
Image analysis
Software
Research Personnel
Image processing
Cytology
64 Citations (Scopus)

Differential but convergent functions of Ca2+ binding to synaptotagmin-1 C2 domains mediate neurotransmitter release

Shin, O. H., Xu, J., Rizo-Rey, J. & Südhof, T. C., Sep 22 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 38, p. 16469-16474 6 p.

Research output: Contribution to journalArticle

Synaptotagmin I
Neurotransmitter Agents
Liposomes
Phospholipids
Phosphatidylserines

Erratum: Structural basis for leucine-rich nuclear export signal recognition by CRM1 (Nature (2009) 458 (1136-1141))

Dong, X., Biswas, A., Süel, K. E., Jackson, L. K., Martinez, R., Gu, H. & Chook, Y. M., Sep 24 2009, In : Nature. 461, 7263, p. 550 1 p.

Research output: Contribution to journalArticle

33 Citations (Scopus)

Exploring symmetry-based logic for a synthesis of Palau'amine

Li, Q., Hurley, P., Ding, H., Roberts, A. G., Akella, R. & Harran, P. G., 2009, In : Journal of Organic Chemistry. 74, 16, p. 5909-5919 11 p.

Research output: Contribution to journalArticle

Biological Products
Oxidation
palau'amine
6 Citations (Scopus)

Identification of a bacteriocin and its cognate immunity factor expressed by Moraxella catarrhalis.

Attia, A. S., Sedillo, J. L., Hoopman, T. C., Liu, W., Liu, L., Brautigam, C. A. & Hansen, E. J., 2009, In : BMC Microbiology. 9, p. 207 1 p.

Research output: Contribution to journalArticle

Moraxella (Branhamella) catarrhalis
Bacteriocins
Immunity
Open Reading Frames
Proteins
82 Citations (Scopus)

Insulin receptor tyrosine kinase substrate links the E. coli O157: H7 actin assembly effectors Tir and EspF U during pedestal formation

Vingadassalom, D., Kazlauskas, A., Skehan, B., Cheng, H. C., Magoun, L., Robbins, D., Rosen, M. K., Saksela, K. & Leong, J. M., Apr 21 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 16, p. 6754-6759 6 p.

Research output: Contribution to journalArticle

Escherichia coli O157
Actins
src Homology Domains
Microbiological Attachment Sites
Enterohemorrhagic Escherichia coli
20 Citations (Scopus)

Kap104p imports the PY-NLS-containing transcription factor Tfg2p into the nucleus

Süel, K. E. & Chook, Y. M., Jun 5 2009, In : Journal of Biological Chemistry. 284, 23, p. 15416-15424 9 p.

Research output: Contribution to journalArticle

Cell Nucleus Active Transport
Transcription Factors
Karyopherins
DNA
Bioinformatics
45 Citations (Scopus)

Localization and structure of the ankyrin-binding site on β 2-spectrin

Davis, L., Abdi, K., Machius, M., Brautigam, C. A., Tomchick, D. R., Bennett, V. & Michaely, P. A., Mar 13 2009, In : Journal of Biological Chemistry. 284, 11, p. 6982-6987 6 p.

Research output: Contribution to journalArticle

Ankyrins
Spectrin
Skeleton
Binding Sites
Membranes
2 Citations (Scopus)

Methods for analysis of ligand-induced RNA conformational changes.

Brautigam, C. A., Wakeman, C. A. & Winkler, W. C., 2009, In : Methods in molecular biology (Clifton, N.J.). 540, p. 77-95 19 p.

Research output: Contribution to journalArticle

Hydrodynamics
RNA
Ligands
Untranslated RNA
Ultracentrifugation
25 Citations (Scopus)

Molecular basis of coiled coil coactivator recruitment by the aryl hydrocarbon receptor nuclear translocator (ARNT)

Partch, C. L., Card, P. B., Amezcua, C. A. & Gardner, K. H., May 29 2009, In : Journal of Biological Chemistry. 284, 22, p. 15184-15192 9 p.

Research output: Contribution to journalArticle

Aryl Hydrocarbon Receptor Nuclear Translocator
Xenobiotics
Transcriptional Activation
Basic Helix-Loop-Helix Transcription Factors
Cytoplasmic and Nuclear Receptors
108 Citations (Scopus)

Munc18-1 binding to the neuronal SNARE complex controls synaptic vesicle priming.

Deák, F., Xu, Y., Chang, W. P., Dulubova, I., Khvotchev, M., Liu, X., Südhof, T. C. & Rizo-Rey, J., Mar 9 2009, In : The Journal of cell biology. 184, 5, p. 751-764 14 p.

Research output: Contribution to journalArticle

Soluble N-Ethylmaleimide-Sensitive Factor Attachment Proteins
SNARE Proteins
Synaptic Vesicles
Syntaxin 1
Point Mutation
36 Citations (Scopus)

Nicotinamide mononucleotide synthetase is the key enzyme for an alternative route of NAD biosynthesis in Francisella tularensis

Sorci, L., Martynowski, D., Rodionov, D. A., Eyobo, Y., Zogaj, X., Klose, K. E., Nikolaev, E. V., Magni, G., Zhang, H. & Osterman, A. L., Mar 3 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 9, p. 3083-3088 6 p.

Research output: Contribution to journalArticle

Nicotinamide Mononucleotide
Francisella tularensis
Ligases
NAD
Enzymes
60 Citations (Scopus)

Principles of ligand binding within a completely buried cavity in HIF2α PAS-B

Key, J., Scheuermann, T. H., Anderson, P. C., Daggett, V. & Gardner, K. H., Dec 9 2009, In : Journal of the American Chemical Society. 131, 48, p. 17647-17654 8 p.

Research output: Contribution to journalArticle

Ligands
Thermodynamics
Conformations
Nuclear magnetic resonance
Proteins
52 Citations (Scopus)

Regulation of C-type lectin antimicrobial activity by a flexible N-terminal prosegment

Mukherjee, S., Partch, C. L., Lehotzky, R. E., Whitham, C. V., Chu, H., Bevins, C. L., Gardner, K. H. & Hooper, L. V., Feb 20 2009, In : Journal of Biological Chemistry. 284, 8, p. 4881-4888 8 p.

Research output: Contribution to journalArticle

C-Type Lectins
Hot isostatic pressing
Proteins
Innate Immunity
Amides
50 Citations (Scopus)

Remote Homology between Munc13 MUN Domain and Vesicle Tethering Complexes

Pei, J., Ma, C., Rizo-Rey, J. & Grishin, N. V., Aug 21 2009, In : Journal of Molecular Biology. 391, 3, p. 509-517 9 p.

Research output: Contribution to journalArticle

SNARE Proteins
Intracellular Membranes
Neurotransmitter Agents
Golgi Apparatus
Proteins
166 Citations (Scopus)

Secondary Structure of Huntingtin Amino-Terminal Region

Kim, M. W., Chelliah, Y., Kim, S. W., Otwinowski, Z. & Bezprozvanny, I., Sep 9 2009, In : Structure. 17, 9, p. 1205-1212 8 p.

Research output: Contribution to journalArticle

Exons
Amyloidogenic Proteins
Protein Conformation
Inborn Genetic Diseases
X Ray Crystallography
6 Citations (Scopus)

Slow transition between two β-strand registers is dictated by protein unfolding

Evans, M. R. & Gardner, K. H., Aug 19 2009, In : Journal of the American Chemical Society. 131, 32, p. 11306-11307 2 p.

Research output: Contribution to journalArticle

Aryl Hydrocarbon Receptor Nuclear Translocator
Protein Unfolding
Basic Helix-Loop-Helix Transcription Factors
Proteins
Peptides
64 Citations (Scopus)

Structural basis for assembly and disassembly of the CRM1 nuclear export complex

Dong, X., Biswas, A. & Chook, Y. M., May 2009, In : Nature Structural and Molecular Biology. 16, 5, p. 558-560 3 p.

Research output: Contribution to journalArticle

Nuclear Pore
Cell Nucleus Active Transport
Guanosine Triphosphate
Cell Nucleus
Carrier Proteins
195 Citations (Scopus)

Structural basis for leucine-rich nuclear export signal recognition by CRM1

Dong, X., Biswas, A., Süel, K. E., Jackson, L. K., Martinez, R., Gu, H. & Chook, Y. M., Apr 30 2009, In : Nature. 458, 7242, p. 1136-1141 6 p.

Research output: Contribution to journalArticle

Nuclear Export Signals
Leucine
Cell Nucleus Active Transport
Epitopes
Nucleotides
26 Citations (Scopus)

Structure and Function of an ADP-Ribose-Dependent Transcriptional Regulator of NAD Metabolism

Huang, N., De Ingeniis, J., Galeazzi, L., Mancini, C., Korostelev, Y. D., Rakhmaninova, A. B., Gelfand, M. S., Rodionov, D. A., Raffaelli, N. & Zhang, H., Jul 15 2009, In : Structure. 17, 7, p. 939-951 13 p.

Research output: Contribution to journalArticle

Adenosine Diphosphate Ribose
NAD
Activator Appliances
Allosteric Regulation
DNA
59 Citations (Scopus)

Structure and insight into blue light-induced changes in the BlrP1 BLUF domain

Wu, Q. & Gardner, K. H., Mar 31 2009, In : Biochemistry. 48, 12, p. 2620-2629 10 p.

Research output: Contribution to journalArticle

Light
Chromophores
Algal Proteins
Guanosine Monophosphate
Signal transduction
31 Citations (Scopus)

Structure and Mechanism of a Eukaryotic FMN Adenylyltransferase

Huerta, C., Borek, D., Machius, M., Grishin, N. V. & Zhang, H., Jun 5 2009, In : Journal of Molecular Biology. 389, 2, p. 388-400 13 p.

Research output: Contribution to journalArticle

FMN adenylyltransferase
Flavin Mononucleotide
Flavin-Adenine Dinucleotide
Candida glabrata
Catalytic Domain
244 Citations (Scopus)

Structure-based discovery of β 2 -adrenergic receptor ligands

Kolb, P., Rosenbaum, D. M., Irwin, J. J., Fung, J. J., Kobilka, B. K. & Shoichet, B. K., Apr 21 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 16, p. 6843-6848 6 p.

Research output: Contribution to journalArticle

G-Protein-Coupled Receptors
Adrenergic Receptors
Ligands
Drug Discovery
X-Rays
20 Citations (Scopus)
Adenosine Triphosphatases
Messenger RNA
Nuclear Pore
Phytic Acid
Cell Nucleus Active Transport
32 Citations (Scopus)
Pyruvate Dehydrogenase Complex
Stoichiometry
Catalytic Domain
Carrier Proteins
Dimers
35 Citations (Scopus)

Targeting NAD Biosynthesis in Bacterial Pathogens: Structure-Based Development of Inhibitors of Nicotinate Mononucleotide Adenylyltransferase NadD

Sorci, L., Pan, Y., Eyobo, Y., Rodionova, I., Huang, N., Kurnasov, O., Zhong, S., MacKerell, A. D., Zhang, H. & Osterman, A. L., Aug 28 2009, In : Chemistry and Biology. 16, 8, p. 849-861 13 p.

Research output: Contribution to journalArticle

Bacterial Structures
Biosynthesis
Pathogens
NAD
Enzymes
1161 Citations (Scopus)

The structure and function of G-protein-coupled receptors

Rosenbaum, D. M., Rasmussen, S. G. F. & Kobilka, B. K., May 21 2009, In : Nature. 459, 7245, p. 356-363 8 p.

Research output: Contribution to journalArticle

G-Protein-Coupled Receptors
Neurotransmitter Agents
Membrane Proteins
Hormones
Pharmacology
4 Citations (Scopus)

The structure of pyogenecin immunity protein, a novel bacteriocin-like immunity protein from Streptococcus pyogenes

Chang, C., Coggill, P., Bateman, A., Finn, R. D., Cymborowski, M., Otwinowski, Z., Minor, W., Volkart, L. & Joachimiak, A., 2009, In : BMC Structural Biology. 9, 75.

Research output: Contribution to journalArticle

Bacteriocins
Streptococcus pyogenes
Immunity
Peptides
Proteins
17 Citations (Scopus)

The Structure of the MAP2K MEK6 Reveals an Autoinhibitory Dimer

Min, X., Akella, R., He, H., Humphreys, J. M., Tsutakawa, S. E., Lee, S. J., Tainer, J. A., Cobb, M. H. & Goldsmith, E. J., Jan 14 2009, In : Structure. 17, 1, p. 96-104 9 p.

Research output: Contribution to journalArticle

Arginine
Phosphotransferases
Phosphorylation
Mutation
MAP Kinase Signaling System
93 Citations (Scopus)

The WAVE regulatory complex is inhibited

Ismail, A. M., Padrick, S. B., Chen, B., Umetani, J. & Rosen, M. K., May 2009, In : Nature Structural and Molecular Biology. 16, 5, p. 561-563 3 p.

Research output: Contribution to journalArticle

Actin-Related Protein 2-3 Complex
Wiskott-Aldrich Syndrome Protein Family
GTP Phosphohydrolases
Drosophila
Actins
4 Citations (Scopus)

X-ray diffraction experiment--the last experiment in the structure elucidation process.

Chruszcz, M., Borek, D., Domagalski, M., Otwinowski, Z. & Minor, W., 2009, In : Advances in Protein Chemistry and Structural Biology. 77, p. 23-40 18 p.

Research output: Contribution to journalArticle

X-Ray Diffraction
Avalanches
X ray diffraction
Drug Discovery
Proteins
2008
67 Citations (Scopus)

A conserved glutamine plays a central role in LOV domain signal transmission and Its duration

Nash, A. I., Ko, W. H., Harper, S. M. & Gardner, K. H., Dec 30 2008, In : Biochemistry. 47, 52, p. 13842-13849 8 p.

Research output: Contribution to journalArticle

Phototropins
Wave transmission
Glutamine
Oxygen
Light
3 Citations (Scopus)

A Dynamic t-SNARE Complex

Rizo-Rey, J., Feb 12 2008, In : Structure. 16, 2, p. 163-165 3 p.

Research output: Contribution to journalArticle

Syntaxin 1
SNARE Proteins
Neurotransmitter Agents
Single Molecule Imaging
25 Citations (Scopus)

Bifunctional NMN Adenylyltransferase/ADP-Ribose Pyrophosphatase: Structure and Function in Bacterial NAD Metabolism

Huang, N., Sorci, L., Zhang, X., Brautigam, C. A., Li, X., Raffaelli, N., Magni, G., Grishin, N. V., Osterman, A. L. & Zhang, H., Feb 12 2008, In : Structure. 16, 2, p. 196-209 14 p.

Research output: Contribution to journalArticle

Nicotinamide-Nucleotide Adenylyltransferase
Adenosine Diphosphate Ribose
Pyrophosphatases
NAD
Binding Sites
76 Citations (Scopus)

Binding of the Munc13-1 MUN domain to membrane-anchored SNARE complexes

Guan, R., Dai, H. & Rizo-Rey, J., Feb 12 2008, In : Biochemistry. 47, 6, p. 1474-1481 8 p.

Research output: Contribution to journalArticle

SNARE Proteins
Syntaxin 1
Membranes
R-SNARE Proteins
Machinery
45 Citations (Scopus)

Changes at the KinA PAS-A dimerization interface influence histidine kinase function

Lee, J., Tomchick, D. R., Brautigam, C. A., Machius, M., Kort, R., Hellingwerf, K. J. & Gardner, K. H., Apr 1 2008, In : Biochemistry. 47, 13, p. 4051-4064 14 p.

Research output: Contribution to journalArticle

Dimerization
Histidine
Dimers
Phosphotransferases
Ultracentrifugation
178 Citations (Scopus)

Conformational switch of syntaxin-1 controls synaptic vesicle fusion

Gerber, S. H., Rah, J. C., Min, S. W., Liu, X., De Wit, H., Dulubova, I., Meyer, A. C., Rizo-Rey, J., Arancillo, M., Hammer, R. E., Verhage, M., Rosenmund, C. & Südhof, T. C., Sep 12 2008, In : Science. 321, 5895, p. 1507-1510 4 p.

Research output: Contribution to journalArticle

Syntaxin 1
Synaptic Vesicles
Qa-SNARE Proteins
Proteins
SNARE Proteins
15 Citations (Scopus)

Crystal structure and putative function of small Toprim domain-containing protein from Bacillus stearothermophilus

Řezáčová, P., Borek, D., Moy, S. F., Joachimiak, A. & Otwinowski, Z., Feb 1 2008, In : Proteins: Structure, Function and Genetics. 70, 2, p. 311-319 9 p.

Research output: Contribution to journalArticle

DNA Primase
Geobacillus stearothermophilus
Bacilli
Crystal structure
Proteins
28 Citations (Scopus)

Crystal structure of inhibitor-bound P450BM-3 reveals open conformation of substrate access channel

Haines, D. C., Chen, B., Tomchick, D. R., Bondlela, M., Hegde, A., Machius, M. & Peterson, J. A., Mar 25 2008, In : Biochemistry. 47, 12, p. 3662-3670 9 p.

Research output: Contribution to journalArticle

lauric acid
Conformations
Crystal structure
Amino Acids
Substrates
18 Citations (Scopus)

Crystal structures of the effector-binding domain of repressor Central glycolytic gene Regulator from Bacillus subtilis reveal ligand-induced structural changes upon binding of several glycolytic intermediates

Řezáčová, P., Kožíšek, M., Moy, S. F., Sieglová, I., Joachimiak, A., MacHius, M. & Otwinowski, Z., Aug 2008, In : Molecular Microbiology. 69, 4, p. 895-910 16 p.

Research output: Contribution to journalArticle

Regulator Genes
Bacillus subtilis
Ligands
Dihydroxyacetone Phosphate
Operon
52 Citations (Scopus)

Dynameomics: Mass annotation of protein dynamics and unfolding in water by high-throughput atomistic molecular dynamics simulations

Beck, D. A. C., Jonsson, A. L., Schaeffer, R. D., Scott, K. A., Day, R., Toofanny, R. D., Alonso, D. O. V. & Daggett, V., Jun 1 2008, In : Protein Engineering, Design and Selection. 21, 6, p. 353-368 16 p.

Research output: Contribution to journalArticle

Protein Unfolding
Molecular Dynamics Simulation
Molecular dynamics
Throughput
Proteins
119 Citations (Scopus)
Hydrogen
Enzymes
Catalysis
X-Rays
Mutation
Biophysics
Biopolymers
84 Citations (Scopus)

Estimation of the available free energy in a LOV2-Jα photoswitch

Yao, X., Rosen, M. K. & Gardner, K. H., Aug 2008, In : Nature Chemical Biology. 4, 8, p. 491-497 7 p.

Research output: Contribution to journalArticle

Light
Phototropins
Oxygen
Allosteric Regulation
Benchmarking